Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 125 of 318
Found at i:38963449 original size:19 final size:20
Alignment explanation
Indices: 38963408--38963449 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
38963398 TATTGTAATT
* * *
38963408 AATTTTTAATTTATTATTTA
1 AATTTTTAATATATAATTAA
38963428 AATTTTTAA-ATATAATTAA
1 AATTTTTAATATATAATTAA
38963447 AAT
1 AAT
38963450 ATATTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTTTAATATATAATTAA
Found at i:38965828 original size:62 final size:62
Alignment explanation
Indices: 38965721--38965896 Score: 210
Period size: 62 Copynumber: 2.8 Consensus size: 62
38965711 TGTGGCCCAT
* * * **
38965721 ACAGCTTGGACACACGTCCGTGTCTCTGACCCGTGTGACTCAAATTCTAAACTAATATGTTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCAAAAC-AATAAATTAC
* * * *
38965784 AC-GGTTGGACACACGTCCGTTTCTCTAACTCGTGTGACTTAAATTCCAAAACAGTAAATTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATT-CAAAACAATAAATTAC
* * * *
38965846 ACAGCCTGGACACACGCCCGTGTCTCTAACCCATGTGAATTAAATTCAAAA
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCAAAA
38965897 ATAGTGAGTT
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
62 52 0.55
63 43 0.45
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (62 bp):
ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCAAAACAATAAATTAC
Found at i:38965909 original size:63 final size:62
Alignment explanation
Indices: 38965721--38965909 Score: 209
Period size: 63 Copynumber: 3.0 Consensus size: 62
38965711 TGTGGCCCAT
* * * * *
38965721 ACAGCTTGGACACACGTCCGTGTCTCTGACCCGTGTGACTCAAATTCTAAACTAATATGTTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCAAAAATAGTA-GTTAC
* * * * * *
38965784 AC-GGTTGGACACACGTCCGTTTCTCTAACTCGTGTGACTTAAATTCCAAAACAGTAAATTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCAAAAATAGT-AGTTAC
* * * *
38965846 ACAGCCTGGACACACGCCCGTGTCTCTAACCCATGTGAATTAAATTCAAAAATAGTGAGTTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCAAAAATAGT-AGTTAC
38965909 A
1 A
38965910 TATCCTACCA
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
62 50 0.49
63 53 0.51
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (62 bp):
ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCAAAAATAGTAGTTAC
Found at i:38966577 original size:47 final size:47
Alignment explanation
Indices: 38966496--38966594 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 47
38966486 TTGTGTGTCA
** * *
38966496 TACTGTTACTGTTTCTTCGGTTTAATCCGATGAGGTACTAAGTACCG
1 TACTGTTACTGTTTCTTCGGTCAAAGCCGATGAGGCACTAAGTACCG
* **
38966543 TACTGTTACTGTTTACTTCGG-CAAAGCCGTTGAGGCACTAAGTGTCG
1 TACTGTTACTGTTT-CTTCGGTCAAAGCCGATGAGGCACTAAGTACCG
38966590 TACTG
1 TACTG
38966595 GTGTGTTGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 38 0.86
48 6 0.14
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (47 bp):
TACTGTTACTGTTTCTTCGGTCAAAGCCGATGAGGCACTAAGTACCG
Found at i:38966685 original size:18 final size:18
Alignment explanation
Indices: 38966658--38966724 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
38966648 TAAACTACTG
*
38966658 TACTGTATAATTGATAGT
1 TACTGAATAATTGATAGT
** *
38966676 TACTGAATAACTAAATTACT
1 TACTGAATAA-TTGA-TAGT
*
38966696 GTATTGAATAATTGATAGT
1 -TACTGAATAATTGATAGT
*
38966715 TATTGAATAA
1 TACTGAATAA
38966725 CTAAACTACT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 19 0.50
19 5 0.13
20 5 0.13
21 9 0.24
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (18 bp):
TACTGAATAATTGATAGT
Found at i:38966696 original size:39 final size:39
Alignment explanation
Indices: 38966648--38966798 Score: 205
Period size: 39 Copynumber: 3.9 Consensus size: 39
38966638 TTAATAGGGG
*
38966648 TAAACTACTGTACTGTATAATTGATAGTTACTGAATAAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * *
38966687 TAAATTACTGTATTGAATAATTGATAGTTATTGAATAAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* *
38966726 TAAACTACTGCACTGAATATTTGATAGTTACTGAA-AGAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATA-AC
* * *
38966765 TAAATTACTGTACTGAATAACTGATTGTTACTGA
1 TAAACTACTGTACTGAATAATTGATAGTTACTGA
38966799 TTAAATATGA
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 1 0.01
39 96 0.99
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (39 bp):
TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
Found at i:38966703 original size:21 final size:20
Alignment explanation
Indices: 38966679--38966735 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 20
38966669 TGATAGTTAC
38966679 TGAATAACTAAATTACTGTAT
1 TGAATAACTAAA-TACTGTAT
** *
38966700 TGAATAA-TTGATAGT-TAT
1 TGAATAACTAAATACTGTAT
38966718 TGAATAACTAAACTACTG
1 TGAATAACTAAA-TACTG
38966736 CACTGAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
18 10 0.37
19 5 0.19
20 5 0.19
21 7 0.26
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (20 bp):
TGAATAACTAAATACTGTAT
Found at i:38968009 original size:29 final size:30
Alignment explanation
Indices: 38967976--38968034 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
38967966 TACGGTTTAA
*
38967976 TGTGCAATTGTATACAT-AAACTTTGATTT
1 TGTGCAATTGTATACATGAAAATTTGATTT
* *
38968005 TGTGCAATTTTATATATGAAAATTTGATTT
1 TGTGCAATTGTATACATGAAAATTTGATTT
38968035 GATCAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAAATTTGATTT
Found at i:38970368 original size:29 final size:29
Alignment explanation
Indices: 38970335--38970391 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
38970325 ATAACCAAAC
*
38970335 CTACAAAAACTTTATATCCATAAACCCAA
1 CTACAAAAACTTCATATCCATAAACCCAA
*
38970364 CTACATAAACTTCATATCCATAAACCCA
1 CTACAAAAACTTCATATCCATAAACCCA
38970392 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAA
Found at i:39008022 original size:48 final size:48
Alignment explanation
Indices: 39007899--39008085 Score: 284
Period size: 48 Copynumber: 3.9 Consensus size: 48
39007889 GGTTAAGTGA
* *
39007899 GATCCCATGTAAGACCATGTTTGGGACGTGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* *
39007947 GAGTTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGATATGT
1 GA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
*
39007997 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGGTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * *
39008045 GATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
39008086 TTATTATGTG
Statistics
Matches: 129, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
48 83 0.64
50 46 0.36
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:39008095 original size:98 final size:97
Alignment explanation
Indices: 39007899--39008083 Score: 291
Period size: 98 Copynumber: 1.9 Consensus size: 97
39007889 GGTTAAGTGA
* *
39007899 GATCCCATGTAAGACCATGTTTGGGACGTGGCATTGGCATCGATATGTGAGTTCCCATGTAAGAC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGAG-TCCCATGTAAGAC
* * *
39007964 CATGTTTGGGACATGGCATTGGCACCGATATGT
65 CATATCTAGGACATGGCATTGGCACCGATATGT
*
39007997 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGGTATGTGA-TCCCATGTAAGACC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGAGTCCCATGTAAGACC
*
39008061 ATATCTAGGATATGGCATTGGCA
66 ATATCTAGGACATGGCATTGGCA
39008084 TCTTATTATG
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
96 33 0.41
98 47 0.59
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (97 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGAGTCCCATGTAAGACC
ATATCTAGGACATGGCATTGGCACCGATATGT
Found at i:39011273 original size:19 final size:19
Alignment explanation
Indices: 39011249--39011285 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
39011239 GTTTTTAAAC
*
39011249 TTTATTTTTTGGTTTTTGT
1 TTTATTTGTTGGTTTTTGT
39011268 TTTATTTGTTGGTTTTTG
1 TTTATTTGTTGGTTTTTG
39011286 GGTGTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.00, G:0.19, T:0.76
Consensus pattern (19 bp):
TTTATTTGTTGGTTTTTGT
Found at i:39012430 original size:30 final size:30
Alignment explanation
Indices: 39012387--39012447 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39012377 CACAAGTTGG
* * *
39012387 CACATGGGTGTGTGACCTGCCCGTGTGGAT
1 CACATGGGCGTGTGACCTGCCCATGTAGAT
* *
39012417 CACATTGGCGTGTGGCCTGCCCATGTAGAT
1 CACATGGGCGTGTGACCTGCCCATGTAGAT
39012447 C
1 C
39012448 CTGAAAACTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.15, C:0.26, G:0.33, T:0.26
Consensus pattern (30 bp):
CACATGGGCGTGTGACCTGCCCATGTAGAT
Found at i:39013270 original size:12 final size:11
Alignment explanation
Indices: 39013253--39013282 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
39013243 ACATAAATGT
39013253 TTTTTTTTTCA
1 TTTTTTTTTCA
39013264 CTTTTTTTTTCA
1 -TTTTTTTTTCA
39013276 TTTTTTT
1 TTTTTTT
39013283 AGAATAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTTCA
Found at i:39014388 original size:22 final size:22
Alignment explanation
Indices: 39014356--39014416 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
39014346 TTGTAATGGT
39014356 AATAGTAAAAATAAAAAAATACG
1 AATAG-AAAAATAAAAAAATACG
* *
39014379 AA-AGAAAAAAGAAAAAAATAGG
1 AATAG-AAAAATAAAAAAATACG
*
39014401 AATAGCAAAATAAAAA
1 AATAGAAAAATAAAAA
39014417 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.74, C:0.03, G:0.11, T:0.11
Consensus pattern (22 bp):
AATAGAAAAATAAAAAAATACG
Found at i:39014416 original size:6 final size:6
Alignment explanation
Indices: 39014407--39014436 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
39014397 TAGGAATAGC
39014407 AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA
39014437 TTAAAAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:39014460 original size:33 final size:32
Alignment explanation
Indices: 39014418--39014480 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
39014408 AAATAAAAAT
*
39014418 AAAAATAAAA-ATAAAAATATTAAAAGTATATA
1 AAAAATAAAATATAAAAA-ATTAAAAATATATA
39014450 AAAAATTAAAATATAAAAAATTAAAAATATA
1 AAAAA-TAAAATATAAAAAATTAAAAATATA
39014481 AGTATAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 5 0.18
33 16 0.57
34 7 0.25
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAAATAAAATATAAAAAATTAAAAATATATA
Found at i:39014484 original size:39 final size:37
Alignment explanation
Indices: 39014412--39014486 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 37
39014402 ATAGCAAAAT
39014412 AAAAATAAAAATAAAAATAAAAATATTAAAAGTATATA
1 AAAAATAAAAATAAAAATAAAAATATT-AAAGTATATA
39014450 AAAAATTAAAATATAAAAAATTAAAAATA-T-AAGTATA
1 AAAAA-TAAAA-AT-AAAAA-TAAAAATATTAAAGTATA
39014487 AGAATACTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
38 5 0.15
39 12 0.36
40 2 0.06
41 6 0.18
42 8 0.24
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (37 bp):
AAAAATAAAAATAAAAATAAAAATATTAAAGTATATA
Found at i:39014532 original size:22 final size:20
Alignment explanation
Indices: 39014514--39014565 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
39014504 AACTAATTAG
39014514 TAAAATAAAAATAAATAATA
1 TAAAATAAAAATAAATAATA
*
39014534 TAACAATTAAAAATAAATAAAA
1 TAA-AA-TAAAAATAAATAATA
39014556 TAAAATAAAA
1 TAAAATAAAA
39014566 TTGGGGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 4 0.14
22 17 0.59
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAATAAATAATA
Found at i:39014735 original size:30 final size:31
Alignment explanation
Indices: 39014692--39014753 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
39014682 ATGTGAAATC
* *
39014692 CCACACGCCCGTGTGGCCAGGCCGTGT-GCT
1 CCACACACCCGTGTGGCCAGACCGTGTAGCT
* *
39014722 CCACACACTCGTGTGGTCAGACCGTGTAGCT
1 CCACACACCCGTGTGGCCAGACCGTGTAGCT
39014753 C
1 C
39014754 TTCGACTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.15, C:0.37, G:0.29, T:0.19
Consensus pattern (31 bp):
CCACACACCCGTGTGGCCAGACCGTGTAGCT
Found at i:39017662 original size:12 final size:13
Alignment explanation
Indices: 39017634--39017666 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
39017624 TTATTTCTTT
39017634 TTCTCCATCTACC
1 TTCTCCATCTACC
*
39017647 TTCTCC-TCTTCC
1 TTCTCCATCTACC
39017659 TTCTCCAT
1 TTCTCCAT
39017667 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:39018771 original size:28 final size:28
Alignment explanation
Indices: 39018731--39018795 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
39018721 ATGTACTAGA
*
39018731 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
39018759 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
39018787 ATACCCCTA
1 ATACCCCTA
39018796 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:39018942 original size:28 final size:28
Alignment explanation
Indices: 39018911--39018991 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 28
39018901 CTGGTAGCTA
*
39018911 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAATTATCTGTTCTGGTGGCAC
*
39018939 TGCCACAAATTATCTGTTTTGGTGGCAC
1 TGCCACAAATTATCTGTTCTGGTGGCAC
** *
39018967 TGTTACAAAATATCTGTATCTGGTG
1 TGCCACAAATTATCTGT-TCTGGTG
39018992 ACTCTGTCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 40 0.87
29 6 0.13
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (28 bp):
TGCCACAAATTATCTGTTCTGGTGGCAC
Found at i:39018998 original size:29 final size:28
Alignment explanation
Indices: 39018914--39019002 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 28
39018904 GTAGCTATGC
* *
39018914 CACAAATTATCTGTTCTGGTGGCCCTGC
1 CACAAATTATCTGTTCTGGTGGCACTGT
*
39018942 CACAAATTATCTGTTTTGGTGGCACTGT
1 CACAAATTATCTGTTCTGGTGGCACTGT
* * * *
39018970 TACAAAATATCTGTATCTGGTGACTCTGT
1 CACAAATTATCTGT-TCTGGTGGCACTGT
39018999 CACA
1 CACA
39019003 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
28 37 0.73
29 14 0.27
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (28 bp):
CACAAATTATCTGTTCTGGTGGCACTGT
Found at i:39019484 original size:18 final size:18
Alignment explanation
Indices: 39019445--39019485 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
39019435 TAATAAGGCC
* *
39019445 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
39019463 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
39019481 TTTTA
1 TTTTA
39019486 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:39021569 original size:26 final size:26
Alignment explanation
Indices: 39021539--39021618 Score: 112
Period size: 26 Copynumber: 3.2 Consensus size: 26
39021529 TGAAATTCCC
39021539 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
39021565 ATCATGGTAA-A--TGCCTAACCCATT
1 ATCATGG-AACATTTACCTAACCCATT
*
39021589 ATCATGGAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAACCCATT
39021615 ATCA
1 ATCA
39021619 ATTTGTATCA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
23 2 0.04
24 20 0.43
26 23 0.49
27 2 0.04
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:39023775 original size:27 final size:28
Alignment explanation
