Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 107 of 163
Found at i:34368560 original size:27 final size:27
Alignment explanation
Indices: 34368504--34368572 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 27
34368494 TGTTTTTTTG
*
34368504 ATATATTTTGGTAAATAAAAAAATTAT
1 ATATATTTTGATAAATAAAAAAATTAT
34368531 ATATATTTTGATAAATAAAAAAAATT-T
1 ATATATTTTGATAAAT-AAAAAAATTAT
*
34368558 ATAACATTTTGATAA
1 AT-ATATTTTGATAA
34368573 TTTTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 18 0.47
28 20 0.53
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (27 bp):
ATATATTTTGATAAATAAAAAAATTAT
Found at i:34376815 original size:20 final size:19
Alignment explanation
Indices: 34376766--34376815 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
34376756 AAAACTAATT
*
34376766 AAACAATGGAAAGGGAAAAA
1 AAACAA-GGAAAGAGAAAAA
* *
34376786 AAAAAAGGAAAGAGAAAAGC
1 AAACAAGGAAAGAGAAAA-A
34376806 AAACAAGGAA
1 AAACAAGGAA
34376816 GAGGCAGGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.68, C:0.06, G:0.24, T:0.02
Consensus pattern (19 bp):
AAACAAGGAAAGAGAAAAA
Found at i:34385500 original size:24 final size:24
Alignment explanation
Indices: 34385438--34385489 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
34385428 TTTCTAAAAG
* * *
34385438 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAATATAATAT
34385462 ATTTAGCATTTATTAATATAATAT
1 ATTTAGCATTTATTAATATAATAT
34385486 ATTT
1 ATTT
34385490 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAATATAATAT
Found at i:34389989 original size:4 final size:4
Alignment explanation
Indices: 34389982--34390007 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
34389972 TATATGTGAT
34389982 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
34390008 GCTATTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:34390690 original size:42 final size:42
Alignment explanation
Indices: 34390641--34390740 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
34390631 CTATATGAAC
*
34390641 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAATG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
* *
34390683 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
34390725 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
34390741 TACCGAGAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
Found at i:34392795 original size:24 final size:24
Alignment explanation
Indices: 34392767--34392819 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
34392757 TTTCTAAAAG
**
34392767 ATTTAATATTTATGAGTATAATAT
1 ATTTAATATTTATGAACATAATAT
*
34392791 ATTTAATATTTATTAACATAATAT
1 ATTTAATATTTATGAACATAATAT
34392815 ATTTA
1 ATTTA
34392820 CCTATAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (24 bp):
ATTTAATATTTATGAACATAATAT
Found at i:34401544 original size:27 final size:27
Alignment explanation
Indices: 34401502--34401554 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
34401492 AAAAGTGTCT
* *
34401502 AAATTAAATATCAAATTGGATAAAAAC
1 AAATTAAATATCAAATTAGAGAAAAAC
34401529 AAATTAAATA-CTAAATTAGAGAAAAA
1 AAATTAAATATC-AAATTAGAGAAAAA
34401555 AATATCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.25
Consensus pattern (27 bp):
AAATTAAATATCAAATTAGAGAAAAAC
Found at i:34409048 original size:36 final size:36
Alignment explanation
Indices: 34408997--34409066 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
34408987 GAGATTAGTC
* * *
34408997 GATTTCTTGTGAGAAGATAGGAGATTGAGTTTGGCA
1 GATTACTTGTCAGAAGATAGGAGATTAAGTTTGGCA
*
34409033 GATTACTTGTCAGAAGTTAGGAGATTAAGTTTGG
1 GATTACTTGTCAGAAGATAGGAGATTAAGTTTGG
34409067 ATTAAATGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.29, C:0.06, G:0.31, T:0.34
Consensus pattern (36 bp):
GATTACTTGTCAGAAGATAGGAGATTAAGTTTGGCA
Found at i:34428156 original size:13 final size:13
Alignment explanation
Indices: 34428138--34428163 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34428128 TAATAAAAAA
34428138 TTTATAATTTTTT
1 TTTATAATTTTTT
34428151 TTTATAATTTTTT
1 TTTATAATTTTTT
34428164 AAATGCATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATAATTTTTT
Found at i:34435509 original size:16 final size:16
Alignment explanation
Indices: 34435472--34435515 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
34435462 AAAAAATTAT
**
34435472 TTATTGAAT-AAAATG
1 TTATTGAATAAAAAAA
34435487 TTGATTGAATAAAAAAA
1 TT-ATTGAATAAAAAAA
34435504 TTATTGAATAAA
1 TTATTGAATAAA
34435516 TAATTCAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 17 0.68
17 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.36
Consensus pattern (16 bp):
TTATTGAATAAAAAAA
Found at i:34439064 original size:18 final size:19
Alignment explanation
Indices: 34439031--34439067 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
34439021 TATCTTTAAT
*
34439031 TAAATAAATTAATAAAAGA
1 TAAATAAATAAATAAAAGA
34439050 TAAAT-AATAAATAAAAGA
1 TAAATAAATAAATAAAAGA
34439068 GAACCATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
TAAATAAATAAATAAAAGA
Found at i:34441812 original size:18 final size:18
Alignment explanation
Indices: 34441770--34441812 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
34441760 TGAAATATGT
* *
34441770 ATAAATATGCATAATAAA
1 ATAAAAATGCATAAAAAA
* *
34441788 ATTAAAATGTATAAAAAA
1 ATAAAAATGCATAAAAAA
34441806 ATAAAAA
1 ATAAAAA
34441813 ACTTTTCGGT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAAAAATGCATAAAAAA
Found at i:34447877 original size:116 final size:117
Alignment explanation
Indices: 34447659--34447892 Score: 407
Period size: 116 Copynumber: 2.0 Consensus size: 117
34447649 CCTGATAACG
*
34447659 AAAGGTAACTAAGTAAGTTTAAAAGAACTTAGAGAGTTCCAGATGAAAACATTTAACTATTTACT
1 AAAGGTAACTAAGTAAGTTCAAAAGAACTTAGAGAGTTCCAGATGAAAACATTTAACTATTTACT
34447724 AATACTTCAAGCAGATCCTTTTATAACTGCAACCACAATCACACAACTCGCC
66 AATACTTCAAGCAGATCCTTTTATAACTGCAACCACAATCACACAACTCGCC
*
34447776 AAAGGTAACTAAGTAAGTTCAAAAGAACTTAGAGAGTTCTAGATGAAAA-ATTTAACTATTTACT
1 AAAGGTAACTAAGTAAGTTCAAAAGAACTTAGAGAGTTCCAGATGAAAACATTTAACTATTTACT
* * * *
34447840 GATACTTTAAGCAGATCCTTTTATAACTGCAAGCACAATCACACAATTCGCC
66 AATACTTCAAGCAGATCCTTTTATAACTGCAACCACAATCACACAACTCGCC
34447892 A
1 A
34447893 GATGACGAGT
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
116 64 0.58
117 47 0.42
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (117 bp):
AAAGGTAACTAAGTAAGTTCAAAAGAACTTAGAGAGTTCCAGATGAAAACATTTAACTATTTACT
AATACTTCAAGCAGATCCTTTTATAACTGCAACCACAATCACACAACTCGCC
Found at i:34451502 original size:77 final size:77
Alignment explanation
Indices: 34451370--34451520 Score: 198
Period size: 77 Copynumber: 2.0 Consensus size: 77
34451360 ATGACAAATT
* * * *
34451370 CATGACCCTTTGGGAATTGGGACTATTTTATTCTGCCACTTCGGGTTGCCTGACAACAATGGCTT
1 CATGACCCTCTGGGAATCGAGACTATTTTATTCTACCACTTCGGGTTGCCTGACAACAATGGCTT
34451435 TTAATATCTGCC
66 TTAATATCTGCC
* **
34451447 CATGACCCTCTGGGAATCGAGACTATTTTATTCTATCACCTT-GGGTTG-CTCGACAATGATGGC
1 CATGACCCTCTGGGAATCGAGACTATTTTATTCTACCA-CTTCGGGTTGCCT-GACAACAATGGC
*
34451510 TTTTAGTATCT
64 TTTTAATATCT
34451521 ATCTACAACA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
76 2 0.03
77 59 0.92
78 3 0.05
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (77 bp):
CATGACCCTCTGGGAATCGAGACTATTTTATTCTACCACTTCGGGTTGCCTGACAACAATGGCTT
TTAATATCTGCC
Found at i:34457672 original size:22 final size:22
Alignment explanation
Indices: 34457646--34457692 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
34457636 AATAAAATGA
* *
34457646 AAAATTTTAGTTTGATCAAAAT
1 AAAATATTAATTTGATCAAAAT
*
34457668 AAAATATTAATTTGATTAAAAT
1 AAAATATTAATTTGATCAAAAT
34457690 AAA
1 AAA
34457693 TTTATTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (22 bp):
AAAATATTAATTTGATCAAAAT
Found at i:34461403 original size:27 final size:27
Alignment explanation
Indices: 34461368--34461432 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
34461358 CCTATTCTTC
* *
34461368 AGATTTTACAGTTTTTCCCAT-TTTTTT
1 AGATTTTACA-ATTATCCCATATTTTTT
*
34461395 AGATTTTACAATTATCCCCTATTTTTT
1 AGATTTTACAATTATCCCATATTTTTT
34461422 AGATTTTACAA
1 AGATTTTACAA
34461433 ATTTGTCCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.21
27 27 0.79
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.52
Consensus pattern (27 bp):
AGATTTTACAATTATCCCATATTTTTT
Found at i:34461448 original size:27 final size:26
Alignment explanation
Indices: 34461368--34461449 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 26
34461358 CCTATTCTTC
* * * *
34461368 AGATTTTACAGTTTTTCCCATTTTTTT
1 AGATTTTACAATTATCCCCA-TGTTTT
*
34461395 AGATTTTACAATTATCCCCTATTTTTT
1 AGATTTTACAATTATCCCC-ATGTTTT
*
34461422 AGATTTTACAAATTTGTCCCC-TGTTTT
1 AGATTTTAC-AA-TTATCCCCATGTTTT
34461449 A
1 A
34461450 CAAATTACAG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
27 37 0.79
28 3 0.06
29 7 0.15
ACGTcount: A:0.23, C:0.17, G:0.07, T:0.52
Consensus pattern (26 bp):
AGATTTTACAATTATCCCCATGTTTT
Found at i:34474373 original size:3 final size:3
Alignment explanation
Indices: 34474367--34474418 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
34474357 TTATTTAAGT
*
34474367 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34474415 TTA T
1 TTA T
34474419 ACTAATATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:34475909 original size:19 final size:20
Alignment explanation
Indices: 34475868--34475911 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
34475858 AATAAAATAA
* *
34475868 TAAAAGAAACACAAATTATG
1 TAAAAAAAAAACAAATTATG
*
34475888 TAAAAAAAAAACAATTTA-G
1 TAAAAAAAAAACAAATTATG
34475907 TAAAA
1 TAAAA
34475912 TATGTACCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (20 bp):
TAAAAAAAAAACAAATTATG
Found at i:34476418 original size:48 final size:48
Alignment explanation
Indices: 34476347--34476489 Score: 196
Period size: 48 Copynumber: 3.0 Consensus size: 48
34476337 GGGTGTTCCG
* * * *
