[BEGIN]

REFERENCE HAIRPIN
***********************************************************************************************************************
ID                 : mmu-mir-340
DESCRIPTION        : mmu-mir-340 MI0000623 Mus musculus miR-340 stem-loop
CHROMOSOME         : 11
SPAN               : 49883204 - 49883301
LENGTH             : 98
SEQUENCE           : CAATTGTACTTGGTGTGATTATAAAGCAATGAGACTGATTGTCATATGTCGTTTGTGGGATCCGTCTCAGTTACTTTATAGCCATACCTGGTATCTTA
OVERHANG THRESHOLD : 75%
***********************************************************************************************************************


TARGET
******************************
CATEGORY   : MATURE-3P
ID         : mmu-miR-340-3p
ACCID      : MI0000623
PARENT     : mmu-mir-340
CHROMOSOME : 11
START      : 49883204
STOP       : 49883301
OFFSET     : 61..82
SEQUENCE   : TCCGTCTCAGTTACTTTATAGC
STRAND     : +
******************************


TARGET
******************************
CATEGORY   : MATURE-5P
ID         : mmu-miR-340-5p
ACCID      : MI0000623
PARENT     : mmu-mir-340
CHROMOSOME : 11
START      : 49883204
STOP       : 49883301
OFFSET     : 19..40
SEQUENCE   : TTATAAAGCAATGAGACTGATT
STRAND     : +
******************************



*** MATURE-3P ***
__________________________________________________________________________________________________
CAATTGTACTTGGTGTGATTATAAAGCAATGAGACTGATTGTCATATGTCGTTTGTGGGATCCGTCTCAGTTACTTTATAGCCATACCTGGTATCTTA REF                  11                   49883204 - 49883301  
                                                            TCCGTCTCAGTTACTTTATAGC                 MATURE-3P            11                   49883265 - 49883383  mmu-miR-340-3p       +                    
                  TTATAAAGCAATGAGACTGATT                                                           MATURE-5P            11                   49883223 - 49883341  mmu-miR-340-5p       +                    
__________________________________________________________________________________________________

                                                                                              -SEQ-                     -READ-        -CAT-      -TOTAL-       -TOT%-       -REST-      -REST%-        -ACT-       -ACT%-        -VAR-   -MISMATCH-   
.............................................................CCGTCTCAGTTACTTTATAGC.................   read_330140_12_8_9_4_3_3    MATURE-3P           39        31.71           29        34.12           10        26.32                        21   
.............................................................CCGTCTCAGTTACTTTATAGCC................     read_34219_3_7_6_4_7_6    MATURE-3P           33        26.83           16        18.82           17        44.74                        22   
.............................................................CCGTCTCAGTTACTTTATAG..................    read_189762_2_4_4_2_2_1    MATURE-3P           15        12.20           10        11.76            5        13.16                        20   
.............................................................CCGTCTCAGTTACTTTAT....................     read_84658_2_2_1_0_0_0    MATURE-3P            5         4.07            5         5.88            0         0.00                        18   
.............................................................CCGTCTCAGTTACTTTATAGCt................    read_364872_2_1_0_1_0_0    MATURE-3P            4         3.25            3         3.53            1         2.63            t           21   
.............................................................CCGTCTCAGTTACTTTATA...................    read_204505_0_1_1_0_2_0    MATURE-3P            4         3.25            2         2.35            2         5.26                        19   
.............................................................CCGTCTCAGTTACTTTATAtCC................    read_152648_0_2_1_0_1_0    MATURE-3P            4         3.25            3         3.53            1         2.63                      19T2   
.............................................................CCGTCTCAGTTACTTTATAGCCt...............    read_210737_0_0_2_0_0_0    MATURE-3P            2         1.63            2         2.35            0         0.00            t           22   
..............................................................CGTCTCAGTTACTTTATAGCC................    read_180664_0_2_0_0_0_0    MATURE-3P            2         1.63            2         2.35            0         0.00                        21   
.............................................................CCGTCTCAGTTACTaTATAGC.................    read_394532_2_0_0_0_0_0    MATURE-3P            2         1.63            2         2.35            0         0.00                      14A6   
.............................................................CCGTCTCAGTTACTTTATAGCa................    read_124542_1_1_0_0_0_0    MATURE-3P            2         1.63            2         2.35            0         0.00            a           21   
.............................................................CCGTCTCAGaTACTTTATAGCC................    read_312157_1_0_0_0_0_0    MATURE-3P            1         0.81            1         1.18            0         0.00                      9A12   
..............................................................CGTCTCAGTTACTTTATAtCCA...............    read_182719_0_0_0_1_0_0    MATURE-3P            1         0.81            0         0.00            1         2.63                      18T3   
.............................................................CCGTCTCAGTTACTTTATAtc.................     read_91435_0_0_1_0_0_0    MATURE-3P            1         0.81            1         1.18            0         0.00           tc           19   
.............................................................CCGcCTCAGTTACTTTATAGC.................    read_114444_0_1_0_0_0_0    MATURE-3P            1         0.81            1         1.18            0         0.00                      3C17   
.............................................................CCGTCTCAGTTACTaTATAGCC................     read_93617_1_0_0_0_0_0    MATURE-3P            1         0.81            1         1.18            0         0.00                      14A7   
.............................................................CCGTCTCAGTTACTaTATAG..................    read_205625_1_0_0_0_0_0    MATURE-3P            1         0.81            1         1.18            0         0.00                      14A5   
.............................................................CCGTCTCAGTTACTTTATAac.................    read_158398_0_0_0_0_1_0    MATURE-3P            1         0.81            0         0.00            1         2.63           ac           19   
...............................................................GTCTCAGTTACTTTATAGCC................    read_167233_0_1_0_0_0_0    MATURE-3P            1         0.81            1         1.18            0         0.00                        20   
.............................................................CCGTCTCAGTTACTTTATAtt.................    read_396652_0_0_1_0_0_0    MATURE-3P            1         0.81            1         1.18            0         0.00           tt           19   
.............................................................CCGTCTCgGTTACTTTATAGC.................    read_230987_0_1_0_0_0_0    MATURE-3P            1         0.81            1         1.18            0         0.00                      7G13   
.............................................................CCGTCTCAGTTACTTTATAGaa................    read_151186_1_0_0_0_0_0    MATURE-3P            1         0.81            1         1.18            0         0.00           aa           20   
                                                                                                                                              ----------                ----------                ----------   
                                                                                                                                                     123                        85                        38                                          
                                                                                                                                                                           (69.11)                   (30.89)                                       