Indices: 39023730--39023803 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 28
39023720 GAATATCCAA
*
39023730 CCCAAACACACTCGGAATAAT-ATAAATCCT
1 CCCAAACACAC-C--AATAATAATAAAGCCT
*
39023760 -CCATAACACACCAAT-ATAATATAGCCT
1 CCCA-AACACACCAATAATAATAAAGCCT
39023787 CCCAAACACACCAATAA
1 CCCAAACACACCAATAA
39023804 GGCATTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
26 2 0.05
27 21 0.55
28 4 0.11
29 4 0.11
30 7 0.18
ACGTcount: A:0.46, C:0.32, G:0.04, T:0.18
Consensus pattern (28 bp):
CCCAAACACACCAATAATAATAAAGCCT
Found at i:39029915 original size:26 final size:26
Alignment explanation
Indices: 39029877--39029931 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
39029867 CATGAAATTC
39029877 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
39029903 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
39029929 TTA
1 TTA
39029932 CAATTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:39030452 original size:106 final size:106
Alignment explanation
Indices: 39030267--39030462 Score: 365
Period size: 106 Copynumber: 1.8 Consensus size: 106
39030257 GGGCGTTACA
* *
39030267 AATGTTTTGGCTGAAAATGATATTTTTAGATTTCACGATTTCAAAAGCTAGGATTAAATTTCTGA
1 AATGTTTTGGCTGAAAATGATATTTTTAGATTTCACGATTCCAAAAGCTAGGATTAAACTTCTGA
39030332 GTTTTTAAAACAAACTAATGTAATTTCCAAAATAACATGTC
66 GTTTTTAAAACAAACTAATGTAATTTCCAAAATAACATGTC
*
39030373 AATGTTTTGGCTGAAAATGATATTTTTAGATTTCATGATTCCAAAAGCTAGGATTAAACTTCTGA
1 AATGTTTTGGCTGAAAATGATATTTTTAGATTTCACGATTCCAAAAGCTAGGATTAAACTTCTGA
39030438 GTTTTTAAAACAAACTAATGTAATT
66 GTTTTTAAAACAAACTAATGTAATT
39030463 CCTCCGGATT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 87 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (106 bp):
AATGTTTTGGCTGAAAATGATATTTTTAGATTTCACGATTCCAAAAGCTAGGATTAAACTTCTGA
GTTTTTAAAACAAACTAATGTAATTTCCAAAATAACATGTC
Found at i:39031605 original size:24 final size:24
Alignment explanation
Indices: 39031554--39031611 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
39031544 AATAAATTTC
*
39031554 AATATATATTTATTTAAAAAATTC
1 AATATATATTTATTTAAAAAATTA
* *
39031578 AATATATATTTATTT-TAATATATA
1 AATATATATTTATTTAAAAAAT-TA
39031602 AATATATATT
1 AATATATATT
39031612 CCCCTCATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
AATATATATTTATTTAAAAAATTA
Found at i:39034574 original size:24 final size:23
Alignment explanation
Indices: 39034547--39034614 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 23
39034537 TTTTTTGGGG
39034547 GGGTTAGGTTTTTCTTTTTCTTTT
1 GGGTTAGGTTTTTCTTTTT-TTTT
39034571 GGGTTAGGTTTTTTCTTCTTTTTTT
1 GGGTTAGG-TTTTTCTT-TTTTTTT
39034596 -GGTTAGGTTTTT-TTTTTTT
1 GGGTTAGGTTTTTCTTTTTTT
39034615 GGGGAGGGCT
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.12
22 2 0.05
23 5 0.12
24 15 0.36
25 12 0.29
26 3 0.07
ACGTcount: A:0.04, C:0.06, G:0.21, T:0.69
Consensus pattern (23 bp):
GGGTTAGGTTTTTCTTTTTTTTT
Found at i:39035362 original size:30 final size:30
Alignment explanation
Indices: 39035326--39035386 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
39035316 TTTGAAAAAT
39035326 AGAAATT-AAAAGACTCAACTCAACTCTCGC
1 AGAAATTAAAAAG-CTCAACTCAACTCTCGC
*
39035356 AGAAATTAAAAAGCTCAACTCACCTCTCGC
1 AGAAATTAAAAAGCTCAACTCAACTCTCGC
39035386 A
1 A
39035387 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.20
Consensus pattern (30 bp):
AGAAATTAAAAAGCTCAACTCAACTCTCGC
Found at i:39035469 original size:79 final size:79
Alignment explanation
Indices: 39035368--39035732 Score: 287
Period size: 79 Copynumber: 4.5 Consensus size: 79
39035358 AAATTAAAAA
*
39035368 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAAAAAAGAAATTGAAAATAGCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAAAAAAGAAATTGAAAATACCTCA
*
39035433 GCACGTGAGCTAAG
66 GCACGTGAGCCAAG
* *
39035447 GCTCAACTCACTTCTCGCAATATGAGTT-AA-TTTTTGAAAACAGAATCTGAAAAATAGATTTTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTG-AAA-A-AA----AAAGA-A-A--TTG
* * *
39035510 AAAATACCTC-GACATGTGACCCGAG
55 AAAATACCTCAG-CACGTGAGCCAAG
* * * * *
39035535 GCTCAACTCACATCTCGCAATGTAAGTT-AATTTTTTTG--AAAAATATAAATTGAAAAAATACC
1 GCTCAACTCACCTCTCGCAATATGAGTTGAA-TTTTTTGAAAAAAAAAGAAATTG--AAAATACC
**** * * *
39035597 TCAATGTGTGATCTAAA
63 TCAGCACGTGAGCCAAG
** * * * *
39035614 GCTCAACTCACCTCTTACAATATGAGTTGATTTTTTTG--AAAGACAGAAATTGAAAATAGCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAAAAAAGAAATTGAAAATACCTCA
*
39035677 GCGCGTGAGCCAAG
66 GCACGTGAGCCAAG
*
39035691 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTTTGAAA
39035733 GGCAGAAATT
Statistics
Matches: 228, Mismatches: 37, Indels: 41
0.75 0.12 0.13
Matches are distributed among these distances:
77 55 0.24
78 13 0.06
79 87 0.38
80 5 0.02
81 3 0.01
84 4 0.02
85 3 0.01
86 2 0.01
87 2 0.01
88 48 0.21
90 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (79 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAAAAAAGAAATTGAAAATACCTCA
GCACGTGAGCCAAG
Found at i:39035500 original size:88 final size:88
Alignment explanation
Indices: 39035408--39035569 Score: 209
Period size: 88 Copynumber: 1.8 Consensus size: 88
39035398 ATTTTTTGAA
* * * * *
39035408 AAAAAAAGAAATTGAAAATAGCTC-AGCACGTGAGCTAAGGCTCAACTCACTTCTCGCAATATGA
1 AAAAAAAGAAATTGAAAATACCTCGA-CACGTGACCCAAGGCTCAACTCACATCTCGCAATATAA
39035472 GTTAATTTTTGAAAACAGAATCTG
65 GTTAATTTTTGAAAACAGAATCTG
* ** * * *
39035496 AAAAATAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTAAG
1 AAAAAAAGAAATTGAAAATACCTCGACACGTGACCCAAGGCTCAACTCACATCTCGCAATATAAG
39035561 TTAATTTTT
66 TTAATTTTT
39035570 TTGAAAAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
88 61 0.98
89 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (88 bp):
AAAAAAAGAAATTGAAAATACCTCGACACGTGACCCAAGGCTCAACTCACATCTCGCAATATAAG
TTAATTTTTGAAAACAGAATCTG
Found at i:39035746 original size:14 final size:14
Alignment explanation
Indices: 39035735--39035761 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39035725 TTTTGAAAGG
39035735 CAGAAATTGAAAAA
1 CAGAAATTGAAAAA
39035749 CAGAAATTGAAAA
1 CAGAAATTGAAAA
39035762 TACCTTGGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
CAGAAATTGAAAAA
Found at i:39035758 original size:92 final size:90
Alignment explanation
Indices: 39035649--39035836 Score: 245
Period size: 92 Copynumber: 2.1 Consensus size: 90
39035639 GTTGATTTTT
* * *
39035649 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGA-CCTAAGGCTCAACTCACCTCTCACAATA
*
39035713 TGAGTTGATTTTTTTTGA-AAGGCAGAAA
65 CGAGTTGA-TTTTTTTGACAA--CAGAAA
** * * *
39035741 TTGAAAAACAGAAATTGAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGACCTAAGGCTCAACTCACCTCTCACAATAC
39035806 GAGTTGATTTTTTTGACAACAGAAA
66 GAGTTGATTTTTTTGACAACAGAAA
39035831 TTGAAA
1 TTGAAA
39035837 TTACCTCAGC
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
90 12 0.14
91 11 0.13
92 62 0.73
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (90 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGACCTAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTGACAACAGAAA
Found at i:39035878 original size:74 final size:76
Alignment explanation
Indices: 39035745--39035913 Score: 243
Period size: 76 Copynumber: 2.2 Consensus size: 76
39035735 CAGAAATTGA
** *
39035745 AAAACAGAAATTGAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCTCTCACAATACGAGT
39035810 TGA-TTTTTTTG
65 TGATTTTTTTTG
* * * *
