Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 258 of 373
Found at i:87504497 original size:28 final size:28
Alignment explanation
Indices: 87504442--87504498 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
87504432 ATTATAAAAT
* *
87504442 AAAAATTAATTAAAATTACATAAATGAA
1 AAAAATTAAATAAAATTACAAAAATGAA
*
87504470 AAAAATTAAATAATATT-CAAAAATTGAA
1 AAAAATTAAATAAAATTACAAAAA-TGAA
87504498 A
1 A
87504499 TTAACCCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (28 bp):
AAAAATTAAATAAAATTACAAAAATGAA
Found at i:87513047 original size:35 final size:35
Alignment explanation
Indices: 87513005--87513076 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
87512995 GTTCATTATG
87513005 TTTTATCATTGAATTTAATTGTCAAGGCTGTTCAT
1 TTTTATCATTGAATTTAATTGTCAAGGCTGTTCAT
87513040 TTTTATCATTGAATTTAATTGTCAAGGCTGTTCAT
1 TTTTATCATTGAATTTAATTGTCAAGGCTGTTCAT
87513075 TT
1 TT
87513077 ATATTGGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (35 bp):
TTTTATCATTGAATTTAATTGTCAAGGCTGTTCAT
Found at i:87513803 original size:61 final size:57
Alignment explanation
Indices: 87513692--87513831 Score: 154
Period size: 61 Copynumber: 2.4 Consensus size: 57
87513682 TTAATTCATA
* * * *
87513692 TAATAATAATTATATTAAGAATGTTATTAAATTGTATATTATTTTATTAAATTGTATT
1 TAATAATAATTATATTAA-AATATGATTAAATTGTATATTATTTTATTAAAATATATT
* * *
87513750 TAATAATAATTATATTAAAATATGGTTAAATTATTTATTTTTATTTTTATTAAAATATATT
1 TAATAATAATTATATTAAAATATGATTAAA-T-TGTA-TATTA-TTTTATTAAAATATATT
* *
87513811 TAACAATAATTTTATTAAAAT
1 TAATAATAATTATATTAAAAT
87513832 TTAATAATAA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
57 9 0.13
58 19 0.28
59 3 0.04
60 4 0.06
61 34 0.49
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (57 bp):
TAATAATAATTATATTAAAATATGATTAAATTGTATATTATTTTATTAAAATATATT
Found at i:87513983 original size:44 final size:46
Alignment explanation
Indices: 87513929--87514017 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
87513919 ACATCTATTT
87513929 CATTCAACCAAACACAAG-AA-TACT-ATTACAGCTCTATTCCATTC
1 CATTCAACCAAACA-AAGAAATTACTGATTACAGCTCTATTCCATTC
* *
87513973 CATTCAACCAAACAATGAAATTATTGATTACAGCTCTATTCCATT
1 CATTCAACCAAACAAAGAAATTACTGATTACAGCTCTATTCCATT
87514018 ACAACTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 2 0.05
44 16 0.40
45 3 0.08
46 19 0.47
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (46 bp):
CATTCAACCAAACAAAGAAATTACTGATTACAGCTCTATTCCATTC
Found at i:87514020 original size:16 final size:16
Alignment explanation
Indices: 87513999--87514050 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
87513989 GAAATTATTG
87513999 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* * *
87514015 ATTACAACTTTATTCA
1 ATTACAGCTCTATTCC
87514031 ATTACAGC-CATATTCC
1 ATTACAGCTC-TATTCC
87514047 ATTA
1 ATTA
87514051 TAATGAACCA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:87514084 original size:15 final size:15
Alignment explanation
Indices: 87514064--87514094 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
87514054 TGAACCAAAC
87514064 ATACCTTTAATATGT
1 ATACCTTTAATATGT
87514079 ATACCTTTAATATGT
1 ATACCTTTAATATGT
87514094 A
1 A
87514095 GTAGCCTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (15 bp):
ATACCTTTAATATGT
Found at i:87516117 original size:15 final size:15
Alignment explanation
Indices: 87516097--87516126 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87516087 TCTCTTTTCT
*
87516097 TTATACAAATAAGCA
1 TTATACAAAGAAGCA
87516112 TTATACAAAGAAGCA
1 TTATACAAAGAAGCA
87516127 AGTACATTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.23
Consensus pattern (15 bp):
TTATACAAAGAAGCA
Found at i:87518433 original size:29 final size:30
Alignment explanation
Indices: 87518381--87518441 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
87518371 AAGTTATATC
87518381 TTTATAATTTATAAAAAATTAAATCA-AATT
1 TTTATAATTTATAAAAAATTAAAT-ATAATT
*
87518411 TTTA-AATTT-TAAAAATTTAAAATATAATT
1 TTTATAATTTATAAAAAATT-AAATATAATT
87518440 TT
1 TT
87518442 ACTTTCACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 9 0.32
29 15 0.54
30 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
TTTATAATTTATAAAAAATTAAATATAATT
Found at i:87520669 original size:5 final size:5
Alignment explanation
Indices: 87520659--87520690 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
87520649 TTGTGTGTTC
87520659 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
87520691 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:87520673 original size:9 final size:9
Alignment explanation
Indices: 87520659--87520689 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
87520649 TTGTGTGTTC
87520659 TTTATTTTA
1 TTTATTTTA
87520668 TTTATTTTA
1 TTTATTTTA
87520677 TTTTATTTTA
1 -TTTATTTTA
87520687 TTT
1 TTT
87520690 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:87525044 original size:5 final size:5
Alignment explanation
Indices: 87525034--87525065 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
87525024 TTGTGTGTTC
87525034 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
87525066 TCACTGGCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:87525048 original size:9 final size:9
Alignment explanation
Indices: 87525034--87525064 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
87525024 TTGTGTGTTC
87525034 TTTATTTTA
1 TTTATTTTA
87525043 TTTATTTTA
1 TTTATTTTA
87525052 TTTTATTTTA
1 -TTTATTTTA
87525062 TTT
1 TTT
87525065 TTCACTGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:87525695 original size:18 final size:19
Alignment explanation
Indices: 87525656--87525698 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
87525646 ACGGACTTCA
*
87525656 TAAAAATACAAAATATTAT
1 TAAAAATACAAAACATTAT
*
87525675 TAAAAATTCAAAACATT-T
1 TAAAAATACAAAACATTAT
87525693 TAAAAA
1 TAAAAA
87525699 GTTGATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAAATACAAAACATTAT
Found at i:87526549 original size:33 final size:33
Alignment explanation
Indices: 87526510--87526575 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
87526500 TGGAGTTCAC
87526510 CCAAACTATAAATGAAAAATGAAAGAATAAATT
1 CCAAACTATAAATGAAAAATGAAAGAATAAATT
87526543 CCAAACTATAAATGAAAAATGAAAGAATAAATT
1 CCAAACTATAAATGAAAAATGAAAGAATAAATT
87526576 ATACTCTCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (33 bp):
CCAAACTATAAATGAAAAATGAAAGAATAAATT
Found at i:87527085 original size:16 final size:16
Alignment explanation
Indices: 87527064--87527131 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
87527054 TTTGGTTCGC
87527064 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
87527080 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
87527096 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
87527112 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
87527128 TGTA
1 TGTA
87527132 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:87527388 original size:18 final size:17
Alignment explanation
Indices: 87527367--87527401 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
87527357 TTATTATTAA
*
87527367 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
87527385 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
87527402 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:87527508 original size:18 final size:17
Alignment explanation
Indices: 87527487--87527521 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
87527477 TTATTATTAA
*
87527487 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
87527505 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
87527522 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:87527563 original size:120 final size:120
Alignment explanation
Indices: 87527350--87527732 Score: 757
Period size: 120 Copynumber: 3.2 Consensus size: 120
87527340 ATCATATTTA
87527350 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
87527415 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
87527470 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
87527535 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
87527590 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
87527655 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
87527710 AACATAATAATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
87527733 AACTTGAAAA
Statistics
Matches: 262, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 262 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:87527628 original size:18 final size:17
Alignment explanation
Indices: 87527607--87527641 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
87527597 TTATTATTAA
*
87527607 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
87527625 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
87527642 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:87537682 original size:41 final size:40
Alignment explanation
Indices: 87537606--87537691 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
87537596 CAAATACATT
* *
87537606 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAAATATTAAAACAACAAACAAATAAAAAAT-ATAA
* * * **
87537647 TAAAACAATTCTTAAAACAACACACAAATTGAAAATATAA
1 TAAAACAAATATTAAAACAACAAACAAATAAAAAATATAA
87537687 TAAAA
1 TAAAA
87537692 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.20
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAACAAACAAATAAAAAATATAA
Found at i:87538327 original size:18 final size:18
Alignment explanation
Indices: 87538286--87538320 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
87538276 TATATAATAA
*
87538286 ATATATATATTTTTAATT
1 ATATTTATATTTTTAATT
87538304 ATATTTATA-TTTTAATT
1 ATATTTATATTTTTAATT
87538321 TTAATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATTTATATTTTTAATT
Found at i:87538359 original size:20 final size:20
Alignment explanation
Indices: 87538289--87538362 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
87538279 ATAATAAATA
* *
87538289 TATATATTTTTAA-TTATAT
1 TATATATTTTCAATTTTTAT
*
87538308 T-TATATTTT-AATTTTAAT
1 TATATATTTTCAATTTTTAT
* **
87538326 TTTAATATAATCAATTTTTAT
1 TAT-ATATTTTCAATTTTTAT
87538347 TATATATTTTCAATTT
1 TATATATTTTCAATTT
87538363 GTGTATTGTT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