34476347 ATCCCTTTGTTCTTGGCCCCAGCCACCGCTCGGATTCCCATACTCTCT
1 ATCCCTTTGTTCTCGACTCCAGCCACCGCTCGGATTCCCATAATCTCT
**
34476395 ATCCCTTTGTTCTCGACTCCAGCCACCGCTCGGATTCCTGTAATCTCT
1 ATCCCTTTGTTCTCGACTCCAGCCACCGCTCGGATTCCCATAATCTCT
* * * *
34476443 ATCCCTTTGTTCTCGACTCCAGCCGCCACTTGGATTCCCATTATCTC
1 ATCCCTTTGTTCTCGACTCCAGCCACCGCTCGGATTCCCATAATCTC
34476490 GACTCTTCCA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.14, C:0.39, G:0.14, T:0.33
Consensus pattern (48 bp):
ATCCCTTTGTTCTCGACTCCAGCCACCGCTCGGATTCCCATAATCTCT
Found at i:34481342 original size:16 final size:16
Alignment explanation
Indices: 34481309--34481343 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
34481299 ATTAAGACTG
*
34481309 AAAATTTAGAATTAAA
1 AAAATATAGAATTAAA
34481325 AAAATATAGCAATTAAA
1 AAAATATAG-AATTAAA
34481342 AA
1 AA
34481344 TGATTCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAATATAGAATTAAA
Found at i:34482463 original size:21 final size:21
Alignment explanation
Indices: 34482439--34482483 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
34482429 ATAAATTTAA
* * * *
34482439 ATTAAATTTATATATTTGAAT
1 ATTAAAATTAAATAATTAAAT
34482460 ATTAAAATTAAATAATTAAAT
1 ATTAAAATTAAATAATTAAAT
34482481 ATT
1 ATT
34482484 GAGAATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAAAATTAAATAATTAAAT
Found at i:34486104 original size:30 final size:31
Alignment explanation
Indices: 34486048--34486105 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
34486038 AAATGATCAT
*
34486048 TGAATTATTCGAAAGTTTTCATTTAAGTTAC
1 TGAACTATTCGAAAGTTTTCATTTAAGTTAC
*
34486079 TGAACTATTCGTAAGTTTT-ATTTAAGT
1 TGAACTATTCGAAAGTTTTCATTTAAGT
34486106 AACTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.47
Consensus pattern (31 bp):
TGAACTATTCGAAAGTTTTCATTTAAGTTAC
Found at i:34486471 original size:16 final size:16
Alignment explanation
Indices: 34486450--34486480 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34486440 ATCGCTATAG
34486450 TATCTAATCTCAAACA
1 TATCTAATCTCAAACA
34486466 TATCTAATCTCAAAC
1 TATCTAATCTCAAAC
34486481 GCACCGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (16 bp):
TATCTAATCTCAAACA
Found at i:34494023 original size:16 final size:16
Alignment explanation
Indices: 34494002--34494032 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34493992 ATTTTAAATT
34494002 TAATATTACTAATTTA
1 TAATATTACTAATTTA
*
34494018 TAATATTTCTAATTT
1 TAATATTACTAATTT
34494033 TAAAGGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATTACTAATTTA
Found at i:34494737 original size:3 final size:3
Alignment explanation
Indices: 34494729--34494757 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34494719 ATTAGAAATA
34494729 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34494758 ATAAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34501067 original size:16 final size:16
Alignment explanation
Indices: 34501034--34501067 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34501024 ATATTAAAAA
* *
34501034 TATATTTTTTATATTT
1 TATATTTTTAATAATT
34501050 TATATTTTTAATAATT
1 TATATTTTTAATAATT
34501066 TA
1 TA
34501068 AATGATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATATTTTTAATAATT
Found at i:34501090 original size:20 final size:20
Alignment explanation
Indices: 34501067--34501104 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34501057 TTAATAATTT
34501067 AAATGATTTTTA-ATTTTTAA
1 AAAT-ATTTTTATATTTTTAA
34501087 AAATATTTTTATATTTTT
1 AAATATTTTTATATTTTT
34501105 TTGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
AAATATTTTTATATTTTTAA
Found at i:34503950 original size:18 final size:18
Alignment explanation
Indices: 34503927--34503982 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
34503917 GTAATTTTTA
34503927 TAATTGGGTTGGGTTGGG
1 TAATTGGGTTGGGTTGGG
*
34503945 TAATTGGGTTGGGTTGGA
1 TAATTGGGTTGGGTTGGG
* *
34503963 TACTTGGGTTTGGATTGGG
1 TAATTGGG-TTGGGTTGGG
34503982 T
1 T
34503983 TGTTGAAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
18 24 0.73
19 9 0.27
ACGTcount: A:0.12, C:0.02, G:0.45, T:0.41
Consensus pattern (18 bp):
TAATTGGGTTGGGTTGGG
Found at i:34507522 original size:16 final size:15
Alignment explanation
Indices: 34507501--34507530 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
34507491 CATACACATA
34507501 TCTCTCGTTTTCTCTT
1 TCTCTC-TTTTCTCTT
34507517 TCTCTCTTTTCTCT
1 TCTCTCTTTTCTCT
34507531 CACTCTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.63
Consensus pattern (15 bp):
TCTCTCTTTTCTCTT
Found at i:34513369 original size:30 final size:30
Alignment explanation
Indices: 34513333--34513394 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
34513323 TTTTTTTAAG
34513333 ATAGATTTATCATATTCATAAGATAATTTC
1 ATAGATTTATCATATTCATAAGATAATTTC
34513363 ATAGATTTATCATATTCATAAGATAATTTC
1 ATAGATTTATCATATTCATAAGATAATTTC
34513393 AT
1 AT
34513395 CACATACCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (30 bp):
ATAGATTTATCATATTCATAAGATAATTTC
Found at i:34513382 original size:17 final size:17
Alignment explanation
Indices: 34513333--34513382 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
34513323 TTTTTTTAAG
34513333 ATAGATTTATCATATTC
1 ATAGATTTATCATATTC
34513350 ATAAGA--TA--AT-TTC
1 AT-AGATTTATCATATTC
34513363 ATAGATTTATCATATTC
1 ATAGATTTATCATATTC
34513380 ATA
1 ATA
34513383 AGATAATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
12 3 0.11
13 5 0.19
14 4 0.15
16 4 0.15
17 8 0.30
18 3 0.11
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (17 bp):
ATAGATTTATCATATTC
Found at i:34514024 original size:54 final size:54
Alignment explanation
Indices: 34513957--34514088 Score: 264
Period size: 54 Copynumber: 2.4 Consensus size: 54
34513947 ATCCTTACAG
34513957 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGT
34514011 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGT
34514065 CGGGATTACCAGTCCAGGCTAAAT
1 CGGGATTACCAGTCCAGGCTAAAT
34514089 TCAGACCCTA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGT
Found at i:34516059 original size:19 final size:19
Alignment explanation
Indices: 34516037--34516144 Score: 57
Period size: 19 Copynumber: 5.7 Consensus size: 19
34516027 ATTTTAGATG
34516037 TTTTTGAAATTTTTATAAT
1 TTTTTGAAATTTTTATAAT
* *
34516056 TTTTTTAAA---ATATAA-
1 TTTTTGAAATTTTTATAAT
* *
34516071 ATTTTGAATTTTTTTATAAAT
1 TTTTTGAA-ATTTTTAT-AAT
* *
34516092 GTTTTG-AATTTTTAAAAT
1 TTTTTGAAATTTTTATAAT
*
34516110 TATTTTG-AATTTTTGAAAAT
1 T-TTTTGAAATTTTT-ATAAT
*
34516130 TATTTTGTAATTTTT
1 T-TTTTGAAATTTTT
34516145 GTTGAGAGAG
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
15 6 0.09
16 5 0.07
18 3 0.04
19 29 0.41
20 15 0.21
21 12 0.17
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTTTGAAATTTTTATAAT
Found at i:34517163 original size:5 final size:5
Alignment explanation
Indices: 34517153--34517178 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34517143 CTCGAAAATT
34517153 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
34517179 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:34521267 original size:19 final size:19
Alignment explanation
Indices: 34521243--34521281 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
34521233 TTCCCGCCTG
*
34521243 TCACGCAGATGATCCGGGT
1 TCACGCAGATGACCCGGGT
* *
34521262 TCACGCGGGTGACCCGGGT
1 TCACGCAGATGACCCGGGT
34521281 T
1 T
34521282 GGATCCCCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (19 bp):
TCACGCAGATGACCCGGGT
Found at i:34521611 original size:199 final size:200
Alignment explanation
Indices: 34521262--34521709 Score: 792
Period size: 199 Copynumber: 2.2 Consensus size: 200
34521252 TGATCCGGGT
* * *
34521262 TCACGCGGGTGACCCGGGTTGGATCCCCTG-AACGGCGATTTTAATCTTATTATACCTTTCAAAA
1 TCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTTTAATTTTATTATACCTTTCAAAA
34521326 TAGGGAAAAAACAGCCAACTTATTTTTGTTCCTTGAAATGTAATAAACTTATGCATATTTATATT
66 TAGGGAAAAAACAGCCAACTTATTTTTGTTCCTTGAAATGTAATAAACTTATGCATATTTATATT
*
34521391 TTTTTAAAATAGCAATTGTTACAAACTTGCAACGAGGTCGTTGTAGTATAGTGGTAAGTATTCCC
131 GTTTTAAAATAGCAATTGTTACAAACTTGCAACGAGGTCGTTGTAGTATAGTGGTAAGTATTCCC
34521456 GCCTG
196 GCCTG
34521461 TCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTTTAATTTTATTA-ACCTTTCAAAA
1 TCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTTTAATTTTATTATACCTTTCAAAA
*
34521525 TAGGGAAAAGACAGCCAACTTATTTTTGTTCCTTGAAATGTAATAAACTTATGCATATTTATATT
66 TAGGGAAAAAACAGCCAACTTATTTTTGTTCCTTGAAATGTAATAAACTTATGCATATTTATATT
* * **
34521590 GTTTTAAAATATCAGTTGTTACAAGTTTGCAACGAGGTCGTTGTAGTATAGTGGTAAGTATTCCC
131 GTTTTAAAATAGCAATTGTTACAAACTTGCAACGAGGTCGTTGTAGTATAGTGGTAAGTATTCCC
34521655 GCCTG
196 GCCTG
*
34521660 TCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTTTATTTTTA
1 TCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTTTAATTTTA
34521710 ATTTGTACCC
Statistics
Matches: 238, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
199 217 0.91
200 21 0.09
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (200 bp):
TCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTTTAATTTTATTATACCTTTCAAAA
TAGGGAAAAAACAGCCAACTTATTTTTGTTCCTTGAAATGTAATAAACTTATGCATATTTATATT
GTTTTAAAATAGCAATTGTTACAAACTTGCAACGAGGTCGTTGTAGTATAGTGGTAAGTATTCCC
GCCTG
Found at i:34521939 original size:2 final size:2
Alignment explanation
Indices: 34521932--34521958 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34521922 CAACAGTTTT
34521932 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
34521959 CTTGAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34524907 original size:42 final size:42
Alignment explanation
Indices: 34524835--34524923 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
34524825 GATGTAGGGG
* *
34524835 ACACACGGCCAAAACACGCGCCCATATGGTAGGCCATGTGTT
1 ACACACGGCCAAAACACACACCCATATGGTAGGCCATGTGTT
* *
34524877 ACACACGGCCAAAACACACACCCGTGTGGTAGGCCATGTGTT
1 ACACACGGCCAAAACACACACCCATATGGTAGGCCATGTGTT