39035821 ACAACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCACAATACGAGTT
39035885 GATTTTTTTTG
66 GATTTTTTTTG
39035896 AAAGACAGAAATTGAAAA
1 AAA-ACAGAAATTGAAAA
39035914 ACGGAAATTG
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
74 33 0.40
75 10 0.12
76 39 0.48
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (76 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCACAATACGAGTT
GATTTTTTTTG
Found at i:39035888 original size:166 final size:164
Alignment explanation
Indices: 39035570--39038184 Score: 705
Period size: 147 Copynumber: 16.9 Consensus size: 164
39035560 GTTAATTTTT
* * ** * * * **
39035570 TTGAAAAATATAAATTGAAAAAATACCTCAATGTGTGATCTAAAGCTCAACTCACCTCTTACAAT
1 TTGAAAAACAGAAATTG--AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAAT
* * * *
39035635 ATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACT
64 ATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAATTACCTCA--GCGTG-TCCTGAGGCTCAACT
*
39035699 CACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAA
124 CACCTCTCGCAATATGAGTTGATTTTTTTTGAAA-ACAGAAA
** * * *
39035741 TTGAAAAACAGAAATTGAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
*
39035806 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
66 GAGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
39035871 TCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAA
130 TCGCAATATGAGTTGATTTTTTTTGAAA-ACAGAAA
* * *
39035907 TTGAAAAACGGAAATTGAAAATACCT-TGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAG-CGTGTGACCTGAGGCTCAACTCACCTCTCGCAATA
* * * * *
39035971 CGAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAGATTGAAAATACCTCGGCGTGACCTGA
65 TGAGTTGA---TTT--------T--T--TGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGA
* * * * *
39036036 GGCTCAACTCACCTCTTGCAATATGAGCTGA--TTCTTTCAAAACATAATA
115 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAA-A
* * *
39036085 ATG-AAGACAGAAATTGAAAATACCTC-G-GCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * * *
39036147 GAGCTGA--TTTTGAAAA-AG---TAGAAATTA----A---------AAGGTTCAACCCACCTCT
66 GAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
*
39036193 CGCAATATGAGTTGA-T--TCTTGACAAACAGAAA
131 CGCAATATGAGTTGATTTTTTTTGA-AAACAGAAA
*
39036225 TTG------AG--A-T-----TACCTCATCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * *
39036274 GA----A----TTG-----A-AAA---AAA-TACCACAGTGTGTAATCTGAAGCTCAACTCACCT
66 GAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCT
39036321 CTCGCAATATGAGTTGA--TTTTTT----A-A-AAA
129 CTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAA
*
39036349 ---AAAAACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
* * * **
39036410 TAAGTTGATTTTTTTTTTG-AAACAGAAATTGAAAATACCTCAACGTGTATTGAGGCTCAACTCA
65 TGAGTTGA----TTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA
** * *
39036474 TTTCTCGCAATATAAGTTGA---ATTTTGAAAACAGAAA
126 CCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAA
*
39036510 TT--------GAAA-T-----TACCTCAGCGTGT--CCTGAGGCTCAACCCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
** *
39036559 GAGTTGATTTTTTTTACGAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCC
66 GAGTTGA----TTTT-----------TTGAA-AACAGAAATTGAAATTACCTCAGC--GTG-TCC
*
39036624 -GAGGCTCAACTCACCTCTCGCAATATGAGTT-A--ATTTTTG---AC-----
112 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAA
* *
39036665 -----AAACAGAAATTGAAATTACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * *
39036723 GAGTCGATTTTTGAAAACAGAAATTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCC-AA
66 GAGTTGA-TTTT-----------TTGAAAA-CAGAAATTGAAATTACCTCAGCGTGT---CCTGA
* * *
39036787 GGCTCAACTCACCTCTTGCAATATGAGCT-A--ATTTTT-------G--A
115 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAA
* *
39036825 -TG---AACATAAATT-AAAACCACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAA-TACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATA
* * *
39036883 TGAGTTGA-TTTTTGACAAACAAAAATTGAAATTACCTCAGC--GTCTTGAGGCTCAACTCACTT
65 TGAGTTGATTTTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
*
39036945 CTCGCAATATGAGTTGATTTTTTTTG-AAACATAAA
129 CTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAA
*
39036980 TT-AAAAAAACGAAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACA-G-AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAAT
** * * * *
39037042 ATGAGTTGA--AATT-AAAACACAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACC
64 ATGAGTTGATTTTTTGAAAACA-GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
* * *
39037104 TCTTGCAATATGAGCTGA----TTTTGAAAAAGTAGAAA
128 TCTCGCAATATGAGTTGATTTTTTTTG-AAAA-CAGAAA
* ** ** * ** * * * *** *
39037139 TTAAAAGGTTCAACCCACCTCTCGTAATATGAGTTGATTC-T-TGACAAACAGAAATTGCAA-TT
1 TTGAAA-----AACAGAAAT-T-G-AAAAT-ACCTCA-GCGTGTGAC---CTGAGGCT-CAACTC
** * * **** * *** * * ** ** *
39037201 ACCTCATCG-TGTCCTGAG--GCTCAACTCACCTCTCGCAATATG-AATTGAAAAAATACCACAT
52 ACCTC-TCGCAAT-ATGAGTTGATTTTTTGAAAAC-AGAAAT-TGAAATT----ACCT-CAGCGT
* ** * *
39037262 GT-GTGA-TTTGAAGCTCAACTCACCTTTCGCAATATGAGTTGA---TTTTTGAAAACAGAAA
108 GTCCTGAGGCTCAA-CTC-----ACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAA
*
39037320 TT--------GAAA-T-----TACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * * **
39037369 GAGTTGATTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTT
66 GAGTTGA-TTTTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
*
39037434 CTCGCAATATGAGTTGA---ATTTTGAAAACAGAAA
129 CTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAA
* *
39037467 TT--------GAAA-T-----TACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCACAGTAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * * * **
39037516 GAGTTGATTTTTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
66 GAGTTGA-TTTTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
***
39037581 CTCGCAATATGAGTT-A--AAATTTGAAAACAGAAA
129 CTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAA
*
39037614 TT--------GAAA-T-----TACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * * *
39037663 GAGTTGA-TTTTTGAAAATAGAAACTGAAATTACCTCAGTGTCTCCCGAGGCTCAACTCACCTCT
66 GAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
39037727 CGCAATATGAGTTGA-TTTTTTT---AAC-----
131 CGCAATATGAGTTGATTTTTTTTGAAAACAGAAA
* * *
39037752 ------AACAGAAATTGAAATTACCTCAGCGTGT--CTTGAGGCTCAACTCACCTCTCGCAGTAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * * * * **
39037809 GAGTTGATTTTTTTGAAAGACAAAAATTAAAAATACATCAACGTGTCTTGAGGCTCAACTCATTT
66 GAGTTGA-TTTTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
*
39037874 CTCGCAATATGAGTTGA---ATTTTGAAAACAGAAA
129 CTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAA
* *
39037907 TT--------GAAA-T-----TACCTTAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * *
39037956 GAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTCCCGAGGATCAACTCAGCTCT
66 GAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
39038020 CGCAATATGAGTTGA-TTTTTTTG---AC-----
131 CGCAATATGAGTTGATTTTTTTTGAAAACAGAAA
*
39038045 ------AACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
** * * * * *
39038102 GAGTTGA--AATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTC
66 GAGTTGATTTTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
* *
39038165 TTGCAATATGAGCTGATTTT
130 TCGCAATATGAGTTGATTTT
39038185 GAAAAAGTAA