*** MATURE-5P ***
__________________________________________________________________________________________________
CAATTGTACTTGGTGTGATTATAAAGCAATGAGACTGATTGTCATATGTCGTTTGTGGGATCCGTCTCAGTTACTTTATAGCCATACCTGGTATCTTA REF                  11                   49883204 - 49883301  
                                                            TCCGTCTCAGTTACTTTATAGC                 MATURE-3P            11                   49883265 - 49883383  mmu-miR-340-3p       +                    
                  TTATAAAGCAATGAGACTGATT                                                           MATURE-5P            11                   49883223 - 49883341  mmu-miR-340-5p       +                    
__________________________________________________________________________________________________

                                                                                              -SEQ-                              -READ-        -CAT-      -TOTAL-       -TOT%-       -REST-      -REST%-        -ACT-       -ACT%-        -VAR-   -MISMATCH-   
...................TATAAAGCAATGAGACTGATT...........................................................   read_272317_201_289_264_74_78_125    MATURE-5P         1031        64.92          754        66.96          277        59.96                        21   
...................TATAAAGCAATGAGACTGAT............................................................       read_363677_41_55_46_22_24_45    MATURE-5P          233        14.67          142        12.61           91        19.70                        20   
...................TATAAAGCAATGAGACTGA.............................................................       read_378909_22_22_22_12_13_10    MATURE-5P          101         6.36           66         5.86           35         7.58                        19   
...................TATAAAGCAATGAGACTGATa...........................................................            read_168548_8_6_15_2_3_7    MATURE-5P           41         2.58           29         2.58           12         2.60            a           20   
...................TATAAAGCAATGAGACTGATTt..........................................................             read_166099_4_5_4_2_2_4    MATURE-5P           21         1.32           13         1.15            8         1.73            t           21   
...................TATAAAGCAATGAGACTGATTa..........................................................             read_217191_4_2_5_1_1_3    MATURE-5P           16         1.01           11         0.98            5         1.08            a           21   
...................TATAAAGCAATGAGACTG..............................................................             read_117306_2_5_2_0_0_3    MATURE-5P           12         0.76            9         0.80            3         0.65                        18   
...................TATAAAGCAATGAGcCTGATT...........................................................             read_304164_4_1_1_1_0_1    MATURE-5P            8         0.50            6         0.53            2         0.43                      14C6   
...................TATAAAGCAATGAGACT...............................................................             read_365120_0_0_0_1_2_4    MATURE-5P            7         0.44            0         0.00            7         1.52                        17   
...................TATAAAGCAATGAGACTGATaa..........................................................             read_110743_2_1_2_1_0_1    MATURE-5P            7         0.44            5         0.44            2         0.43           aa           20   
...................TATAAAGCAATGAGAtTGATT...........................................................              read_33564_0_2_4_0_0_0    MATURE-5P            6         0.38            6         0.53            0         0.00                      15T5   
...................TATAAAGCAATGAGACTGtTT...........................................................             read_399005_0_2_3_0_0_0    MATURE-5P            5         0.31            5         0.44            0         0.00                      18T2   
...................TATAAAGCAATGAGACTGATat..........................................................             read_209647_2_1_1_0_1_0    MATURE-5P            5         0.31            4         0.36            1         0.22           at           20   
...................TATAAAGCAATGAGgCTGATT...........................................................             read_231402_1_1_2_0_0_0    MATURE-5P            4         0.25            4         0.36            0         0.00                      14G6   
...................TATAAAGCAATGAGACTGAa............................................................             read_286518_2_1_0_0_0_1    MATURE-5P            4         0.25            3         0.27            1         0.22            a           19   
...................TATAAAGCAATGAGACTGAaa...........................................................             read_392806_1_2_0_1_0_0    MATURE-5P            4         0.25            3         0.27            1         0.22           aa           19   
...................TATAAAGCAATGAGtCTGATT...........................................................              read_40128_2_2_0_0_0_0    MATURE-5P            4         0.25            4         0.36            0         0.00                      14T6   
...................TATAAAGCAATGtGACTGATT...........................................................             read_352488_0_0_2_0_1_0    MATURE-5P            3         0.19            2         0.18            1         0.22                      12T8   
...................TATAAAGCAATGAGACTcATT...........................................................             read_100718_2_0_1_0_0_0    MATURE-5P            3         0.19            3         0.27            0         0.00                      17C3   
...................TATAAAGCAATGAGACTGcTT...........................................................             read_130462_2_0_0_1_0_0    MATURE-5P            3         0.19            2         0.18            1         0.22                      18C2   