34524919 ACACA
1 ACACA
34524924 TGGCTGAGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.30, C:0.31, G:0.22, T:0.16
Consensus pattern (42 bp):
ACACACGGCCAAAACACACACCCATATGGTAGGCCATGTGTT
Found at i:34529985 original size:47 final size:47
Alignment explanation
Indices: 34529875--34530048 Score: 228
Period size: 47 Copynumber: 3.7 Consensus size: 47
34529865 CAAATTATCG
* * *
34529875 GAGTGTGCCAT-GTTGTCTTTCAACCATGGACTTATT--TATTCTCGTC
1 GAGT-TGCCATAG-TGTCTTTCAACCATGGTCTTATTCATTTTTTCGTC
** *
34529921 TTGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTTCGTC
1 GAGTTGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTTCGTC
34529968 GAGTTGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTTTCGTC
1 GAGTTGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTTTTTCGTC
* *
34530016 GAGTTGCCATAGTGTCTTTCAGCTATGGTCTTA
1 GAGTTGCCATAGTGTCTTTCAACCATGGTCTTA
34530049 CTCGATATAA
Statistics
Matches: 113, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
45 28 0.25
46 2 0.02
47 42 0.37
48 41 0.36
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (47 bp):
GAGTTGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTTCGTC
Found at i:34530045 original size:95 final size:93
Alignment explanation
Indices: 34529875--34530048 Score: 226
Period size: 95 Copynumber: 1.8 Consensus size: 93
34529865 CAAATTATCG
**
34529875 GAGTGTGCCATGTTGTCTTTCAACCATGGACTTATTTATTCTCGTCTTGATGCCATAGTGTCTTT
1 GAGTGTGCCATGTTGTCTTTCAACCATGGACTTATTTATTCTCGTCGAGATGCCATAGTGTCTTT
34529940 CAACCATGGTCTTATTCATTTTTTCGTC
66 CAACCATGGTCTTATTCATTTTTTCGTC
* * * *
34529968 GAGT-TGCCATAG-TGTCTTTCAACCATGGTCTTATTCATTTTTTTCGTCGAGTTGCCATAGTGT
1 GAGTGTGCCAT-GTTGTCTTTCAACCATGGACTTA-T--TTATTCTCGTCGAGATGCCATAGTGT
* *
34530031 CTTTCAGCTATGGTCTTA
62 CTTTCAACCATGGTCTTA
34530049 CTCGATATAA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 26 0.38
93 6 0.09
95 37 0.54
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (93 bp):
GAGTGTGCCATGTTGTCTTTCAACCATGGACTTATTTATTCTCGTCGAGATGCCATAGTGTCTTT
CAACCATGGTCTTATTCATTTTTTCGTC
Found at i:34530089 original size:45 final size:45
Alignment explanation
Indices: 34530020--34530142 Score: 194
Period size: 45 Copynumber: 2.7 Consensus size: 45
34530010 TTCGTCGAGT
* * *
34530020 TGCCATAGTGTCTTTCAG-CTATGGTCTTACTCGATATAATTGTGA
1 TGCCATAATGTCTTTCAGTC-ATGGTCTTACTCGATAGAATAGTGA
34530065 TGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATAGTGA
1 TGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATAGTGA
*
34530110 TGCCATAACGTCTTTCAGTCATGGTCTTACTCG
1 TGCCATAATGTCTTTCAGTCATGGTCTTACTCG
34530143 TTTCTGGCAT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 72 0.99
46 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (45 bp):
TGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATAGTGA
Found at i:34531459 original size:13 final size:13
Alignment explanation
Indices: 34531441--34531465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34531431 TAAATTTAAA
34531441 TATTATCACTAAT
1 TATTATCACTAAT
34531454 TATTATCACTAA
1 TATTATCACTAA
34531466 ATAATTCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTATCACTAAT
Found at i:34533727 original size:43 final size:42
Alignment explanation
Indices: 34533661--34533789 Score: 174
Period size: 43 Copynumber: 3.0 Consensus size: 42
34533651 AACTCGTCCA
*
34533661 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATATCG
34533704 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAA-ACATAAATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAACACAT--ATCG
34533747 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATATCG
34533790 GAAATCCTAT
Statistics
Matches: 77, Mismatches: 1, Indels: 16
0.82 0.01 0.17
Matches are distributed among these distances:
41 4 0.05
42 3 0.04
43 60 0.78
44 6 0.08
45 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATATCG
Found at i:34534331 original size:114 final size:114
Alignment explanation
Indices: 34534159--34534466 Score: 519
Period size: 114 Copynumber: 2.7 Consensus size: 114
34534149 TAAGCATTAA
** * *
34534159 CGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGTGAAACGACGTCGTTTCCCGAGCTTTCGG
1 CGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGTCCAACGACGTCGTTTTCTGAGCTTTCGG
34534223 GGATTTAGCGGCGTTTCTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAG
66 GGATTTAGCGGCGTTTCTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAG
* *
34534272 CGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGTCCAACGACGCCGTTTTCTGAGCTTTCGA
1 CGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGTCCAACGACGTCGTTTTCTGAGCTTTCGG
*
34534337 GGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAG
66 GGATTTAGCGGCGTTTCTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAG
* *
34534386 CGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGTCCAATGACGTCGTTTTCTGAGCTTTCAG
1 CGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGTCCAACGACGTCGTTTTCTGAGCTTTCGG
*
34534451 GGATTTAGCAGCGTTT
66 GGATTTAGCGGCGTTT
34534467 TTGGAAAAGT
Statistics
Matches: 182, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
113 23 0.13
114 159 0.87
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (114 bp):
CGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGTCCAACGACGTCGTTTTCTGAGCTTTCGG
GGATTTAGCGGCGTTTCTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAG
Found at i:34534751 original size:15 final size:15
Alignment explanation
Indices: 34534731--34534761 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34534721 CATATTTTAA
34534731 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
34534746 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
34534761 G
1 G
34534762 ATTAGGGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:34534817 original size:15 final size:15
Alignment explanation
Indices: 34534727--34534836 Score: 54
Period size: 14 Copynumber: 7.5 Consensus size: 15
34534717 AGTTCATATT
34534727 TTAA-GGTTTAGGGA
1 TTAAGGGTTTAGGGA
* *
34534741 GTATGGGTTTAGGGA
1 TTAAGGGTTTAGGGA
* * *
34534756 TT-ATGGATTAGGGG
1 TTAAGGGTTTAGGGA
* *
34534770 TT--GGGATTTAAGGT
1 TTAAGGG-TTTAGGGA
34534784 TTAAGGG-TTAGAAGG-
1 TTAAGGGTTTAG--GGA
34534799 TTAAGGGTTTAGGGA
1 TTAAGGGTTTAGGGA
**
34534814 TTAAAAG-TTAGGGA
1 TTAAGGGTTTAGGGA
34534828 TTCAAGGGT
1 TT-AAGGGT
34534837 CGAGTTAGGG
Statistics
Matches: 70, Mismatches: 16, Indels: 18
0.67 0.15 0.17
Matches are distributed among these distances:
13 2 0.03
14 33 0.47
15 26 0.37
16 9 0.13
ACGTcount: A:0.27, C:0.01, G:0.38, T:0.34
Consensus pattern (15 bp):
TTAAGGGTTTAGGGA
Found at i:34534823 original size:22 final size:22
Alignment explanation
Indices: 34534777--34534823 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
34534767 GGGTTGGGAT
*
34534777 TTAAGGTTTAAGGGTTAGAAGG
1 TTAAGGTTTAAGGGTTAGAAAG
34534799 TTAAGGGTTT-AGGGATTA-AAAG
1 TTAA-GGTTTAAGGG-TTAGAAAG
34534821 TTA
1 TTA
34534824 GGGATTCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (22 bp):
TTAAGGTTTAAGGGTTAGAAAG
Found at i:34535047 original size:14 final size:14
Alignment explanation
Indices: 34534998--34535049 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
34534988 CATATTTTAA
*
34534998 GGTTTAAGGAGTAT
1 GGTTTAAGGATTAT
* *
34535012 GGATTTAGGGATTAA
1 GG-TTTAAGGATTAT
**
34535027 GAATTAAGGATTAT
1 GGTTTAAGGATTAT
34535041 GGTTTAAGG
1 GGTTTAAGG
34535050 GTTGGGATTT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (14 bp):
GGTTTAAGGATTAT
Found at i:34535069 original size:24 final size:26
Alignment explanation
Indices: 34535036--34535085 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
34535026 AGAATTAAGG
34535036 ATTATGGTTTAAGGGTT-GGGATTTA
1 ATTATGGTTTAAGGGTTAGGGATTTA
*
34535061 ATTA-GGTTTAAGGGTTAGGGGTTTA
1 ATTATGGTTTAAGGGTTAGGGATTTA
34535086 GGGGTTAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.42
Consensus pattern (26 bp):
ATTATGGTTTAAGGGTTAGGGATTTA
Found at i:34535100 original size:14 final size:14
Alignment explanation
Indices: 34535083--34535115 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34535073 GGTTAGGGGT
34535083 TTAGGGGTT-AGATG
1 TTAGGGGTTAAGA-G
34535097 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
34535111 TTAGG
1 TTAGG
34535116 AATTTAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:34535793 original size:84 final size:85
Alignment explanation
Indices: 34535648--34535802 Score: 267
Period size: 84 Copynumber: 1.8 Consensus size: 85
34535638 AATTTTTAGC
* * * *
34535648 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATTTTGCGGCGTTTTTATGAAAAACGC
1 ATAGAAAAACGACGTCATTTTGTTCAAAATGAAAAAAAATTTTGCGGCGTTTTTATGAAAAACGC
34535713 CGCAAATAATAAAAACCAAA
66 CGCAAATAATAAAAACCAAA
34535733 ATAGAAAAACGACGTCATTTTGTTCAAAAT-AAAAAAAATTTTGCGGCGTTTTTATGAAAAACGC
1 ATAGAAAAACGACGTCATTTTGTTCAAAATGAAAAAAAATTTTGCGGCGTTTTTATGAAAAACGC
34535797 CGCAAA
66 CGCAAA
34535803 AGATAAGCAA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 38 0.58
85 28 0.42
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (85 bp):
ATAGAAAAACGACGTCATTTTGTTCAAAATGAAAAAAAATTTTGCGGCGTTTTTATGAAAAACGC
CGCAAATAATAAAAACCAAA
Found at i:34535989 original size:97 final size:103
Alignment explanation
Indices: 34535821--34536014 Score: 274
Period size: 97 Copynumber: 1.9 Consensus size: 103
34535811 AATAGCAGCG
* *
34535821 TTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAGAAAATAAAATAAAAAATTTTTAGCAT
1 TTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAG---ATAAAATAAAAAATATTTAGAAT
***
34535886 AGCAAAACGGTGTCATTTTGTTCAAAATGAAATAGCGGAGT
63 AGCAAAACAACGTCATTTTGTTCAAAATGAAATAGCGGAGT
34535927 TTTTTATAAAAACGCCGCAAAAAATAAATCAA-TT-T-G-TAAAA-AAAAAA-ATTTAGAATAGC
1 TTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAGATAAAATAAAAAATATTTAGAATAGC
34535986 AAAACAACGTCATTTTGTTCAAAATGAAA
66 AAAACAACGTCATTTTGTTCAAAATGAAA
34536015 AAAATTTGCG
