[BEGIN]

REFERENCE HAIRPIN
*********************************************************************************************************************
ID                 : mmu-mir-339
DESCRIPTION        : mmu-mir-339 MI0000621 Mus musculus miR-339 stem-loop
CHROMOSOME         : 5
SPAN               : 139845604 - 139845699
LENGTH             : 96
SEQUENCE           : ACGGGGTGGCCACTATCCCTGTCCTCCAGGAGCTCACGTATGCCTGCCTGTGAGCGCCTCGGCGACAGAGCCGGTGTCCACCCCTGCACTGTCCAC
OVERHANG THRESHOLD : 40%
*********************************************************************************************************************


TARGET
******************************
CATEGORY   : MATURE-3P
ID         : mmu-miR-339-3p
ACCID      : MI0000621
PARENT     : mmu-mir-339
CHROMOSOME : 5
START      : 139845604
STOP       : 139845699
OFFSET     : 51..73
SEQUENCE   : TGAGCGCCTCGGCGACAGAGCCG
STRAND     : -
******************************


TARGET
******************************
CATEGORY   : MATURE-5P
ID         : mmu-miR-339-5p
ACCID      : MI0000621
PARENT     : mmu-mir-339
CHROMOSOME : 5
START      : 139845604
STOP       : 139845699
OFFSET     : 16..38
SEQUENCE   : TCCCTGTCCTCCAGGAGCTCACG
STRAND     : -
******************************



*** MATURE-5P ***
________________________________________________________________________________________________
ACGGGGTGGCCACTATCCCTGTCCTCCAGGAGCTCACGTATGCCTGCCTGTGAGCGCCTCGGCGACAGAGCCGGTGTCCACCCCTGCACTGTCCAC REF                  5                    139845604 - 139845699 
                                                  TGAGCGCCTCGGCGACAGAGCCG                        MATURE-3P            5                    139845655 - 139845772 mmu-miR-339-3p       -                    
               TCCCTGTCCTCCAGGAGCTCACG                                                           MATURE-5P            5                    139845620 - 139845737 mmu-miR-339-5p       -                    
________________________________________________________________________________________________