...................TATAAAGCAATGAGACTGATg...........................................................             read_145402_1_2_0_0_0_0    MATURE-5P            3         0.19            3         0.27            0         0.00            g           20   
...................TATAAAGCAATGAtACTGATT...........................................................             read_293476_0_2_0_0_0_1    MATURE-5P            3         0.19            2         0.18            1         0.22                      13T7   
...................TATAAAGCAATGAGACTGt.............................................................             read_102186_1_0_2_0_0_0    MATURE-5P            3         0.19            3         0.27            0         0.00            t           18   
...................TATAAAGCAATGAGACTGATTG..........................................................              read_70045_0_0_3_0_0_0    MATURE-5P            3         0.19            3         0.27            0         0.00                        22   
...................TATAAAGCAATGAGACTGATTat.........................................................             read_306072_0_1_0_0_1_1    MATURE-5P            3         0.19            1         0.09            2         0.43           at           21   
...................TATAAAGCAATtAGACTGATT...........................................................             read_389397_0_1_0_0_1_0    MATURE-5P            2         0.13            1         0.09            1         0.22                      11T9   
...................TATAAAGCAATGAGACTGAat...........................................................             read_359598_0_2_0_0_0_0    MATURE-5P            2         0.13            2         0.18            0         0.00           at           19   
...................TATAAAcCAATGAGACTGATT...........................................................             read_138238_0_0_2_0_0_0    MATURE-5P            2         0.13            2         0.18            0         0.00                      6C14   
...................TATAAAGCAATGAGACTGtt............................................................             read_378125_0_0_2_0_0_0    MATURE-5P            2         0.13            2         0.18            0         0.00           tt           18   
...................TATAAAGCAATGAGACTGATTtt.........................................................             read_387757_1_0_0_0_1_0    MATURE-5P            2         0.13            1         0.09            1         0.22           tt           21   
...................TATAAAGCAgTGAGACTGATT...........................................................              read_33637_0_0_1_0_0_1    MATURE-5P            2         0.13            1         0.09            1         0.22                      9G11   
...................TATAAAGCAATGAaACTGATT...........................................................               read_6299_1_1_0_0_0_0    MATURE-5P            2         0.13            2         0.18            0         0.00                      13A7   
.....................TAAAGCAATGAGACTGATT...........................................................             read_121530_0_0_1_0_0_1    MATURE-5P            2         0.13            1         0.09            1         0.22                        19   
...................TAcAAAGCAATGAGACTGATT...........................................................             read_347493_1_1_0_0_0_0    MATURE-5P            2         0.13            2         0.18            0         0.00                      2C18   
...................TAaAAAGCAATGAGACTGATT...........................................................             read_266988_0_1_1_0_0_0    MATURE-5P            2         0.13            2         0.18            0         0.00                      2A18   
...................TATAAAGCAATGAGAaTGATT...........................................................             read_390049_0_0_1_0_0_1    MATURE-5P            2         0.13            1         0.09            1         0.22                      15A5   
...................TATAtAGCAATGAGACTGATT...........................................................               read_8147_0_0_0_0_0_1    MATURE-5P            1         0.06            0         0.00            1         0.22                      4T16   
...................TATAAAGCAATGcGACTGATT...........................................................             read_265054_0_0_0_0_0_1    MATURE-5P            1         0.06            0         0.00            1         0.22                      12C8   
...................TATAAAGCgATGAGACTGATT...........................................................              read_94841_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00                      8G12   
...................TATAAAGaAATGAGACTGAT............................................................             read_235919_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00                      7A12   
...................TATAAAGCAATGAGAtTGAT............................................................             read_342491_1_0_0_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00                      15T4   
...................TATAAAGCtATGAGACTGATT...........................................................             read_333253_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00                      8T12   
...................TATAAAaCAATGAGACTGATT...........................................................             read_398191_1_0_0_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00                      6A14   
...................TATAAgGCAATGAGACTGATT...........................................................             read_161570_1_0_0_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00                      5G15   
...................TATAAAGCAgTGAGACTGATTa..........................................................             read_341592_0_0_0_0_1_0    MATURE-5P            1         0.06            0         0.00            1         0.22            a         9G11   
...................TATAAAGCAATGAGACTGATTag.........................................................             read_216920_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00           ag           21   
