Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8285662
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 35
Found at i:2908613 original size:27 final size:27
Alignment explanation
Indices: 2908542--2908630 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
2908532 ACTTTCAAAA
*
2908542 ATGTTTTCAAAAC--TATATTA-A-AA
1 ATGTTTTCAAAACTATATATTATATAT
*
2908565 ATGTTTTCAAAAACTATGTATTATATAT
1 ATGTTTTC-AAAACTATATATTATATAT
2908593 ATGTTTTCAAAACTATATATTATATAT
1 ATGTTTTCAAAACTATATATTATATAT
*
2908620 AT-TTTTAAAAA
1 ATGTTTTCAAAA
2908631 TGTTTTCAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
23 8 0.14
24 5 0.09
26 14 0.25
27 21 0.37
28 9 0.16
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (27 bp):
ATGTTTTCAAAACTATATATTATATAT
Found at i:2908655 original size:36 final size:36
Alignment explanation
Indices: 2908593--2908694 Score: 113
Period size: 33 Copynumber: 2.8 Consensus size: 36
2908583 TATTATATAT
*
2908593 ATGTTTTC-AAAACTATATATTATATATATTTTTAAAA
1 ATGTTTTCAAAAATTATATA-TATATATATTTTT-AAA
2908630 ATGTTTTCAAAAA-T-TATATAT-TATATTTTTAAA
1 ATGTTTTCAAAAATTATATATATATATATTTTTAAA
*
2908663 ATATTTTCAAGAACTATTATATATATATATAT
1 ATGTTTTCAA-AA--ATTATATATATATATAT
2908695 ATATATATAT
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
33 12 0.21
34 11 0.19
35 3 0.05
36 5 0.09
37 10 0.18
38 11 0.19
39 5 0.09
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (36 bp):
ATGTTTTCAAAAATTATATATATATATATTTTTAAA
Found at i:2908687 original size:2 final size:2
Alignment explanation
Indices: 2908680--2908710 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2908670 CAAGAACTAT
2908680 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2908711 TCAAAAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2908740 original size:47 final size:46
Alignment explanation
Indices: 2908684--2908790 Score: 182
Period size: 47 Copynumber: 2.3 Consensus size: 46
2908674 AACTATTATA
2908684 TATATATATATATATATATATATATATTCAAAAAATCATTTTCAAAAC
1 TATA-ATATATATATATATATATATATTC-AAAAATCATTTTCAAAAC
2908732 TATAATATATATATATATATATATATTCAAAAATCATTTTCAAAAC
1 TATAATATATATATATATATATATATTCAAAAATCATTTTCAAAAC
2908778 TAT-ATA-ATATATA
1 TATAATATATATATA
2908791 CAATTTTTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
44 7 0.12
45 3 0.05
46 21 0.36
47 24 0.41
48 4 0.07
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (46 bp):
TATAATATATATATATATATATATATTCAAAAATCATTTTCAAAAC
Found at i:2908782 original size:39 final size:39
Alignment explanation
Indices: 2908739--2908866 Score: 113
Period size: 39 Copynumber: 3.3 Consensus size: 39
2908729 AACTATAATA
*
2908739 TATATATATATATATATATTCAAAAATCATTTTCAAAAC
1 TATATATATATATATATTTTCAAAAATCATTTTCAAAAC
* * * **
2908778 TATATA-ATATATACAATTTTTAAAATTTGTTTTCAAAA-
1 TATATATATATATA-TATTTTCAAAAATCATTTTCAAAAC
* *
2908816 T-TATATA-ATATATATTTTCAAAAACCAATTTTTTAAAAAC
1 TATATATATATATATATTTTCAAAAATC-A--TTTTCAAAAC
2908856 TATATAT-TATA
1 TATATATATATA
2908867 AAAAAATACT
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
36 9 0.13
37 9 0.13
38 9 0.13
39 32 0.47
40 1 0.01
41 8 0.12
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.45
Consensus pattern (39 bp):
TATATATATATATATATTTTCAAAAATCATTTTCAAAAC
Found at i:2909933 original size:19 final size:19
Alignment explanation
Indices: 2909869--2909935 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
2909859 TATTTTAAAA
*
2909869 ATAA-AAATATTAATTTTT
1 ATAATAAATATTTATTTTT
* *
2909887 ATAATTAATA-TTATTATT
1 ATAATAAATATTTATTTTT
2909905 -TAAT--ATATTTATTTTT
1 ATAATAAATATTTATTTTT
2909921 ATAATAAATATTTAT
1 ATAATAAATATTTAT
2909936 ATTATCAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
15 3 0.08
16 7 0.17
17 8 0.20
18 10 0.25
19 12 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATAATAAATATTTATTTTT
Found at i:2914512 original size:35 final size:35
Alignment explanation
Indices: 2914466--2914560 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
2914456 ACACAATCAT
2914466 CAATTACATTCTAAACCACAAATTCCAAAATAATA
1 CAATTACATTCTAAACCACAAATTCCAAAATAATA
* * *
2914501 CAATTATATTCTAAACCTCAAATTTCAAAATACAT-
1 CAATTACATTCTAAACCACAAATTCCAAAATA-ATA
* * * *
2914536 TAATTACATGCTCAACCCCAAATTC
1 CAATTACATTCTAAACCACAAATTC
2914561 ATAATTTAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
35 48 0.96
36 2 0.04
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.29
Consensus pattern (35 bp):
CAATTACATTCTAAACCACAAATTCCAAAATAATA
Found at i:2915150 original size:35 final size:35
Alignment explanation
Indices: 2915105--2915179 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
2915095 GGTTGAGTTG
* *
2915105 TAATTGAAGTATTTTGGAATTTGAGGTTTAGAACA
1 TAATTAAAGTATTTTGGAATTTGAGGTTTAAAACA
* * * *
2915140 TAATTAAAGTATTTTGTAGTTTGGGGTTTAAAATA
1 TAATTAAAGTATTTTGGAATTTGAGGTTTAAAACA
2915175 TAATT
1 TAATT
2915180 GATGATTGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (35 bp):
TAATTAAAGTATTTTGGAATTTGAGGTTTAAAACA
Found at i:2916312 original size:20 final size:20
Alignment explanation
Indices: 2916287--2916366 Score: 124
Period size: 20 Copynumber: 4.0 Consensus size: 20
2916277 AATTCGTAAT
*
2916287 GCGAATATGTAAATCTCAAC
1 GCGAATATGTAAATCGCAAC
*
2916307 GCGAATATGTAATTCGCAAC
1 GCGAATATGTAAATCGCAAC
*
2916327 GCGAATATGTAAATCACAAC
1 GCGAATATGTAAATCGCAAC
*
2916347 GCGAATTTGTAAATCGCAAC
1 GCGAATATGTAAATCGCAAC
2916367 AAAAAAGTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (20 bp):
GCGAATATGTAAATCGCAAC
Found at i:2916321 original size:40 final size:40
Alignment explanation
Indices: 2916277--2916366 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
2916267 TCAGTTTTGA
* * *
2916277 AATTCGTAATGCGAATATGTAAATCTCAACGCGAATATGT
1 AATTCGCAACGCGAATATGTAAATCACAACGCGAATATGT
*
2916317 AATTCGCAACGCGAATATGTAAATCACAACGCGAATTTGT
1 AATTCGCAACGCGAATATGTAAATCACAACGCGAATATGT
*
2916357 AAATCGCAAC
1 AATTCGCAAC
2916367 AAAAAAGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (40 bp):
AATTCGCAACGCGAATATGTAAATCACAACGCGAATATGT
Found at i:2916383 original size:20 final size:20
Alignment explanation
Indices: 2916360--2916425 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
2916350 AATTTGTAAA
* *
2916360 TCGCAACAAAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
2916380 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
2916400 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
2916420 TCGCAA
1 TCGCAA
2916426 AGCACGTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.47, C:0.24, G:0.14, T:0.15
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:2916598 original size:22 final size:22
Alignment explanation
Indices: 2916573--2916645 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
2916563 TCACTCTCTA
2916573 CGGCGACATCCGTCCCCATCTC
1 CGGCGACATCCGTCCCCATCTC
*
2916595 CGGCGACATCCATCCCCATCTC
1 CGGCGACATCCGTCCCCATCTC
* * *
2916617 TGGTGACATCCGTCCCCATATC
1 CGGCGACATCCGTCCCCATCTC
*
2916639 CGACGAC
1 CGGCGAC
2916646 CCCCTCTATC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.45, G:0.18, T:0.19
Consensus pattern (22 bp):
CGGCGACATCCGTCCCCATCTC
Found at i:2918583 original size:42 final size:42
Alignment explanation
Indices: 2918494--2918592 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
2918484 CCCCCACTTT
* * *
2918494 GAGAGCCATCACCTAATCGAGCCTATTCTACAGCTCGACACC
1 GAGAGCCATCACCTAATCGAGCCAATTATACAGCTCGACAAC
* *
2918536 CAGAGCCATCACCTGATCGAGCCAATTATACA-CATCCG-CAAC
1 GAGAGCCATCACCTAATCGAGCCAATTATACAGC-T-CGACAAC
2918578 GAGAGCCATCACCTA
1 GAGAGCCATCACCTA
2918593 TTCCATCATA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 45 0.94
43 2 0.04
ACGTcount: A:0.31, C:0.35, G:0.16, T:0.17
Consensus pattern (42 bp):
GAGAGCCATCACCTAATCGAGCCAATTATACAGCTCGACAAC
Found at i:2918733 original size:21 final size:21
Alignment explanation
Indices: 2918706--2918755 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
2918696 GTTAGGGGAG
*
2918706 TTACGTGATGAGGTCAATTCT
1 TTACGTGATGAGGTCAATACT
* *
2918727 TTGCGTGATGAGGTCGATACT
1 TTACGTGATGAGGTCAATACT
2918748 TTACGTGA
1 TTACGTGA
2918756 CAATAATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (21 bp):
TTACGTGATGAGGTCAATACT
Found at i:2919182 original size:21 final size:22
Alignment explanation
Indices: 2919154--2919251 Score: 105
Period size: 21 Copynumber: 4.6 Consensus size: 22
2919144 GATTCACCTG
*
2919154 TCATCGTTCAAGAAGCCCCTCC
1 TCATCGTTCAAGAGGCCCCTCC
* *
2919176 T-ATCGTTTAAGAGGCCCC-GC
1 TCATCGTTCAAGAGGCCCCTCC
* *
2919196 TCATCGTTCAAGAGGCTCAT-C
1 TCATCGTTCAAGAGGCCCCTCC
2919217 TCATCGTTCAAGAGGCCCCTCC
1 TCATCGTTCAAGAGGCCCCTCC
* *
2919239 -CACCATTCAAGAG