Statistics
Matches: 83, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
97 36 0.43
98 6 0.07
99 5 0.06
103 1 0.01
104 1 0.01
105 2 0.02
106 32 0.39
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (103 bp):
TTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAGATAAAATAAAAAATATTTAGAATAGC
AAAACAACGTCATTTTGTTCAAAATGAAATAGCGGAGT
Found at i:34540103 original size:43 final size:43
Alignment explanation
Indices: 34540027--34540231 Score: 288
Period size: 43 Copynumber: 4.8 Consensus size: 43
34540017 TTACCAAAAA
* * *
34540027 CGCCGCTAAAGGTCATGTTCTTT-GACGGTGTTTGTAGAG-AAAG
1 CGCCGCTAAAGATCATGTTCTTTAG-CGGCGTTTGT-GGGTAAAG
** * * * *
34540070 CATCGCTAAAGAACATGATCTTTAGTGGCGTTTGTGGCTAAAG
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAG
34540113 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAG
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAG
*
34540156 CGTCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAG
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAG
34540199 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
34540232 CTATCATAAA
Statistics
Matches: 143, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
42 1 0.01
43 141 0.99
44 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAG
Found at i:34540355 original size:22 final size:22
Alignment explanation
Indices: 34540324--34540366 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
34540314 TAGCGGCACT
* * *
34540324 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAACGCCACTAAAAGCCTA
34540346 AAAAAACGCCACTAAAAGCCT
1 AAAAAACGCCACTAAAAGCCT
34540367 GTCTTGGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCACTAAAAGCCTA
Found at i:34542418 original size:23 final size:23
Alignment explanation
Indices: 34542367--34542410 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
34542357 TAGATTTTTC
34542367 CTAAATATTATCACTAAATAAAT
1 CTAAATATTATCACTAAATAAAT
*
34542390 CTAAATATTATCTCTAAATAA
1 CTAAATATTATCACTAAATAA
34542411 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAAAT
Found at i:34546888 original size:48 final size:47
Alignment explanation
Indices: 34546821--34546927 Score: 162
Period size: 48 Copynumber: 2.3 Consensus size: 47
34546811 ACGAAGTGTT
*
34546821 ATTAAGTTAGTATTAAAGTTTCA-TTAGAAAATTTTAACGTTTTGATTA
1 ATTAAGTTATTATTAAAGTTT-AGTTAGAAAATTTTAACGTTTTGA-TA
34546869 ATTAAGTTATTATTAAAGTTTAGTTAGAAAATTTTAACGTTTTGATA
1 ATTAAGTTATTATTAAAGTTTAGTTAGAAAATTTTAACGTTTTGATA
* *
34546916 GTTAAGTAATTA
1 ATTAAGTTATTA
34546928 AAAAGGACTA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
47 13 0.24
48 42 0.76
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (47 bp):
ATTAAGTTATTATTAAAGTTTAGTTAGAAAATTTTAACGTTTTGATA
Found at i:34548309 original size:21 final size:21
Alignment explanation
Indices: 34548220--34548325 Score: 88
Period size: 21 Copynumber: 5.0 Consensus size: 21
34548210 TTTGGGTGGA
* * *
34548220 TCAGCTGTCACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTTTGT
* * * * *
34548241 TCAACTCTCACAAGCTTCTAT
1 TCAGCTCTTACGAGCTTTTGT
* *
34548262 TCAGCTCTTACTAGCTTCTGCT
1 TCAGCTCTTACGAGCTTTTG-T
*
34548284 T-AGCTCTTACGAGTTTTTGT
1 TCAGCTCTTACGAGCTTTTGT
*
34548304 TCAGCTCTTATGAGCTTTTGT
1 TCAGCTCTTACGAGCTTTTGT
34548325 T
1 T
34548326 GGTGTGTTCG
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
20 2 0.03
21 66 0.94
22 2 0.03
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTTTGT
Found at i:34556108 original size:21 final size:21
Alignment explanation
Indices: 34556078--34556120 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
34556068 TTTGAGTGCA
*
34556078 TCAGCTCTCACGAGCTTCTGT
1 TCAGCCCTCACGAGCTTCTGT
34556099 TCAGCCCTCACGAGCTTCTGT
1 TCAGCCCTCACGAGCTTCTGT
34556120 T
1 T
34556121 GGCCTGTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.35, G:0.19, T:0.33
Consensus pattern (21 bp):
TCAGCCCTCACGAGCTTCTGT
Found at i:34559193 original size:41 final size:38
Alignment explanation
Indices: 34559147--34559280 Score: 139
Period size: 38 Copynumber: 3.5 Consensus size: 38
34559137 CGACTTCGAG
34559147 TCGATGAGACACTGGGTGTCAATTTATTACTTCGAATATA
1 TCGATGAGACACTGGGTGTCAA-TTATTACTTCGAAT-TA
* * * **
34559187 TTCGATGAGGCATTGGGTGCCAA-T-TTACTTCGGTTTA
1 -TCGATGAGACACTGGGTGTCAATTATTACTTCGAATTA
*
34559224 GCCGATGAGACACTGGGTGTC-ATTATTACTTCGAATTA
1 -TCGATGAGACACTGGGTGTCAATTATTACTTCGAATTA
*
34559262 TCTGATGAGGCACTGGGTG
1 TC-GATGAGACACTGGGTG
34559281 CCAAACTGGT
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
36 1 0.01
37 20 0.26
38 35 0.46
39 1 0.01
41 19 0.25
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (38 bp):
TCGATGAGACACTGGGTGTCAATTATTACTTCGAATTA
Found at i:34561102 original size:42 final size:42
Alignment explanation
Indices: 34561019--34561148 Score: 127
Period size: 42 Copynumber: 3.1 Consensus size: 42
34561009 CACTGAAGTA
* * * * * **
34561019 CATAAGTGCTAAACGAAAACCCGTAAGGGTTGAACGGAAGCT
1 CATAAGAGCTGAACGGAAACCCATAAGGGTTAAACTAAAGCT
*
34561061 CATAGGAGCTGAACGGAAACCCATAAGGGTTAAACTAAAGCT
1 CATAAGAGCTGAACGGAAACCCATAAGGGTTAAACTAAAGCT
* * * * *
34561103 CAAAAGAGGTGATCTGAAACCCAGAAGGGTTAAACTGAAA-CT
1 CATAAGAGCTGAACGGAAACCCATAAGGGTTAAACT-AAAGCT
34561145 CATA
1 CATA
34561149 TGAGTTAACT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 69 0.96
43 3 0.04
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (42 bp):
CATAAGAGCTGAACGGAAACCCATAAGGGTTAAACTAAAGCT
Found at i:34561142 original size:21 final size:21
Alignment explanation
Indices: 34561076--34561143 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
34561066 GAGCTGAACG
*
34561076 GAAACCCATAAGGGTTAAACT
1 GAAACCCAAAAGGGTTAAACT
* * *
34561097 -AAAGCTCAAAAGAGG-TGATCT
1 GAAA-CCCAAAAG-GGTTAAACT
*
34561118 GAAACCCAGAAGGGTTAAACT
1 GAAACCCAAAAGGGTTAAACT
34561139 GAAAC
1 GAAAC
34561144 TCATATGAGT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
20 5 0.14
21 25 0.71
22 5 0.14
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (21 bp):
GAAACCCAAAAGGGTTAAACT
Found at i:34570815 original size:71 final size:74
Alignment explanation
Indices: 34570665--34570813 Score: 184
Period size: 73 Copynumber: 2.1 Consensus size: 74
34570655 TCCTCAAACC
* * *
34570665 CTTTTACTTTTCCCAAAAAAAAATTACTTCCTCCAAACCCCCAAAACTTTTTTCCTTTTATTTTT
1 CTTTTACTTTCCCCAAAAAAAAATTACTTCCCCCAAACCCCCAAAACTTTTTTCCTTTTATCTTT
34570730 CCTCCAAAA
66 CCTCCAAAA
* * *
34570739 CTTTTAC-TTCCCCTAAAAAAATTTA-TTCCCCTCAAATCCCC-AAA-TTTTTTCCTTTTA-CTT
1 CTTTTACTTTCCCCAAAAAAAAATTACTTCCCC-CAAACCCCCAAAACTTTTTTCCTTTTATCTT
34570799 TCC-CCAAAAA
65 TCCTCC-AAAA
34570809 CTTTT
1 CTTTT
34570814 TATTTTCTGC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
69 2 0.03
70 14 0.21
71 13 0.19
72 8 0.12
73 23 0.34
74 7 0.10
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (74 bp):
CTTTTACTTTCCCCAAAAAAAAATTACTTCCCCCAAACCCCCAAAACTTTTTTCCTTTTATCTTT
CCTCCAAAA
Found at i:34573186 original size:12 final size:12
Alignment explanation
Indices: 34573169--34573222 Score: 74
Period size: 12 Copynumber: 4.5 Consensus size: 12
34573159 AAGAATATAG
34573169 TTTGAA-TTGGAA
1 TTTGAAGTT-GAA
34573181 TTTGAAGTTGAA
1 TTTGAAGTTGAA
*
34573193 GTTGAAGTTGAA
1 TTTGAAGTTGAA
*
34573205 GTTGAAGTTGAA
1 TTTGAAGTTGAA
34573217 TTTGAA
1 TTTGAA
34573223 TTGTTTGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
12 37 0.95
13 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (12 bp):
TTTGAAGTTGAA
Found at i:34573224 original size:6 final size:6
Alignment explanation
Indices: 34573182--34573222 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
34573172 GAATTGGAAT
*
34573182 TTGAAG TTGAAG TTGAAG TTGAAG TTGAAG TTGAAT TTGAA
1 TTGAAG TTGAAG TTGAAG TTGAAG TTGAAG TTGAAG TTGAA
34573223 TTGTTTGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (6 bp):
TTGAAG
Found at i:34573964 original size:12 final size:12
Alignment explanation
Indices: 34573947--34573976 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
34573937 AACCCATATT
34573947 TCGGGCGGGACG
1 TCGGGCGGGACG
34573959 TCGGGCGGGACG
1 TCGGGCGGGACG
34573971 TCGGGC
1 TCGGGC
34573977 TGGGCCGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.27, G:0.57, T:0.10
Consensus pattern (12 bp):
TCGGGCGGGACG
Found at i:34578948 original size:17 final size:17
Alignment explanation
Indices: 34578926--34578960 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34578916 TTTCTCTACA
34578926 AAATAACTTTAA-ATTTT
1 AAATAA-TTTAATATTTT
34578943 AAATAATTTAATATTTT
1 AAATAATTTAATATTTT
34578960 A
1 A
34578961 TTAATTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATAATTTAATATTTT
Found at i:34580007 original size:11 final size:12
Alignment explanation
Indices: 34579985--34580028 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
34579975 AACAAATCCT
34579985 CTCTCAAATTTC
1 CTCTCAAATTTC
34579997 CTCTC-AATTTC
1 CTCTCAAATTTC
34580008 CT-TCCAAATTT-
1 CTCT-CAAATTTC
34580019 CTCTCAAATT
1 CTCTCAAATT
34580029 CATATTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 17 0.59
12 11 0.38
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:34581540 original size:18 final size:18
Alignment explanation
Indices: 34581513--34581550 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
34581503 CAGGTGTGTT
* *
34581513 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
34581531 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
34581549 TC
1 TC
34581551 ATTTTCCGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.29, G:0.08, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:34582176 original size:22 final size:22
Alignment explanation
Indices: 34582150--34582365 Score: 138
Period size: 22 Copynumber: 10.5 Consensus size: 22
34582140 CTTAACTTAA
**
34582150 AAACCCTAAAAATAAAAACCAT
1 AAACCCTAAACTTAAAAACCAT
* * **
34582172 AAACCTTTAACTTAAAAAACCCC
1 AAACCCTAAACTT-AAAAACCAT
* * *
34582195 AAATCTTAAACTTAAAAACCCT