17 2 0.05
18 13 0.30
19 2 0.05
20 16 0.37
21 10 0.23
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATATTTTCAATTTTTAT
Found at i:87538392 original size:40 final size:40
Alignment explanation
Indices: 87538348--87538428 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
87538338 AATTTTTATT
87538348 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * *
87538388 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
87538428 A
1 A
87538429 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:87538572 original size:36 final size:36
Alignment explanation
Indices: 87538532--87538614 Score: 114
Period size: 36 Copynumber: 2.3 Consensus size: 36
87538522 TTAACAATTT
*
87538532 TATTTCGGGCCTGGCTT-GAGCAAATTTTTAGGCCCA
1 TATTTCGGGCCAGGCTTGGA-CAAATTTTTAGGCCCA
* * *
87538568 TATTTTGAGCCAGGCTTGGATAAATTTTTAGGCCCA
1 TATTTCGGGCCAGGCTTGGACAAATTTTTAGGCCCA
87538604 TATTTCGGGCC
1 TATTTCGGGCC
87538615 GGGCCGGACC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
36 38 0.95
37 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (36 bp):
TATTTCGGGCCAGGCTTGGACAAATTTTTAGGCCCA
Found at i:87538643 original size:12 final size:12
Alignment explanation
Indices: 87538626--87538659 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
87538616 GGCCGGACCC
87538626 GGGCCTAAAAAT
1 GGGCCTAAAAAT
87538638 GGGCCTAAAAAT
1 GGGCCTAAAAAT
87538650 GGGCCTAAAA
1 GGGCCTAAAA
87538660 TTTTTTATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.15
Consensus pattern (12 bp):
GGGCCTAAAAAT
Found at i:87540082 original size:61 final size:56
Alignment explanation
Indices: 87539952--87540117 Score: 163
Period size: 61 Copynumber: 2.9 Consensus size: 56
87539942 AAACTTAATC
* * * **
87539952 AATTTAATATTAAATTAAGATAATACTTATTAAGATAAATATTAGATTAAATTTAA
1 AATTTAATATTAAATTAATAAAATACTTATTAAGATAAATATTAAATTAAAGATAA
* * *
87540008 AATTAAATTTATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAAGATAA
1 AATTTAA--TATTAAATTAATAAAATACTTAT-T--AAGATAAATATTAAATTAAAGATAA
* * *
87540069 CCATTTTAATATTAAATTAATAAAATAC-TATTAATATAAGTATTAAATT
1 --AATTTAATATTAAATTAATAAAATACTTATTAAGATAAATATTAAATT
87540118 TAATTTAATA
Statistics
Matches: 90, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
56 6 0.07
57 15 0.17
58 20 0.22
59 2 0.02
60 3 0.03
61 39 0.43
63 5 0.06
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (56 bp):
AATTTAATATTAAATTAATAAAATACTTATTAAGATAAATATTAAATTAAAGATAA
Found at i:87541246 original size:27 final size:26
Alignment explanation
Indices: 87541207--87541395 Score: 207
Period size: 27 Copynumber: 7.0 Consensus size: 26
87541197 GTTGTTTAAG
87541207 ACCCCGGTTTGTAAAATTATCAAAAT
1 ACCCCGGTTTGTAAAATTATCAAAAT
* *
87541233 ATCCCCGGTTTGTAAAATTACCTAAAT
1 A-CCCCGGTTTGTAAAATTATCAAAAT
** *
87541260 ACCCCCAATTTGTAAAATTATCGAAAT
1 A-CCCCGGTTTGTAAAATTATCAAAAT
* *
87541287 ACTCCCGATTTTTAAAATTATCAAAAT
1 AC-CCCGGTTTGTAAAATTATCAAAAT
* *
87541314 ACCCCCAGTTTGTAAAATTATCAAAGT
1 A-CCCCGGTTTGTAAAATTATCAAAAT
* *
87541341 ACCCCTAGTTTGTAAAATTATTAAAAT
1 ACCCC-GGTTTGTAAAATTATCAAAAT
* *
87541368 ACCCCTGATTTGTAAAATTATCGAAAT
1 ACCCC-GGTTTGTAAAATTATCAAAAT
87541395 A
1 A
87541396 TTGTTGTAGT
Statistics
Matches: 139, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.04
27 132 0.95
28 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (26 bp):
ACCCCGGTTTGTAAAATTATCAAAAT
Found at i:87541353 original size:81 final size:80
Alignment explanation
Indices: 87541207--87541395 Score: 254
Period size: 81 Copynumber: 2.3 Consensus size: 80
87541197 GTTGTTTAAG
* * *
87541207 ACCCCGGTTTGTAAAATTATCAAAATATCCCCGGTTTGTAAAATTACCTAAATACCCCCAATTTG
1 ACCCCGATTTGTAAAATTATCAAAATACCCCCAGTTTGTAAAATTACCTAAATACCCCCAATTTG
*
87541272 TAAAATTATCGAAAT
66 TAAAATTATCAAAAT
* * * *
87541287 ACTCCCGATTTTTAAAATTATCAAAATACCCCCAGTTTGTAAAATTATC-AAAGTACCCCTAGTT
1 AC-CCCGATTTGTAAAATTATCAAAATACCCCCAGTTTGTAAAATTACCTAAA-TACCCCCAATT
*
87541351 TGTAAAATTATTAAAAT
64 TGTAAAATTATCAAAAT
*
87541368 ACCCCTGATTTGTAAAATTATCGAAATA
1 ACCCC-GATTTGTAAAATTATCAAAATA
87541396 TTGTTGTAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
80 8 0.08
81 87 0.92
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (80 bp):
ACCCCGATTTGTAAAATTATCAAAATACCCCCAGTTTGTAAAATTACCTAAATACCCCCAATTTG
TAAAATTATCAAAAT
Found at i:87541429 original size:27 final size:27
Alignment explanation
Indices: 87541215--87541439 Score: 131
Period size: 27 Copynumber: 8.3 Consensus size: 27
87541205 AGACCCCGGT
**
87541215 TTGTAAAATTATCAAAATATCCCCGGT-
1 TTGTAAAATTATCAAAATA-CCCTTGTA
* * ***
87541242 TTGTAAAATTACCTAAATACCC-CCAA
1 TTGTAAAATTATCAAAATACCCTTGTA
* *
87541268 TTTGTAAAATTATCGAAATACTCC-CG-A
1 -TTGTAAAATTATCAAAATAC-CCTTGTA
* **
87541295 TTTTTAAAATTATCAAAATACCCCCAGT-
1 -TTGTAAAATTATCAAAATA-CCCTTGTA
* *
87541323 TTGTAAAATTATCAAAGTACCCCTAGT-
1 TTGTAAAATTATCAAAATA-CCCTTGTA
* *
87541350 TTGTAAAATTATTAAAATACCCCTG-A
1 TTGTAAAATTATCAAAATACCCTTGTA
* ***
87541376 TTTGTAAAATTATCGAAATATTGTTGTA
1 -TTGTAAAATTATCAAAATACCCTTGTA
*
87541404 GTGTAAAATTATCAAAATACCCTTGTA
1 TTGTAAAATTATCAAAATACCCTTGTA
**
87541431 GGGTAAAAT
1 TTGTAAAAT
87541440 GATTGTTTTG
Statistics
Matches: 159, Mismatches: 30, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
26 7 0.04
27 146 0.92
28 6 0.04
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (27 bp):
TTGTAAAATTATCAAAATACCCTTGTA
Found at i:87541922 original size:27 final size:27
Alignment explanation
Indices: 87541879--87541940 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
87541869 CTATGTGCCT
* *
87541879 ATCATATTTATTGATGACTCTGTGTCA
1 ATCATATTTACTCATGACTCTGTGTCA
* * *
87541906 ATCATATTTACTCATGATTGTGTGTCG
1 ATCATATTTACTCATGACTCTGTGTCA
*
87541933 ATTATATT
1 ATCATATT
87541941 ACCATCGCTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.47
Consensus pattern (27 bp):
ATCATATTTACTCATGACTCTGTGTCA
Found at i:87542664 original size:121 final size:121
Alignment explanation
Indices: 87542450--87542693 Score: 434
Period size: 121 Copynumber: 2.0 Consensus size: 121
87542440 TAGATTGGTG
* *
87542450 CTGGGAGGACTTGGAGGTGGCTACGCTACGAACAACTTTAAATTTTCATATTACTTTTACATTAC
1 CTGGGAGGACTCGGAGGTGGCTACACTACGAACAACTTTAAATTTTCATATTACTTTTACATTAC
*
87542515 TTAAGTTACTTTCTTTTTGGGTTTTTTTGATGTAATAAGGTATTTTCTCTAATTTT
66 TTAAGTTACTTTCTTTTTGGGTTTTTTTGATGTAATAAGGCATTTTCTCTAATTTT
* *
87542571 CTGGGAGGACTCGGAGGTGGCTACACTATGAACAACTTTAAATTTTCGTATTACTTTTACATTAC
1 CTGGGAGGACTCGGAGGTGGCTACACTACGAACAACTTTAAATTTTCATATTACTTTTACATTAC
*
87542636 TTAAGTTACTTTCTTTTTGGGTTTTTTTGATGTAATAAGGCCTTTTCTCTAATTTT
66 TTAAGTTACTTTCTTTTTGGGTTTTTTTGATGTAATAAGGCATTTTCTCTAATTTT
87542692 CT
1 CT
87542694 AACTTTTAAT
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 117 1.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.45
Consensus pattern (121 bp):
CTGGGAGGACTCGGAGGTGGCTACACTACGAACAACTTTAAATTTTCATATTACTTTTACATTAC
TTAAGTTACTTTCTTTTTGGGTTTTTTTGATGTAATAAGGCATTTTCTCTAATTTT
Found at i:87544296 original size:63 final size:63
Alignment explanation
Indices: 87544162--87544296 Score: 164
Period size: 63 Copynumber: 2.1 Consensus size: 63
87544152 TATCTCTAGA
* * *** *
87544162 AAAGGTGTTGATACGAGGAATGATTGCACGTGCTGTGGTGCTTGTGTAAAATAAATTGGTGTT
1 AAAGGTGTTGATACGAGGAATGATTGCACATGATGTGGTGCTTGTGTAAAATAAACCAGAGTT
* * *
87544225 AAATGTGTTGATGCG-GAGAATGATTGTACATGATGTGGTGCTTGTGTAAAATAAACCAGAGTT
1 AAAGGTGTTGATACGAG-GAATGATTGCACATGATGTGGTGCTTGTGTAAAATAAACCAGAGTT
*
87544288 GAAGGTGTT
1 AAAGGTGTT
87544297 TATGTAAGGA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 1 0.02
63 59 0.98
ACGTcount: A:0.29, C:0.07, G:0.31, T:0.33
Consensus pattern (63 bp):
AAAGGTGTTGATACGAGGAATGATTGCACATGATGTGGTGCTTGTGTAAAATAAACCAGAGTT
Found at i:87546125 original size:107 final size:107
Alignment explanation
Indices: 87545979--87546183 Score: 250
Period size: 107 Copynumber: 1.9 Consensus size: 107
87545969 AATATTTAAA
* * * * * ** *
87545979 TGTACGACCATAGCTGGGCTATGGCATTTTAGTGAAAAGATCATAATTGGGTTATGGCACTGTGA
1 TGTAAGACCATAGCTGGGCCATGGCATATGAGTGAAAAGACCATAACAGGGTTATGGCACTATGA
** *
87546044 ACATAAGACCATGGTTGGACCATGGCAGTATATATATGTGTG
66 ACATAAGACCATGGCAGGACCATGGCAATATATATATGTGTG
*
87546086 TGTAAGACCATAGCTGGGCCATGGCATCATGA-TTAAAAGACCATAACAGGGTTATGGCACTATG
1 TGTAAGACCATAGCTGGGCCATGGCAT-ATGAGTGAAAAGACCATAACAGGGTTATGGCACTATG
*** *
87546150 AGTGTAAGACCATGGCAGGGCCATGGCAATATAT
65 AACATAAGACCATGGCAGGACCATGGCAATATAT
87546184 GTGTAAGACC
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
107 79 0.98
108 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (107 bp):
TGTAAGACCATAGCTGGGCCATGGCATATGAGTGAAAAGACCATAACAGGGTTATGGCACTATGA
ACATAAGACCATGGCAGGACCATGGCAATATATATATGTGTG
Found at i:87546159 original size:33 final size:33
Alignment explanation
Indices: 87546084--87546196 Score: 97
Period size: 33 Copynumber: 3.4 Consensus size: 33
87546074 TATATATGTG
* *
87546084 TGTGTAAGACCATAGCTGGGCCATGGC-ATCATGA
1 TGTGTAAGACCATAACAGGGCCATGGCAAT-AT-A
** ** *
87546118 T-TAAAAGACCATAACAGGGTTATGGCACTATGA
1 TGTGTAAGACCATAACAGGGCCATGGCAATAT-A
**
87546151 -GTGTAAGACCATGGCAGGGCCATGGCAATATA
1 TGTGTAAGACCATAACAGGGCCATGGCAATATA
87546183 TGTGTAAGACCATA
1 TGTGTAAGACCATA
87546197 GTTGGACTAT
Statistics
Matches: 61, Mismatches: 15, Indels: 7
0.73 0.18 0.08
Matches are distributed among these distances:
32 1 0.02
33 58 0.95
34 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.23
Consensus pattern (33 bp):
TGTGTAAGACCATAACAGGGCCATGGCAATATA
Found at i:87562514 original size:17 final size:17
Alignment explanation
Indices: 87562492--87562544 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
87562482 GTTCGAGGAA
87562492 TTCATCATACAGGAAGT
1 TTCATCATACAGGAAGT
*
87562509 TTCATCATATAGGAA--
1 TTCATCATACAGGAAGT
*
87562524 TTCATCATACAAGAAGT
1 TTCATCATACAGGAAGT
87562541 TTCA
1 TTCA
87562545 CTTCTCTCCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 13 0.42
17 18 0.58
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (17 bp):
TTCATCATACAGGAAGT
Found at i:87562529 original size:15 final size:15
Alignment explanation
Indices: 87562487--87562534 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
87562477 CTGGAGTTCG
87562487 AGGAATTCATCATAC
1 AGGAATTCATCATAC