1 TCATCGTTCAAGAG
2919252 CCCGATTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.03
21 59 0.94
22 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.23
Consensus pattern (22 bp):
TCATCGTTCAAGAGGCCCCTCC
Found at i:2920653 original size:16 final size:16
Alignment explanation
Indices: 2920624--2920659 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2920614 TGTAAATAAG
* *
2920624 AATTGTTTTTTTGTTT
1 AATTGATTTGTTGTTT
2920640 AATTGATTTGTTGTTT
1 AATTGATTTGTTGTTT
2920656 AATT
1 AATT
2920660 TCAATATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (16 bp):
AATTGATTTGTTGTTT
Found at i:2921014 original size:18 final size:18
Alignment explanation
Indices: 2920988--2921028 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2920978 AGGTGAAGCC
*
2920988 GATTGTGATTGAGATTTT
1 GATTTTGATTGAGATTTT
*
2921006 GATTTTGATTGCGATTTT
1 GATTTTGATTGAGATTTT
2921024 GATTT
1 GATTT
2921029 CCTTTTGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (18 bp):
GATTTTGATTGAGATTTT
Found at i:2923282 original size:24 final size:25
Alignment explanation
Indices: 2923255--2923308 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
2923245 CTGAAACATC
*
2923255 ATCAAAATT-TGAGTATTGACCAAG
1 ATCAAAATTCCGAGTATTGACCAAG
* *
2923279 ATC-AAATTCCGGGTATTGACCAAT
1 ATCAAAATTCCGAGTATTGACCAAG
2923303 ATCAAA
1 ATCAAA
2923309 TTTCGAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 5 0.20
24 18 0.72
25 2 0.08
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.28
Consensus pattern (25 bp):
ATCAAAATTCCGAGTATTGACCAAG
Found at i:2923322 original size:24 final size:24
Alignment explanation
Indices: 2923271--2923322 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
2923261 ATTTGAGTAT
** *
2923271 TGACCAAGATCAAATTCCGGGTAT
1 TGACCAAGATCAAATTCCGAATAC
* *
2923295 TGACCAATATCAAATTTCGAATAC
1 TGACCAAGATCAAATTCCGAATAC
2923319 TGAC
1 TGAC
2923323 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAATTCCGAATAC
Found at i:2924315 original size:20 final size:20
Alignment explanation
Indices: 2924253--2924349 Score: 65
Period size: 20 Copynumber: 4.8 Consensus size: 20
2924243 TTGCAAAATT
* *
2924253 AAAATTCGTATTGCGAAAA-C
1 AAAATT-GTGTTGCGAAAAGG
***
2924273 AAAATTCGTGTTGCGATTTGG
1 AAAATT-GTGTTGCGAAAAGG
2924294 AAAATCT-TGTTGCGAAAAGG
1 AAAAT-TGTGTTGCGAAAAGG
* *
2924314 AAACTTGTGTTGCGAAAAAG
1 AAAATTGTGTTGCGAAAAGG
*
2924334 -AAATTCGCGTTGCGAA
1 AAAATT-GTGTTGCGAA
2924350 TTCAGAAATC
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
19 5 0.08
20 50 0.82
21 5 0.08
22 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (20 bp):
AAAATTGTGTTGCGAAAAGG
Found at i:2924358 original size:21 final size:19
Alignment explanation
Indices: 2924322--2924406 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 19
2924312 GGAAACTTGT
**
2924322 GTTGCGAAAAAGAAATTCGC
1 GTTGCGAATTAGAAA-TCGC
*
2924342 GTTGCGAATTCAGAAATCGA
1 GTTGCGAATT-AGAAATCGC
* *
2924362 GTTGCGAATTTGAAATTCTGT
1 GTTGCGAATTAGAAA-TC-GC
*
2924383 GTTGCGAATTTGGAAATCGC
1 GTTGCGAA-TTAGAAATCGC
2924403 GTTG
1 GTTG
2924407 TGAGAAAGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
19 4 0.07
20 28 0.52
21 16 0.30
22 6 0.11
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (19 bp):
GTTGCGAATTAGAAATCGC
Found at i:2924365 original size:20 final size:21
Alignment explanation
Indices: 2924332--2924392 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
2924322 GTTGCGAAAA
*
2924332 AGAAATTCGCGTTGCGAATTC
1 AGAAATTCGAGTTGCGAATTC
2924353 AGAAA-TCGAGTTGCGAATT-
1 AGAAATTCGAGTTGCGAATTC
* *
2924372 TGAAATTCTGTGTTGCGAATT
1 AGAAATTC-GAGTTGCGAATT
2924393 TGGAAATCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.11
20 15 0.43
21 16 0.46
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (21 bp):
AGAAATTCGAGTTGCGAATTC
Found at i:2924366 original size:40 final size:40
Alignment explanation
Indices: 2924322--2924447 Score: 121
Period size: 40 Copynumber: 3.1 Consensus size: 40
2924312 GGAAACTTGT
*
2924322 GTTGCGAAAAAGAAATTCGCGTTGCGAATTCAGAAATCGA
1 GTTGCGAAAAAGAAATTCGTGTTGCGAATTCAGAAATCGA
*** ** *
2924362 GTTGCGAATTTGAAATTCTGTGTTGCGAATTTGGAAATCGC
1 GTTGCGAAAAAGAAATTC-GTGTTGCGAATTCAGAAATCGA
* * *
2924403 GTTGTGAGAAAGAAATTTGTGTTGCG-ATTGCAGAAA-CTGA
1 GTTGCGAAAAAGAAATTCGTGTTGCGAATT-CAGAAATC-GA
2924443 GTTGC
1 GTTGC
2924448 AAATTTGGAA
Statistics
Matches: 66, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
39 4 0.06
40 32 0.48
41 30 0.45
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (40 bp):
GTTGCGAAAAAGAAATTCGTGTTGCGAATTCAGAAATCGA
Found at i:2924447 original size:101 final size:101
Alignment explanation
Indices: 2924274--2924479 Score: 215
Period size: 101 Copynumber: 2.0 Consensus size: 101
2924264 TGCGAAAACA
** *
2924274 AAATTCGTGTTGCGATTTGGAAAATCTTGTTGCGAAAAGGAAACTTGTGTTGCGAAAAAGAAATT
1 AAATTCGTGTTGCGATTTGGAAAATCGCGTTGCGAAAAGGAAACTTGTGTTGCGAAAAAGAAACT
* *
2924339 CGCGTTGCGAATTCAGAAA-TCGAGTTGCGAATTT-G
66 CGAGTTGCAAATTCAGAAACT-GAGTTGCGAATTTGG
* * ***
2924374 AAATTCTGTGTTGCGAATTTGG-AAATCGCGTTGTGAGAAA-GAAATTTGTGTTGCGATTGCAGA
1 AAATTC-GTGTTGCG-ATTTGGAAAATCGCGTTGCGA-AAAGGAAACTTGTGTTGCGA-AAAAGA
** *
2924437 AACT-GAGTTGCAAATTTGGAAACTGTGTTGCGAATTTGG
62 AACTCGAGTTGCAAATTCAGAAACTGAGTTGCGAATTTGG
2924476 AAAT
1 AAAT
2924480 CGCATTGTGA
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
100 6 0.07
101 60 0.69
102 21 0.24
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.32
Consensus pattern (101 bp):
AAATTCGTGTTGCGATTTGGAAAATCGCGTTGCGAAAAGGAAACTTGTGTTGCGAAAAAGAAACT
CGAGTTGCAAATTCAGAAACTGAGTTGCGAATTTGG
Found at i:2924458 original size:20 final size:20
Alignment explanation
Indices: 2924435--2924478 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2924425 TGCGATTGCA
2924435 GAAACTGAGTTGCAAATTTG
1 GAAACTGAGTTGCAAATTTG
* *
2924455 GAAACTGTGTTGCGAATTTG
1 GAAACTGAGTTGCAAATTTG
2924475 GAAA
1 GAAA
2924479 TCGCATTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (20 bp):
GAAACTGAGTTGCAAATTTG
Found at i:2926587 original size:30 final size:28
Alignment explanation
Indices: 2926534--2926606 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
2926524 TTCTTCGTGG
*
2926534 AAATAATTACCTAAAGTTATTTTTCTTGTCA
1 AAATAAGTACCTAAAG-TA-TTTT-TTGTCA
2926565 AAATAAGTACCTAACA-TATTTTTTGTCA
1 AAATAAGTACCTAA-AGTATTTTTTGTCA
* *
2926593 AAACATGTACCTAA
1 AAATAAGTACCTAA
2926607 TCTATTCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 18 0.47
29 4 0.11
30 2 0.05
31 13 0.34
32 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (28 bp):
AAATAAGTACCTAAAGTATTTTTTGTCA
Found at i:2927210 original size:30 final size:29
Alignment explanation
Indices: 2927174--2927238 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
2927164 AAGTTAACTT
* *
2927174 TAGGTGCCTAAAGATTTTTTTCGTTCAAAG
1 TAGGTGCCTAAAGA-ATTTTTCGCTCAAAG
* *
2927204 TAGGTGCTTAAGGAATTTTTCGCTCAAAG
1 TAGGTGCCTAAAGAATTTTTCGCTCAAAG
2927233 TAGGTG
1 TAGGTG
2927239 TTTAACATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (29 bp):
TAGGTGCCTAAAGAATTTTTCGCTCAAAG
Found at i:2927396 original size:20 final size:20
Alignment explanation
Indices: 2927356--2927396 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2927346 TTAAAAGTAT
*
2927356 ATTTTAAAAAATAACACAAA
1 ATTTTAAAAAATAACAAAAA
* *
2927376 ATTTTATAAAATTACAAAAA
1 ATTTTAAAAAATAACAAAAA
2927396 A
1 A
2927397 AACCTCAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (20 bp):
ATTTTAAAAAATAACAAAAA
Found at i:2927882 original size:19 final size:20
Alignment explanation
Indices: 2927858--2927949 Score: 80
Period size: 20 Copynumber: 4.6 Consensus size: 20
2927848 AAATAACCAA
* *
2927858 CAAATTCGCAATACGATCT-
1 CAAATTCGCAACACGAACTC
2927877 CAAATTCGCAACACGAACTC
1 CAAATTCGCAACACGAACTC
* * **
2927897 CAATTTCGCAACA-TAGTTTC
1 CAAATTCGCAACACGA-ACTC
* *
2927917 CAAATTCGCAACACAGAATTT
1 CAAATTCGCAACAC-GAACTC
2927938 CAAATTCGCAAC
1 CAAATTCGCAAC
2927950 TCGATTTCTG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 18 0.31
20 26 0.44
21 14 0.24
22 1 0.02
ACGTcount: A:0.38, C:0.28, G:0.10, T:0.24
Consensus pattern (20 bp):
CAAATTCGCAACACGAACTC
Found at i:2927965 original size:20 final size:21
Alignment explanation
Indices: 2927919--2927979 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
2927909 ATAGTTTCCA
* *
2927919 AATTCGCAACACAGAATTTC-A
1 AATTCGCAACGC-GAATTTCTG
*
2927940 AATTCGCAACTCG-ATTTCTG
1 AATTCGCAACGCGAATTTCTG
2927960 AATTCGCAACGCGAATTTCT
1 AATTCGCAACGCGAATTTCT
2927980 TTTACGTAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.14
20 13 0.37
21 17 0.49
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.30