1 AAACCCTAAACTTAAAAACCAT
34582217 AAACCCTAAACTTAAAAACCAT
1 AAACCCTAAACTTAAAAACCAT
*
34582239 AAA--C----C-TAAAAACCCT
1 AAACCCTAAACTTAAAAACCAT
** * * *
34582254 AAACTGTTAACTTAAAAAACAC
1 AAACCCTAAACTTAAAAACCAT
* *
34582276 AAACCCTAAACCT-AAAACCCT
1 AAACCCTAAACTTAAAAACCAT
34582297 AAACCCTAAACTT----A--A-
1 AAACCCTAAACTTAAAAACCAT
* *
34582312 AAACCCTAAACCTAAAAACCCT
1 AAACCCTAAACTTAAAAACCAT
*
34582334 AAACCCTAAACTTAAAAACCTT
1 AAACCCTAAACTTAAAAACCAT
34582356 AAACCCTAAA
1 AAACCCTAAA
34582366 ACCTTAACTT
Statistics
Matches: 149, Mismatches: 30, Indels: 30
0.71 0.14 0.14
Matches are distributed among these distances:
15 24 0.16
16 1 0.01
18 1 0.01
19 1 0.01
20 1 0.01
21 18 0.12
22 85 0.57
23 18 0.12
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (22 bp):
AAACCCTAAACTTAAAAACCAT
Found at i:34582189 original size:37 final size:37
Alignment explanation
Indices: 34582101--34582366 Score: 211
Period size: 37 Copynumber: 6.9 Consensus size: 37
34582091 TGACAAGCCA
* *
34582101 TAAACCCTTAAAC-TAAAAACCCTAACCCT---AATCC
1 TAAACCC-TAAACTTAAAAACCCTAAACCTAAAAACCC
* ** *
34582135 T-AACCCTTAACTTAAAAACCCTAAAAATAAAAACCA
1 TAAACCCTAAACTTAAAAACCCTAAACCTAAAAACCC
* * *
34582171 TAAACCTTTAACTTAAAAAACCCCAAATCTTAAACTTAAAAACCC
1 TAAACCCTAAACTT-AAAAA--CC----C-TAAACCTAAAAACCC
*
34582216 TAAACCCTAAACTTAAAAACCATAAACCTAAAAACCC
1 TAAACCCTAAACTTAAAAACCCTAAACCTAAAAACCC
** *
34582253 TAAACTGTTAACTTAAAAAACACAAACCCTAAACCT-AAAACCC
1 TAAACCCTAAACTT-----A-A-AAACCCTAAACCTAAAAACCC
34582296 TAAACCCTAAACTTAAAAACCCTAAACCTAAAAACCC
1 TAAACCCTAAACTTAAAAACCCTAAACCTAAAAACCC
*
34582333 TAAACCCTAAACTTAAAAACCTTAAACCCTAAAA
1 TAAACCCTAAACTTAAAAACCCTAAA-CCTAAAA
34582367 CCTTAACTTT
Statistics
Matches: 188, Mismatches: 22, Indels: 40
0.75 0.09 0.16
Matches are distributed among these distances:
32 4 0.02
33 18 0.10
34 1 0.01
36 17 0.09
37 69 0.37
38 13 0.07
40 2 0.01
42 3 0.02
43 19 0.10
44 18 0.10
45 24 0.13
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (37 bp):
TAAACCCTAAACTTAAAAACCCTAAACCTAAAAACCC
Found at i:34582235 original size:15 final size:15
Alignment explanation
Indices: 34582217--34582258 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
34582207 TAAAAACCCT
34582217 AAACCCTAAACTTAA
1 AAACCCTAAACTTAA
* *
34582232 AAACCATAAACCTAA
1 AAACCCTAAACTTAA
34582247 AAACCCTAAACT
1 AAACCCTAAACT
34582259 GTTAACTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACCCTAAACTTAA
Found at i:34582280 original size:59 final size:59
Alignment explanation
Indices: 34582186--34582366 Score: 156
Period size: 59 Copynumber: 3.1 Consensus size: 59
34582176 CTTTAACTTA
* *
34582186 AAAAACCCCAAATCTTAAACTTAAAAACCCTAAACCCTAAACTTAAAAACCATAAA-CCT
1 AAAAACCCCAAATCTTAAACTTAAAAACACTAAACCCTAAACCT-AAAACCATAAACCCT
* * *
34582245 AAAAACCCTAAA-CTGTTAACTTAAAAAACAC-AAACCCTAAACCTAAAACCCTAAACCCT
1 AAAAACCCCAAATCT-TAAACTT-AAAAACACTAAACCCTAAACCTAAAACCATAAACCCT
*** * * * * * *
34582304 --AAACTTAAAAACCCTAAACCTAAAAACCCTAAACCCTAAACTTAAAAACCTTAAACCCT
1 AAAAAC-CCCAAATCTTAAACTTAAAAACACTAAACCCTAAACCT-AAAACCATAAACCCT
34582363 AAAA
1 AAAA
34582367 CCTTAACTTT
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
57 11 0.11
58 32 0.32
59 47 0.47
60 7 0.07
61 2 0.02
ACGTcount: A:0.52, C:0.29, G:0.01, T:0.18
Consensus pattern (59 bp):
AAAAACCCCAAATCTTAAACTTAAAAACACTAAACCCTAAACCTAAAACCATAAACCCT
Found at i:34582306 original size:15 final size:15
Alignment explanation
Indices: 34582276--34582390 Score: 68
Period size: 15 Copynumber: 7.9 Consensus size: 15
34582266 TAAAAAACAC
34582276 AAACCCTAAA-CCTA
1 AAACCCTAAACCCTA
34582290 AAACCCTAAACCCT-
1 AAACCCTAAACCCTA
*
34582304 AAA-CTTAAAAACCCT-
1 AAACCCT--AAACCCTA
34582319 AAA-CCTAAAAACCCT-
1 AAACCCT--AAACCCTA
*
34582334 AAACCCTAAA-CTTAA
1 AAACCCTAAACCCT-A
*
34582349 AAACCTTAAACCCTA
1 AAACCCTAAACCCTA
* **
34582364 AAA-CCTTAACTTTA
1 AAACCCTAAACCCTA
34582378 AAACCCT-AACCCT
1 AAACCCTAAACCCT
34582391 TAAGTTAAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
13 4 0.05
14 30 0.37
15 43 0.52
16 5 0.06
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (15 bp):
AAACCCTAAACCCTA
Found at i:34587649 original size:22 final size:22
Alignment explanation
Indices: 34587607--34587650 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34587597 TAAACTGGAC
**
34587607 ATTTATTTGGTTTATTTTATTT
1 ATTTATTTGGTTTATAATATTT
34587629 ATTTATTTGGGTTT-TAATATTT
1 ATTTATTT-GGTTTATAATATTT
34587651 GGGCTCGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.68
Consensus pattern (22 bp):
ATTTATTTGGTTTATAATATTT
Found at i:34588110 original size:126 final size:125
Alignment explanation
Indices: 34587802--34588367 Score: 690
Period size: 126 Copynumber: 4.5 Consensus size: 125
34587792 CAAACATGCT
* * * *
34587802 ACTGTAGCAAAAGCGCATCCACGTGGGCGTGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
* *
34587867 GAAGCGATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGGTCCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * *
34587927 ACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCT
* * * * * *
34587991 TGAAGCGTTTTTTTATACTATTTGCTTAGAAAGGTCAACTCGAAATAATTT-TTTCAGGACCT
65 TGAAGCG--ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* ** * * * * *
34588053 ACTATAGCAAAAAAGAGTCTACGTGGGCGCGATTTCACAAATTCTTCTCATTAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
*
34588118 GAAGCGATTTTATACTATTTGCTCA-AAACGTCAACTCGAAATTATTTCTTCCAAGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * * *
34588177 ACTGTAGCAAAAGCGCGTCCAGGAGGGCGCGATTTCACAAATTCTTCGCATATAGAATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
* * * * *
34588242 GAAGCGTTTTTTTATACTATTTGCTCAAAAACGTCAACACGAAATTATTT-TTCCTGGACCT
66 GAAGCG--ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * * * * *
34588303 ACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTGCAAAAATCCTTCTGATAAACCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
34588368 TGATTTTATC
Statistics
Matches: 372, Mismatches: 61, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
123 20 0.05
124 85 0.23
125 61 0.16
126 146 0.39
127 60 0.16
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
Found at i:34588248 original size:250 final size:251
Alignment explanation
Indices: 34587822--34588364 Score: 811
Period size: 250 Copynumber: 2.2 Consensus size: 251
34587812 AAGCGCATCC
*
34587822 ACGTGGGCGTGATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGAAGCGATTTTATACTATTT
1 ACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGAAGCGATTTTATACTATTT
* * * *
34587887 GCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGGTCCAACTGTAGCAAAAGTGCGTCCACGAG
66 GCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCAACTGTAGCAAAAGCGCGTCCACGAG
* * *
34587952 GGCGCGATTTCAGAAATTCTTCTCAAATAGCATCCTGCTTGAAGCGTTTTTTTATACTATTTGCT
131 GGCGCGATTTCACAAATTCTTCGCAAATAGAATCCTGCTTGAAGCGTTTTTTTATACTATTTGCT
* * * * *
34588017 TAGAAAGGTCAACTCGAAATAATTTTTTCAGGACCTACTATAGCAAAAAAGAGTCT
196 CAAAAACGTCAACACGAAATAATTTTTCCAGGACCTACTATAGCAAAAAAGAGTCT
*
34588073 ACGTGGGCGCGATTTCACAAATTCTTCTCATTAAGCATCCTGGTAGAAGCGATTTTATACTATTT
1 ACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGAAGCGATTTTATACTATTT
*
34588138 GCTCA-AAACGTCAACTCGAAATTATTTCTTCCAAGACCAACTGTAGCAAAAGCGCGTCCAGGAG
66 GCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCAACTGTAGCAAAAGCGCGTCCACGAG
*
34588202 GGCGCGATTTCACAAATTCTTCGCATATAGAATCCTGCTTGAAGCGTTTTTTTATACTATTTGCT
131 GGCGCGATTTCACAAATTCTTCGCAAATAGAATCCTGCTTGAAGCGTTTTTTTATACTATTTGCT
* * * ** *
34588267 CAAAAACGTCAACACGAAATTATTTTTCCTGGACCTACTGTAGCAAAAGCGCGTAC-
196 CAAAAACGTCAACACGAAATAATTTTTCCAGGACCTACTATAGCAAAAAAGAGT-CT
* * * * * *
34588323 ACGTGGGCGCGACTGCAAAAATCCTTCTGATAAACCATCCTG
1 ACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTG
34588365 CTTTGATTTT
Statistics
Matches: 262, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
250 193 0.74
251 69 0.26
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (251 bp):
ACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGAAGCGATTTTATACTATTT
GCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCAACTGTAGCAAAAGCGCGTCCACGAG
GGCGCGATTTCACAAATTCTTCGCAAATAGAATCCTGCTTGAAGCGTTTTTTTATACTATTTGCT
CAAAAACGTCAACACGAAATAATTTTTCCAGGACCTACTATAGCAAAAAAGAGTCT
Found at i:34593673 original size:125 final size:125
Alignment explanation
Indices: 34593264--34593749 Score: 660
Period size: 126 Copynumber: 3.9 Consensus size: 125
34593254 ATATGCCATT
* *
34593264 GTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGGTAGA
1 GTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTAGA
* * * * *
34593328 AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGGAATTATTTCTTCCAGGACCAACC
65 AGCGATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATAATTTCTTCCAAGACCAACA
* * *
34593389 GTAGCAAAAGCGCAT-CACGAGGGCGCGATTTCAGAAATTCTTCTCAAATAGCATCCTGCTTGAA
1 GTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAA
* *
34593453 GC-ATTTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAATAATTT-TTTCAAGACCTACTA
66 GCGA---TTTTATACTATTTGCTCAAAAACGTCAACTCGAAATAATTTCTTCCAAGACCAAC-A
* * * *
34593515 -TAGCAAAAGAGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTC-ATTAAGCATCCTGGTAGA
1 GTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAAT-AGCATCCTGCTAGA
* *
34593578 AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCAACA
65 AGCGATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATAATTTCTTCCAAGACCAACA
* * * *
34593639 GTAGCAAAAGCGCGTCCAGGAGGGCGCGATTTCACAAATTCTTCGCATATAGCATCCTGCTTGAA
1 GTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAA
*
34593704 GCGTTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAATAATTT
66 GCG-ATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATAATTT
34593750 TTTCATTATT
Statistics
Matches: 315, Mismatches: 34, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