*
87562502 AGGAAGTTTCATCATAT
1 AGGAA--TTCATCATAC
87562519 AGGAATTCATCATAC
1 AGGAATTCATCATAC
87562534 A
1 A
87562535 AGAAGTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 15 0.52
17 14 0.48
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.29
Consensus pattern (15 bp):
AGGAATTCATCATAC
Found at i:87564232 original size:13 final size:13
Alignment explanation
Indices: 87564214--87564243 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
87564204 CTGGCAATCA
87564214 TGTCACACGGCCG
1 TGTCACACGGCCG
*
87564227 TGTCACACGGGCG
1 TGTCACACGGCCG
87564240 TGTC
1 TGTC
87564244 CCTGCTGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.33, G:0.33, T:0.20
Consensus pattern (13 bp):
TGTCACACGGCCG
Found at i:87566880 original size:17 final size:17
Alignment explanation
Indices: 87566858--87566894 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
87566848 AAGAATCCGA
87566858 GGACAAACATGAAAAGG
1 GGACAAACATGAAAAGG
87566875 GGACAAACATGAAAAGG
1 GGACAAACATGAAAAGG
87566892 GGA
1 GGA
87566895 AATTAACAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.11, G:0.32, T:0.05
Consensus pattern (17 bp):
GGACAAACATGAAAAGG
Found at i:87567204 original size:27 final size:27
Alignment explanation
Indices: 87567166--87567219 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
87567156 TTAAATGTAA
87567166 GACCATAGCTCGGCTATGCCATTTTAG
1 GACCATAGCTCGGCTATGCCATTTTAG
87567193 GACCATAGCTCGGCTATGCCATTTTAG
1 GACCATAGCTCGGCTATGCCATTTTAG
87567220 TGAAAATACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (27 bp):
GACCATAGCTCGGCTATGCCATTTTAG
Found at i:87569961 original size:12 final size:12
Alignment explanation
Indices: 87569944--87569971 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
87569934 TAACCCAAAA
87569944 TAACCCATATAG
1 TAACCCATATAG
87569956 TAACCCATATAG
1 TAACCCATATAG
87569968 TAAC
1 TAAC
87569972 AATAACTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.25
Consensus pattern (12 bp):
TAACCCATATAG
Found at i:87569997 original size:58 final size:58
Alignment explanation
Indices: 87569878--87570002 Score: 180
Period size: 57 Copynumber: 2.2 Consensus size: 58
87569868 ATAACTCTAG
* * *
87569878 ACCCCAAAATAACCCATATAGTAACACTTATAATGCCACAACTCTAGACCCCAAAATA
1 ACCCCAAAATAACCCATATAGTAACACATATAATACAACAACTCTAGACCCCAAAATA
* * *
87569936 A-CCCAAAATAACCCATATAGTAACCCATATAGTAACAATAACTCTAGACCCCAAAATA
1 ACCCCAAAATAACCCATATAGTAACACATATAAT-ACAACAACTCTAGACCCCAAAATA
87569994 ACCCCAAAA
1 ACCCCAAAA
87570003 CATCCCAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
57 29 0.49
58 23 0.39
59 7 0.12
ACGTcount: A:0.47, C:0.30, G:0.05, T:0.18
Consensus pattern (58 bp):
ACCCCAAAATAACCCATATAGTAACACATATAATACAACAACTCTAGACCCCAAAATA
Found at i:87577698 original size:24 final size:24
Alignment explanation
Indices: 87577660--87577715 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
87577650 TAATTAAATA
87577660 AATATTATTTCATTAATATTTTAAT
1 AATA-TATTTCATTAATATTTTAAT
* * *
87577685 AATATATTTTATTATTATTTTATT
1 AATATATTTCATTAATATTTTAAT
*
87577709 AGTATAT
1 AATATAT
87577716 AAAGAAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
AATATATTTCATTAATATTTTAAT
Found at i:87577703 original size:11 final size:11
Alignment explanation
Indices: 87577662--87577709 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
87577652 ATTAAATAAA
*
87577662 TATTATTTCAT
1 TATTATTTTAT
*
87577673 TAATATTTTAAT
1 TATTATTTT-AT
*
87577685 AATATATTTTAT
1 TAT-TATTTTAT
87577697 TATTATTTTAT
1 TATTATTTTAT
87577708 TA
1 TA
87577710 GTATATAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 17 0.57
12 7 0.23
13 6 0.20
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:87579905 original size:46 final size:46
Alignment explanation
Indices: 87579838--87580065 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
87579828 AGTGTGCTCT
*
87579838 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
87579884 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
87579930 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
87579976 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
87580022 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
87580066 TCATGTCAAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 169 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:87582006 original size:22 final size:22
Alignment explanation
Indices: 87581981--87582023 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
87581971 GTGATAATTA
87581981 TACCATTTAAAGAGTTAGTGGT
1 TACCATTTAAAGAGTTAGTGGT
87582003 TACCATTTAAAGAGTTAGTGG
1 TACCATTTAAAGAGTTAGTGG
87582024 ACAAATATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (22 bp):
TACCATTTAAAGAGTTAGTGGT
Found at i:87587764 original size:7 final size:7
Alignment explanation
Indices: 87587718--87587763 Score: 74
Period size: 7 Copynumber: 6.6 Consensus size: 7
87587708 AGGATTGAGG
87587718 ATTGGAA
1 ATTGGAA
87587725 ATTGGAA
1 ATTGGAA
87587732 ATTGGAA
1 ATTGGAA
87587739 ATTGGAA
1 ATTGGAA
*
87587746 ATTGAAA
1 ATTGGAA
*
87587753 ATTGAAA
1 ATTGGAA
87587760 ATTG
1 ATTG
87587764 AGGATCGAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (7 bp):
ATTGGAA
Found at i:87591595 original size:25 final size:26
Alignment explanation
Indices: 87591534--87591595 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 26
87591524 AATGTCAATT
87591534 TTCAAAAATAACAAA-AAAAATATTTA
1 TTCAAAAAT-ACAAACAAAAATATTTA
*
87591560 AT--AAAA-A-AAACAAAAAT-TTTA
1 TTCAAAAATACAAACAAAAATATTTA
87591581 TTCAAAAATACAAAC
1 TTCAAAAATACAAAC
87591596 TAAGCAAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 11
0.69 0.05 0.26
Matches are distributed among these distances:
21 8 0.28
22 7 0.24
23 4 0.14
24 5 0.17
25 4 0.14
26 1 0.03
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (26 bp):
TTCAAAAATACAAACAAAAATATTTA
Found at i:87593302 original size:7 final size:7
Alignment explanation
Indices: 87593292--87593348 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
87593282 ATAATTCATA
*
87593292 AACCATT
1 AACCCTT
87593299 AACCCTT
1 AACCCTT
87593306 AACCCTT
1 AACCCTT
87593313 AAACTCC-T
1 -AAC-CCTT
*
87593321 AACCCCT
1 AACCCTT
*
87593328 AAACCTT
1 AACCCTT
87593335 AACCCTT
1 AACCCTT
87593342 AAACCCT
1 -AACCCT
87593349 AATATCGCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
6 2 0.05
7 28 0.67
8 10 0.24
9 2 0.05
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (7 bp):
AACCCTT
Found at i:87593325 original size:15 final size:14
Alignment explanation
Indices: 87593299--87593350 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
87593289 ATAAACCATT
87593299 AACCCTTAACCCTTA
1 AACCC-TAACCCTTA
*
87593314 AACTCCTAACCCCTA
1 AAC-CCTAACCCTTA
*
87593329 AACCTTAACCCTTA
1 AACCCTAACCCTTA
87593343 AACCCTAA
1 AACCCTAA
87593351 TATCGCTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 16 0.50
15 14 0.44
16 2 0.06
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCTAACCCTTA
Found at i:87593610 original size:14 final size:13
Alignment explanation
Indices: 87593560--87593606 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
87593550 ATAAACCTCA
87593560 AACCCTAAATCAT
1 AACCCTAAATCAT
* *
87593573 AAAACATAAATCAT
1 -AACCCTAAATCAT
87593587 CAACCCTAAATCAT
1 -AACCCTAAATCAT
87593601 AACCCT
1 AACCCT
87593607 TAAACCTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 6 0.21
14 22 0.79
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (13 bp):
AACCCTAAATCAT
Found at i:87594576 original size:114 final size:114
Alignment explanation
Indices: 87594435--87594694 Score: 317
Period size: 114 Copynumber: 2.3 Consensus size: 114
87594425 AAAGTGCGAG
* * * * *
87594435 CTATTGCGGCGTTTTTAGGAAAGCGCCGCTAATGTCATTGAAGCTCATATAAAACGACGTCGTTT
1 CTATTACGGCGTTTTTAGGAAAACGCCGCTAATGCCAATGAAGCTCATATAAAACGACGTCGTCT
* * *
87594500 TG-TTTAACATTTTAGCGGC-ATTTTTCCAAAAACGCCACTAAAGTTTGAT
66 TGCTTAAAC-TTTTAGCGGCGATTTTT-CAAAAACGCCACTAAAGCTCGAT
* * * *
87594549 CTGTTACGGCGTTTTTGGGAAAACGCCGCTACTGCCAATGAAGCTCATGTAAAACGACGTCGTCT
1 CTATTACGGCGTTTTTAGGAAAACGCCGCTAATGCCAATGAAGCTCATATAAAACGACGTCGTCT
* *
87594614 TGCTTAAACTTTTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCTCGAT
66 TGCTTAAACTTTTAGCGGCGATTTTTCAAAAACGCCACTAAAGCTCGAT
* * ***
87594663 CTATTGCAGCGTTTTTTTAAAAACGCCGCTAA
1 CTATTACGGCGTTTTTAGGAAAACGCCGCTAA
87594695 AACTCCATCT
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
114 113 0.92
115 10 0.08
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (114 bp):
CTATTACGGCGTTTTTAGGAAAACGCCGCTAATGCCAATGAAGCTCATATAAAACGACGTCGTCT
TGCTTAAACTTTTAGCGGCGATTTTTCAAAAACGCCACTAAAGCTCGAT
Found at i:87594749 original size:12 final size:12
Alignment explanation
Indices: 87594732--87594758 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
87594722 ATTTTCTTTT
87594732 AAAACGCCGCTA
1 AAAACGCCGCTA
87594744 AAAACGCCGCTA
1 AAAACGCCGCTA
87594756 AAA
1 AAA
87594759 GTCTGTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:87598526 original size:17 final size:17
Alignment explanation
Indices: 87598504--87598537 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
87598494 AGCCGTAATG
87598504 TATCTTCTGTATTTAAA
1 TATCTTCTGTATTTAAA
87598521 TATCTTCTGTATTTAAA
1 TATCTTCTGTATTTAAA
87598538 GCCTCAGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
TATCTTCTGTATTTAAA
Found at i:87598896 original size:11 final size:11
Alignment explanation
Indices: 87598880--87598922 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
87598870 CAGATATTTC
*
87598880 TAAAATAGTAA
1 TAAAATAATAA
*
87598891 TAAAATAATAG
1 TAAAATAATAA
*
87598902 TAAAATGATAA
1 TAAAATAATAA
*
87598913 CAAAATAATA
1 TAAAATAATA
87598923 TCAAAAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:87598938 original size:21 final size:21
Alignment explanation
Indices: 87598892--87598962 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
87598882 AAATAGTAAT
* *
87598892 AAAATAATAGT-AAAATGATAAC
1 AAAATAATA-TCAAAA-AATAAA
*
87598914 AAAATAATATCAAAAAATAAG
1 AAAATAATATCAAAAAATAAA
* * * *
87598935 AAAACAACAGCAAAACATAAA
1 AAAATAATATCAAAAAATAAA
87598956 AAAATAA
1 AAAATAA
87598963 CAATAAGTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
21 27 0.68