                                                                                            -SEQ-                -READ-        -CAT-      -TOTAL-       -TOT%-       -REST-      -REST%-        -ACT-       -ACT%-        -VAR-   -MISMATCH-   
...............TCCCTGTCCTCCAGGAaCTCAt............................................................   32039_16_0_0_0_0_18    MATURE-5P           34        18.58           16        17.02           18        20.22                      16A4   
...............TCCCTGTCCTCCAGGAaCTCA.............................................................    40958_11_0_0_0_0_9    MATURE-5P           20        10.93           11        11.70            9        10.11                      16A4   
...............TCCCTGTCCTCCAGGAaCTCAC............................................................     40443_8_0_0_0_0_8    MATURE-5P           16         8.74            8         8.51            8         8.99                      16A5   
...............TCCCTGTCCTCCAGGAGCTCACt...........................................................     34761_6_0_0_0_0_7    MATURE-5P           13         7.10            6         6.38            7         7.87                        22   
...............TCCCTGTCCTCCAGGAGCTCACa...........................................................     40034_4_0_0_0_0_4    MATURE-5P            8         4.37            4         4.26            4         4.49                        22   
...............TCCCTGTCCTCCAGGAGCTCA.............................................................     33051_4_0_0_0_0_3    MATURE-5P            7         3.83            4         4.26            3         3.37                        21   
............CTgTCCCTGTCCTCCAGGAGCTC..............................................................     27481_1_0_0_0_0_6    MATURE-5P            7         3.83            1         1.06            6         6.74                      2G20   
...............TCCCTGTCCTCCAGGAGCTCACGT..........................................................     16897_5_0_0_0_0_1    MATURE-5P            6         3.28            5         5.32            1         1.12                        24   
............CTgTCCCTGTCCTCCAGGAGCTCAt............................................................      6551_3_0_0_0_0_2    MATURE-5P            5         2.73            3         3.19            2         2.25                      2G21   
...............TCCCTGTCCTCCAGGAGCcCAt............................................................     41141_3_0_0_0_0_2    MATURE-5P            5         2.73            3         3.19            2         2.25                      18C2   
...............TCCCTGTCCTCCAGGAGtTCACG...........................................................      4130_2_0_0_0_0_2    MATURE-5P            4         2.19            2         2.13            2         2.25                      17T5   
...............TCCCTGTCCTCCAGGAtCTCAC............................................................     42135_1_0_0_0_0_3    MATURE-5P            4         2.19            1         1.06            3         3.37                      16T5   
...............TCCCTGTCCTCCAGGAGCTCACG...........................................................     32061_2_0_0_0_0_1    MATURE-5P            3         1.64            2         2.13            1         1.12                        23   
...............TCCCTGTCCTCCAGGAcCTCAC............................................................     40700_1_0_0_0_0_2    MATURE-5P            3         1.64            1         1.06            2         2.25                      16C5   
...............TCCCTGTCCTCCAGGAGCTCAt............................................................     41840_1_0_0_0_0_2    MATURE-5P            3         1.64            1         1.06            2         2.25                        21   
...............TCCCTGTCCTCCAGGAGCTCAa............................................................     34037_2_0_0_0_0_1    MATURE-5P            3         1.64            2         2.13            1         1.12                        21   
...............TCCCTGTCCTCCAGGAGCTCACc...........................................................     27126_3_0_0_0_0_0    MATURE-5P            3         1.64            3         3.19            0         0.00                        22   
...............TCCCTGTCCTCCAGGAGCTCt.............................................................     37193_1_0_0_0_0_1    MATURE-5P            2         1.09            1         1.06            1         1.12                        20   
...............TCCCTGTCCTCCAGGAaCTCAa............................................................     29612_2_0_0_0_0_0    MATURE-5P            2         1.09            2         2.13            0         0.00                      16A4   
...............TCCCTGTCCTCCAGGAGCTCACGc..........................................................     20229_1_0_0_0_0_1    MATURE-5P            2         1.09            1         1.06            1         1.12                        23   
...............TCCCTGTCCTCCAGGAGCTCcCGT..........................................................      2675_1_0_0_0_0_1    MATURE-5P            2         1.09            1         1.06            1         1.12                      20C3   
...............TCCCTGTCCTCCAGGAGCTC..............................................................     27996_0_0_0_0_0_2    MATURE-5P            2         1.09            0         0.00            2         2.25                        20   
...............TCCCTGTCCTCCAGGAGCTCACGTA.........................................................      1596_1_0_0_0_0_1    MATURE-5P            2         1.09            1         1.06            1         1.12                        25   
...............TCCCTGTCCTCCAGGAGaTCACG...........................................................      8443_1_0_0_0_0_1    MATURE-5P            2         1.09            1         1.06            1         1.12                      17A5   
...............TCCCTGTCCTCCAGGAcCTCA.............................................................     17170_2_0_0_0_0_0    MATURE-5P            2         1.09            2         2.13            0         0.00                      16C4   
...............TCCCTGTCCTCCAGGAGCTCACGg..........................................................      5287_1_0_0_0_0_0    MATURE-5P            1         0.55            1         1.06            0         0.00                        23   