Consensus pattern (21 bp):
AATTCGCAACGCGAATTTCTG
Found at i:2927995 original size:40 final size:39
Alignment explanation
Indices: 2927870--2928258 Score: 191
Period size: 40 Copynumber: 9.7 Consensus size: 39
2927860 AATTCGCAAT
* * * * *
2927870 ACGATCTC-AAATTCGCAACACGAACTCCAATTTCGCAAC
1 ACGATTTCTAAATTCGCAACACGAATTTC-TTTTCGTAAC
* * ** *
2927909 A-TAGTTTCCAAATTCGCAACACAGAATTTCAAATTCGCAAC
1 ACGA-TTTCTAAATTCGCAACAC-GAATTTC-TTTTCGTAAC
* * *
2927950 TCGATTTCTGAATTCGCAACGCGAATTTCTTTTACGTAAC
1 ACGATTTCTAAATTCGCAACACGAATTTCTTTT-CGTAAC
** *
2927990 ACGATTT-TCAAATTCGCAACGTGAATTTTTTTTACGTAAC
1 ACGATTTCT-AAATTCGCAACACGAATTTCTTTT-CGTAAC
* * * * ** *
2928030 GCGATTT-TCAAATTCGCAATACGAACTCCAATTCTGCAAC
1 ACGATTTCT-AAATTCGCAACACGAATTTCTTTTC-GTAAC
* * * **
2928070 GC-ATTTTCCAAATTCGCAACATGGAATTTCAAATTCGTAAC
1 ACGA-TTTCTAAATTCGCAACA-CGAATTTC-TTTTCGTAAC
* * * * *
2928111 TCGATTTCTGAATTCGCAACGCGCATTTCTTTTTCGTAATG
1 ACGATTTCTAAATTCGCAACACGAATTTC-TTTTCGTAA-C
* * *
2928152 A-TATTTTTAAATTCGCAACAC-AAGTTTCCTTTTCGCAAC
1 ACGATTTCTAAATTCGCAACACGAA-TTT-CTTTTCGTAAC
* * *
2928191 AAGATTTTCT-AATTCGCAACACGAATTTTGTTTTCGCAAC
1 ACGA-TTTCTAAATTCGCAACACGAA-TTTCTTTTCGTAAC
* *
2928231 TCGATTTCTGAATTCGCAACACGAATTT
1 ACGATTTCTAAATTCGCAACACGAATTT
2928259 TAATTTCGCA
Statistics
Matches: 274, Mismatches: 57, Indels: 38
0.74 0.15 0.10
Matches are distributed among these distances:
38 1 0.00
39 19 0.07
40 183 0.67
41 64 0.23
42 7 0.03
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (39 bp):
ACGATTTCTAAATTCGCAACACGAATTTCTTTTCGTAAC
Found at i:2928126 original size:20 final size:21
Alignment explanation
Indices: 2928101--2928140 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2928091 TGGAATTTCA
* *
2928101 AATTCGTAACTCG-ATTTCTG
1 AATTCGCAACGCGCATTTCTG
2928121 AATTCGCAACGCGCATTTCT
1 AATTCGCAACGCGCATTTCT
2928141 TTTTCGTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (21 bp):
AATTCGCAACGCGCATTTCTG
Found at i:2928199 original size:20 final size:19
Alignment explanation
Indices: 2928171--2928230 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
2928161 AATTCGCAAC
*
2928171 ACAAG-TTTCCTTTTCGCA
1 ACAAGATTTTCTTTTCGCA
*
2928189 ACAAGATTTTCTAATTCGCA
1 ACAAGATTTTCT-TTTCGCA
* *
2928209 ACACGAATTTTGTTTTCGCA
1 ACAAG-ATTTTCTTTTCGCA
2928229 AC
1 AC
2928231 TCGATTTCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.15
19 5 0.15
20 18 0.53
21 6 0.18
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (19 bp):
ACAAGATTTTCTTTTCGCA
Found at i:2928246 original size:20 final size:21
Alignment explanation
Indices: 2928183--2928271 Score: 89
Period size: 20 Copynumber: 4.4 Consensus size: 21
2928173 AAGTTTCCTT
* *
2928183 TTCGCAACAAGATTTTCT-AA
1 TTCGCAACACGAATTTCTGAA
**
2928203 TTCGCAACACGAATTT-TGTT
1 TTCGCAACACGAATTTCTGAA
*
2928223 TTCGCAACTCG-ATTTCTGAA
1 TTCGCAACACGAATTTCTGAA
2928243 TTCGCAACACGAATTT-T-AA
1 TTCGCAACACGAATTTCTGAA
2928262 TTTCGCAACA
1 -TTCGCAACA
2928272 ACTTTTATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
19 7 0.12
20 46 0.81
21 4 0.07
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (21 bp):
TTCGCAACACGAATTTCTGAA
Found at i:2928251 original size:161 final size:161
Alignment explanation
Indices: 2927876--2928215 Score: 445
Period size: 161 Copynumber: 2.1 Consensus size: 161
2927866 CAATACGATC
** *
2927876 TCAAATTCGCAACACGAACTCCAATT-TCGCAACATAGTTTCCAAATTCGCAACACAGAATTTCA
1 TCAAATTCGCAACACGAACTCCAATTCT-GCAACGCATTTTCCAAATTCGCAACACAGAATTTCA
2927940 AATTCGCAACTCGATTTCTGAATTCGCAACGCGAATTTCTTTTACGTAACACGATTTTCAAATTC
65 AATTCGCAACTCGATTTCTGAATTCGCAACGCGAATTTCTTTTACGTAACACGATTTTCAAATTC
** * * **
2928005 GCAACGTGAATTTTTTTTACGTAACGCGATTT
130 GCAACGACAATTTCTTTTACGCAACAAGATTT
* **
2928037 TCAAATTCGCAATACGAACTCCAATTCTGCAACGCATTTTCCAAATTCGCAACATGGAATTTCAA
1 TCAAATTCGCAACACGAACTCCAATTCTGCAACGCATTTTCCAAATTCGCAACACAGAATTTCAA
* * * * * *
2928102 ATTCGTAACTCGATTTCTGAATTCGCAACGCGCATTTCTTTTTCGTAATGA-TATTTTTAAATTC
66 ATTCGCAACTCGATTTCTGAATTCGCAACGCGAATTTCTTTTACGTAA-CACGATTTTCAAATTC
2928166 GCAAC-ACAAGTTTCCTTTT-CGCAACAAGATTT
130 GCAACGACAA-TTT-CTTTTACGCAACAAGATTT
*
2928198 TCTAATTCGCAACACGAA
1 TCAAATTCGCAACACGAA
2928216 TTTTGTTTTC
Statistics
Matches: 155, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
160 2 0.01
161 147 0.95
162 6 0.04
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (161 bp):
TCAAATTCGCAACACGAACTCCAATTCTGCAACGCATTTTCCAAATTCGCAACACAGAATTTCAA
ATTCGCAACTCGATTTCTGAATTCGCAACGCGAATTTCTTTTACGTAACACGATTTTCAAATTCG
CAACGACAATTTCTTTTACGCAACAAGATTT
Found at i:2929215 original size:24 final size:24
Alignment explanation
Indices: 2929197--2929243 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2929187 AGTCAGTATT
2929197 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATCTTGGTCAATACC
* *
2929221 CGGACTTTGATCTTGGTCAATAC
1 CGAAATTTGATCTTGGTCAATAC
2929244 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (24 bp):
CGAAATTTGATCTTGGTCAATACC
Found at i:2929248 original size:24 final size:24
Alignment explanation
Indices: 2929202--2929255 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2929192 GTATTCGAAA
2929202 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
2929226 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
2929250 TTTGAT
1 TTTGAT
2929256 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:2931824 original size:20 final size:20
Alignment explanation
Indices: 2931799--2931866 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
2931789 AACTTCTCTG
*
2931799 ATTCGCAACTCGATATTCAA
1 ATTCGCAACTCGATAATCAA
* * *
2931819 ATTCGCAACTTGATACTCAT
1 ATTCGCAACTCGATAATCAA
* * * *
2931839 ATTCACAACACGAAAATCGA
1 ATTCGCAACTCGATAATCAA
2931859 ATTCGCAA
1 ATTCGCAA
2931867 TGCGAAATTA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.26
Consensus pattern (20 bp):
ATTCGCAACTCGATAATCAA
Found at i:2931892 original size:20 final size:20
Alignment explanation
Indices: 2931839--2931895 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
2931829 TGATACTCAT
**
2931839 ATTCACAACACGAAAATCGA
1 ATTCACAACACGAAAATAAA
* ** *
2931859 ATTCGCAATGCGAAATTAAA
1 ATTCACAACACGAAAATAAA
2931879 ATTCACAACACGAAAAT
1 ATTCACAACACGAAAAT
2931896 CGCAACGTGA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.49, C:0.21, G:0.11, T:0.19
Consensus pattern (20 bp):
ATTCACAACACGAAAATAAA
Found at i:2933545 original size:21 final size:21
Alignment explanation
Indices: 2933496--2933545 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
2933486 AACGATGAAT
*
2933496 GGTGAATCCTAAACAATTGGA
1 GGTGGATCCTAAACAATTGGA
* *
2933517 GGTAGATCCTGAACAA-TGGTA
1 GGTGGATCCTAAACAATTGG-A
2933538 GGTGGATC
1 GGTGGATC
2933546 GGGCCTCTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (21 bp):
GGTGGATCCTAAACAATTGGA
Found at i:2934066 original size:42 final size:42
Alignment explanation
Indices: 2934007--2934141 Score: 173
Period size: 42 Copynumber: 3.2 Consensus size: 42
2933997 GTGATGGAAT
* *
2934007 AGGTGATGTCTCTCGGTGTCGAGGTGTAGAATTGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGGTGTAGAATAGGCTCGATC
* *
2934049 AGGTGATGGCTCTCGGTGCCAAGGTGTAGAATCA-GCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGGTGTAGAAT-AGGCTCGATC
* * * * *
2934091 AGGTGATGGATCTCGGTGTCGAAGTGGAGAAGAGGCTCGATG
1 AGGTGATGGCTCTCGGTGTCGAGGTGTAGAATAGGCTCGATC
2934133 AGGTGATGG
1 AGGTGATGG
2934142 ATCTAGGTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 79 0.99
ACGTcount: A:0.21, C:0.16, G:0.39, T:0.25
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTCGAGGTGTAGAATAGGCTCGATC
Found at i:2934142 original size:42 final size:42
Alignment explanation
Indices: 2934007--2934159 Score: 148
Period size: 42 Copynumber: 3.6 Consensus size: 42
2933997 GTGATGGAAT
** * * **
2934007 AGGTGATGTCTCTCGGTGTCGAGGTGTAGAATTGGCTCGATC
1 AGGTGATGGATCTCGGTGTCGAAGTGGAGAACAGGCTCGATC
* * *
2934049 AGGTGATGGCTCTCGGTG-CCAAGGTGTAGAATCA-GCTCGATC
1 AGGTGATGGATCTCGGTGTCGAA-GTGGAGAA-CAGGCTCGATC
* *
2934091 AGGTGATGGATCTCGGTGTCGAAGTGGAGAAGAGGCTCGATG
1 AGGTGATGGATCTCGGTGTCGAAGTGGAGAACAGGCTCGATC
* * *
2934133 AGGTGATGGATCTAGGTTTCAAAGTGG
1 AGGTGATGGATCTCGGTGTCGAAGTGG
2934160 GGGGAGCTCA
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 3 0.03
42 88 0.94
43 3 0.03
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.26
Consensus pattern (42 bp):
AGGTGATGGATCTCGGTGTCGAAGTGGAGAACAGGCTCGATC
Found at i:2935733 original size:20 final size:20
Alignment explanation
Indices: 2935710--2935748 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2935700 TAGCGTTGCG
*
2935710 ATTTTCGTGTTGCGAATTTC
1 ATTTTCGTGTTACGAATTTC