22 13 0.32
ACGTcount: A:0.70, C:0.08, G:0.06, T:0.15
Consensus pattern (21 bp):
AAAATAATATCAAAAAATAAA
Found at i:87598964 original size:21 final size:21
Alignment explanation
Indices: 87598909--87598964 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
87598899 TAGTAAAATG
* * *
87598909 ATAACAAAATAATATCAAAAA
1 ATAAAAAAATAACAGCAAAAA
* * *
87598930 ATAAGAAAACAACAGCAAAAC
1 ATAAAAAAATAACAGCAAAAA
87598951 ATAAAAAAATAACA
1 ATAAAAAAATAACA
87598965 ATAAGTTGTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.71, C:0.12, G:0.04, T:0.12
Consensus pattern (21 bp):
ATAAAAAAATAACAGCAAAAA
Found at i:87613976 original size:17 final size:17
Alignment explanation
Indices: 87613919--87613981 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
87613909 TTTTAATAAG
*
87613919 ATTTAATATTAAATTTA
1 ATTTAATATTAAATTAA
* *
87613936 ATCTAATATT-TATTAA
1 ATTTAATATTAAATTAA
* *
87613952 GA-TAAATATTAGATTAA
1 -ATTTAATATTAAATTAA
87613969 ATTTAATATTAAA
1 ATTTAATATTAAA
87613982 GTGATTAAGT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
16 11 0.31
17 24 0.69
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (17 bp):
ATTTAATATTAAATTAA
Found at i:87618275 original size:15 final size:15
Alignment explanation
Indices: 87618255--87618286 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
87618245 CATTTCACTA
*
87618255 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
87618270 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
87618285 TT
1 TT
87618287 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:87623242 original size:4 final size:4
Alignment explanation
Indices: 87623233--87623307 Score: 59
Period size: 4 Copynumber: 19.0 Consensus size: 4
87623223 CATACAAATT
* *
87623233 AGAA AGAA AG-A A-AA AGAA AGAA A-AA GAAAA AGAA AGAA AGGA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA -AGAA AGAA AGAA AGAA AGAA
* *
87623279 GAGAA A-AA GAAAA AGAA AGAA AGGA AGAA
1 -AGAA AGAA -AGAA AGAA AGAA AGAA AGAA
87623308 GGAAGAAATG
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
3 8 0.14
4 42 0.72
5 8 0.14
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:87623250 original size:6 final size:6
Alignment explanation
Indices: 87623239--87623296 Score: 57
Period size: 6 Copynumber: 9.2 Consensus size: 6
87623229 AATTAGAAAG
87623239 AAAGAA AAAG-- AAAGAA AAAGAA AAAGAAA GAAAGGAA GAAGAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -AAA-GAA -AA-AGAA AAAGAA
87623290 AAAGAA A
1 AAAGAA A
87623297 GAAAGGAAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
4 4 0.09
6 25 0.54
7 4 0.09
8 11 0.24
9 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:87623250 original size:10 final size:10
Alignment explanation
Indices: 87623235--87623300 Score: 71
Period size: 10 Copynumber: 6.1 Consensus size: 10
87623225 TACAAATTAG
87623235 AAAGAAAGAA
1 AAAGAAAGAA
87623245 AAAGAAAGAA
1 AAAGAAAGAA
87623255 AAAGAAA-AA
1 AAAGAAAGAA
87623264 GAAAGAAAGGAA
1 -AAAGAAA-GAA
87623276 GAAGAGAAAAAGAA
1 -AA-AG--AAAGAA
87623290 AAAGAAAGAA
1 AAAGAAAGAA
87623300 A
1 A
87623301 GGAAGAAGGA
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
9 2 0.04
10 31 0.62
12 7 0.14
13 4 0.08
14 3 0.06
15 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:87623290 original size:29 final size:29
Alignment explanation
Indices: 87623235--87623308 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
87623225 TACAAATTAG
87623235 AAAGAAAGAAA--AAGAA-AGAAAAAGAA
1 AAAGAAAGAAAGGAAGAAGAGAAAAAGAA
87623261 AAAGAAAGAAAGGAAGAAGAGAAAAAGAA
1 AAAGAAAGAAAGGAAGAAGAGAAAAAGAA
87623290 AAAGAAAGAAAGGAAGAAG
1 AAAGAAAGAAAGGAAGAAG
87623309 GAAGAAATGC
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
26 11 0.24
28 5 0.11
29 29 0.64
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (29 bp):
AAAGAAAGAAAGGAAGAAGAGAAAAAGAA
Found at i:87623683 original size:20 final size:20
Alignment explanation
Indices: 87623647--87623684 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
87623637 GTGCAATTTG
*
87623647 TATGAAAATATAGAATTAAA
1 TATGAAAATATAAAATTAAA
87623667 TATGAAGAATA-AAAATTA
1 TATGAA-AATATAAAATTA
87623685 GTCTCGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (20 bp):
TATGAAAATATAAAATTAAA
Found at i:87627315 original size:44 final size:44
Alignment explanation
Indices: 87627200--87627597 Score: 325
Period size: 44 Copynumber: 9.0 Consensus size: 44
87627190 TTGTGACTTA
* * * * * *
87627200 TAGCTTTAATCTGCCCCACTGTAACTTCAGGGAAATGAGGTTCG
1 TAGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTTG
* * * * ** * *
87627244 TTATCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGGTTTA
1 -TAGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTTG
* * *
87627289 TAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTG
1 TAGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTTG
** * * * * *
87627333 CTTTCTTCAGTCTGCTCTACTGCAAGTTCAGGGAGATAAGACTTG
1 -TAGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTTG
* *
87627378 T-GACTTTAATCTGCTCTACTGTAATTTCAGGGAGATAAGATTCG
1 TAG-CTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTTG
* *
87627422 TAGCTTTAATCTACT-TCACTTTAACTTCAGGGAGATAAGATTTG
1 TAGCTTTAATCTGCTCT-ACTGTAACTTCAGGGAGATAAGATTTG
* * * * * *
87627466 TCA-TTTTCAATCTGCTCTACTGCAACTTCAGAGAGTTGAGATTCG
1 T-AGCTTT-AATCTGCTCTACTGTAACTTCAGGGAGATAAGATTTG
* * * * * * *
87627511 TAACTTCAACCTGCTCTACTATAACTTTAGGGAGATAAGGTTTA
1 TAGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTTG
* * *
87627555 TGGCTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGATTT
1 TAGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTT
87627598 TCTGTGATAA
Statistics
Matches: 280, Mismatches: 65, Indels: 17
0.77 0.18 0.05
Matches are distributed among these distances:
43 1 0.00
44 175 0.62
45 103 0.37
46 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (44 bp):
TAGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTTG
Found at i:87627363 original size:89 final size:88
Alignment explanation
Indices: 87627197--87627788 Score: 388
Period size: 89 Copynumber: 6.5 Consensus size: 88
87627187 GATTTGTGAC
* * * * * *
87627197 TTATAGCTTTAATCTGCCCCACTGTAACTTCAGGGAAATGAGGTTCGTTATCTTCAATCTACTCC
1 TTATAGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTCG-TATCTTCAATCTACTCT
*
87627262 ACTACAACTTCAGGGAGATAAGGT
65 ACTACAACTTCAGGGAGATAAGAT
* * * * * * *
87627286 TTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTTTCTTCAGTCTGCTCT
1 TTATAGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTCG-TATCTTCAATCTACTCT
* * *
87627351 ACTGCAAGTTCAGGGAGATAAGAC
65 ACTACAACTTCAGGGAGATAAGAT
* * * *
87627375 TTGT-GACTTTAATCTGCTCTACTGTAATTTCAGGGAGATAAGATTCGTAGCTTTAATCTACT-T
1 TTATAG-CTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTCGTATCTTCAATCTACTCT
**
87627438 CACTTTAACTTCAGGGAGATAAGAT
65 -ACTACAACTTCAGGGAGATAAGAT
* * * * * * * * *
87627463 TTGTCA-TTTTCAATCTGCTCTACTGCAACTTCAGAGAGTTGAGATTCGTAACTTCAACCTGCTC
1 TTAT-AGCTTT-AATCTGCTCTACTGTAACTTCAGGGAGATAAGATTCGTATCTTCAATCTACTC
* * *
87627527 TACTATAACTTTAGGGAGATAAGGT
64 TACTACAACTTCAGGGAGATAAGAT
* * * * *
87627552 TTATGGCTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGATTTTCTGTGATAATTTCAGT-T
1 TTATAGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGA--TTC-GT-AT--CTTCAATCT
* * *
87627616 -CGTCTTATTGCAACTTTAGGG-GTATAAGATT
60 AC-TC-TACTACAACTTCAGGGAG-ATAAGA-T
* * * ** * *
87627647 TGTAACTTGTAGCTTAAATCTGTTCCACTACAACTTCAGGGAAATAAGATCCGCTATCTTCAA-C
1 T-T-A----TAGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTCG-TATCTTCAATC
* * * * *
87627711 TTGCTCCACTGCAGCTTCAGGGAGATAAGGT
59 -TACTCTACTACAACTTCAGGGAGATAAGAT
* * * *
87627742 TAATGGCTTTAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTCG
1 TTATAGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTCG
87627789 CCGTGGTAGA
Statistics
Matches: 388, Mismatches: 87, Indels: 56
0.73 0.16 0.11
Matches are distributed among these distances:
87 1 0.00
88 65 0.17
89 216 0.56
90 4 0.01
91 2 0.01
92 2 0.01
93 5 0.01
94 22 0.06
95 4 0.01
96 22 0.06
97 5 0.01
98 4 0.01
99 3 0.01
101 33 0.09
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (88 bp):
TTATAGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTCGTATCTTCAATCTACTCTA
CTACAACTTCAGGGAGATAAGAT
Found at i:87627415 original size:133 final size:134
Alignment explanation
Indices: 87627207--87627597 Score: 434
Period size: 133 Copynumber: 2.9 Consensus size: 134
87627197 TTATAGCTTT
* * * * * * * * * * * *
87627207 AATCTGCCCCACTGTAACTTCAGGGAAATGAGGTTCGTTATCTTCAATCTACTCCACTACAAC-T
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCG-TAACTTCAACCTGCTCTACTATAACTT
* * *
87627271 TCAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTG-CT
65 TCAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGTAACTTCAGGGAGATAAGATTTGTCA
87627335 TTCTTC
130 TT-TTC
* * * * * * *
87627341 AGTCTGCTCTACTGCAAGTTCAGGGAGATAAGACTT-GTGACTTTAATCTGCTCTACTGTAA-TT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCGTAACTTCAACCTGCTCTACTATAACTT
* ** *
87627404 TCAGGGAGATAAGATTCGTAGCTTTAATCTACT-TCACTTTAACTTCAGGGAGATAAGATTTGTC
65 TCAGGGAGATAAGGTTTATAGCTTTAATCTACTCT-ACTGTAACTTCAGGGAGATAAGATTTGTC
87627468 ATTTTC
129 ATTTTC
* *
87627474 AATCTGCTCTACTGCAACTTCAGAGAGTTGAGATTCGTAACTTCAACCTGCTCTACTATAACTTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGTAACTTCAACCTGCTCTACTATAACTTT
* *
87627539 -AGGGAGATAAGGTTTATGGCTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGATTT
66 CAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGTAACTTCAGGGAGATAAGATTT
87627598 TCTGTGATAA
Statistics
Matches: 213, Mismatches: 37, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
132 3 0.01
133 176 0.83
134 32 0.15
135 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (134 bp):
AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGTAACTTCAACCTGCTCTACTATAACTTT
CAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGTAACTTCAGGGAGATAAGATTTGTCAT
TTTC
Found at i:87637510 original size:46 final size:46
Alignment explanation
Indices: 87637384--87637596 Score: 149
Period size: 46 Copynumber: 4.6 Consensus size: 46
87637374 ACATCGACGC
* **
87637384 CATGTCCCAGACATGGTCTTACACT-GAC-ACATCTTGTA-GCCGATG-