.............TATCCCTGTCCTCCAGGAGCTaACa...........................................................      7525_1_0_0_0_0_0    MATURE-5P            1         0.55            1         1.06            0         0.00                      21A2   
...............TCCCTGTCCTCCAGGAGCcCACG...........................................................     41776_0_0_0_0_0_1    MATURE-5P            1         0.55            0         0.00            1         1.12                      18C4   
............CTgTCCCTGTCCTCCAGGAGCTCAa............................................................     28116_0_0_0_0_0_1    MATURE-5P            1         0.55            0         0.00            1         1.12                      2G21   
................CCCTGTCCTCCAGGAGCTCt.............................................................      8334_0_0_0_0_0_1    MATURE-5P            1         0.55            0         0.00            1         1.12                        19   
...............TCCCTGTCCTCCAGGAGCgCAC............................................................       668_1_0_0_0_0_0    MATURE-5P            1         0.55            1         1.06            0         0.00                      18G3   
................CCCTGTCCTCCAGGAGCTCcCGTAT........................................................     39567_0_0_0_0_0_1    MATURE-5P            1         0.55            0         0.00            1         1.12                      19C5   
...............TCCCTGTCCTCCAGGAGCTCgCG...........................................................     12382_0_0_0_0_0_1    MATURE-5P            1         0.55            0         0.00            1         1.12                      20G2   
...............TCCCTGTCCTCCAGGAcCTCAa............................................................      4614_0_0_0_0_0_1    MATURE-5P            1         0.55            0         0.00            1         1.12                      16C4   
................CCCTGTCCTCCAGGAGCTCACGTAa........................................................       110_0_0_0_0_0_1    MATURE-5P            1         0.55            0         0.00            1         1.12                        24   
...............TCCCTGTCCTCCAGGAGCaCACG...........................................................     42209_1_0_0_0_0_0    MATURE-5P            1         0.55            1         1.06            0         0.00                      18A4   
...............TCCCTGTCCTCCAGGAGCcCA.............................................................     35744_1_0_0_0_0_0    MATURE-5P            1         0.55            1         1.06            0         0.00                      18C2   
...............TCCCTGTCCTCCAGGAtCTCA.............................................................     25046_0_0_0_0_0_1    MATURE-5P            1         0.55            0         0.00            1         1.12                      16T4   
............CTcTCCCTGTCCTCCAGGAGCTCAC............................................................     12430_1_0_0_0_0_0    MATURE-5P            1         0.55            1         1.06            0         0.00                      2C22   
................CCCTGTCCTCCAGGAGCTCACGTAT........................................................     17259_1_0_0_0_0_0    MATURE-5P            1         0.55            1         1.06            0         0.00                        25   
...............TCCCTGTCCTCCAGGAGCcCAa............................................................      8618_0_0_0_0_0_1    MATURE-5P            1         0.55            0         0.00            1         1.12                      18C2   
...................TGTCCTCCAGGAGCTCACGT..........................................................     28543_0_0_0_0_0_1    MATURE-5P            1         0.55            0         0.00            1         1.12                        20   
...............TCCCTGTCCTCCAGGAGCTCACGa..........................................................      6982_1_0_0_0_0_0    MATURE-5P            1         0.55            1         1.06            0         0.00                        23   
............CTgTCCCTGTCCTCCAGGAGCTCA.............................................................     22587_0_0_0_0_0_1    MATURE-5P            1         0.55            0         0.00            1         1.12                      2G21   
...............TCCCTGTCCTCCAGGAGCTCAC............................................................     34182_1_0_0_0_0_0    MATURE-5P            1         0.55            1         1.06            0         0.00                        22   
...............TCCCTGTCCTCCAGGAGCcCACa...........................................................      7507_1_0_0_0_0_0    MATURE-5P            1         0.55            1         1.06            0         0.00                      18C3   
...............TCCCTGTCCTCCAGGAGCTaACt...........................................................     36507_1_0_0_0_0_0    MATURE-5P            1         0.55            1         1.06            0         0.00                      19A2   
...............TCCCTGTCCTCCAGGAGCTCcCGc..........................................................     21726_1_0_0_0_0_0    MATURE-5P            1         0.55            1         1.06            0         0.00                      20C2   
                                                                                                                                       ----------                ----------                ----------   
                                                                                                                                              183                        94                        89                                          
                                                                                                                                                                    (51.37)                   (48.63)                                       




((( SUMMARY )))

          -CAT-          -REST-           -ACT-         -TOTAL-        -TOTAL%-
     ----------      ----------      ----------      ----------      ----------
      MATURE-5P              94              89             183         100.00%
                     ----------      ----------      ----------                
                             94              89             183                



[END]