2935730 ATTTTCGTGTTACGAATTT
1 ATTTTCGTGTTACGAATTT
2935749 AAGTTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (20 bp):
ATTTTCGTGTTACGAATTTC
Found at i:2935755 original size:20 final size:20
Alignment explanation
Indices: 2935712--2935755 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2935702 GCGTTGCGAT
* * *
2935712 TTTCGTGTTGCGAATTTCAT
1 TTTCGTGTTACGAATTTAAG
2935732 TTTCGTGTTACGAATTTAAG
1 TTTCGTGTTACGAATTTAAG
2935752 TTTC
1 TTTC
2935756 AAAAACTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (20 bp):
TTTCGTGTTACGAATTTAAG
Found at i:2936106 original size:22 final size:22
Alignment explanation
Indices: 2936081--2936129 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
2936071 GATGGAGGGA
2936081 GTCGCCGGATATGGGGACAGAT
1 GTCGCCGGATATGGGGACAGAT
* *
2936103 GTCGTCGGATATGGGGACGGAT
1 GTCGCCGGATATGGGGACAGAT
2936125 GTCGC
1 GTCGC
2936130 AGTAGAGAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.43, T:0.20
Consensus pattern (22 bp):
GTCGCCGGATATGGGGACAGAT
Found at i:2936304 original size:20 final size:20
Alignment explanation
Indices: 2936281--2936331 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
2936271 TGACTTTTGT
2936281 GTTGCGAATTTCAAAACTGA
1 GTTGCGAATTTCAAAACTGA
* *
2936301 GTTGCAAATTTTAAAACTGA
1 GTTGCGAATTTCAAAACTGA
2936321 GTTGCGAATTT
1 GTTGCGAATTT
2936332 GGGAAATCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (20 bp):
GTTGCGAATTTCAAAACTGA
Found at i:2936369 original size:20 final size:20
Alignment explanation
Indices: 2936278--2936370 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 20
2936268 ATTTGACTTT
*
2936278 TGTGTTGCGAATTTCAAAAC
1 TGTGTTGCGAATTTGAAAAC
* * *
2936298 TGAGTTGCAAATTTTAAAAC
1 TGTGTTGCGAATTTGAAAAC
* *
2936318 TGAGTTGCGAATTTGGGAAATC
1 TGTGTTGCGAATTT--GAAAAC
* *
2936340 CGCT-TTGCGAATTTGGAAAC
1 TG-TGTTGCGAATTTGAAAAC
2936360 TGTGTTGCGAA
1 TGTGTTGCGAA
2936371 ATTTAAGATC
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
19 1 0.02
20 42 0.72
22 15 0.26
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (20 bp):
TGTGTTGCGAATTTGAAAAC
Found at i:2944937 original size:15 final size:15
Alignment explanation
Indices: 2944914--2945001 Score: 97
Period size: 15 Copynumber: 5.9 Consensus size: 15
2944904 TTGATTTTCC
*
2944914 GGAAATTGAATTACT
1 GGAATTTGAATTACT
* *
2944929 GCAATTTGAATTATT
1 GGAATTTGAATTACT
*
2944944 GAAATTTGAATTACT
1 GGAATTTGAATTACT
**
2944959 GGAAAATGAATTACT
1 GGAATTTGAATTACT
2944974 GGAATTTGAATT-CT
1 GGAATTTGAATTACT
**
2944988 GGAAAATGAATTAC
1 GGAATTTGAATTAC
2945002 ATTTCTGGAA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (15 bp):
GGAATTTGAATTACT
Found at i:2944999 original size:29 final size:30
Alignment explanation
Indices: 2944915--2945001 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 30
2944905 TGATTTTCCG
* ** *
2944915 GAAA-TTGAATTACTGCAATTTGAATTATT
1 GAAATTTGAATTACTGGAAAATGAATTACT
2944944 GAAATTTGAATTACTGGAAAATGAATTACT
1 GAAATTTGAATTACTGGAAAATGAATTACT
*
2944974 GGAATTTGAATT-CTGGAAAATGAATTAC
1 GAAATTTGAATTACTGGAAAATGAATTAC
2945002 ATTTCTGGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
29 20 0.38
30 32 0.62
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (30 bp):
GAAATTTGAATTACTGGAAAATGAATTACT
Found at i:2945007 original size:20 final size:21
Alignment explanation
Indices: 2944984--2945035 Score: 88
Period size: 20 Copynumber: 2.5 Consensus size: 21
2944974 GGAATTTGAA
2944984 TTCTGGAAAATGAATT-ACAT
1 TTCTGGAAAATGAATTAACAT
2945004 TTCTGGAAAATGAATTACACAT
1 TTCTGGAAAATGAATTA-ACAT
2945026 TTCTGGAAAA
1 TTCTGGAAAA
2945036 CATCTGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 16 0.53
22 14 0.47
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (21 bp):
TTCTGGAAAATGAATTAACAT
Found at i:2945405 original size:29 final size:29
Alignment explanation
Indices: 2945323--2945416 Score: 106
Period size: 29 Copynumber: 3.2 Consensus size: 29
2945313 CTTTACTAAA
* *
2945323 ATATTATTTAAATATATAAATAATATTAT
1 ATATTATTAAAATATAAAAATAATATTAT
2945352 -TCATTATTAAATATATAAAAA-AATATTAT
1 AT-ATTATTAAA-ATATAAAAATAATATTAT
2945381 ATATTATTAAAATA-AAAATATAATATCT-T
1 ATATTATTAAAATATAAAA-ATAATAT-TAT
2945410 ATATTAT
1 ATATTAT
2945417 ATTATTATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
27 4 0.07
28 5 0.09
29 38 0.67
30 10 0.18
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
ATATTATTAAAATATAAAAATAATATTAT
Found at i:2945463 original size:16 final size:16
Alignment explanation
Indices: 2945442--2945496 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
2945432 TTGATTATTT
2945442 TATATAATATTAAAAA
1 TATATAATATTAAAAA
* *
2945458 TATATAATATT-ATAT
1 TATATAATATTAAAAA
2945473 TATTATAAATATTAATAAA
1 TA-TAT-AATATTAA-AAA
2945492 TATAT
1 TATAT
2945497 TTTAAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 4 0.13
16 14 0.45
17 6 0.19
18 4 0.13
19 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATATAATATTAAAAA
Found at i:2945476 original size:24 final size:24
Alignment explanation
Indices: 2945443--2945521 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 24
2945433 TGATTATTTT
*
2945443 ATATAATATTAAAAATATATAAT-A
1 ATATATTATTAAAAATAT-TAATAA
* *
2945467 TTATATTATTATAAATATTAATAA
1 ATATATTATTAAAAATATTAATAA
* *
2945491 ATATATT-TTAAATATTTTAATAA
1 ATATATTATTAAAAATATTAATAA
2945514 ATAATATT
1 AT-ATATT
2945522 TTGATGAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
23 19 0.41
24 27 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATATATTATTAAAAATATTAATAA
Found at i:2945484 original size:12 final size:12
Alignment explanation
Indices: 2945469--2945521 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
2945459 ATATAATATT
2945469 ATATTATTATAA
1 ATATTATTATAA
2945481 ATATTA--ATAA
1 ATATTATTATAA
*
2945491 ATA-TATTTTAA
1 ATATTATTATAA
2945502 ATATT-TTAATAA
1 ATATTATT-ATAA
*
2945514 ATAATATT
1 ATATTATT
2945522 TTGATGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
9 2 0.06
10 7 0.21
11 8 0.24
12 14 0.42
13 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATATTATTATAA
Found at i:2945490 original size:26 final size:26
Alignment explanation
Indices: 2945410--2945521 Score: 76
Period size: 24 Copynumber: 4.4 Consensus size: 26
2945400 ATAATATCTT
* *
2945410 ATATTATATTATTATAATATAATTGATT
1 ATATTATATTATTA-AATAT-ATTAATA
* *
2945438 ATTTTATATAATATTAAAAATA-T-ATA
1 ATATTATAT--TATTAAATATATTAATA
2945464 ATATTATATTATTATAA-ATATTAATA
1 ATATTATATTATTA-AATATATTAATA
*
2945490 A-A-TATATT-TTAAATATTTTAATA
1 ATATTATATTATTAAATATATTAATA
*
2945513 A-ATAATATT
1 ATATTATATT
2945522 TTGATGAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
22 2 0.03
23 13 0.18
24 19 0.27
25 4 0.06
26 14 0.20
27 1 0.01
28 9 0.13
29 4 0.06
30 5 0.07
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (26 bp):
ATATTATATTATTAAATATATTAATA
Found at i:2945740 original size:41 final size:41
Alignment explanation
Indices: 2945695--2945812 Score: 173
Period size: 42 Copynumber: 2.9 Consensus size: 41
2945685 ATGAATTACA
*
2945695 TTCCGGAAAATGAATTACGTGAAACAAACACGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGAAAACATT
* *
2945736 TTCCGGAAAACGAATTACGTAAAACAAATACGGAAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGG-AAAACATT
* * *
2945778 TTTCGAAAAACGAATTACATGAAACAAACACGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGAA
2945813 TTTCGGGGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 32 0.47
42 36 0.53
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (41 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGAAAACATT
Found at i:2953897 original size:23 final size:26
Alignment explanation
Indices: 2953862--2953920 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
2953852 TATAAATATT
*
2953862 TTTTTTTTATAAATAAT-GTTATAT-A
1 TTTTTATTA-AAATAATAGTTATATAA
*
2953887 TTTTTATTAAAATAATATTTATATAA
1 TTTTTATTAAAATAATAGTTATATAA
*
2953913 TTATTATT
1 TTTTTATT
2953921 TATTTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 7 0.24
25 14 0.48
26 8 0.28
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTTTATTAAAATAATAGTTATATAA
Found at i:2955084 original size:17 final size:17
Alignment explanation
Indices: 2955062--2955097 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
2955052 GTTTGATATA
2955062 ATTAGAA-TATTATATTT
1 ATTAGAATTA-TATATTT
2955079 ATTAGAATTATATATTT
1 ATTAGAATTATATATTT
2955096 AT
1 AT
2955098 GTTTAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTAGAATTATATATTT
Found at i:2955700 original size:42 final size:42
Alignment explanation
Indices: 2955648--2955796 Score: 174
Period size: 42 Copynumber: 3.5 Consensus size: 42