1 CATGTCCCAGACAT-GTCTTACACTAG-CTACGTC-TCAAGGCCGATGA
* * * *
87637429 CATGTCCCGGACATGTCTTATACTAGCTTACGTCTCGAGGCCTAT-A
1 CATGTCCCAGACATGTCTTACACTAGC-TACGTCTCAAGGCCGATGA
* *
87637475 CATGTCCCAGACATGTCTTACACTAGC-ACCTGTCTCAATGCCGATGC
1 CATGTCCCAGACATGTCTTACACTAGCTA-C-GTCTCAAGGCCGATGA
*
87637522 CATGTCCCAGACATGGTCTTACACTGGCT-C-TCAT-AATGTGACCGATG-
1 CATGTCCCAGACAT-GTCTTACACTAGCTACGTC-TCAA-G-G-CCGATGA
* *
87637569 CATGTCTCAAACATGTCTTACACTAGCT
1 CATGTCCCAGACATGTCTTACACTAGCT
87637597 CACAATAACC
Statistics
Matches: 137, Mismatches: 17, Indels: 27
0.76 0.09 0.15
Matches are distributed among these distances:
44 11 0.08
45 21 0.15
46 59 0.43
47 28 0.20
48 18 0.13
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTACGTCTCAAGGCCGATGA
Found at i:87640346 original size:28 final size:28
Alignment explanation
Indices: 87640303--87640362 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
87640293 AAACAAATTT
87640303 CTTTACATAAAATGGATTACATATATAG
1 CTTTACATAAAATGGATTACATATATAG
*
87640331 CTTTACATAAAGTGGATTACATATATAG
1 CTTTACATAAAATGGATTACATATATAG
87640359 CTTT
1 CTTT
87640363 GCCCTATAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (28 bp):
CTTTACATAAAATGGATTACATATATAG
Found at i:87643320 original size:12 final size:12
Alignment explanation
Indices: 87643303--87643346 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
87643293 ACTAACATAG
87643303 AATAATGACAAT
1 AATAATGACAAT
*
87643315 AATAATAACAAT
1 AATAATGACAAT
*
87643327 AATAAT-AGTAAT
1 AATAATGA-CAAT
87643339 AATAATGA
1 AATAATGA
87643347 AATCTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 1 0.04
12 26 0.93
13 1 0.04
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (12 bp):
AATAATGACAAT
Found at i:87660981 original size:37 final size:37
Alignment explanation
Indices: 87660931--87661010 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
87660921 CTTATTACGA
* *
87660931 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
87660968 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
87661005 GGTCTT
1 AGTCTT
87661011 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:87661200 original size:47 final size:47
Alignment explanation
Indices: 87661141--87661565 Score: 647
Period size: 47 Copynumber: 9.1 Consensus size: 47
87661131 TATCACATTT
* * * *
87661141 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
87661186 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
87661233 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
87661280 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
** *
87661327 ATTTACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
87661374 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
87661421 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
87661468 ATACACCTATTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
87661515 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTA-TCACAC
87661563 ATA
1 ATA
87661566 TACACTTTCA
Statistics
Matches: 349, Mismatches: 28, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
45 6 0.02
46 1 0.00
47 333 0.95
48 9 0.03
ACGTcount: A:0.26, C:0.32, G:0.10, T:0.32
Consensus pattern (47 bp):
ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:87661302 original size:25 final size:25
Alignment explanation
Indices: 87661273--87661350 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
87661263 ATTCGGCCTT
87661273 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
* *** *
87661298 ATCACA-TTGGCCA--TTCGGCTTT-
1 ATCACACATATACATGTTC-ACTTTC
*
87661320 ATCACACATTTACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
87661345 ATCACA
1 ATCACA
87661351 TTGGCCATTC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 9 0.24
23 7 0.18
24 7 0.18
25 15 0.39
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (25 bp):
ATCACACATATACATGTTCACTTTC
Found at i:87661466 original size:22 final size:22
Alignment explanation
Indices: 87661439--87661513 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
87661429 GTTCACTTTC
87661439 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
87661461 ATCACACATACACCTATTC-ACATT
1 AT--CACATTGGCC-ATTCGGCCTT
87661485 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
87661508 ATCACA
1 ATCACA
87661514 CATATACATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 12 0.32
23 10 0.26
24 10 0.26
25 6 0.16
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:87665528 original size:40 final size:40
Alignment explanation
Indices: 87665471--87666081 Score: 1003
Period size: 40 Copynumber: 15.6 Consensus size: 40
87665461 CCAGCATGAT
* * *
87665471 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
87665511 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
87665551 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
87665591 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
87665631 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
87665671 TGCTCTTCGGGACTTAGCCCGGAT--AT-A-T----C--A
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
87665701 --CTATTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
87665739 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
87665779 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
87665819 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
87665859 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGTACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
87665899 TGCACTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
87665939 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
87665979 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
87666019 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
87666059 TGCTCTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
87666082 CATCATTCGA
Statistics
Matches: 537, Mismatches: 22, Indels: 24
0.92 0.04 0.04
Matches are distributed among these distances:
28 21 0.04
30 3 0.01
31 1 0.00
32 2 0.00
36 2 0.00
37 1 0.00
38 3 0.01
40 504 0.94
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:87665716 original size:28 final size:28
Alignment explanation
Indices: 87665676--87665731 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
87665666 ACGAATGCTC
*
87665676 TTCGGGACTTAGCCCGGATATATCACTA
1 TTCGGGACTTAGCCCGGATACATCACTA
87665704 TTCGGGACTTAGCCCGGATACATCACTA
1 TTCGGGACTTAGCCCGGATACATCACTA
87665732 GCACGAATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (28 bp):
TTCGGGACTTAGCCCGGATACATCACTA
Found at i:87667957 original size:36 final size:37
Alignment explanation
Indices: 87667879--87667957 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 37
87667869 CTTATTACGA
* *
87667879 AGTCTTACCCGGACATAATCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATCTCCACACGAAGTCATCG
*
87667916 AGTCTTACCC-GACAAAAT-TCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATCT-CCACACGAAGTCATCG
*
87667952 GGTCTT
1 AGTCTT
87667958 TAGAGCCCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 1 0.03
36 26 0.70
37 10 0.27
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATCTCCACACGAAGTCATCG
Found at i:87668204 original size:47 final size:47
Alignment explanation
Indices: 87668076--87668523 Score: 645
Period size: 47 Copynumber: 9.6 Consensus size: 47
87668066 CCCTTCGGGA
** * *
87668076 CTTATCACATTTATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* * *
87668123 CTTATCTCAC--ATAC-TGCTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
87668167 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
87668214 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
87668261 TTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGT
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
87668308 CTTATCACACATACACACGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
87668355 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
87668402 CTTATCACACATACACCTATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
87668449 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
87668496 CCTATTCACACATATACACT-TTCACATT
1 CTTA-TCACACATATACA-TGTTCACATT
87668524 TATTCAATTA
Statistics
Matches: 365, Mismatches: 30, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
43 1 0.00
44 33 0.09
45 4 0.01
46 3 0.01
47 303 0.83
48 20 0.05
49 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:87668246 original size:25 final size:25
Alignment explanation
Indices: 87668217--87668294 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
87668207 ATTCGGCCTT
87668217 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
* *** *
87668242 ATCACA-TTGGCCA--TTCGGCTTT-
1 ATCACACATATACATGTTC-ACTTTC
87668264 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
87668289 ATCACA
1 ATCACA
87668295 TTGGCCATTC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 9 0.24
23 7 0.18
24 7 0.18
25 15 0.39
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.35
Consensus pattern (25 bp):
ATCACACATATACATGTTCACTTTC
Found at i:87668410 original size:22 final size:22
Alignment explanation
Indices: 87668383--87668457 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
87668373 GTTCACTTTC
87668383 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
87668405 ATCACACATACACCTATTC-ACATT
1 AT--CACATTGGCC-ATTCGGCCTT
87668429 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
87668452 ATCACA
1 ATCACA
87668458 CATATACATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 12 0.32
23 10 0.26
24 10 0.26
25 6 0.16
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:87675276 original size:28 final size:28
Alignment explanation
Indices: 87675213--87675338 Score: 227
Period size: 28 Copynumber: 4.5 Consensus size: 28
87675203 ATATTAAGTC
*
87675213 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
87675240 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
87675268 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
87675296 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
87675324 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87675339 GTACAATTTA
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.23
28 73 0.77