...................TATAAAGCAATGAGACTGc.............................................................             read_390839_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00            c           18   
...................TATAAAGCAATGAGACTGATTaaa........................................................             read_191957_0_1_0_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00          aaa           21   
...................TATAAAGCAATGAGACTGATatt.........................................................              read_63779_1_0_0_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00          att           20   
...................TATAAAGCAATGAGACTGATTta.........................................................             read_273259_0_1_0_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00           ta           21   
...................TATAAAGCAATGAGACTGAag...........................................................             read_254449_1_0_0_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00           ag           19   
....................ATAAAGCAATGAGACTGA.............................................................              read_82768_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00                        18   
...................cATAAAGCAATGAGACTGATT...........................................................             read_259056_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00                        20   
...................TATAAAGCAATGAGACTGATc...........................................................             read_277633_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00            c           20   
...................TATAAAGCAATaAGACTGAT............................................................             read_181546_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00                      11A8   
...................TATAAAGCAATGAGACTGAagt..........................................................             read_381727_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00          agt           19   
...................TATAAAGCAATGAGACTGtTTG..........................................................              read_86135_0_0_0_0_1_0    MATURE-5P            1         0.06            0         0.00            1         0.22                      18T3   
...................TATgAAGCAATGAGACTGATT...........................................................              read_42506_1_0_0_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00                      3G17   
...................TATAAAGCAATGAGACTGATaaa.........................................................               read_2454_0_0_0_0_1_0    MATURE-5P            1         0.06            0         0.00            1         0.22          aaa           20   
...................TATAAAGCAATGAGACTGATggc.........................................................             read_353495_0_0_0_0_0_1    MATURE-5P            1         0.06            0         0.00            1         0.22          ggc           20   
...................TATAAAGCAATGAGACTGATTaa.........................................................             read_119225_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00           aa           21   
...................TATAAAGCAATGAGACTGATTGT.........................................................              read_86865_0_1_0_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00                        23   
...................TATAAAGCAATGAcACTGATT...........................................................             read_374098_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00                      13C7   
...................TATAAAGCAATGAGACTGATgt..........................................................             read_250761_0_1_0_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00           gt           20   
...................TATAAAGCAATGAGACTGAgt...........................................................             read_353321_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00           gt           19   
...................TATAAAGCAATGAGtCTGAT............................................................             read_209479_0_0_0_0_0_1    MATURE-5P            1         0.06            0         0.00            1         0.22                      14T5   
...................TATAAAGCAATGAGACTGATTc..........................................................             read_143521_0_0_1_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00            c           21   
...................TATAAAGCAATGAGACTGATgaa.........................................................              read_87242_0_1_0_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00          gaa           20   
...................TATAAAGCAATGAGACTGg.............................................................             read_162512_0_1_0_0_0_0    MATURE-5P            1         0.06            1         0.09            0         0.00            g           18   
                                                                                                                                                       ----------                ----------                ----------   
                                                                                                                                                             1588                      1126                       462                                          
                                                                                                                                                                                    (70.91)                   (29.09)                                       




((( SUMMARY )))

          -CAT-          -REST-           -ACT-         -TOTAL-        -TOTAL%-
     ----------      ----------      ----------      ----------      ----------
      MATURE-3P              85              38             123           7.19%
      MATURE-5P            1126             462            1588          92.81%
                     ----------      ----------      ----------                
                           1211             500            1711                



[END]