123 3 0.01
124 84 0.27
125 106 0.34
126 121 0.38
127 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (125 bp):
GTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAA
GCGATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATAATTTCTTCCAAGACCAACA
Found at i:34593713 original size:250 final size:250
Alignment explanation
Indices: 34593265--34593754 Score: 865
Period size: 250 Copynumber: 2.0 Consensus size: 250
34593255 TATGCCATTG
*
34593265 TAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGAAG
1 TAGCAAAAGAGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGAAG
* * *
34593330 CGATTTTATACTATTTGCTCAGAAACGTCAACTCGGAATTATTTCTTCCAGGACCAACCGTAGCA
66 CGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCAACAGTAGCA
* * *
34593395 AAAGCGCATCACGAGGGCGCGATTTCAGAAATTCTTCTCAAATAGCATCCTGCTTGAAGCATTTT
131 AAAGCGCATCACGAGGGCGCGATTTCACAAATTCTTCGCAAATAGCATCCTGCTTGAAGCAGTTT
34593460 TTTATACTATTTGCTCAAAAACGTCAACTCGAAATAATTTTTTCAAGACCTACTA
196 TTTATACTATTTGCTCAAAAACGTCAACTCGAAATAATTTTTTCAAGACCTACTA
*
34593515 TAGCAAAAGAGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATTAAGCATCCTGGTAGAAG
1 TAGCAAAAGAGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGAAG
34593580 CGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCAACAGTAGCA
66 CGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCAACAGTAGCA
* * *
34593645 AAAGCGCGTCCAGGAGGGCGCGATTTCACAAATTCTTCGCATATAGCATCCTGCTTGAAGC-GTT
131 AAAGCGCAT-CACGAGGGCGCGATTTCACAAATTCTTCGCAAATAGCATCCTGCTTGAAGCAGTT
34593709 TTTTATACTATTTGCTCAAAAACGTCAACTCGAAATAATTTTTTCA
195 TTTTATACTATTTGCTCAAAAACGTCAACTCGAAATAATTTTTTCA
34593755 TTATTTTTCC
Statistics
Matches: 228, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
250 181 0.79
251 47 0.21
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (250 bp):
TAGCAAAAGAGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGAAG
CGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCAACAGTAGCA
AAAGCGCATCACGAGGGCGCGATTTCACAAATTCTTCGCAAATAGCATCCTGCTTGAAGCAGTTT
TTTATACTATTTGCTCAAAAACGTCAACTCGAAATAATTTTTTCAAGACCTACTA
Found at i:34599541 original size:10 final size:11
Alignment explanation
Indices: 34599518--34599552 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
34599508 AGGTTATACA
34599518 TTTCTCTTCTTT
1 TTTCT-TTCTTT
34599530 TTTCTTTCTTT
1 TTTCTTTCTTT
*
34599541 TTTTTTTCTTT
1 TTTCTTTCTTT
34599552 T
1 T
34599553 AGATGTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTCTTTCTTT
Found at i:34614529 original size:15 final size:16
Alignment explanation
Indices: 34614499--34614532 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
34614489 CAAGTGCTCT
*
34614499 ATATAGTATATTAAAA
1 ATATAGTATATGAAAA
34614515 ATATA-TATATGAAAA
1 ATATAGTATATGAAAA
34614530 ATA
1 ATA
34614533 AGAAACACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
ATATAGTATATGAAAA
Found at i:34615799 original size:6 final size:6
Alignment explanation
Indices: 34615782--34615816 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
34615772 TAGTGTGGGC
* *
34615782 CTTTTA CGTTTA CTTTTA CTTTTA CTTTTG CTTTT
1 CTTTTA CTTTTA CTTTTA CTTTTA CTTTTA CTTTT
34615817 TTTTATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.11, C:0.17, G:0.06, T:0.66
Consensus pattern (6 bp):
CTTTTA
Found at i:34617003 original size:2 final size:2
Alignment explanation
Indices: 34616996--34617020 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34616986 ATTTAATTAA
34616996 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
34617021 AAACAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34626647 original size:14 final size:15
Alignment explanation
Indices: 34626613--34626648 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
34626603 CGAAATTAAT
34626613 ATTTTTATAACATTC
1 ATTTTTATAACATTC
*
34626628 ATTTTTATAATATTC
1 ATTTTTATAACATTC
34626643 ATTTTT
1 ATTTTT
34626649 CTTTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTATAACATTC
Found at i:34636484 original size:2 final size:2
Alignment explanation
Indices: 34636432--34636464 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
34636422 CCTCCAGGTT
*
34636432 TC TC TC TC AC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
34636465 TTTTTGAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.48, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:34639346 original size:95 final size:97
Alignment explanation
Indices: 34639244--34639436 Score: 257
Period size: 95 Copynumber: 2.0 Consensus size: 97
34639234 GTAACCATAT
* *
34639244 TTTTTTCAATGGTTCTGCA-TAACTGGTTTTTGGGTTACTCCTGCAATATGCATGG-G-GTCCCA
1 TTTTTTCAATGGTTCTGCAGT-ACCGGGTTTTGGGTTACTCCTGCAATATGCATGGAGAGTCCCA
34639306 AGGGGATTTAGCGATTGTTGGCAAAAACCATCC
65 AGGGGATTTAGCGATTGTTGGCAAAAACCATCC
* * * * *
34639339 TTTTTTCAGTGGTTCTTCAGTACCGGGTTTTGGGTTACTGCTGCAATGTGTATGGATAAGTAGTC
1 TTTTTTCAATGGTTCTGCAGTACCGGGTTTTGGGTTACTCCTGCAATATGCATGG---AG-AGTC
34639404 CCAAGGGGATTTAGCGATTGTTGGCAAAAACCA
62 CCAAGGGGATTTAGCGATTGTTGGCAAAAACCA
34639437 CCGAGGAAGA
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
95 46 0.55
96 1 0.01
99 1 0.01
101 36 0.43
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (97 bp):
TTTTTTCAATGGTTCTGCAGTACCGGGTTTTGGGTTACTCCTGCAATATGCATGGAGAGTCCCAA
GGGGATTTAGCGATTGTTGGCAAAAACCATCC
Found at i:34642148 original size:235 final size:235
Alignment explanation
Indices: 34641737--34642207 Score: 942
Period size: 235 Copynumber: 2.0 Consensus size: 235
34641727 AGCACCCAAA
34641737 CTATTCAATTTTGTTGCTTTGACATCCCTGCATTGATGTAATGAATTCATCAAAAAGAAAAGGAA
1 CTATTCAATTTTGTTGCTTTGACATCCCTGCATTGATGTAATGAATTCATCAAAAAGAAAAGGAA
34641802 ATATTCACTGTTGATTGCTAACCTTTTCCTCAGCATGTGATGCCCTTCAAAAGCATTATCTGGCA
66 ATATTCACTGTTGATTGCTAACCTTTTCCTCAGCATGTGATGCCCTTCAAAAGCATTATCTGGCA
34641867 TCTCACCATTTTCATAATCCAAAAAATCTCCAGAAGTACCATCTATTTTGTGTGGCCAGTATTTC
131 TCTCACCATTTTCATAATCCAAAAAATCTCCAGAAGTACCATCTATTTTGTGTGGCCAGTATTTC
34641932 CAAGAAATGTCATCTTCCCTTTCATGGGGAAAGCCATCAT
196 CAAGAAATGTCATCTTCCCTTTCATGGGGAAAGCCATCAT
34641972 CTATTCAATTTTGTTGCTTTGACATCCCTGCATTGATGTAATGAATTCATCAAAAAGAAAAGGAA
1 CTATTCAATTTTGTTGCTTTGACATCCCTGCATTGATGTAATGAATTCATCAAAAAGAAAAGGAA
34642037 ATATTCACTGTTGATTGCTAACCTTTTCCTCAGCATGTGATGCCCTTCAAAAGCATTATCTGGCA
66 ATATTCACTGTTGATTGCTAACCTTTTCCTCAGCATGTGATGCCCTTCAAAAGCATTATCTGGCA
34642102 TCTCACCATTTTCATAATCCAAAAAATCTCCAGAAGTACCATCTATTTTGTGTGGCCAGTATTTC
131 TCTCACCATTTTCATAATCCAAAAAATCTCCAGAAGTACCATCTATTTTGTGTGGCCAGTATTTC
34642167 CAAGAAATGTCATCTTCCCTTTCATGGGGAAAGCCATCAT
196 CAAGAAATGTCATCTTCCCTTTCATGGGGAAAGCCATCAT
34642207 C
1 C
34642208 CAGGTAGCTA
Statistics
Matches: 236, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
235 236 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (235 bp):
CTATTCAATTTTGTTGCTTTGACATCCCTGCATTGATGTAATGAATTCATCAAAAAGAAAAGGAA
ATATTCACTGTTGATTGCTAACCTTTTCCTCAGCATGTGATGCCCTTCAAAAGCATTATCTGGCA
TCTCACCATTTTCATAATCCAAAAAATCTCCAGAAGTACCATCTATTTTGTGTGGCCAGTATTTC
CAAGAAATGTCATCTTCCCTTTCATGGGGAAAGCCATCAT
Found at i:34643791 original size:31 final size:31
Alignment explanation
Indices: 34643753--34643816 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
34643743 TGACTTAATC
34643753 ATAATAATGGGAATATATCTTGCAGCAGACT
1 ATAATAATGGGAATATATCTTGCAGCAGACT
34643784 ATAATAATGGGAATATATCTTGCAGCAGACT
1 ATAATAATGGGAATATATCTTGCAGCAGACT
34643815 AT
1 AT
34643817 CATTCTTGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (31 bp):
ATAATAATGGGAATATATCTTGCAGCAGACT
Found at i:34646088 original size:15 final size:16
Alignment explanation
Indices: 34646068--34646097 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34646058 AAAATTTAAT
34646068 TTTATA-TTAAATTAC
1 TTTATATTTAAATTAC
34646083 TTTATATTTAAATTA
1 TTTATATTTAAATTA
34646098 TTATGACTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTATATTTAAATTAC
Found at i:34646443 original size:6 final size:6
Alignment explanation
Indices: 34646432--34646458 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34646422 TCGAAGTTTG
34646432 AAGCAA AAGCAA AAGCAA AAGCAA AAG
1 AAGCAA AAGCAA AAGCAA AAGCAA AAG
34646459 AACGTAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.15, G:0.19, T:0.00
Consensus pattern (6 bp):
AAGCAA
Found at i:34654625 original size:12 final size:12
Alignment explanation
Indices: 34654608--34654635 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34654598 CAATATCCAT
34654608 TGATTGAAAATG
1 TGATTGAAAATG
34654620 TGATTGAAAATG
1 TGATTGAAAATG
34654632 TGAT
1 TGAT
34654636 ATTCAAAATG
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:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (12 bp):
TGATTGAAAATG
Found at i:34657115 original size:6 final size:6
Alignment explanation
Indices: 34657106--34657132 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34657096 TATATACTGT
34657106 ATACAC ATACAC ATACAC ATACAC ATA
1 ATACAC ATACAC ATACAC ATACAC ATA
34657133 TACTATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.19
Consensus pattern (6 bp):
ATACAC
Found at i:34657155 original size:6 final size:6
Alignment explanation
Indices: 34657144--34657175 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
34657134 ACTATCTTTC
34657144 CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT CC
1 CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT CC
34657176 GTTTGATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.53, G:0.00, T:0.16
Consensus pattern (6 bp):
CCCAAT
Found at i:34661525 original size:18 final size:18
Alignment explanation
Indices: 34661504--34661554 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
34661494 TATCACTACT
*
34661504 GCTCTCACTCCCACTCCC
1 GCTCCCACTCCCACTCCC
* *
34661522 GCTCCCGCTTCCACTCCC
1 GCTCCCACTCCCACTCCC
* *
34661540 GCTACCACTACCACT
1 GCTCCCACTCCCACT
34661555 ACTCTCGCTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.14, C:0.57, G:0.08, T:0.22