2955638 GATGATGATG
* * * * *
2955648 CCACAGGGGTACATGCCCAACCCACCACTTCAGATGCCATCT
1 CCACAAGGGTACATGCCCAGCCCACCAGTTCATATGTCATCT
* *
2955690 CCACAAGGGTATATGCTCAGCCCACCAGTTCATATGTCATCT
1 CCACAAGGGTACATGCCCAGCCCACCAGTTCATATGTCATCT
* * *
2955732 CCACACGGGTATATGCCCAGTCCACCAGTTCATATGTCATCT
1 CCACAAGGGTACATGCCCAGCCCACCAGTTCATATGTCATCT
* *
2955774 CCGC-AGGGTTACATTCCCAGCCC
1 CCACAAGGG-TACATGCCCAGCCC
2955797 GCAAGGTTAC
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 3 0.03
42 88 0.97
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.22
Consensus pattern (42 bp):
CCACAAGGGTACATGCCCAGCCCACCAGTTCATATGTCATCT
Found at i:2955705 original size:21 final size:21
Alignment explanation
Indices: 2955681--2955748 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
2955671 ACCACTTCAG
2955681 ATGCCATCTCCACAAGGGTAT
1 ATGCCATCTCCACAAGGGTAT
* * *
2955702 ATGCTCAGC-CCACCA-GTTCAT
1 ATGC-CATCTCCACAAGGGT-AT
* *
2955723 ATGTCATCTCCACACGGGTAT
1 ATGCCATCTCCACAAGGGTAT
2955744 ATGCC
1 ATGCC
2955749 CAGTCCACCA
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
20 5 0.15
21 24 0.71
22 5 0.15
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (21 bp):
ATGCCATCTCCACAAGGGTAT
Found at i:2955804 original size:21 final size:21
Alignment explanation
Indices: 2955774--2955825 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
2955764 TATGTCATCT
*
2955774 CCGCAGGGTTACATTCCCAGC
1 CCGCAGGGTTACATACCCAGC
*
2955795 CCGCAAGGTTACATACCCAGC
1 CCGCAGGGTTACATACCCAGC
2955816 CCGCAGGGTT
1 CCGCAGGGTT
2955826 TTATGACACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.37, G:0.25, T:0.17
Consensus pattern (21 bp):
CCGCAGGGTTACATACCCAGC
Found at i:2956575 original size:21 final size:21
Alignment explanation
Indices: 2956549--2956589 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2956539 TTTTTAACTT
2956549 TAAATAATAATTAATATATTA
1 TAAATAATAATTAATATATTA
*
2956570 TAAATAATATTTAATATATT
1 TAAATAATAATTAATATATT
2956590 CGAATGACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATAATAATTAATATATTA
Found at i:2957310 original size:137 final size:137
Alignment explanation
Indices: 2956712--2957473 Score: 813
Period size: 138 Copynumber: 5.6 Consensus size: 137
2956702 TGTCCTGCTA
* * * *
2956712 GGGGTCATCACACATAATAGGGAAATTAT-A---A--CT-TGAAAAAAAAGAAAGACGCGTCCCA
1 GGGGACATCACACATAATAGGGAAATTATAACCTAGTCTCTGACAAAAAGGAAAGGCGCGTCCCA
* *
2956770 CAAGAAGCACTTTCACCACATTGTTACGTCCCCTCAAACATGATAGTCACATAATATTAATAGTG
66 CAAGAAGCGCTTTCACCACATTGTTGCGTCCCCTCAAACATGATAGT-ACATAATATTAATAGTG
* *
2956835 TTCCGCCG
130 TCCCGTCG
* *** *
2956843 AGGGACATCACACATAATAGGGAAATTATAACCTAGTCTCTGACAAAAAGGAAAATTGCGTTCCA
1 GGGGACATCACACATAATAGGGAAATTATAACCTAGTCTCTGACAAAAAGGAAAGGCGCGTCCCA
* *
2956908 CAAGAAGCGCTTTCACCACATTGTTACGTCCCCTCAAACATCATAGTCACATAATATTAATAGTG
66 CAAGAAGCGCTTTCACCACATTGTTGCGTCCCCTCAAACATGATAGT-ACATAATATTAATAGTG
*
2956973 TCCCATCG
130 TCCCGTCG
* * * * * *
2956981 AGGGACATCACACATTATAGGGCAATTATAGCCTAGTCTCTGACAAAAAGGAAATGTGCGTCCCA
1 GGGGACATCACACATAATAGGGAAATTATAACCTAGTCTCTGACAAAAAGGAAAGGCGCGTCCCA
* ** * * * *
2957046 TAAGAAGTACTTTCACCATATTGTTGAGTCCCATCAAACATGATACTCACATAATATTAATAGTG
66 CAAGAAGCGCTTTCACCACATTGTTGCGTCCCCTCAAACATGATAGT-ACATAATATTAATAGTG
** *
2957111 TCCTATCA
130 TCCCGTCG
* * *
2957119 GGGCACATCACATATAATAGGGCAATTATAACCTAGTCTCTGACAAAAAGGAAAGGCGCGTCCCA
1 GGGGACATCACACATAATAGGGAAATTATAACCTAGTCTCTGACAAAAAGGAAAGGCGCGTCCCA
* * * * ** * *
2957184 TAAGAAGTGCTTTCACCACATTGTTGCGTCCTCTCAAACATAATAGGT-TTTGATATGAATAGTG
66 CAAGAAGCGCTTTCACCACATTGTTGCGTCCCCTCAAACATGATA-GTACATAATATTAATAGTG
*
2957248 CCCCGTCG
130 TCCCGTCG
* * * * * *
2957256 GGGGGCATCACACATAATAGGGAAATTATAACATATTTTCTGACAAAAAGGAAAGACGCATCCCA
1 GGGGACATCACACATAATAGGGAAATTATAACCTAGTCTCTGACAAAAAGGAAAGGCGCGTCCCA
* ** * **
2957321 CAAGAAGCGCTTTCACCACATTGTTGCGTCCCCTTAAACATGATAGGT-GTTGATATGGATAGTG
66 CAAGAAGCGCTTTCACCACATTGTTGCGTCCCCTCAAACATGATA-GTACATAATATTAATAGTG
* *
2957385 CCCCGCCG
130 TCCCGTCG
* * * * * * *
2957393 GGGGACATCACACATTATAGGGCAGTTATAACCTATTTTCTGACAAAAAGGAAAGGTGTGTCCCA
1 GGGGACATCACACATAATAGGGAAATTATAACCTAGTCTCTGACAAAAAGGAAAGGCGCGTCCCA
* *
2957458 CAAGAAGTGTTTTCAC
66 CAAGAAGCGCTTTCAC
2957474 ATGAATAATA
Statistics
Matches: 543, Mismatches: 80, Indels: 10
0.86 0.13 0.02
Matches are distributed among these distances:
131 27 0.05
132 1 0.00
135 1 0.00
137 208 0.38
138 305 0.56
139 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (137 bp):
GGGGACATCACACATAATAGGGAAATTATAACCTAGTCTCTGACAAAAAGGAAAGGCGCGTCCCA
CAAGAAGCGCTTTCACCACATTGTTGCGTCCCCTCAAACATGATAGTACATAATATTAATAGTGT
CCCGTCG
Found at i:2969906 original size:22 final size:23
Alignment explanation
Indices: 2969853--2969906 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
2969843 CATTGGAATA
* *
2969853 TCTATATGGTTCTTAAGGAGATT
1 TCTATATGGTCCTTAAGGACATT
*
2969876 TCTATATGGTCCTTATGGACATT
1 TCTATATGGTCCTTAAGGACATT
2969899 T-TATATGG
1 TCTATATGG
2969907 CACTTCGATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.44
Consensus pattern (23 bp):
TCTATATGGTCCTTAAGGACATT
Found at i:2977084 original size:20 final size:20
Alignment explanation
Indices: 2977041--2977088 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
2977031 AATGATTTAG
**
2977041 TTTTGAAAATAAAAATTGAA
1 TTTTGAAAATAAAAATAAAA
*
2977061 -TTTGAAAATCAAAATAAAA
1 TTTTGAAAATAAAAATAAAA
2977080 TTTTGAAAA
1 TTTTGAAAA
2977089 ATGATTTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (20 bp):
TTTTGAAAATAAAAATAAAA
Found at i:2978561 original size:20 final size:21
Alignment explanation
Indices: 2978536--2978575 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2978526 CTTTGTATAG
2978536 TAGTATCGATACCA-TAGGCA
1 TAGTATCGATACCATTAGGCA
2978556 TAGTATCGATACCATTAGGC
1 TAGTATCGATACCATTAGGC
2978576 CCCAACGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (21 bp):
TAGTATCGATACCATTAGGCA
Found at i:2980340 original size:10 final size:10
Alignment explanation
Indices: 2980325--2980349 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2980315 TACACATCAT
2980325 TTTAGTTGCA
1 TTTAGTTGCA
2980335 TTTAGTTGCA
1 TTTAGTTGCA
2980345 TTTAG
1 TTTAG
2980350 GTTTAGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.20, T:0.52
Consensus pattern (10 bp):
TTTAGTTGCA
Found at i:2992864 original size:21 final size:21
Alignment explanation
Indices: 2992838--2992882 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2992828 GATTTCTGGG
* *
2992838 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2992859 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2992880 CAA
1 CAA
2992883 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2992951 original size:22 final size:21
Alignment explanation
Indices: 2992909--2992951 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2992899 ATGCCAGAGG
*
2992909 GGAACCGATACCCCCACAGGA
1 GGAACCGATACCCCCAAAGGA
*
2992930 GGAACCGATTCCCCCTAAAGGA
1 GGAACCGATACCCCC-AAAGGA
2992952 AAATGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.33, C:0.35, G:0.23, T:0.09
Consensus pattern (21 bp):
GGAACCGATACCCCCAAAGGA
Found at i:2994204 original size:32 final size:31
Alignment explanation
Indices: 2994162--2994293 Score: 142
Period size: 31 Copynumber: 4.2 Consensus size: 31
2994152 AGAGTCGAGG
2994162 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
*
2994193 GTTTTACCTATG-TCTTTC-GAGACATATGGACA
1 G-TTTACCTATGTTC-TACGGA-ACATATGGACA
* * *
2994225 GTATACCTATGCTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
** * * *
2994256 GTTTACCTGGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
2994287 GTTTACC
1 GTTTACC
2994294 GAGGATCTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
31 56 0.67
32 28 0.33
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:2994377 original size:29 final size:30
Alignment explanation
Indices: 2994275--2994374 Score: 148
Period size: 30 Copynumber: 3.3 Consensus size: 30
2994265 GGTTCTTCGG
*
2994275 GACCTATGGACAGTTTACCGAGGATCTTTAT
1 GACCTCTGGACAG-TTACCGAGGATCTTTAT
2994306 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
2994336 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2994365 GACCTCTGGA
1 GACCTCTGGA
2994375 TAGGTCCTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
29 18 0.28
30 35 0.54
31 12 0.18
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:2997487 original size:21 final size:21
Alignment explanation
Indices: 2997461--2997505 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2997451 GATTTCTGGG
* *
2997461 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2997482 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2997503 CAA