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:87675361 original size:29 final size:28
Alignment explanation
Indices: 87675212--87675363 Score: 171
Period size: 28 Copynumber: 5.4 Consensus size: 28
87675202 TATATTAAGT
* *
87675212 CCGCACACTCAGTGCTATATAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
87675239 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
87675267 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
87675295 TCACACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
87675323 TCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTATACAA-TCAAAC
*
87675352 CCGTACACTTAG
1 CCGCACACTTAG
87675364 CGCCAATCTC
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.68
29 15 0.13
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:87676543 original size:22 final size:22
Alignment explanation
Indices: 87676464--87676545 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 22
87676454 GAGTCATGAT
87676464 CAGTAAGCTCCTATTGAGCTGATGAA
1 CAGTAAGCT-CTATTGAGC---TGAA
* * *
87676490 CAGTAAACTCTAATGAGCTAAAA
1 CAGTAAGCTCTATTGAGCT-GAA
*
87676513 CGGTAAGCTCTATTGAGCTGAA
1 CAGTAAGCTCTATTGAGCTGAA
87676535 CAGTAAGCTCT
1 CAGTAAGCTCT
87676546 TACGAGCTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
22 13 0.28
23 18 0.38
25 8 0.17
26 8 0.17
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (22 bp):
CAGTAAGCTCTATTGAGCTGAA
Found at i:87676552 original size:22 final size:22
Alignment explanation
Indices: 87676486--87676555 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
87676476 ATTGAGCTGA
* *
87676486 TGAACAGTAAACTCTAATGAGC
1 TGAACAGTAAGCTCTTATGAGC
* *
87676508 TAAAACGGTAAGCTC-TATTGAGC
1 T-GAACAGTAAGCTCTTA-TGAGC
*
87676531 TGAACAGTAAGCTCTTACGAGC
1 TGAACAGTAAGCTCTTATGAGC
87676553 TGA
1 TGA
87676556 TATATCGTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
22 20 0.53
23 18 0.47
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (22 bp):
TGAACAGTAAGCTCTTATGAGC
Found at i:87679233 original size:19 final size:18
Alignment explanation
Indices: 87679209--87679254 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
87679199 GGTCTCTAAA
87679209 AAAAATTTAAAATATTTAT
1 AAAAATTTAAAA-ATTTAT
**
87679228 AAAAATTCCAAAATTTAT
1 AAAAATTTAAAAATTTAT
87679246 ATAAAATTT
1 A-AAAATTT
87679255 TGAAGAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAATTTAAAAATTTAT
Found at i:87685667 original size:17 final size:18
Alignment explanation
Indices: 87685645--87685686 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
87685635 ATATAATATC
87685645 TATATTTGAT-AAAAATA
1 TATATTTGATGAAAAATA
* *
87685662 TATATTAGATGAAAATTA
1 TATATTTGATGAAAAATA
87685680 TATATTT
1 TATATTT
87685687 TGACAAATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (18 bp):
TATATTTGATGAAAAATA
Found at i:87693585 original size:40 final size:40
Alignment explanation
Indices: 87693533--87693805 Score: 386
Period size: 40 Copynumber: 6.8 Consensus size: 40
87693523 ATTACCACAA
* * ** *
87693533 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
87693573 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
87693613 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
*
87693655 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
87693695 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
87693735 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
87693775 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
87693806 AAATTCAAAT
Statistics
Matches: 213, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.00
40 171 0.80
41 4 0.02
42 37 0.17
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:87693750 original size:122 final size:120
Alignment explanation
Indices: 87693532--87693805 Score: 413
Period size: 122 Copynumber: 2.3 Consensus size: 120
87693522 TATTACCACA
* ** * *
87693532 AGCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGC
* * *
87693597 CCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACT
66 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA-AAATC-ACT
* * * *
87693654 CGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGC
87693719 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
66 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
*
87693774 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATA
87693806 AAATTCAAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
120 31 0.23
121 4 0.03
122 101 0.74
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGC
CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
Found at i:87698884 original size:21 final size:21
Alignment explanation
Indices: 87698859--87698898 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
87698849 CATAAAATGC
*
87698859 AAAAGT-CCTAAATTGATAGCT
1 AAAAGTGCC-AAATAGATAGCT
87698880 AAAAGTGCCAAATAGATAG
1 AAAAGTGCCAAATAGATAG
87698899 AGGACCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.23
Consensus pattern (21 bp):
AAAAGTGCCAAATAGATAGCT
Found at i:87699964 original size:47 final size:45
Alignment explanation
Indices: 87699895--87700105 Score: 147
Period size: 46 Copynumber: 4.5 Consensus size: 45
87699885 TGTGTGAGCT
* *
87699895 AGTGTAAGACATTTCTGGGACATGCATCGGCCA-GATTACGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CATGA-GACGAGAACC
* ** *
87699941 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-TGAGACGAGAACC
* * * * *
87699989 AGTGTAAGACATGTATGGGACATGCATCAGCCTTGGGACGCA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCATGAGACG-AGAACC
* * * * * *
87700035 AGTGTAAGACATGTTTGGGACATGCGTCGGTTACGAGATGATAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CATGAGACGAGAACC
* * *
87700081 AGTGTAAAACCATGTTTGGGGCATG
1 AGTGTAAGA-CATGTCTGGGACATG
87700106 GCTTCGACTT
Statistics
Matches: 132, Mismatches: 24, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
45 2 0.02
46 62 0.47
47 45 0.34
48 21 0.16
49 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATGAGACGAGAACC
Found at i:87700048 original size:46 final size:46
Alignment explanation
Indices: 87699890--87700059 Score: 148
Period size: 46 Copynumber: 3.7 Consensus size: 46
87699880 TCATTTGTGT
* * * * *
87699890 GAGCTAGTGTAAGACATTTCTGGGACATGCATCGGCCA--GATTACGA
1 GAGCCAGTGTAAGACATGTATGGGACATGCATCAG-CATTGA-GACGA
* * **
87699936 GAACCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTATGGGACAT-GCATCAGCATTGAGACGA
* * * *
87699984 GTGCTAGTGTAAGACATGTATGGGACATGCATCAGCCTTGGGACGCA
1 GAGCCAGTGTAAGACATGTATGGGACATGCATCAGCATTGAGACG-A
*
87700031 -AGCCAGTGTAAGACATGTTTGGGACATGC
1 GAGCCAGTGTAAGACATGTATGGGACATGC
87700060 GTCGGTTACG
Statistics
Matches: 103, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
46 51 0.50
47 29 0.28
48 21 0.20
49 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTATGGGACATGCATCAGCATTGAGACGA
Found at i:87705363 original size:39 final size:40
Alignment explanation
Indices: 87705155--87705383 Score: 291
Period size: 40 Copynumber: 5.8 Consensus size: 40
87705145 ATATAACTAG
* * * *
87705155 TCGCTCAAATGCCTTCAGGACATAGCCCGG-TTAGAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAAC
* *
87705195 TCGAACAATTGCCTTCGGGACTTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAC
*
87705235 TCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAT
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAC
* *
87705275 TCGCACAAATACCTTCGGGACTTAGCCCGGGTTTAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAC
* * *
87705315 TCGCACAGATGCCTTCGAGACTTAGCCCGGA-TTAGTCAC
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAC
* ** *
87705354 TAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 TCGCACAAATGCCTTCGGGACTTAGCCCGG
87705384 TTTTCATCCA
Statistics
Matches: 167, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 33 0.20
40 132 0.79
41 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAC
Found at i:87709366 original size:19 final size:20
Alignment explanation
Indices: 87709331--87709373 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
87709321 ATTTAAACAT
87709331 TCAATTCACATAAAATT-AA
1 TCAATTCACATAAAATTCAA
*
87709350 TCAATTCATA-AACAATTCAA
1 TCAATTCACATAA-AATTCAA
87709370 TCAA
1 TCAA
87709374 AATTAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 13 0.62
20 6 0.29
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (20 bp):
TCAATTCACATAAAATTCAA
Found at i:87712104 original size:12 final size:12
Alignment explanation
Indices: 87712075--87712104 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
87712065 ATAATGCTCA
87712075 AAATATTAAAAT
1 AAATATTAAAAT
87712087 -AATATTAAAAT
1 AAATATTAAAAT
87712098 AAATATT
1 AAATATT
87712105 TTGACTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATATTAAAAT
Found at i:87721834 original size:17 final size:17
Alignment explanation
Indices: 87721812--87721878 Score: 134
Period size: 17 Copynumber: 3.9 Consensus size: 17
87721802 ACATCCGGAT
87721812 CACACGCCCGTGTGTCG
1 CACACGCCCGTGTGTCG
87721829 CACACGCCCGTGTGTCG
1 CACACGCCCGTGTGTCG
87721846 CACACGCCCGTGTGTCG
1 CACACGCCCGTGTGTCG
87721863 CACACGCCCGTGTGTC
1 CACACGCCCGTGTGTC
87721879 TACCCGTGTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 50 1.00
ACGTcount: A:0.12, C:0.42, G:0.28, T:0.18
Consensus pattern (17 bp):
CACACGCCCGTGTGTCG
Found at i:87723593 original size:30 final size:30
Alignment explanation
Indices: 87723537--87723593 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
87723527 TTTAAACATT
* *
87723537 CAATTCACATAAAATTAATCAGTTCATAAA
1 CAATTCACATAAAATTAAACAATTCATAAA
*
87723567 CAATTCA-ATCAAATTTAAACAATTCAT
1 CAATTCACAT-AAAATTAAACAATTCAT
87723594 CCCTAATACG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.32
Consensus pattern (30 bp):
CAATTCACATAAAATTAAACAATTCATAAA
Found at i:87729844 original size:290 final size:290
Alignment explanation
Indices: 87729228--87730612 Score: 2263
Period size: 290 Copynumber: 4.8 Consensus size: 290
87729218 AAATTCTTTC
* * * *
87729228 TTTGATAGAGTAACAATCTCTCAAAGTTGTGTTTTTTACCCTTCCGGTGCCATCTATTTATAAGA
1 TTTGACAGAGTAACAATCTCTCAAAGTTGTGTTTTATGCCCTTCCGATGCCATCTATTTATAAGA
* **
87729293 AGAGAAGGTAGAACACTTGTTGAGTTGTAGTGGTTTATTTCAAATGGAAAAA-TGACTTCCTACT
66 AGAGAAGGTAGAACCCTTGTTGAGTTGTAGTGGTTTATTTCAAAT-GAAAAACCAACTTCCTACT