Consensus pattern (18 bp):
GCTCCCACTCCCACTCCC
Found at i:34678815 original size:27 final size:27
Alignment explanation
Indices: 34678777--34678854 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
34678767 AACCAATATG
* * *
34678777 GTCCGCTGGGACAATAAACACGGGGTA
1 GTCCACTGGGACAGTAAACACGAGGTA
* * *
34678804 GTCCATTGGGACAGTAAACACAAGGTT
1 GTCCACTGGGACAGTAAACACGAGGTA
*
34678831 GTCCACTAGGACAGTAAACACGAG
1 GTCCACTGGGACAGTAAACACGAG
34678855 ATAGCCCGTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17
Consensus pattern (27 bp):
GTCCACTGGGACAGTAAACACGAGGTA
Found at i:34679051 original size:9 final size:9
Alignment explanation
Indices: 34679034--34679504 Score: 935
Period size: 9 Copynumber: 52.4 Consensus size: 9
34679024 AAACCGAAAA
34679034 AATTC-GGT
1 AATTCGGGT
34679042 AATTCGGGT
1 AATTCGGGT
34679051 AATTCGGGT
1 AATTCGGGT
34679060 AATTCGGGT
1 AATTCGGGT
34679069 AATTCGGGT
1 AATTCGGGT
34679078 AATTCGGGT
1 AATTCGGGT
34679087 AATTCGGGT
1 AATTCGGGT
34679096 AATTCGGGT
1 AATTCGGGT
34679105 AATTCGGGT
1 AATTCGGGT
34679114 AATTCGGGT
1 AATTCGGGT
34679123 AATTCGGGT
1 AATTCGGGT
34679132 AATTCGGGT
1 AATTCGGGT
34679141 AATTCGGGT
1 AATTCGGGT
34679150 AATTCGGGT
1 AATTCGGGT
34679159 AATTCGGGT
1 AATTCGGGT
34679168 AATTCGGGT
1 AATTCGGGT
34679177 AATTCGGGT
1 AATTCGGGT
34679186 AATTCGGGT
1 AATTCGGGT
34679195 AATTCGGGT
1 AATTCGGGT
34679204 AATTCGGGT
1 AATTCGGGT
34679213 AATTCGGGT
1 AATTCGGGT
34679222 AATTCGGGT
1 AATTCGGGT
34679231 AATTCGGGT
1 AATTCGGGT
34679240 AATTCGGGT
1 AATTCGGGT
34679249 AATTCGGGT
1 AATTCGGGT
34679258 AATTCGGGT
1 AATTCGGGT
34679267 AATTCGGGT
1 AATTCGGGT
34679276 AATTCGGGT
1 AATTCGGGT
34679285 AATTCGGGT
1 AATTCGGGT
34679294 AATTCGGGT
1 AATTCGGGT
34679303 AATTCGGGT
1 AATTCGGGT
34679312 AATTCGGGT
1 AATTCGGGT
34679321 AATTCGGGT
1 AATTCGGGT
34679330 AATTCGGGT
1 AATTCGGGT
34679339 AATTCGGGT
1 AATTCGGGT
34679348 AATTCGGGT
1 AATTCGGGT
34679357 AATTCGGGT
1 AATTCGGGT
34679366 AATTCGGGT
1 AATTCGGGT
34679375 AATTCGGGT
1 AATTCGGGT
34679384 AATTCGGGT
1 AATTCGGGT
34679393 AATTCGGGT
1 AATTCGGGT
34679402 AATTCGGGT
1 AATTCGGGT
34679411 AATTCGGGT
1 AATTCGGGT
34679420 AATTCGGGT
1 AATTCGGGT
34679429 AATTCGGGT
1 AATTCGGGT
34679438 AATTCGGGT
1 AATTCGGGT
34679447 AATTCGGGT
1 AATTCGGGT
34679456 AATTCGGGT
1 AATTCGGGT
34679465 AATTCGGGT
1 AATTCGGGT
34679474 AATTCGGGT
1 AATTCGGGT
34679483 AATTCGGGT
1 AATTCGGGT
34679492 AATTCGGGT
1 AATTCGGGT
34679501 AATT
1 AATT
34679505 TTTAACCAAA
Statistics
Matches: 462, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
8 5 0.01
9 457 0.99
ACGTcount: A:0.23, C:0.11, G:0.33, T:0.34
Consensus pattern (9 bp):
AATTCGGGT
Found at i:34679682 original size:12 final size:12
Alignment explanation
Indices: 34679665--34679689 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34679655 AGTAATTTCG
34679665 GGTCGGTTAACC
1 GGTCGGTTAACC
34679677 GGTCGGTTAACC
1 GGTCGGTTAACC
34679689 G
1 G
34679690 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:34687303 original size:1 final size:1
Alignment explanation
Indices: 34687299--34687328 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
34687289 CCCCCCCCCC
*
34687299 AAAAAAAAAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
34687329 GGGGGGGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:34688670 original size:3 final size:3
Alignment explanation
Indices: 34688656--34688696 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
34688646 ATTGGCTTCT
*
34688656 TTG TTA TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
34688697 TTTGGTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.02, C:0.00, G:0.29, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:34691570 original size:6 final size:6
Alignment explanation
Indices: 34691559--34691594 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
34691549 TGAATGACCC
*
34691559 TATGTA TATGTA TATGTA TATGTA TATGCA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
34691595 ACATGCCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (6 bp):
TATGTA
Found at i:34691774 original size:78 final size:76
Alignment explanation
Indices: 34691670--34691854 Score: 239
Period size: 78 Copynumber: 2.4 Consensus size: 76
34691660 GCACAGCTAT
* *
34691670 GCCTTGTGCCTTATCACTAGACAACAAAAGCACCTCGTATCCTTTTGGGCGAGGTGCATTTGATC
1 GCCTTGTGCCTTAGCACTAGACAACAAAAGCACCTCATA-CCTTTTGGGCGAGGTGCATTTGATC
*
34691735 GGATGCATGCCTAA
65 AGA--CATGCCTAA
* * *
34691749 G-TTTGTGCCTTAGCACTAGACAACAACAGCACCTCATACCTTTTGGGCGAGTTGCATTTGATCA
1 GCCTTGTGCCTTAGCACTAGACAACAAAAGCACCTCATACCTTTTGGGCGAGGTGCATTTGATCA
*
34691813 GACATGCCTAT
66 GACATGCCTAA
* *
34691824 GCCTTGTGCC-TAGGCACTAGTCGACAAAAGC
1 GCCTTGTGCCTTA-GCACTAGACAACAAAAGC
34691855 CCCTTGGACC
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
75 11 0.12
76 22 0.24
77 26 0.28
78 33 0.35
79 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (76 bp):
GCCTTGTGCCTTAGCACTAGACAACAAAAGCACCTCATACCTTTTGGGCGAGGTGCATTTGATCA
GACATGCCTAA
Found at i:34703321 original size:24 final size:24
Alignment explanation
Indices: 34703274--34703323 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
34703264 TAAATTTTGG
*
34703274 TGAATATTGGATGTTTTGTAAATT
1 TGAATATTGGATGTTATGTAAATT
*
34703298 TGAATATTGGAT-TTATGATGAATT
1 TGAATATTGGATGTTATG-TAAATT
34703322 TG
1 TG
34703324 GAGTCAATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (24 bp):
TGAATATTGGATGTTATGTAAATT
Found at i:34711613 original size:22 final size:22
Alignment explanation
Indices: 34711572--34711617 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
34711562 AAAACTATTA
*
34711572 AAAACATAATTTTTATATTTTT
1 AAAACATAATTTTTAAATTTTT
*
34711594 AAAA-ATAATTTTTAAA-ATTT
1 AAAACATAATTTTTAAATTTTT
34711614 AAAA
1 AAAA
34711618 TAAAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 11 0.50
22 4 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AAAACATAATTTTTAAATTTTT
Found at i:34711616 original size:7 final size:7
Alignment explanation
Indices: 34711604--34711649 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
34711594 AAAAATAATT
34711604 TTTAAAA
1 TTTAAAA
34711611 TTTAAAA
1 TTTAAAA
34711618 --TAAAA
1 TTTAAAA
*
34711623 --TATAA
1 TTTAAAA
34711628 TTTAAAA
1 TTTAAAA
34711635 TTTAAAA
1 TTTAAAA
34711642 TTTAAAA
1 TTTAAAA
34711649 T
1 T
34711650 GTTTATATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 9 0.26
7 26 0.74
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TTTAAAA
Found at i:34711968 original size:7 final size:7
Alignment explanation
Indices: 34711956--34712001 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
34711946 AAAAATAATT
34711956 TTTAAAA
1 TTTAAAA
34711963 TTTAAAA
1 TTTAAAA
34711970 --TAAAA
1 TTTAAAA
*
34711975 --TATAA
1 TTTAAAA
34711980 TTTAAAA
1 TTTAAAA
34711987 TTTAAAA
1 TTTAAAA
34711994 TTTAAAA
1 TTTAAAA
34712001 T
1 T
34712002 GTTTATATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 9 0.26
7 26 0.74
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TTTAAAA
Found at i:34712226 original size:352 final size:353
Alignment explanation
Indices: 34711570--34712275 Score: 1405
Period size: 352 Copynumber: 2.0 Consensus size: 353
34711560 TAAAAACTAT
34711570 TAAAAACATAATTTTTATATTTTTAAAAATAATTTTTAAAATTTAAAATAAAATATAATTTAAAA
1 TAAAAACATAATTTTTATATTTTTAAAAATAATTTTTAAAATTTAAAATAAAATATAATTTAAAA
34711635 TTTAAAATTTAAAATGTTTATATCAAAGCACATGAATTGCATACGCATGGTTAGTGATTAACTTA
66 TTTAAAATTTAAAATGTTTATATCAAAGCACATGAATTGCATACGCATGGTTAGTGATTAACTTA
34711700 GGATTTAGGTAAATTACACCATGAACGTCATAAGTGAATTAATTCACAAACAAATTCAAAATTAA
131 GGATTTAGGTAAATTACACCATGAACGTCATAAGTGAATTAATTCACAAACAAATTCAAAATTAA
34711765 TTCATTTTGAATCTAGTCAAATGTATCATTCTACCAATGAATACGTCTATATCTCTACCCGTGGA
196 TTCATTTTGAATCTAGTCAAATGTATCATTCTACCAATGAATACGTCTATATCTCTACCCGTGGA
34711830 GTCAATTGCTCTGATAGCCAAGACTAGTCATCTTCCCATTTAATTTTTTAATATTTTTTTTAACT
261 GTCAATTGCTCTGATAGCCAAGACTAGTCATCTTCCCATTTAATTTTTTAATATTTTTTTTAACT
34711895 TTCCTTTTTTTTTTCTCTTTACTTTCTA
326 TTCCTTTTTTTTTTCTCTTTACTTTCTA
34711923 TAAAAACATAA-TTTTATATTTTTAAAAATAATTTTTAAAATTTAAAATAAAATATAATTTAAAA
1 TAAAAACATAATTTTTATATTTTTAAAAATAATTTTTAAAATTTAAAATAAAATATAATTTAAAA
34711987 TTTAAAATTTAAAATGTTTATATCAAAGCACATGAATTGCATACGCATGGTTAGTGATTAACTTA
66 TTTAAAATTTAAAATGTTTATATCAAAGCACATGAATTGCATACGCATGGTTAGTGATTAACTTA
34712052 GGATTTAGGTAAATTACACCATGAACGTCATAAGTGAATTAATTCACAAACAAATTCAAAATTAA
131 GGATTTAGGTAAATTACACCATGAACGTCATAAGTGAATTAATTCACAAACAAATTCAAAATTAA
34712117 TTCATTTTGAATCTAGTCAAATGTATCATTCTACCAATGAATACGTCTATATCTCTACCCGTGGA
196 TTCATTTTGAATCTAGTCAAATGTATCATTCTACCAATGAATACGTCTATATCTCTACCCGTGGA
34712182 GTCAATTGCTCTGATAGCCAAGACTAGTCATCTTCCCATTTAATTTTTTAATATTTTTTTTAACT
261 GTCAATTGCTCTGATAGCCAAGACTAGTCATCTTCCCATTTAATTTTTTAATATTTTTTTTAACT
34712247 TTCCTTTTTTTTTTCTCTTTACTTTCTA
326 TTCCTTTTTTTTTTCTCTTTACTTTCTA
34712275 T
1 T
34712276 TCTCTTCTGT
Statistics
Matches: 353, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
352 342 0.97
353 11 0.03
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.41
Consensus pattern (353 bp):
TAAAAACATAATTTTTATATTTTTAAAAATAATTTTTAAAATTTAAAATAAAATATAATTTAAAA
TTTAAAATTTAAAATGTTTATATCAAAGCACATGAATTGCATACGCATGGTTAGTGATTAACTTA
GGATTTAGGTAAATTACACCATGAACGTCATAAGTGAATTAATTCACAAACAAATTCAAAATTAA
TTCATTTTGAATCTAGTCAAATGTATCATTCTACCAATGAATACGTCTATATCTCTACCCGTGGA
GTCAATTGCTCTGATAGCCAAGACTAGTCATCTTCCCATTTAATTTTTTAATATTTTTTTTAACT
TTCCTTTTTTTTTTCTCTTTACTTTCTA
Found at i:34712653 original size:15 final size:14
Alignment explanation
Indices: 34712629--34712682 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
34712619 TTGATTGGCG
*
34712629 GAAAATATTTTCCA
1 GAAAACATTTTCCA
34712643 GTAAAACATTTTCCA
1 G-AAAACATTTTCCA
* * *
34712658 GAAATCATTTTACG
1 GAAAACATTTTCCA
*
34712672 GAAAATATTTT
1 GAAAACATTTT
34712683 ACTCTCAATC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 20 0.61