1 CAA
2997506 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2998898 original size:31 final size:31
Alignment explanation
Indices: 2998789--2998921 Score: 153
Period size: 31 Copynumber: 4.3 Consensus size: 31
2998779 AAGAGTCGAG
2998789 AGTTTACCTATGTTCTACGGAACATATGGAC
1 AGTTTACCTATGTTCTACGGAACATATGGAC
*
2998820 AGTTTTACCTATG-TCTTTC-GAGACATATGGAC
1 AG-TTTACCTATGTTC-TACGGA-ACATATGGAC
* *
2998852 AGTATACCTATGTTCTAAGGAACATATGGAC
1 AGTTTACCTATGTTCTACGGAACATATGGAC
** * * *
2998883 AGTTTACCTGGGTTCTTCGGGACCTATGGAC
1 AGTTTACCTATGTTCTACGGAACATATGGAC
2998914 AGTTTACC
1 AGTTTACC
2998922 GAGGATCTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
31 58 0.67
32 28 0.33
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (31 bp):
AGTTTACCTATGTTCTACGGAACATATGGAC
Found at i:2999005 original size:29 final size:30
Alignment explanation
Indices: 2998903--2999002 Score: 148
Period size: 30 Copynumber: 3.3 Consensus size: 30
2998893 GGTTCTTCGG
*
2998903 GACCTATGGACAGTTTACCGAGGATCTTTAT
1 GACCTCTGGACAG-TTACCGAGGATCTTTAT
2998934 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
2998964 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2998993 GACCTCTGGA
1 GACCTCTGGA
2999003 TAGGTCCTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
29 18 0.28
30 35 0.54
31 12 0.18
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:3002402 original size:23 final size:21
Alignment explanation
Indices: 3002386--3002427 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3002376 TGCTTGAGGA
3002386 GAACCGATTCCCCTGCTACAGG
1 GAACCGATT-CCCTGCTACAGG
*
3002408 GTACCGATTCCCTGCTACAG
1 GAACCGATTCCCTGCTACAG
3002428 TGCTTTCGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (21 bp):
GAACCGATTCCCTGCTACAGG
Found at i:3003241 original size:46 final size:47
Alignment explanation
Indices: 3003148--3003241 Score: 113
Period size: 46 Copynumber: 2.0 Consensus size: 47
3003138 CATATAAATT
* * *
3003148 TGCACCGAAGTGCCATGTAGAATTTGTCCCAAATGACCGCGTAGAAA
1 TGCACCGAAGTGCCATGTAGAATTTGTCCCAAAGGACCACATAGAAA
*
3003195 TGCACCGTAGTGCCATGTA-AGA-TTGT-CCATAAGGACCACATAGAAA
1 TGCACCGAAGTGCCATGTAGA-ATTTGTCCCA-AAGGACCACATAGAAA
3003241 T
1 T
3003242 TCCTTAAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
45 3 0.07
46 19 0.46
47 19 0.46
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (47 bp):
TGCACCGAAGTGCCATGTAGAATTTGTCCCAAAGGACCACATAGAAA
Found at i:3008702 original size:12 final size:12
Alignment explanation
Indices: 3008687--3008719 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
3008677 TTGTTCTAAT
3008687 CTTGTTTCTTAC
1 CTTGTTTCTTAC
3008699 CTTGTTTCTTAC
1 CTTGTTTCTTAC
3008711 CTTGTTTCT
1 CTTGTTTCT
3008720 AGCACTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.24, G:0.09, T:0.61
Consensus pattern (12 bp):
CTTGTTTCTTAC
Found at i:3012610 original size:6 final size:6
Alignment explanation
Indices: 3012599--3012623 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3012589 ACTGTTATCT
3012599 TCTCCA TCTCCA TCTCCA TCTCCA T
1 TCTCCA TCTCCA TCTCCA TCTCCA T
3012624 GTATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.48, G:0.00, T:0.36
Consensus pattern (6 bp):
TCTCCA
Found at i:3022617 original size:2 final size:2
Alignment explanation
Indices: 3022610--3022636 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3022600 TTAAAATAGT
3022610 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3022637 TTATGTCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3023827 original size:27 final size:27
Alignment explanation
Indices: 3023786--3023839 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
3023776 GAAGATCTTA
*
3023786 ATGCTGTGGACTTTCAAGTTCAAAGTG
1 ATGCTATGGACTTTCAAGTTCAAAGTG
*
3023813 ATGCTATGGAGTTTCAAGTTCAAAGTG
1 ATGCTATGGACTTTCAAGTTCAAAGTG
3023840 GTGATGGCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (27 bp):
ATGCTATGGACTTTCAAGTTCAAAGTG
Found at i:3024816 original size:2 final size:2
Alignment explanation
Indices: 3024809--3024852 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
3024799 GATCTTAAAA
3024809 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3024851 AT
1 AT
3024853 CTCAATCATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3027038 original size:18 final size:18
Alignment explanation
Indices: 3027015--3027057 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
3027005 AGAACAAAGG
3027015 AAAAATG-CTAAAATAAAT
1 AAAAATGAC-AAAATAAAT
3027033 AAAAATGAACAAAATAAAT
1 AAAAATG-ACAAAATAAAT
3027052 AAAAAT
1 AAAAAT
3027058 AAACAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.30
19 15 0.65
20 1 0.04
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (18 bp):
AAAAATGACAAAATAAAT
Found at i:3027070 original size:19 final size:19
Alignment explanation
Indices: 3027024--3027063 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
3027014 GAAAAATGCT
*
3027024 AAAATAAATAAAAATGAAC
1 AAAATAAATAAAAATAAAC
3027043 AAAATAAATAAAAATAAAC
1 AAAATAAATAAAAATAAAC
3027062 AA
1 AA
3027064 CCAAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.15
Consensus pattern (19 bp):
AAAATAAATAAAAATAAAC
Found at i:3028548 original size:3 final size:3
Alignment explanation
Indices: 3028535--3028569 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
3028525 AAATTAAATG
3028535 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3028570 TATATATTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3028802 original size:36 final size:34
Alignment explanation
Indices: 3028739--3028845 Score: 128
Period size: 36 Copynumber: 3.1 Consensus size: 34
3028729 AAATGTTTTT
* *
3028739 AAAACTATATATTATATA-TTTTTAAAATAATTTC
1 AAAACTATATATTATATAGTTTTCAAAAT-ATTTA
*
3028773 AAAACTATATATTATATAGGTTTTCAAAATGTTTTA
1 AAAACTATATATTATATA-GTTTTCAAAAT-ATTTA
**
3028809 AAAACCCTATATTATATAG-TTTCAAAATATTTA
1 AAAACTATATATTATATAGTTTTCAAAATATTTA
3028842 AAAA
1 AAAA
3028846 AAACTATATA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
33 8 0.12
34 27 0.42
35 1 0.02
36 28 0.44
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (34 bp):
AAAACTATATATTATATAGTTTTCAAAATATTTA
Found at i:3028857 original size:36 final size:33
Alignment explanation
Indices: 3028739--3028845 Score: 124
Period size: 34 Copynumber: 3.1 Consensus size: 33
3028729 AAATGTTTTT
* * *
3028739 AAAACTATATATTATATATTTTTAAAATAATTTC
1 AAAACTATATATTATATAGTTTCAAAAT-ATTTA
*
3028773 AAAACTATATATTATATAGGTTTTCAAAATGTTTTA
1 AAAACTATATATTATATA-G-TTTCAAAAT-ATTTA
**
3028809 AAAACCCTATATTATATAGTTTCAAAATATTTA
1 AAAACTATATATTATATAGTTTCAAAATATTTA
3028842 AAAA
1 AAAA
3028846 AAACTATATA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
33 8 0.13
34 27 0.43
35 1 0.02
36 27 0.43
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (33 bp):
AAAACTATATATTATATAGTTTCAAAATATTTA
Found at i:3028939 original size:2 final size:2
Alignment explanation
Indices: 3028932--3028960 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3028922 AGATTATGTA
3028932 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3028961 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3029638 original size:20 final size:20
Alignment explanation
Indices: 3029597--3029644 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
3029587 ACCTCTTGGA
* * *
3029597 ATCGATATTGTTCTTCATGT
1 ATCGATACTGTTCTCCAGGT
3029617 ATCGATACTGTTCTCCAGGT
1 ATCGATACTGTTCTCCAGGT
*
3029637 ATTGATAC
1 ATCGATAC
3029645 CTCATGAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (20 bp):
ATCGATACTGTTCTCCAGGT
Found at i:3032907 original size:15 final size:15
Alignment explanation
Indices: 3032887--3032931 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
3032877 TATATAATAT
*
3032887 ATATAGTTTTTGAAG
1 ATATAGTTTTTGAAA
*
3032902 ATATAGTTTCTGAAA
1 ATATAGTTTTTGAAA
*
3032917 ACATA-TTTTTGAAA
1 ATATAGTTTTTGAAA
3032931 A
1 A
3032932 CATATAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (15 bp):
ATATAGTTTTTGAAA
Found at i:3032931 original size:14 final size:14
Alignment explanation
Indices: 3032893--3032936 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
3032883 ATATATATAG
* *
3032893 TTTTTGAAGATATA
1 TTTTTGAAAACATA
*
3032907 GTTTCTGAAAACATA
1 -TTTTTGAAAACATA
3032922 TTTTTGAAAACATA
1 TTTTTGAAAACATA
3032936 T
1 T
3032937 AATATATAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (14 bp):
TTTTTGAAAACATA
Found at i:3033000 original size:37 final size:35
Alignment explanation
Indices: 3032921--3033094 Score: 120
Period size: 36 Copynumber: 4.7 Consensus size: 35
3032911 CTGAAAACAT
*
3032921 ATTTTTGAAAACATATAATATATAGTTAAAAAAATG