* *
87729357 TAGAGTAGGAGTAGGGTTAATAGCACACCCTAGTATTTCTACTA-GGTTTTCACCCACTTCATGT
130 TAGAGTAGGAGTAGGGTTAATAGCACACCCTAGTATTTCTACTAGGGTTGTCACCCATTTCATGT
* *
87729421 TATATGAGGGGATTTGGGCCTTTCTTACATCGGGTCCAATAGAATTGTTATTTTGGGAAATTATA
195 TATATGAGGGGATTTGGGCTTTTCTTACATCGGGTCCAATAGAATTGTTATTCTGGGAAATTATA
*
87729486 TTTAATATTTAAGAACAAATTCTCTCTATTT
260 TTTAATATTTAAGAATAAATTCTCTCTATTT
*
87729517 TTTGACAGAGTAAAAATCTCAT-AAAGTTGTGTTTTATGCCCTTCCGATGCCATCTATTTATAAG
1 TTTGACAGAGTAACAATCTC-TCAAAGTTGTGTTTTATGCCCTTCCGATGCCATCTATTTATAAG
* * *
87729581 AAGGGAAGGTAGAACCCTTGTTGAGTTGTAGTGGTTTATTTCAAATGAAAAACCACCTTCCTACC
65 AAGAGAAGGTAGAACCCTTGTTGAGTTGTAGTGGTTTATTTCAAATGAAAAACCAACTTCCTACT
* * * *
87729646 TAGAGTAGGAGTAAGGTTAATAGCGCACCCTAGTATTTCTACTATGGTTGTCACCCATTTCATAT
130 TAGAGTAGGAGTAGGGTTAATAGCACACCCTAGTATTTCTACTAGGGTTGTCACCCATTTCATGT
*
87729711 TATATGAGGGGATTTGGGCTTTTTTTACATCGGGTCCAATAGAATTGTTATTCTGGGAAATTATA
195 TATATGAGGGGATTTGGGCTTTTCTTACATCGGGTCCAATAGAATTGTTATTCTGGGAAATTATA
87729776 TTTAATATTTAAGAATAAATTCTCTCTATTT
260 TTTAATATTTAAGAATAAATTCTCTCTATTT
* * *
87729807 TTTGACAAAGTAACAATCTCTCAAAGTTGTGTTTTATGCCCTTCTGATGCCAACTATTTATAAGA
1 TTTGACAGAGTAACAATCTCTCAAAGTTGTGTTTTATGCCCTTCCGATGCCATCTATTTATAAGA
* * *
87729872 AAAGAAGGTAGAACCCTTGTTGAGTTGTAGTGGTTTATTTCAAGTGAAAAACCAACTTCTTACTT
66 AGAGAAGGTAGAACCCTTGTTGAGTTGTAGTGGTTTATTTCAAATGAAAAACCAACTTCCTACTT
* *
87729937 AGAGTAGGAGTAGGGTTAATAGCACACCCTAGTATTTCTACTATGGTTGTCACCCATTTGATGTT
131 AGAGTAGGAGTAGGGTTAATAGCACACCCTAGTATTTCTACTAGGGTTGTCACCCATTTCATGTT
*
87730002 ATATGAGGGGATTTGGGCTTTTCTTACATCAGGTCCAATAGAATTGTTATTCTGGGAAATTATAT
196 ATATGAGGGGATTTGGGCTTTTCTTACATCGGGTCCAATAGAATTGTTATTCTGGGAAATTATAT
87730067 TTAATATTTAAGAATAAATTCTCTCTATTT
261 TTAATATTTAAGAATAAATTCTCTCTATTT
87730097 TTTGACAGAGTAACAATCTCTCAAAGTTGTGTTTTATGCCCTTCCGATGCCATCTATTTATAAGA
1 TTTGACAGAGTAACAATCTCTCAAAGTTGTGTTTTATGCCCTTCCGATGCCATCTATTTATAAGA
* *
87730162 AAAGAAGTTAGAACCCTTGTTGAGTTGTAGTGGTTTATTTCAAATGAAAAACCAACTTCCTACTT
66 AGAGAAGGTAGAACCCTTGTTGAGTTGTAGTGGTTTATTTCAAATGAAAAACCAACTTCCTACTT
87730227 AGAGTAGGAGTAGGGTTAATAGCACACCCTAGTATTTCTACTAGGGTTGTCACCCATTTCATGTT
131 AGAGTAGGAGTAGGGTTAATAGCACACCCTAGTATTTCTACTAGGGTTGTCACCCATTTCATGTT
* *
87730292 ATATGATGGGATTTGGGCCTTTCTTACATCGGGTCCAATAGAATTGTTATTCTGGGAAATTATAT
196 ATATGAGGGGATTTGGGCTTTTCTTACATCGGGTCCAATAGAATTGTTATTCTGGGAAATTATAT
87730357 TTAATATTTAAGAATAAATTCTCTCTATTT
261 TTAATATTTAAGAATAAATTCTCTCTATTT
* * * *
87730387 TTTGACAGAGTAACAATCTCTCAGACTTGTGTTTTA------T--GATGCCTTTTATTTATAAGA
1 TTTGACAGAGTAACAATCTCTCAAAGTTGTGTTTTATGCCCTTCCGATGCCATCTATTTATAAGA
*
87730444 AGAGAAGGTAGAACCCTTGTTGAGTTGTAGTGGTTTATTTCAAATGGAAAAA-CAACTTCCTACC
66 AGAGAAGGTAGAACCCTTGTTGAGTTGTAGTGGTTTATTTCAAAT-GAAAAACCAACTTCCTACT
* * * *
87730508 TAGAGTAAGAGTAGGGTTAATAGCACACCGTAGTATTTCTACTAGGGTTGCCACCCACTTCATGT
130 TAGAGTAGGAGTAGGGTTAATAGCACACCCTAGTATTTCTACTAGGGTTGTCACCCATTTCATGT
*
87730573 TATATGAGGGGATTTGGGCTTTTCTTACATTGGGTCCAAT
195 TATATGAGGGGATTTGGGCTTTTCTTACATCGGGTCCAAT
87730613 TATGAGTATG
Statistics
Matches: 1030, Mismatches: 61, Indels: 17
0.93 0.06 0.02
Matches are distributed among these distances:
282 170 0.17
283 6 0.01
284 1 0.00
288 6 0.01
289 152 0.15
290 695 0.67
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (290 bp):
TTTGACAGAGTAACAATCTCTCAAAGTTGTGTTTTATGCCCTTCCGATGCCATCTATTTATAAGA
AGAGAAGGTAGAACCCTTGTTGAGTTGTAGTGGTTTATTTCAAATGAAAAACCAACTTCCTACTT
AGAGTAGGAGTAGGGTTAATAGCACACCCTAGTATTTCTACTAGGGTTGTCACCCATTTCATGTT
ATATGAGGGGATTTGGGCTTTTCTTACATCGGGTCCAATAGAATTGTTATTCTGGGAAATTATAT
TTAATATTTAAGAATAAATTCTCTCTATTT
Found at i:87734820 original size:27 final size:27
Alignment explanation
Indices: 87734779--87734969 Score: 192
Period size: 27 Copynumber: 7.1 Consensus size: 27
87734769 GTCGTTAAGA
* *
87734779 CCCCAAATCGTAAAATTA-CTAAAATA-
1 CCCCAATTTGTAAAATTATC-AAAATAC
*
87734805 CCCCAGGTTTGTAAAATTATCAAAATAC
1 CCCCA-ATTTGTAAAATTATCAAAATAC
* * *
87734833 CTCTAATTTGTAAAATTATCGAAATAC
1 CCCCAATTTGTAAAATTATCAAAATAC
* *
87734860 CCCCAGTTTGTAAAATTATCGAAATAC
1 CCCCAATTTGTAAAATTATCAAAATAC
* *
87734887 CCCCAATTTGTAAAATTATCGAAATAG
1 CCCCAATTTGTAAAATTATCAAAATAC
*
87734914 CCCTAATTTGTAAAATTA-CTAAAATA-
1 CCCCAATTTGTAAAATTATC-AAAATAC
* * *
87734940 CCCCTATAGTGTAAAATTATCGAAATAC
1 CCCCAAT-TTGTAAAATTATCAAAATAC
87734968 CC
1 CC
87734970 TTGTAGTGTA
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
26 11 0.08
27 122 0.87
28 7 0.05
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
CCCCAATTTGTAAAATTATCAAAATAC
Found at i:87734920 original size:81 final size:81
Alignment explanation
Indices: 87734812--87734969 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
87734802 ATACCCCAGG
* *
87734812 TTTGTAAAATTATCAAAATACCTCTAATTTGTAAAATTA-TCGAAATACCCCCAGT-TTGTAAAA
1 TTTGTAAAATTATCAAAATACCTCTAATTTGTAAAATTACT-AAAATACCCCCA-TAGTGTAAAA
87734875 TTATCGAAATACCCCCAA
64 TTATCGAAATACCCCCAA
* *
87734893 TTTGTAAAATTATCGAAATAGCC-CTAATTTGTAAAATTACTAAAATACCCCTATAGTGTAAAAT
1 TTTGTAAAATTATCAAAATA-CCTCTAATTTGTAAAATTACTAAAATACCCCCATAGTGTAAAAT
87734957 TATCGAAATACCC
65 TATCGAAATACCC
87734970 TTGTAGTGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
80 1 0.01
81 66 0.94
82 3 0.04
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.32
Consensus pattern (81 bp):
TTTGTAAAATTATCAAAATACCTCTAATTTGTAAAATTACTAAAATACCCCCATAGTGTAAAATT
ATCGAAATACCCCCAA
Found at i:87734976 original size:27 final size:27
Alignment explanation
Indices: 87734778--87734997 Score: 186
Period size: 27 Copynumber: 8.2 Consensus size: 27
87734768 GGTCGTTAAG
* *
87734778 ACCCCAA-ATCGTAAAATTA-CTAAAAT
1 ACCCCAATATTGTAAAATTATC-GAAAT
* *
87734804 ACCCCAGGT-TTGTAAAATTATCAAAAT
1 ACCCCA-ATATTGTAAAATTATCGAAAT
*
87734831 ACCTCTAAT-TTGTAAAATTATCGAAAT
1 ACC-CCAATATTGTAAAATTATCGAAAT
*
87734858 ACCCCCAGT-TTGTAAAATTATCGAAAT
1 A-CCCCAATATTGTAAAATTATCGAAAT
87734885 ACCCCCAAT-TTGTAAAATTATCGAAAT
1 A-CCCCAATATTGTAAAATTATCGAAAT
* *
87734912 AGCCCTAAT-TTGTAAAATTA-CTAAAAT
1 A-CCCCAATATTGTAAAATTATC-GAAAT
* *
87734939 ACCCCTATAGTGTAAAATTATCGAAAT
1 ACCCCAATATTGTAAAATTATCGAAAT
*** *
87734966 ACCCTTGTAGTGTAAAATTATCGAAAT
1 ACCCCAATATTGTAAAATTATCGAAAT
*
87734993 TCCCC
1 ACCCC
87734998 TGTAGGGCAA
Statistics
Matches: 167, Mismatches: 19, Indels: 15
0.83 0.09 0.07
Matches are distributed among these distances:
26 12 0.07
27 149 0.89
28 6 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
ACCCCAATATTGTAAAATTATCGAAAT
Found at i:87734980 original size:54 final size:54
Alignment explanation
Indices: 87734800--87734998 Score: 235
Period size: 54 Copynumber: 3.7 Consensus size: 54
87734790 AAAATTACTA
*
87734800 AAATACCCC-AGGTTTGTAAAATTATCAAAATACCTCTAATTTGTAAAATTATCG
1 AAATACCCCTA-GTTTGTAAAATTATCAAAATACCCCTAATTTGTAAAATTATCG
* * *
87734854 AAATACCCCCAGTTTGTAAAATTATCGAAATACCCCCAATTTGTAAAATTATCG
1 AAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAATTTGTAAAATTATCG
* * *
87734908 AAATAGCCCTAATTTGTAAAATTA-CTAAAATACCCCT-ATAGTGTAAAATTATCG
1 AAATACCCCTAGTTTGTAAAATTATC-AAAATACCCCTAAT-TTGTAAAATTATCG
* * * *
87734962 AAATA-CCCTTGTAGTGTAAAATTATCGAAATTCCCCT
1 AAATACCCCTAGT-TTGTAAAATTATCAAAATACCCCT
87734999 GTAGGGCAAA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
53 8 0.06
54 116 0.92
55 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAATTTGTAAAATTATCG
Found at i:87734980 original size:81 final size:81
Alignment explanation
Indices: 87734814--87734992 Score: 222
Period size: 81 Copynumber: 2.2 Consensus size: 81
87734804 ACCCCAGGTT
* * *
87734814 TGTAAAATTATCAAAATACCTCTAATTTGTAAAATTATCGAAATACCCCCAGTTTGTAAAATTAT
1 TGTAAAATTATCGAAATACCTCTAATTTGTAAAATTATCAAAATACCCCCAGTGTGTAAAATTAT
*
87734879 CGAAATACCCCCAATT
66 CGAAATACCCCCAATG
*
87734895 TGTAAAATTATCGAAATAGCC-CTAATTTGTAAAATTA-CTAAAATACCCCTA-TAGTGTAAAAT
1 TGTAAAATTATCGAAATA-CCTCTAATTTGTAAAATTATC-AAAATACCCCCAGT-GTGTAAAAT
***
87734957 TATCGAAATA-CCCTTGTAG
63 TATCGAAATACCCCCAAT-G
87734976 TGTAAAATTATCGAAAT
1 TGTAAAATTATCGAAAT
87734993 TCCCCTGTAG
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
80 6 0.07
81 78 0.91
82 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.32
Consensus pattern (81 bp):
TGTAAAATTATCGAAATACCTCTAATTTGTAAAATTATCAAAATACCCCCAGTGTGTAAAATTAT
CGAAATACCCCCAATG
Found at i:87735009 original size:27 final size:27
Alignment explanation
Indices: 87734935--87735010 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
87734925 AAAATTACTA
* * *
87734935 AAATACCCCTATAGTGTAAAATTATCG
1 AAATACCCCTGTAGGGCAAAATTATCG
* * *
87734962 AAATACCCTTGTAGTGTAAAATTATCG
1 AAATACCCCTGTAGGGCAAAATTATCG
*
87734989 AAATTCCCCTGTAGGGCAAAAT
1 AAATACCCCTGTAGGGCAAAAT
87735011 GACTGTTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.29
Consensus pattern (27 bp):
AAATACCCCTGTAGGGCAAAATTATCG
Found at i:87735010 original size:54 final size:54
Alignment explanation
Indices: 87734898--87735010 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 54
87734888 CCCAATTTGT
* * *
87734898 AAAATTATCGAAATAGCCCTAATTTGTAAAATTACTAAAATACCCCTATAGTGT
1 AAAATTATCGAAATAGCCCTAATGTGTAAAATTACTAAAATACCCCTATAGGGC
** * * *
87734952 AAAATTATCGAAATA-CCCTTGTAGTGTAAAATTA-TCGAAATTCCCCTGTAGGGC
1 AAAATTATCGAAATAGCCCTAAT-GTGTAAAATTACT-AAAATACCCCTATAGGGC
87735006 AAAAT
1 AAAAT
87735011 GACTGTTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
53 6 0.12
54 43 0.88
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (54 bp):
AAAATTATCGAAATAGCCCTAATGTGTAAAATTACTAAAATACCCCTATAGGGC
Found at i:87735467 original size:25 final size:27
Alignment explanation
Indices: 87735421--87735472 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
87735411 TTGATGACTC
* *
87735421 TGTGTCGATCATATTTACCCGTGGCTG
1 TGTGCCGATCATATTTACCCGTCGCTG
*
87735448 TGTGCCGATTATA-TTA-CCGTCGCTG
1 TGTGCCGATCATATTTACCCGTCGCTG
87735473 ATGGCTATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 8 0.36
26 3 0.14
27 11 0.50
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (27 bp):
TGTGCCGATCATATTTACCCGTCGCTG
Found at i:87735722 original size:8 final size:8
Alignment explanation
Indices: 87735709--87735738 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
87735699 CTAGATCGGC