Statistics
Matches: 1928, Mismatches: 276, Indels: 504
0.71 0.10 0.19
Matches are distributed among these distances:
115 2 0.00
116 3 0.00
117 1 0.00
119 1 0.00
121 3 0.00
123 1 0.00
124 3 0.00
125 1 0.00
126 1 0.00
127 39 0.02
129 4 0.00
130 30 0.02
131 3 0.00
132 1 0.00
133 1 0.00
135 13 0.01
137 27 0.01
138 2 0.00
140 14 0.01
141 38 0.02
143 6 0.00
144 128 0.07
145 25 0.01
146 162 0.08
147 279 0.14
148 72 0.04
149 56 0.03
150 15 0.01
151 6 0.00
152 9 0.00
153 18 0.01
154 21 0.01
155 9 0.00
156 48 0.02
157 14 0.01
158 50 0.03
159 21 0.01
160 98 0.05
161 160 0.08
162 2 0.00
163 38 0.02
164 47 0.02
165 6 0.00
166 129 0.07
167 4 0.00
168 25 0.01
169 55 0.03
170 2 0.00
171 26 0.01
172 13 0.01
173 8 0.00
174 2 0.00
175 38 0.02
176 4 0.00
177 33 0.02
178 16 0.01
180 61 0.03
181 7 0.00
182 22 0.01
183 5 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (164 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTTTGAAAACAGAAA
Found at i:39035894 original size:244 final size:243
Alignment explanation
Indices: 39035365--39035913 Score: 687
Period size: 244 Copynumber: 2.2 Consensus size: 243
39035355 CAGAAATTAA
* * *
39035365 AAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAAAAAAGAAATTGAAAATAGC
1 AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG--AAAGACAGAAATTGAAAATAGC
* *
39035430 TCAGCACGTGAGCTAAGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTTGAAAACAGAATCT
64 TCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAACAGAATCT
* ** * **
39035495 GAAAAATAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTAA
129 GAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCACAATACAA
* * *
39035560 GTTAATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAATGTGTGATCT
194 GTTAATTTTTTTGAAAAACAGAAATTG-AAAAATACCTCAATGCGTGATCT
**
39035611 AAAGCTCAACTCACCTCTTACAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTC
1 AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTC
* * *
39035676 AGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAA
66 AGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTT-A--ATTTTTGAAA-ACAG-AA
* * * * * *
39035741 T-TGAAAAACAGAAATTGAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATA
126 TCTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCACAATA
* * * *
39035805 CGAGTTGATTTTTTTG-ACAACAGAAATTG-AAATTACCTC-A-GCGTG-TCCT
191 CAAGTTAATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAATGCGTGAT-CT
* *
39035854 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAA
1 AAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAATTGAAAA
39035914 ACGGAAATTG
Statistics
Matches: 263, Mismatches: 33, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
242 1 0.00
243 35 0.13
244 89 0.34
245 10 0.04
246 38 0.14
247 19 0.07
248 68 0.26
249 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (243 bp):
AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTC
AGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAACAGAATCTGA
AAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCACAATACAAGT
TAATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAATGCGTGATCT
Found at i:39035912 original size:14 final size:14
Alignment explanation
Indices: 39035893--39035927 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
39035883 TTGATTTTTT
*
39035893 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
39035907 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
39035921 TTGAAAA
1 TTGAAAA
39035928 TACCTTGACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:39036119 original size:87 final size:87
Alignment explanation
Indices: 39035823--39036155 Score: 443
Period size: 87 Copynumber: 3.8 Consensus size: 87
39035813 TTTTTTTGAC
* * * *
39035823 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-
* * * *
39035888 TTTTTTTGAAAGACAGAA-ATTGAAA
65 -TTCTTTCAAA-ACATAATAATG-AA
* * * * * *
39035913 AACGGAAATTGAAAATACCTTGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTG
1 AACAGAAATTGAAAATACCTCG--GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
39035978 ATTCTTTCAAAAACATAATAATGAA
64 ATTCTTTC-AAAACATAATAATGAA
* *
39036003 AACAGAGATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTTGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
39036068 TCTTTCAAAACATAATAATGAA
66 TCTTTCAAAACATAATAATGAA
*
39036090 GACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
39036155 T
66 T
39036156 TTGAAAAAGT
Statistics
Matches: 216, Mismatches: 23, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
87 79 0.37
88 44 0.20
90 49 0.23
91 6 0.03
92 38 0.18
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (87 bp):
AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TCTTTCAAAACATAATAATGAA
Found at i:39036490 original size:76 final size:76
Alignment explanation
Indices: 39036303--39036589 Score: 298
Period size: 72 Copynumber: 3.8 Consensus size: 76
39036293 AGTGTGTAAT
* * *****
39036303 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTT--TTTTGAAACAGAAATTGAAAAT
* *
39036368 ACCTCAGCATGTGAA
64 ACCTCA--ACGTGTA
*
39036383 CCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAACAGAAATTGAAAATAC
39036448 CTCAACGTGTA
66 CTCAACGTGTA
* ** * *
39036459 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-----ATTTTGAAAACAGAAATTGAAATTA
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTG-AAACAGAAATTGAAAATA
* *
39036519 CCTCAGCGTGTC
65 CCTCAACGTGTA
* * **
39036531 CTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTTACG-AACAGAAATTGAA
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAACAGAAATTGAA
39036590 GAACAGAAAT
Statistics
Matches: 175, Mismatches: 26, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
71 5 0.03
72 57 0.33
75 13 0.07
76 36 0.21
77 3 0.02
78 23 0.13
80 38 0.22
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (76 bp):
CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAACAGAAATTGAAAATAC
CTCAACGTGTA
Found at i:39036536 original size:72 final size:72
Alignment explanation
Indices: 39036303--39036752 Score: 287
Period size: 72 Copynumber: 5.8 Consensus size: 72
39036293 AGTGTGTAAT
* * *
39036303 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTT-----GAAAACAGAAATTGAAAAT
*
39036368 ACCTCAGCATGTGAAC
60 ACCTCAGC--GTG-TC
39036384 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTG-AAACAGAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-----TTTTTGAAAACAGAAATTGAAAATA
* *
39036447 CCTCAACGTGTA
61 CCTCAGCGTGTC
* ** * *
39036459 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCA
39036524 GCGTGTC
66 GCGTGTC
* * * *
39036531 CTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAATTGAAGAACAG
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA--TTTTTGA-AAACAGAAATTG-A-AA-A-
* ** * *
39036596 AAATTGAAAAGACCTCAG-C
59 TACCT---CAG-CGT--GTC
* * * * *
39036615 ATGTGAGC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAA
1 CTGAG-GCTC-A-ACTC-----ACCTCTCGCAATATAAGTTGATTTTTGA-AAACAGAAATTGAA
*
39036679 ATTACCTCAGCGTGTC
57 AATACCTCAGCGTGTC
* * *
39036695 CCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAACAGAAATTGAAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAACAGAAATTGAAAA
39036753 CCAGAAATTG
Statistics
Matches: 293, Mismatches: 47, Indels: 67
0.72 0.12 0.16
Matches are distributed among these distances:
71 5 0.02
72 72 0.25
73 26 0.09
74 5 0.02
75 11 0.04
76 35 0.12
77 2 0.01
78 27 0.09
79 6 0.02
80 35 0.12
81 3 0.01
82 4 0.01
83 2 0.01
84 11 0.04
85 6 0.02
86 2 0.01
87 2 0.01
88 1 0.00
89 18 0.06
91 20 0.07
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (72 bp):
CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTC
Found at i:39036595 original size:14 final size:14
Alignment explanation
Indices: 39036576--39036603 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39036566 TTTTTTTTAC
39036576 GAACAGAAATTGAA
1 GAACAGAAATTGAA
39036590 GAACAGAAATTGAA
1 GAACAGAAATTGAA
39036604 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:39036611 original size:89 final size:87
Alignment explanation
Indices: 39036497--39036679 Score: 244
Period size: 89 Copynumber: 2.1 Consensus size: 87
39036487 AAGTTGAATT
** *
39036497 TTGAAAACAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAACCCACCTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCC-GAGGCTCAACCCACCTCTCGCAATATG
* * *
39036560 AGTTGATTTTTTTTACGAACAGAAA
65 AGTT-A-ATTTTTGACAAACAGAAA
*
39036585 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAA-AACAGAAATTGAAAAGACCTCAGCA-GTGAGCCGAGGCTCAACCCACCTCTCGCAATAT
39036650 GAGTTAATTTTTGACAAACAGAAA
64 GAGTTAATTTTTGACAAACAGAAA
39036674 TTGAAA
1 TTGAAA
39036680 TTACCTCAGC
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
88 6 0.07
89 42 0.50
90 1 0.01
91 33 0.39
92 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (87 bp):
TTGAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCCGAGGCTCAACCCACCTCTCGCAATATGA
GTTAATTTTTGACAAACAGAAA
Found at i:39036716 original size:73 final size:73
Alignment explanation
Indices: 39036585--39036752 Score: 248
Period size: 73 Copynumber: 2.3 Consensus size: 73
39036575 CGAACAGAAA
*
39036585 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAA-AACAGAAATTGAAAAGACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
39036650 GAGTTAATTT
64 GAGTCAATTT
** *
39036660 TTGACAAACAGAAATTGAAATTACCTCAGC-GTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGA-AAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
39036724 AGTCGATTT
65 AGTCAATTT
39036733 TTGAAAACAGAAATTGAAAA
1 TTGAAAACAGAAATTGAAAA
39036753 CCAGAAATTG
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
72 15 0.18
73 43 0.51
75 26 0.31
76 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
GTCAATTT
Found at i:39036741 original size:236 final size:227
Alignment explanation
Indices: 39036303--39038815 Score: 762
Period size: 218 Copynumber: 11.5 Consensus size: 227
39036293 AGTGTGTAAT
* *
39036303 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAAT
1 CTGAAGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAAG
* ***
39036368 ACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAC
66 ACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TATTTTTGACAAAC
** ** *
39036433 AGAAATTGAAAATACCTCAACGTGTATTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTT
130 AGAAATTGAAAATACCTCAACGTGTACCGAGGCTCAACTCACCTCTCGCAATATAAGTCGAATTT
39036498 TGAAAACAGAAATTGAAATTACCTCAGCGTGTC
195 TGAAAACAGAAATTGAAATTACCTCAGCGTGTC
*
39036531 CTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAATTGAAGAACAG
1 CTGAAGCTCAACCCACCTCTCGCAATATGAGTTGA--TTTTTT---AA-A-AAA---AA-AACAG
* *
39036596 AAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-ATT
55 AAATTGAAAAGACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATT
* * * *
39036659 TTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
120 TTTGACAAACAGAAATTGAAAATACCTCAACGTGTACCGAGGCTCAACTCACCTCTCGCAATATA
*
39036724 AGTCGATTTTTGAAAACAGAAATTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGC
185 AGTCGAATTTTGAAAACAGAAATT--------GAAA-T-----TACCTCAGCGTGT---C
* * * * * ** *
39036784 C--AAGGCTCAACTCACCTCTTGCAATATGAGCT-AATTTTT----GATGAACATAAATT-AAAA
1 CTGAA-GCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAA
* * *
39036841 CCACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG--ATTTTTGACAA
65 -GACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTTGACAA
* * * * * * * *
39036901 ACAAAAATTGAAATTACCTCAGCGTCT--TGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
128 ACAGAAATTGAAAATACCTCAACGTGTACCGAGGCTCAACTCACCTCTCGCAATATAAGTCGA--
* * *
39036964 TTTTTTGAAACATAAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTC
191 -ATTTTG------------AAAACA-G-AAATTGAAATTACCTCAGCGTGTC
* * ** * *
39037016 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA------AATTAAAACACA-AAATTGAAAAT
1 CTGAAGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAAG
** * * *
39037074 ACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTG--A-TTTTGA-AAA-A
66 ACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTTGACAAACA
* * * * * *
39037132 G---TAG-AAAT---T-AA-----A---AGGTTCAACCCACCTCTCGTAATATGAGTTG-ATTCT
131 GAAATTGAAAATACCTCAACGTGTACCGAGGCTCAACTCACCTCTCGCAATATAAGTCGAATT-T
* *
39037180 TGACAAACAGAAATTGCAATTACCTCATCGTGTC
195 TGA-AAACAGAAATTGAAATTACCTCAGCGTGTC
* * * * ** * *
39037214 CTGAGGCTCAACTCACCTCTCGCAATATGAATTGA------AAAAATACCACATGTGTGATTTGA
1 CTGAAGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACA---G-AAATTGA
*** * * * ** * * * * * * * * *
39037273 AGCTCAACTCA-CCTTTCGCAATATGA-G-T----TGA-TTTTTGAAAACAGAAATTGA-A--AT
62 A-AAGACCTCAGCATGT-G-AA-CCGAGGCTCAACTCACCTCTCG-CAATATAAGTTGATATTTT
** ** **** ** * *** * * * * *
39037327 T-AC-CTCAG-CGTGTCCCGA-GGCTCAAC-T-CACC-TCTCGCAATATGA-GT-T-G--AT-TT
122 TGACAAACAGAAAT-TGAAAATACCTCAACGTGTACCGAGGCTCAA-CTCACCTCTCGCAATATA
** * ***** ** *
39037379 TTTTGAAAAACAAAAATTGAAA---A---TACCTCAGCATGTC
185 AGTCGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
* * * ** * * **
39037416 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTT-----GAAAACAGAAATTGAAATT
1 CTGAAGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAAG
* * * * *
39037475 ACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCACAGTATGAGTTGATTTTTTTGA-AAGA
66 ACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTTGACAA-A
* * * ** * ** *
39037536 CAAAAATTAAAAATACCTCAACGTGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTAAAA
129 CAGAAATTGAAAATACCTCAACGTGTAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTCGAAT
39037600 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
193 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
* * * * * * *
39037635 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAAACTGAAATT------
1 CTGAAGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAAG
*** * * *
39037694 ACCTCAG--TGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAC-AACA
66 ACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTTGACAAACA
* * * * * * *
39037756 GAAATTGAAATTACCTCAGCGTGT-CTTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTT
131 GAAATTGAAAATACCTCAACGTGTAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTCGA--AT
* * * * *
39037820 TTTGAAAGACAAAAATTAAAAATACATCAACGTGTC
193 TTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTC
* * * ** * * **
39037856 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTT-----GAAAACAGAAATTGAAATT
1 CTGAAGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAAG
* ** *
39037915 ACCTTAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG--ATTTTTGA-AAACA