1 ATTTTTG-AAACATATAATATATAATTAAAAAAATG
* *
3032957 GTTTTTGAAACCATATAATATATAATTATTAAAAATG
1 ATTTTTGAAA-CATATAATATATAATTA-AAAAAATG
**
3032994 ATTTTTGGAAACATAT-ATA-ATTTTTGAAAACATATAT-
1 ATTTTT-GAAACATATAATATATAATT-AAAA-A-A-ATG
** **
3033031 AGTTTTTGAAAACATATAATATATGGTTTTAAAAAAAAC
1 A-TTTTTG-AAACATATAATATAT--AATTAAAAAAATG
3033070 AGTTTTTGAGAACATATAATATATA
1 A-TTTTTGA-AACATATAATATATA
3033095 GTTTTTAAAA
Statistics
Matches: 114, Mismatches: 9, Indels: 29
0.75 0.06 0.19
Matches are distributed among these distances:
35 9 0.08
36 27 0.24
37 20 0.18
38 21 0.18
39 26 0.23
40 3 0.03
41 4 0.04
42 4 0.04
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (35 bp):
ATTTTTGAAACATATAATATATAATTAAAAAAATG
Found at i:3033018 original size:19 final size:19
Alignment explanation
Indices: 3032994--3033048 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
3032984 ATTAAAAATG
*
3032994 ATTTTTGGAAACATATATA
1 ATTTTTGAAAACATATATA
3033013 ATTTTTGAAAACATATATA
1 ATTTTTGAAAACATATATA
*
3033032 GTTTTTGAAAACATATA
1 ATTTTTGAAAACATATA
3033049 ATATATGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (19 bp):
ATTTTTGAAAACATATATA
Found at i:3033078 original size:39 final size:38
Alignment explanation
Indices: 3032902--3033173 Score: 206
Period size: 38 Copynumber: 7.1 Consensus size: 38
3032892 GTTTTTGAAG
* *
3032902 ATATAGTTTCTGAAAACATA-TTTTTGAAAACATATAAT
1 ATATAGTTT-TAAAAAAATAGTTTTTGAAAACATATAAT
* *
3032940 ATATAG--TTAAAAAAATGGTTTTTGAAACCATATAAT
1 ATATAGTTTTAAAAAAATAGTTTTTGAAAACATATAAT
* *
3032976 ATATAATTATT--AAAAAT-GATTTTTGGAAACATAT-AT
1 ATATAGTT-TTAAAAAAATAG-TTTTTGAAAACATATAAT
3033012 A-AT--TTTTGAAAACATATATAGTTTTTGAAAACATATAAT
1 ATATAGTTTT-AAAA-A-A-ATAGTTTTTGAAAACATATAAT
* * *
3033051 ATATGGTTTTAAAAAAAACAGTTTTTGAGAACATATAAT
1 ATATAGTTTT-AAAAAAATAGTTTTTGAAAACATATAAT
* ** * *
3033090 ATATAGTTTTTAAAAAACGGTTTTTAAAAACGTAT-AT
1 ATATAGTTTTAAAAAAATAGTTTTTGAAAACATATAAT
* * *
3033127 AATATAGTTTTTGAAAACATATTATTTTGAAAACATATATAT
1 -ATATAG-TTTTAAAAAAATAGT-TTTTGAAAACATATA-AT
3033169 ATATA
1 ATATA
3033174 TATATATATA
Statistics
Matches: 189, Mismatches: 24, Indels: 39
0.75 0.10 0.15
Matches are distributed among these distances:
32 2 0.01
33 2 0.01
35 11 0.06
36 28 0.15
37 22 0.12
38 48 0.25
39 45 0.24
40 15 0.08
41 6 0.03
42 10 0.05
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (38 bp):
ATATAGTTTTAAAAAAATAGTTTTTGAAAACATATAAT
Found at i:3033168 original size:2 final size:2
Alignment explanation
Indices: 3033161--3033191 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3033151 TTTTGAAAAC
3033161 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3033192 GATTTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3033293 original size:30 final size:29
Alignment explanation
Indices: 3033247--3033315 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
3033237 CTTTGAGAAC
* *
3033247 ATATTATAT-TTTTTTTTGAAATATA-ATAT
1 ATATTATATAGTTTTTTT--AATATACACAT
3033276 ATATTATATAGTTTTTTTAATATACACAT
1 ATATTATATAGTTTTTTTAATATACACAT
3033305 ATAATTATATA
1 AT-ATTATATA
3033316 TTATTATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 6 0.17
29 14 0.40
30 15 0.43
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (29 bp):
ATATTATATAGTTTTTTTAATATACACAT
Found at i:3035693 original size:16 final size:17
Alignment explanation
Indices: 3035643--3035694 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
3035633 TAAAAATTTA
3035643 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
3035660 TA-TT-AAA-TTATGAGT
1 AATTTGAAAGTTA-GAGT
3035675 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
3035691 AATT
1 AATT
3035695 AAATTAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:3037447 original size:4 final size:4
Alignment explanation
Indices: 3037433--3037469 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
3037423 ATATTATATA
*
3037433 GATG AATG GATG GATG GATG GATG GATG GAGTG GATG
1 GATG GATG GATG GATG GATG GATG GATG GA-TG GATG
3037470 ACATATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.27, C:0.00, G:0.49, T:0.24
Consensus pattern (4 bp):
GATG
Found at i:3038924 original size:18 final size:17
Alignment explanation
Indices: 3038870--3038918 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 17
3038860 TTGAACTCTT
*
3038870 AGTGCATCGATGCACTAA
1 AGTGCATCGATGCA-TCA
3038888 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
3038906 AGTGCATTCGATG
1 AGTGCA-TCGATG
3038919 TTTCAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 6 0.21
18 8 0.29
19 14 0.50
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:3038947 original size:64 final size:62
Alignment explanation
Indices: 3038870--3039049 Score: 195
Period size: 65 Copynumber: 2.8 Consensus size: 62
3038860 TTGAACTCTT
*
3038870 AGTGCATCGATGCACTAAGAGTGCATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGCCAA
1 AGTGCATCGATGCACT--GAGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-AGCCAA
* *
3038934 AGTGCATCGATGCATGGCTG-GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCT
1 AGTGCATCGATGCA---CTGAGTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAGCCA
*
3038998 C
62 A
* *
3038999 AGTGCATCGGTGCA-TGGTATGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCACT-G-A-GTGCATCGATGCATCAAATGCATTCGATGTT
3039050 CAATTTAATT
Statistics
Matches: 101, Mismatches: 6, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
61 1 0.01
62 1 0.01
64 44 0.44
65 50 0.50
66 3 0.03
67 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (62 bp):
AGTGCATCGATGCACTGAGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAAGCCAA
Found at i:3039088 original size:65 final size:63
Alignment explanation
Indices: 3038890--3039099 Score: 221
Period size: 65 Copynumber: 3.3 Consensus size: 63
3038880 TGCACTAAGA
* * ** *
3038890 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCAAAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTC--AGTGCATCGATGCATGGTTG
* *
3038954 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTCAGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGTGCATCGATGCATGGT-
3039018 T-
62 TG
* *
3039019 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA--GTGCATCGATGCATGG-TT
3039083 G
63 G
*
3039084 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
3039100 CTTTGATAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 51 0.41
65 64 0.52
66 1 0.01
67 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGTGCATCGATGCATGGTTG
Found at i:3047239 original size:18 final size:17
Alignment explanation
Indices: 3047185--3047233 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
3047175 TTGAACCCTT
* *
3047185 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
3047203 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
3047221 AGTGCATTCGATG
1 AGTGCA-TCGATG
3047234 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:3047412 original size:65 final size:63
Alignment explanation
Indices: 3047205--3047414 Score: 196
Period size: 65 Copynumber: 3.3 Consensus size: 63
3047195 TGCACTAAGA
* * *
3047205 GTGCATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTT
3047268 G
63 G
* *
3047269 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGTATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-T
3047334 -
63 G
* * * **
3047334 GTGGATCGATGCATGAAATGCATTTGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-T
3047397 TG
62 TG
*
3047399 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
3047415 CTTTGATAAA
Statistics
Matches: 121, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 48 0.40
65 61 0.50
66 5 0.04
67 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTG
Found at i:3048149 original size:24 final size:24
Alignment explanation
Indices: 3048105--3048151 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3048095 ACTTTGAAAA
* *
3048105 TGAAAAAATTTATATATATTTTCT
1 TGAAAAAATATATATAAATTTTCT
3048129 TGAAAAAATA-ATATAAAATTTTC
1 TGAAAAAATATATAT-AAATTTTC
3048152 GGATAAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
TGAAAAAATATATATAAATTTTCT
Found at i:3054713 original size:71 final size:73
Alignment explanation
Indices: 3054586--3054731 Score: 269
Period size: 71 Copynumber: 2.0 Consensus size: 73
3054576 AACAGAAAGG
3054586 CCCAAATATTTTGTTTTTATTTAATAAAGAACACACAAAATTTAGTCTAGCAATGCTTGTAACTC
1 CCCAAATATTTTGTTTTTATTTAAT-AAGAACACACAAAATTTAGTCTAGCAATGCTTGTAACTC
3054651 ATCTATAAA
65 ATCTATAAA
3054660 CCCAAATATTTTGTTTTTATTTAAT-A-AACACACAAAATTTAGTCTAGCAATGCTTGTAACTCA
1 CCCAAATATTTTGTTTTTATTTAATAAGAACACACAAAATTTAGTCTAGCAATGCTTGTAACTCA
3054723 TCTATAAA