87735709 AAAAGCCG
1 AAAAGCCG
87735717 AAAAGCCG
1 AAAAGCCG
87735725 AAAAGCCG
1 AAAAGCCG
87735733 AAAAGC
1 AAAAGC
87735739 TGGCATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.23, G:0.23, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:87736431 original size:59 final size:60
Alignment explanation
Indices: 87736365--87736503 Score: 167
Period size: 60 Copynumber: 2.3 Consensus size: 60
87736355 CCCAACTGTG
*
87736365 CTGATATGGGCAAGGCCCAATATA-TCT-CAACTTGTATA-GGGCTACGGCCCAGATTGATA
1 CTGATATGGGCAAGGCCCAATATACTCTGCAAC-TGTA-AGGGGCTACGGCCCAGATTAATA
* * ** *
87736424 CTGATATGGGCTAGGCCCAGTATACTCTGTTACTGTAAGGGGCTATGGCCCAGATTAATA
1 CTGATATGGGCAAGGCCCAATATACTCTGCAACTGTAAGGGGCTACGGCCCAGATTAATA
*
87736484 TTGATATGGGCTAAGGCCCA
1 CTGATATGGGC-AAGGCCCA
87736504 GTTAACACTG
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
59 23 0.34
60 36 0.53
61 9 0.13
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (60 bp):
CTGATATGGGCAAGGCCCAATATACTCTGCAACTGTAAGGGGCTACGGCCCAGATTAATA
Found at i:87737198 original size:16 final size:17
Alignment explanation
Indices: 87737164--87737198 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
87737154 TACATCAGGA
87737164 AGGGTTTTCAATGAAAAC
1 AGGGTTTTCAA-GAAAAC
87737182 AGGGTTTTCAA-AAAAC
1 AGGGTTTTCAAGAAAAC
87737198 A
1 A
87737199 CTTCAATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (17 bp):
AGGGTTTTCAAGAAAAC
Found at i:87744075 original size:27 final size:26
Alignment explanation
Indices: 87744036--87744199 Score: 184
Period size: 27 Copynumber: 6.0 Consensus size: 26
87744026 AAGCGTCCTC
*
87744036 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
* * *
87744063 ATGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTCTGCCACAT-TATCTGATCTG
* *
87744090 GTGGCTATGCCACGATTATCTAATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
87744117 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
87744144 GTGGCTCTGCCACAATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTG
* *
87744172 GTGACTCTGTCACATTATCTGTATCTG
1 GTGGCTCTGCCACATTATCTG-ATCTG
87744199 G
1 G
87744200 AAGCCATGCT
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.03
27 94 0.80
28 19 0.16
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:87744122 original size:54 final size:54
Alignment explanation
Indices: 87744036--87744193 Score: 228
Period size: 54 Copynumber: 2.9 Consensus size: 54
87744026 AAGCGTCCTC
* *
87744036 GTGGCTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTA
* *
87744090 GTGGCTATGCCACGATTATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTA
* * * *
87744144 GTGGCTCTGCCACAATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGT
1 GTGGCTATGCCACAATTATCT-AATCTGGTGGCTCTGCCACATATATCTGT
87744194 ATCTGGAAGC
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
54 76 0.81
55 18 0.19
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTA
Found at i:87751080 original size:40 final size:40
Alignment explanation
Indices: 87750977--87751127 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
87750967 GGATATAGCT
* * * *
87750977 ACTCGCTCAAATGCCTTCGGGACATAGCCTGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
87751017 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
87751057 ACTCGCACAAATGCCTTCGGGACTT-GCCCGAAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
87751096 AC-CAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTC-GCACAAATGCCTTCGGGACTTAGCCCGG
87751128 TTATCATCCA
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 30 0.32
40 60 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:87755394 original size:27 final size:26
Alignment explanation
Indices: 87755355--87755501 Score: 186
Period size: 27 Copynumber: 5.4 Consensus size: 26
87755345 GGAAGCGTCT
*
87755355 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGATC
*
87755382 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGATC
*
87755409 TGGTGGCTGTGCCACGATTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGATC
*
87755436 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGATC
*
87755463 TGGTGGCTCTGCCACAATTATCTATATC
1 TGGTGGCTCTGCCAC-ATTATCT-GATC
*
87755491 TGGTGACTCTG
1 TGGTGGCTCTG
87755502 TCATTATTTG
Statistics
Matches: 106, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.04
27 86 0.81
28 16 0.15
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATC
Found at i:87755437 original size:54 final size:54
Alignment explanation
Indices: 87755355--87755501 Score: 240
Period size: 54 Copynumber: 2.7 Consensus size: 54
87755345 GGAAGCGTCT
87755355 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
* *
87755409 TGGTGGCTGTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
* * *
87755463 TGGTGGCTCTGCCACAATTATCTATATCTGGTGACTCTG
1 TGGTGGCTATGCCACAATTATCT-GATCTGGTGGCTCTG
87755502 TCATTATTTG
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
54 73 0.85
55 13 0.15
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
Found at i:87757888 original size:15 final size:16
Alignment explanation
Indices: 87757855--87757889 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
87757845 CATTTAATAA
*
87757855 ACTTTTGCTTTTAATC
1 ACTTTTGCTCTTAATC
87757871 ACTTTTGCTCTT-ATC
1 ACTTTTGCTCTTAATC
87757886 ACTT
1 ACTT
87757890 AATTCATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.54
Consensus pattern (16 bp):
ACTTTTGCTCTTAATC
Found at i:87760572 original size:48 final size:48
Alignment explanation
Indices: 87760509--87761124 Score: 1090
Period size: 48 Copynumber: 12.9 Consensus size: 48
87760499 TATATATGTG
* *
87760509 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
87760557 TGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
87760605 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
87760653 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGTGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
87760701 TATGGTAAAGCCGAATGGCTAGTGTGAAATATGCATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
87760749 TGTGGT-AAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
87760796 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
87760844 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
87760892 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
87760940 TGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
87760988 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
87761036 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
87761084 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
87761125 GTGTGTATAT
Statistics
Matches: 544, Mismatches: 23, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 0.08
48 499 0.92
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:87761317 original size:37 final size:37
Alignment explanation
Indices: 87761264--87761367 Score: 165
Period size: 37 Copynumber: 2.8 Consensus size: 37
87761254 TGGAAATATA
87761264 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATT-TG
* *
87761302 TT-CGGGTAAGACCCGATGACTATGTGTGGAGATTTT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
*
87761338 TTCCGGGTAAGACCCGATAACTACGTGTGG
1 TTCCGGGTAAGACCCGATGACTACGTGTGG
87761368 GGACTATTCG
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
36 3 0.05
37 56 0.92
38 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
Found at i:87762694 original size:40 final size:40
Alignment explanation
Indices: 87762641--87762753 Score: 172
Period size: 40 Copynumber: 2.8 Consensus size: 40
87762631 TTGAGAGTTA
* **
87762641 TATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAATGT
* * *
87762681 TATGTTCGGGCTAAGTCCCAAAGAGCATTCGTGCTAATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAATGT
87762721 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTG
87762754 TGATAGCCCA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAATGT
Found at i:87764487 original size:79 final size:81
Alignment explanation
Indices: 87764351--87764535 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
87764341 TTGAATGATG
* *
87764351 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
87764415 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
87764430 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
87764492 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
87764510 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
87764536 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:87764549 original size:40 final size:40
Alignment explanation
Indices: 87764352--87764535 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
87764342 TGAATGATGT
* * * *
87764352 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
87764392 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
87764432 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
87764470 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
87764511 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
87764536 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:87764557 original size:79 final size:79
Alignment explanation
Indices: 87764404--87764558 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
87764394 GGACTAAGAT
* * **
87764404 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
87764469 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
87764483 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
87764546 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
87764559 ATTTCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:87772338 original size:40 final size:39
Alignment explanation
Indices: 87772255--87772437 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 39
87772245 TTGAATGATG
* * * *
87772255 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
87772294 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
87772334 TCCGGGCTAAG-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
87772372 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
87772413 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
87772438 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
38 35 0.28
39 10 0.08
40 70 0.56
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Done.