66 ACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTTGACAAACA
* * * * * * * * *
39037975 GAAATTGAAATTACCTCAGCGTCTCCCGAGGATCAACTCAGCTCTCGCAATATGAGTTGATTTTT
131 GAAATTGAAAATACCTCAACGTGTACCGAGGCTCAACTCACCTCTCGCAATATAAGTCGA--ATT
*
39038040 TTGACAACAGAAATTGAAATTACCTCAGCGTGTC
194 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
* * ** * * *
39038074 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA------AATTAAAACACAAAAATTGAAAAT
1 CTGAAGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAAG
** * * *
39038133 ACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTG--A-TTTTGA-AAA-A
66 ACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTTGACAAACA
* * * * * *
39038191 G----T-AAAA-A--TTAA-----A-AG--GTTCAACCCACCTCTCGCAATATGAGTTG-ATTCT
131 GAAATTGAAAATACCTCAACGTGTACCGAGGCTCAACTCACCTCTCGCAATATAAGTCGAATT-T
*
39038239 TGACAAACAGAAATTGAAATTACCTCATCGTGTC
195 TGA-AAACAGAAATTGAAATTACCTCAGCGTGTC
* * * ****** *
39038273 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGTTTTGAAAACAGAAATTGAAAAT
1 CTGAAGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAAG
* * * **
39038338 ACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-A-TTTTGA-AAAC
66 ACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTTGACAAAC
* *
39038397 AGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGC-A-AT-A-T-GAA--
130 AGAAATTGAAAATACCTCAACGTGTACC-GAGGCTCAACTCACCTCTCGCAATATAAGTCGAATT
* * *
39038454 TT-------GAAA---AAA-TACCACAGTGTGTAAT
194 TTGAAAACAGAAATTGAAATTACCTCAGCGTGT--C
* * *** *
39038479 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTT--TTTAAAAACAGAAATTGAAAAT
1 CTGAAGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAAG
*
39038542 ACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGA-AAA
66 ACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA--TATTTTTGACAAA
* * ** * *
39038606 CAGAAATTGAAAATACCTCAAGGTGT-CTTGAGGCTCAACTCATTTCTCGCAATACAAGTTGAAT
129 CAGAAATTGAAAATACCTCAACGTGTAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTCGAAT
*
39038670 TTTGAAAACAGAAATTGAAATCACCTCAGCGTGTC
193 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
* * ** * ** * **
39038705 CTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTT---TTAACAACAGAAATTGAAATT
1 CTGAAGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAAG
* * *
39038767 ACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
66 ACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGAT
39038816 TTTGAAAAAC
Statistics
Matches: 1765, Mismatches: 305, Indels: 437
0.70 0.12 0.17
Matches are distributed among these distances:
193 2 0.00
194 1 0.00
195 2 0.00
196 1 0.00
197 8 0.00
198 74 0.04
199 74 0.04
200 32 0.02
201 5 0.00
202 62 0.04
203 9 0.01
204 48 0.03
205 65 0.04
206 88 0.05
207 6 0.00
208 21 0.01
209 8 0.00
210 59 0.03
211 8 0.00
212 9 0.01
213 17 0.01
214 32 0.02
215 16 0.01
216 5 0.00
217 11 0.01
218 170 0.10
219 168 0.10
220 18 0.01
221 103 0.06
222 3 0.00
223 50 0.03
224 7 0.00
225 39 0.02
226 36 0.02
227 3 0.00
228 44 0.02
229 3 0.00
230 12 0.01
231 47 0.03
232 43 0.02
233 30 0.02
234 73 0.04
235 26 0.01
236 95 0.05
238 3 0.00
239 61 0.03
240 1 0.00
241 4 0.00
244 4 0.00
245 1 0.00
247 5 0.00
248 1 0.00
249 10 0.01
250 13 0.01
251 2 0.00
252 25 0.01
253 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (227 bp):
CTGAAGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAACAGAAATTGAAAAG
ACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTTGACAAACA
GAAATTGAAAATACCTCAACGTGTACCGAGGCTCAACTCACCTCTCGCAATATAAGTCGAATTTT
GAAAACAGAAATTGAAATTACCTCAGCGTGTC
Found at i:39036751 original size:13 final size:14
Alignment explanation
Indices: 39036733--39036766 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
39036723 GAGTCGATTT
39036733 TTGAAAA-CAGAAA
1 TTGAAAACCAGAAA
39036746 TTGAAAACCAGAAA
1 TTGAAAACCAGAAA
39036760 TTGAAAA
1 TTGAAAA
39036767 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (14 bp):
TTGAAAACCAGAAA
Found at i:39036811 original size:161 final size:160
Alignment explanation
Indices: 39036429--39038184 Score: 866
Period size: 147 Copynumber: 11.9 Consensus size: 160
39036419 TTTTTTTTTG
* ** ** *
39036429 AAACAGAAATTGAAAATACCTCAACGTGT-A-TTGAGGCTCAACTCATTTCTCGCAATATAAGTT
1 AAACAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
39036492 GAA-TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACCCACCTCTCGCAA
66 -AATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
* *
39036556 TATGAGTTGATTTTTTTTACGAACAGAAATTGA
130 TATGAGTTGA--TTTTTGACAAACAGAAATTGA
* *
39036589 AGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 A-AACAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
39036654 TAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
65 TAATTTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
*
39036719 ATATGAGTCGATTTTTGA-AAACAGAAATTGA
129 ATATGAGTTGATTTTTGACAAACAGAAATTGA
* * *
39036750 AAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGC
1 AAA-CAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * **
39036815 TAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
65 TAATTTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
39036880 ATATGAGTTGATTTTTGACAAAC---------
129 ATATGAGTTGATTTTTGACAAACAGAAATTGA
* * * *
39036903 --A-A-AAATTGAAATTACCTCAGCGTCT----TGAGGCTCAACTCACTTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
39036960 GATTTTTTTTGAAACATAAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTC
66 -A--ATTTTTG------------AAAACA-G-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTC
**
39037025 AACTCACCTCTCGCAATATGAGTTGA-AATT-A-AAAC---------
114 AACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGA
** * *
39037060 --ACA-AAATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCT
1 AAACAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * * *
39037120 GA-TTTTGAAAA-AG---TAGAAATTA----A---------AAGGTTCAACCCACCTCTCGTAAT
66 AATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
*
39037167 ATGAGTTGATTCTTGACAAACAGAAATTG-
131 ATGAGTTGATTTTTGACAAACAGAAATTGA
*
39037196 ---C---AA-T-----TACCTCATCGTGT---CCTGAGGCTCAACTCACCTCTCGCAATAT--G-
1 AAACAGAAATTGAAAATACCTCAGCGTGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * *
39037243 -AA---TT-------GAAA---AAA-TACCACATGTGTGAT-TTGAAGCTCAACTCACCTTTCGC
65 TAATTTTTGAAAACAGAAATTGAAATTACCTCA-GCGTG-TCCTGAGGCTCAACTCACCTCTCGC
39037292 AATATGAGTTGATTTTTGA-AAACAGAAATT--
128 AATATGAGTTGATTTTTGACAAACAGAAATTGA
*
39037322 -----GAAA-T-----TACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * * **
39037374 GATTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGC
66 -A-ATTTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
*
39037439 AATATGAGTTGAATTTTGA-AAACAGAAATT--
128 AATATGAGTTGATTTTTGACAAACAGAAATTGA
* *
39037469 -----GAAA-T-----TACCTCAGCGTGT---CCTGAGGCTCAACTCACCTCTCACAGTATGAGT
1 AAACAGAAATTGAAAATACCTCAGCGTGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * * * **
39037520 TGATTTTTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
65 T-A-ATTTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
*
39037585 CAATATGA---G----TT-----A-A-AATTTGA
127 CAATATGAGTTGATTTTTGACAAACAGAAATTGA
* *
39037605 AAACAGAAATTGAAATTACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * * *
39037668 GATTTTTGAAAATAGAAACTGAAATTACCTCAGTGTCTCCCGAGGCTCAACTCACCTCTCGCAAT