66 TCTATAAA
3054731 C
1 C
3054732 AGGCACTAAC
Statistics
Matches: 72, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
71 46 0.64
72 1 0.01
74 25 0.35
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (73 bp):
CCCAAATATTTTGTTTTTATTTAATAAGAACACACAAAATTTAGTCTAGCAATGCTTGTAACTCA
TCTATAAA
Found at i:3057995 original size:19 final size:19
Alignment explanation
Indices: 3057971--3058019 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
3057961 ATATTTAAAA
3057971 TAATATTATTTTA-TATATT
1 TAATATTATTTTACTAT-TT
* *
3057990 TAATATTAATATACTATTT
1 TAATATTATTTTACTATTT
*
3058009 TAGTATTATTT
1 TAATATTATTT
3058020 AAAAAATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 21 0.88
20 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TAATATTATTTTACTATTT
Found at i:3058040 original size:17 final size:18
Alignment explanation
Indices: 3058013--3058051 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
3058003 CTATTTTAGT
3058013 ATTATTTAAAAAATATTA
1 ATTATTTAAAAAATATTA
* *
3058031 ATTA-TTAAAATATATTT
1 ATTATTTAAAAAATATTA
3058048 ATTA
1 ATTA
3058052 ATAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTATTTAAAAAATATTA
Found at i:3058070 original size:17 final size:16
Alignment explanation
Indices: 3058050--3058101 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
3058040 ATATATTTAT
3058050 TAATAATTTTAATAATA
1 TAAT-ATTTTAATAATA
*
3058067 TAATATTTTCAATAGTA
1 TAATATTTT-AATAATA
* *
3058084 TAATAGTATAATAATA
1 TAATATTTTAATAATA
3058100 TA
1 TA
3058102 TCAATATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 13 0.43
17 17 0.57
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (16 bp):
TAATATTTTAATAATA
Found at i:3064112 original size:35 final size:35
Alignment explanation
Indices: 3064073--3064144 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
3064063 AATTAAACGA
*
3064073 GGATGGAGAAAATCCGTTTATGCTAAACGGGGACG
1 GGATGGAGAAAAACCGTTTATGCTAAACGGGGACG
* *
3064108 GGATGGGGAAAAACCGTTTATGTTAAACGGGGACG
1 GGATGGAGAAAAACCGTTTATGCTAAACGGGGACG
3064143 GG
1 GG
3064145 GACGGGTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.12, G:0.38, T:0.19
Consensus pattern (35 bp):
GGATGGAGAAAAACCGTTTATGCTAAACGGGGACG
Found at i:3064146 original size:30 final size:30
Alignment explanation
Indices: 3064065--3064146 Score: 74
Period size: 35 Copynumber: 2.6 Consensus size: 30
3064055 GAAAACCAAA
* * * *
3064065 TTAAACGAGGATGGAGAAAATCCGTTTATG
1 TTAAACGGGGACGGGGAAAAACCGTTTATG
*
3064095 CTAAACGGGGACGGGATGGGGAAAAACCGTTTATG
1 TTAAACGGGGAC-----GGGGAAAAACCGTTTATG
3064130 TTAAACGGGGACGGGGA
1 TTAAACGGGGACGGGGA
3064147 CGGGTTTAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
30 14 0.34
35 27 0.66
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.20
Consensus pattern (30 bp):
TTAAACGGGGACGGGGAAAAACCGTTTATG
Found at i:3064189 original size:12 final size:12
Alignment explanation
Indices: 3064161--3064197 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
3064151 TTTAGTAATC
3064161 CCCGCCCCGATTA
1 CCCGCCCCGA-TA
3064174 CCCGCCCCGATA
1 CCCGCCCCGATA
*
3064186 CCCGGCCCGATA
1 CCCGCCCCGATA
3064198 AATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.16, C:0.54, G:0.19, T:0.11
Consensus pattern (12 bp):
CCCGCCCCGATA
Found at i:3064223 original size:2 final size:2
Alignment explanation
Indices: 3064216--3064303 Score: 71
Period size: 2 Copynumber: 47.0 Consensus size: 2
3064206 AAATAATTAT
* * *
3064216 TA TA TA TA TA TA TA TA TA TA -A TA T- TA -A TA AA TT TA AA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
3064254 TA AA T- TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
3064294 AA TA TA TA TA
1 TA TA TA TA TA
3064304 CCCGGCCTGA
Statistics
Matches: 66, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
1 6 0.09
2 60 0.91
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3064821 original size:29 final size:29
Alignment explanation
Indices: 3064786--3064851 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
3064776 TTTAATCCCA
3064786 CGACTATTAAAAGTTACAGAATGATCACC
1 CGACTATTAAAAGTTACAGAATGATCACC
* *
3064815 CGACTATTAAAAGTTACATAATGGTCACC
1 CGACTATTAAAAGTTACAGAATGATCACC
*
3064844 CAACTATT
1 CGACTATT
3064852 CATATGTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.27
Consensus pattern (29 bp):
CGACTATTAAAAGTTACAGAATGATCACC
Found at i:3065313 original size:59 final size:60
Alignment explanation
Indices: 3065188--3065304 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 60
3065178 AAACAGTTTG
****
3065188 TAACTTTTAATAGTCGGAGGACCCAACAAAGTGGTGCCCTATAATCAAGGGACCATTTTA
1 TAACTTTTAATAGTCGGAGGACCCAACAAAGTAACACCCTATAATCAAGGGACCATTTTA
* * * *
3065248 TAACTTTTAATAGTC-GATGACTCAACAAAGTAACACCCTATAGTCGAGGGACCATTT
1 TAACTTTTAATAGTCGGAGGACCCAACAAAGTAACACCCTATAATCAAGGGACCATTT
3065305 GTGTACTTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
59 34 0.69
60 15 0.31
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (60 bp):
TAACTTTTAATAGTCGGAGGACCCAACAAAGTAACACCCTATAATCAAGGGACCATTTTA
Found at i:3066224 original size:2 final size:2
Alignment explanation
Indices: 3066217--3066248 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3066207 AATACTAATA
3066217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3066249 TTGCTAACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3067536 original size:45 final size:45
Alignment explanation
Indices: 3067487--3067573 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 45
3067477 GAACATCGAA
*
3067487 TGCATTTTATGCATCGATGCACATA-CCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACA-AGCCATGCATCGATGCACTCAG
*
3067532 TGCATTTGATGCATCGATGCACAAGCTATGCATCGATGCACT
1 TGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACT
3067574 TTGGCTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 1 0.03
45 38 0.97
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (45 bp):
TGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTCAG
Found at i:3073473 original size:23 final size:22
Alignment explanation
Indices: 3073411--3073474 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
3073401 CAGTGCATCA
*
3073411 ATGCATCCCTTGAATGTGCATCG
1 ATGCAT-CCTTGAATGTGCACCG
* * *
3073434 ATACA-CCATGAAGGTGCACCG
1 ATGCATCCTTGAATGTGCACCG
3073455 ATGCATGCCTTGAATGTGCA
1 ATGCAT-CCTTGAATGTGCA
3073475 TCAATGCACA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 17 0.53
23 15 0.47
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (22 bp):
ATGCATCCTTGAATGTGCACCG
Found at i:3073481 original size:23 final size:22
Alignment explanation
Indices: 3073403--3073482 Score: 81
Period size: 23 Copynumber: 3.6 Consensus size: 22
3073393 ACACTTAACA
3073403 GTGCATCAATGCATCCCTTGAAT
1 GTGCATCAATGCAT-CCTTGAAT
* * * *
3073426 GTGCATCGATACA-CCATGAAG
1 GTGCATCAATGCATCCTTGAAT
* *
3073447 GTGCACCGATGCATGCCTTGAAT
1 GTGCATCAATGCAT-CCTTGAAT
3073470 GTGCATCAATGCA
1 GTGCATCAATGCA
3073483 CAAGGCCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 17 0.38
23 28 0.62
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (22 bp):
GTGCATCAATGCATCCTTGAAT
Found at i:3074921 original size:18 final size:18
Alignment explanation
Indices: 3074900--3074934 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3074890 TCGGTCTAAA
* *
3074900 CATCTCTCTCGAAAATCC
1 CATCCCTCTCCAAAATCC
3074918 CATCCCTCTCCAAAATC
1 CATCCCTCTCCAAAATC
3074935 AAATCAATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.43, G:0.03, T:0.26
Consensus pattern (18 bp):
CATCCCTCTCCAAAATCC
Found at i:3076210 original size:45 final size:45
Alignment explanation
Indices: 3076161--3076247 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
3076151 GAACATCGAA
*
3076161 TGCATTTTATGCATCGATGCACATA-CCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACA-AGCCATGCATCGATGCACTCAG
**
3076206 TGCATTTGATGCATCGATGCACAAGCTTTGCATCGATGCACT
1 TGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACT
3076248 TTGGCTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 1 0.03
45 37 0.97
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (45 bp):
TGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTCAG
Found at i:3077885 original size:14 final size:13
Alignment explanation
Indices: 3077854--3077894 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
3077844 AAGTTTAGAG
3077854 AAAAA-GAAAGAA
1 AAAAATGAAAGAA
*
3077866 AAAAATGAAAGATT
1 AAAAATGAAAGA-A
3077880 AAAAATGAAA-AA
1 AAAAATGAAAGAA
3077892 AAA
1 AAA
3077895 GTTATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 7 0.28
14 10 0.40
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (13 bp):
AAAAATGAAAGAA
Done.