15 13 0.39
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (14 bp):
GAAAACATTTTCCA
Found at i:34723697 original size:3 final size:3
Alignment explanation
Indices: 34723689--34723718 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
34723679 AAGGTTTTGC
34723689 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34723719 ATCCCAACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:34724481 original size:123 final size:125
Alignment explanation
Indices: 34724348--34724571 Score: 355
Period size: 125 Copynumber: 1.8 Consensus size: 125
34724338 AGATTTAAGG
* *
34724348 ATGTAATTGCAACTATCTAACGATCTAA-TAAAATAACTAATATG-T-AAAAAATTAATTAAAAA
1 ATGTAATTGCAACTATCTAACCATCTAACCAAAA-AACTAATATGTTAAAAAAATTAATTAAAAA
*
34724410 TTTAAAAAACTTGAAGCATCATGAAATAAAAAATACAAATGTGAATAGGAAAAGAATCTAC
65 TTTAAAAAACTTGAAGCAACATGAAATAAAAAATACAAATGTGAATAGGAAAAGAATCTAC
*
34724471 ATGTATTTGCAACTATCTAACCATCTAACCAAAAAACTAATATGTTAAAAAAATTAATTAAAAAT
1 ATGTAATTGCAACTATCTAACCATCTAACCAAAAAACTAATATGTTAAAAAAATTAATTAAAAAT
* * *
34724536 TTAAAAAGCTTTAAGCAACATTAAATAAAAAATACA
66 TTAAAAAACTTGAAGCAACATGAAATAAAAAATACA
34724572 TGTCACACCC
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
123 36 0.40
124 5 0.05
125 50 0.55
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.28
Consensus pattern (125 bp):
ATGTAATTGCAACTATCTAACCATCTAACCAAAAAACTAATATGTTAAAAAAATTAATTAAAAAT
TTAAAAAACTTGAAGCAACATGAAATAAAAAATACAAATGTGAATAGGAAAAGAATCTAC
Found at i:34727281 original size:23 final size:23
Alignment explanation
Indices: 34727229--34727281 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
34727219 TTAAAATACT
*
34727229 TTAAAAATATTTTTATTTTTATT
1 TTAAAAATATTTTTATTTTTATA
*
34727252 TTTAAAATATTTTT-TTGTGTT-TA
1 TTAAAAATATTTTTATT-T-TTATA
34727275 TTAAAAA
1 TTAAAAA
34727282 ATCGGGTCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 2 0.08
23 21 0.84
24 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TTAAAAATATTTTTATTTTTATA
Found at i:34728037 original size:22 final size:22
Alignment explanation
Indices: 34728007--34728058 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
34727997 TTTTGCTATC
* *
34728007 ATATTATTA-AATTGATATTTAA
1 ATATAATTACAATTGA-ATCTAA
*
34728029 ATATAATTACAATTTAATCTAA
1 ATATAATTACAATTGAATCTAA
34728051 A-ATAATTA
1 ATATAATTA
34728059 TTTAACATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 7 0.27
22 14 0.54
23 5 0.19
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (22 bp):
ATATAATTACAATTGAATCTAA
Found at i:34730444 original size:19 final size:19
Alignment explanation
Indices: 34730422--34730458 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
34730412 AAGAAAAACC
34730422 TGGAAAAAGAA-GGAAAAAA
1 TGGAAAAA-AATGGAAAAAA
34730441 TGGAAAAAAATGGAAAAA
1 TGGAAAAAAATGGAAAAA
34730459 GGTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
TGGAAAAAAATGGAAAAAA
Found at i:34743367 original size:97 final size:97
Alignment explanation
Indices: 34742921--34743365 Score: 791
Period size: 97 Copynumber: 4.6 Consensus size: 97
34742911 GTATTTTTTT
34742921 TAATTAATTTACTCAAGTAACCTTAAACCCTAATTTATTTAATTTTTTTCTTAAAAACCATAAAC
1 TAATTAATTTACTCAAGTAACCTTAAACCCTAATTTATTTAATTTTTTTCTTAAAAACCATAAAC
34742986 ACTAAACCCTACTCTAAATTTTTTAAAATTTA
66 ACTAAACCCTACTCTAAATTTTTTAAAATTTA
* * *
34743018 TAATTAATTTACTCAAGTAACCCTAAACCCTAATTTGTTTAATTTTTTCCTTAAAAACCATAAAC
1 TAATTAATTTACTCAAGTAACCTTAAACCCTAATTTATTTAATTTTTTTCTTAAAAACCATAAAC
* *
34743083 ACTAAACCCTAATCTAATTTTTTTAAAATTTA
66 ACTAAACCCTACTCTAAATTTTTTAAAATTTA
34743115 TAATTAATTTACTCAAGTAACCTTAAACCCTAATTTATTTAATTTTTTTCTTAAAAACCATAAAC
1 TAATTAATTTACTCAAGTAACCTTAAACCCTAATTTATTTAATTTTTTTCTTAAAAACCATAAAC
34743180 ACTAAACCCTACTCTAAATTTTTTAAAATTTA
66 ACTAAACCCTACTCTAAATTTTTTAAAATTTA
34743212 TAATTAATTTACTCAAGTAACCTTAAACCCTAATTTATTTAATTTTTTTCTTAAAAACCATAAAC
1 TAATTAATTTACTCAAGTAACCTTAAACCCTAATTTATTTAATTTTTTTCTTAAAAACCATAAAC
34743277 ACTAAACCCTACTCTAAATTTTTTAAAATTTA
66 ACTAAACCCTACTCTAAATTTTTTAAAATTTA
* * * * *
34743309 TAATTAATTTAATTAAGAAACCCTAAACCCTTATTTATTTAATTTTTTTCCTTAAAA
1 TAATTAATTTACTCAAGTAACCTTAAACCCTAATTTATTTAATTTTTTT-CTTAAAA
34743366 CCCTAAAATT
Statistics
Matches: 332, Mismatches: 15, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
97 325 0.98
98 7 0.02
ACGTcount: A:0.40, C:0.17, G:0.01, T:0.42
Consensus pattern (97 bp):
TAATTAATTTACTCAAGTAACCTTAAACCCTAATTTATTTAATTTTTTTCTTAAAAACCATAAAC
ACTAAACCCTACTCTAAATTTTTTAAAATTTA
Found at i:34744863 original size:28 final size:28
Alignment explanation
Indices: 34744823--34744887 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
34744813 ATTGGAAGTC
*
34744823 GAGCATGGATGAACCGAAGAGAAAAAGA
1 GAGCATGGATGAACCGAAGAGAAAAAAA
*
34744851 GAGCTTGGATGAACCGAAGAGAAAAAAA
1 GAGCATGGATGAACCGAAGAGAAAAAAA
34744879 GAGCATGGA
1 GAGCATGGA
34744888 ACCAAACTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.48, C:0.11, G:0.32, T:0.09
Consensus pattern (28 bp):
GAGCATGGATGAACCGAAGAGAAAAAAA
Found at i:34749511 original size:44 final size:45
Alignment explanation
Indices: 34749456--34749552 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 45
34749446 TTATTACACC
* *
34749456 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTATGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * * *
34749500 TCCATTACATTCAACTAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
34749545 TCCATTAC
1 TCCATTAC
34749553 GCCTCTATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.47
45 23 0.51
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:34749553 original size:16 final size:16
Alignment explanation
Indices: 34749532--34749562 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34749522 TTGATTTGCT
34749532 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
34749548 ATTACGCCTCTATTC
1 ATTACGCCTCTATTC
34749563 TAATACAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.35, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:34751940 original size:24 final size:24
Alignment explanation
Indices: 34751911--34751962 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
34751901 GAGAATTGAC
** *
34751911 CGTCATCTGATCCTACTTGTTCGT
1 CGTCATCCAATCCTACTTGTCCGT
*
34751935 CGTCATCCAATCCTATTTGTCCGT
1 CGTCATCCAATCCTACTTGTCCGT
34751959 CGTC
1 CGTC
34751963 TAATGGACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.13, C:0.33, G:0.15, T:0.38
Consensus pattern (24 bp):
CGTCATCCAATCCTACTTGTCCGT
Found at i:34752723 original size:21 final size:21
Alignment explanation
Indices: 34752695--34752760 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
34752685 CCTTCTCAAA
*
34752695 TTCTGCTTTTAGTTCCTTCAT
1 TTCTGCTTTTCGTTCCTTCAT
*
34752716 TTTTGCTTTTCGTTCCTTCAT
1 TTCTGCTTTTCGTTCCTTCAT
*
34752737 TTCAGCTTTTCGTTCCTTCAT
1 TTCTGCTTTTCGTTCCTTCAT
34752758 TTC
1 TTC
34752761 CACTTCTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.08, C:0.26, G:0.09, T:0.58
Consensus pattern (21 bp):
TTCTGCTTTTCGTTCCTTCAT
Found at i:34756148 original size:366 final size:366
Alignment explanation
Indices: 34755472--34756204 Score: 1286
Period size: 366 Copynumber: 2.0 Consensus size: 366
34755462 TGGTTATTAC
*
34755472 ATAATTAAAAAGAGTTGGGTGACCGAAACTTAATCTTGACCGAAATTAAGGGATAATGATGTACA
1 ATAATTAAAAAGAGTTGGATGACCGAAACTTAATCTTGACCGAAATTAAGGGATAATGATGTACA
*
34755537 ATTTGTCTCTTACTTTTTTTAATGATTAATTTACTACGGATTCTATGCATAGCACAACAATGTAA
66 ATTTGTCTCTTACTTTTTTTAATAATTAATTTACTACGGATTCTATGCATAGCACAACAATGTAA
*
34755602 GCAAACAAAACATTAAAGTGATCCCATCTTTAATTAATCAAACTAGTAAATTAATGGTTAAAGTT
131 GCAAACAAAACATTAAAGTGATCCCATCTTTAATTAATCAAACTAATAAATTAATGGTTAAAGTT
*
34755667 GATGATATTTGGAAGAAACGAATTATAACAAATAACATAAACAATGATTTGCAATAAATATGTTT
196 GATGATATTTGGAAGAAACGAATTATAACAAATAACATAAACAATGAATTGCAATAAATATGTTT
* * * * *
34755732 TAGGGATGTTGTTGGATACAAATATATAAACATGGGATCAAATTAAAATAGAAGCTTTAATGTTG
261 TAGGGATATTGTTGGATACAAATATATAAACATGGGATCAAATCAAAATAGAAGCTTTAAGGCTA
34755797 GAAGAATAGATACTTAGCTTGGTCTAGGTATTTTGAAGAGG
326 GAAGAATAGATACTTAGCTTGGTCTAGGTATTTTGAAGAGG
* *
34755838 ATAATTAAAAAGAGTTGGATGACCGAAATTTAATCTTGACCGAAATTAAGGGATAATGATGTATA
1 ATAATTAAAAAGAGTTGGATGACCGAAACTTAATCTTGACCGAAATTAAGGGATAATGATGTACA
* * * *
34755903 ATTTGTCTCTTACTTTTTTTAATAATTAATTTATTACGGATTCTATGCGTAGCATAACATTGTAA
66 ATTTGTCTCTTACTTTTTTTAATAATTAATTTACTACGGATTCTATGCATAGCACAACAATGTAA
* *
34755968 GCAAACAAAACATTAAAGTGATTCTATCTTTAATTAATCAAACTAATAAATTAATGGTTAAAGTT
131 GCAAACAAAACATTAAAGTGATCCCATCTTTAATTAATCAAACTAATAAATTAATGGTTAAAGTT
*
34756033 GATGATATTTGGAAGAAACGAATTATAACAAATAATATAAACAATGAATTGCAATAAATATGTTT
196 GATGATATTTGGAAGAAACGAATTATAACAAATAACATAAACAATGAATTGCAATAAATATGTTT
*
34756098 TAGGGATATTGTTGGATACAAATATATAAACATGGGATCAAGTCAAAATAGAAGCTTTAAGGCTA
261 TAGGGATATTGTTGGATACAAATATATAAACATGGGATCAAATCAAAATAGAAGCTTTAAGGCTA
*
34756163 GAAGAATAGATACTTAGCTTGGTTTAGGTATTTTGAAGAGG
326 GAAGAATAGATACTTAGCTTGGTCTAGGTATTTTGAAGAGG
34756204 A
1 A
34756205 ATCATGAAAT
Statistics
Matches: 347, Mismatches: 20, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
366 347 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (366 bp):
ATAATTAAAAAGAGTTGGATGACCGAAACTTAATCTTGACCGAAATTAAGGGATAATGATGTACA
ATTTGTCTCTTACTTTTTTTAATAATTAATTTACTACGGATTCTATGCATAGCACAACAATGTAA
GCAAACAAAACATTAAAGTGATCCCATCTTTAATTAATCAAACTAATAAATTAATGGTTAAAGTT
GATGATATTTGGAAGAAACGAATTATAACAAATAACATAAACAATGAATTGCAATAAATATGTTT
TAGGGATATTGTTGGATACAAATATATAAACATGGGATCAAATCAAAATAGAAGCTTTAAGGCTA
GAAGAATAGATACTTAGCTTGGTCTAGGTATTTTGAAGAGG
Found at i:34756755 original size:18 final size:18
Alignment explanation
Indices: 34756715--34756749 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
34756705 ATTACAAAAG
34756715 AAAATTAAAATAATTTTC
1 AAAATTAAAATAATTTTC
34756733 AAAATTCAAAAT-ATTTT
1 AAAATT-AAAATAATTTT
34756750 ATAAATCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTAAAATAATTTTC
Done.