66 AATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
39037733 ATGAGTTGATTTTT------------TT-A
131 ATGAGTTGATTTTTGACAAACAGAAATTGA
* * *
39037750 ACAACAGAAATTGAAATTACCTCAGCGTGT---CTTGAGGCTCAACTCACCTCTCGCAGTATGAG
1 A-AACAGAAATTGAAAATACCTCAGCGTGTGAGC-CGAGGCTCAACTCACCTCTCGCAATATGAG
* * * * * * * **
39037812 TTGATTTTTTTGAAAGACAAAAATTAAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTC
64 TT-A-ATTTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
39037877 GCAATATGAGTTGAATTTTGA-AAACAGAAATT--
126 GCAATATGAGTTGATTTTTGACAAACAGAAATTGA
* *
39037909 -----GAAA-T-----TACCTTAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * *
39037961 GATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTCCCGAGGATCAACTCAGCTCTCGCAAT
66 AATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
39038026 ATGAGTTGATTTTT------------TTGA
131 ATGAGTTGATTTTTGACAAACAGAAATTGA
* *
39038044 CAACAGAAATTGAAATTACCTCAGCGTGT---CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAACAGAAATTGAAAATACCTCAGCGTGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * * * *
39038106 TGAA--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGC
65 T-AATTTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
*
39038169 AATATGAGCTGATTTT
128 AATATGAGTTGATTTT
39038185 GAAAAAGTAA
Statistics
Matches: 1307, Mismatches: 148, Indels: 296
0.75 0.08 0.17
Matches are distributed among these distances:
114 2 0.00
115 4 0.00
118 1 0.00
121 2 0.00
123 1 0.00
125 30 0.02
126 4 0.00
127 86 0.07
128 39 0.03
129 3 0.00
132 2 0.00
133 4 0.00
134 5 0.00
135 2 0.00
136 3 0.00
138 7 0.01
140 6 0.00
141 5 0.00
142 2 0.00
143 1 0.00
144 137 0.10
145 29 0.02
146 168 0.13
147 258 0.20
148 39 0.03
149 55 0.04
151 3 0.00
152 1 0.00
153 4 0.00
156 6 0.00
157 5 0.00
158 23 0.02
159 3 0.00
160 89 0.07
161 169 0.13
162 13 0.01
163 34 0.03
164 62 0.05
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (160 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
AATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTGACAAACAGAAATTGA
Found at i:39036821 original size:88 final size:87
Alignment explanation
Indices: 39036660--39036843 Score: 241
Period size: 88 Copynumber: 2.1 Consensus size: 87
39036650 GAGTTAATTT
* *
39036660 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGA-AAACCAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATG
*
39036724 AGTCGATTTTTGA-AAACAGAAA
65 AGTCAATTTTTGATAAACAGAAA
* *
39036746 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGT--CCCAAGGCTCAACTCACCTCTCGCAATAT
* *
39036811 GAG-CTAATTTTTGATGAACATAAA
64 GAGTC-AATTTTTGATAAACAGAAA
39036835 TT-AAAACCA
1 TTGAAAACCA
39036844 CCTCAGCGTG
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
85 3 0.03
86 29 0.34
87 1 0.01
88 44 0.51
89 9 0.10
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (87 bp):
TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGA
GTCAATTTTTGATAAACAGAAA
Found at i:39036881 original size:73 final size:71
Alignment explanation
Indices: 39036786--39036985 Score: 256
Period size: 73 Copynumber: 2.8 Consensus size: 71
39036776 GTGTGAGCCA
* * *
39036786 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATGAACATAAATTAAAACCACCTCAGC
39036851 GTGTCCTG
66 --GTCCTG
** * * **
39036859 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATGAACATAAATTAAAACCACCTCAGC
*
39036924 GTCTTG
66 GTCCTG
* **
39036930 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATG-AACATAAATTAAAA
39036986 AAACGAAAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
71 41 0.38
72 12 0.11
73 56 0.51
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATGAACATAAATTAAAACCACCTCAGC
GTCCTG
Found at i:39037095 original size:71 final size:73
Alignment explanation
Indices: 39036977--39037117 Score: 232
Period size: 71 Copynumber: 2.0 Consensus size: 73
39036967 TTTGAAACAT
* *
39036977 AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
39037042 ATGAGTTG
66 ATGAGTTG
* *
39037050 AAATT-AAAACAC-AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
39037113 ATGAG
66 ATGAG
39037118 CTGATTTTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 53 0.83
72 6 0.09
73 5 0.08
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (73 bp):
AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTG
Found at i:39037364 original size:72 final size:72
Alignment explanation
Indices: 39037274--39038189 Score: 1197
Period size: 72 Copynumber: 12.6 Consensus size: 72
39037264 GTGATTTGAA
*
39037274 GCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
39037339 TCCCGAG
66 TCCCGAG
* *
39037346 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAACAGAAATTGAAATTACCTCAGC
* **
39037411 ATGTCTTGAG
63 GTGTCCCGAG
** *
39037421 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
39037486 TCCTGAG
66 TCCCGAG
* * * * * *
39037493 GCTCAACTCACCTCTCACAGTATGAGTTGATTTTTTTGAAAGACAAAAATTAAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACCTCAGC
**
39037558 GTGTCTTGAG
63 GTGTCCCGAG
** * **
39037568 GCTCAACTCATTTCTCGCAATATGAGTTAAAATTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
39037633 TCCCGAG
66 TCCCGAG
* * * *
39037640 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAAACTGAAATTACCTCAGTGTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
39037705 TCCCGAG
66 TCCCGAG
*
39037712 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA-AACAGAAATTGAAATTACCTCAGCG
**
39037777 TGTCTTGAG
64 TGTCCCGAG
* * * * * *
39037786 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAGACAAAAATTAAAAATACATCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACCTCAGC
**
39037851 GTGTCTTGAG
63 GTGTCCCGAG
** * *
39037861 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTTAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
39037926 TCCCGAG
66 TCCCGAG
*
39037933 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
39037998 TCCCGAG
66 TCCCGAG
* * *
39038005 GATCAACTCAGCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAATTACCTCAGCG
*
39038070 TGTCCTGAG
64 TGTCCCGAG
** * * *
39038079 GCTCAACTCACCTCTCGCAATATGAGTTGA-AATTAAAACACAAAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ACAGAAATTGAAATTACCTCAGCGT
*
39038143 GCCCCGAG
65 GTCCCGAG
* *
39038151 GCTCAACTCACCTCTTGCAATATGAGCTGA-TTTTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
39038190 AGTAAAAATT
Statistics
Matches: 735, Mismatches: 96, Indels: 27
0.86 0.11 0.03
Matches are distributed among these distances:
71 5 0.01
72 389 0.53
73 27 0.04
74 139 0.19
75 175 0.24
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
TCCCGAG
Found at i:39037541 original size:147 final size:144
Alignment explanation
Indices: 39037269--39038189 Score: 1229
Period size: 147 Copynumber: 6.3 Consensus size: 144
39037259 CATGTGTGAT
* *
39037269 TTGAAGCTCAACTCACCTT-TCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTC
1 TTGAGGCTCAACTCA-CTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTC
39037333 AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTG
65 AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAACAAAAATTG
*
39037398 AAAATACCTCAGCATGTC
127 AAAATACCTCAGCGTGTC
*
39037416 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 TTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
* * * *
39037481 GCGTGTCCTGAGGCTCAACTCACCTCTCACAGTATGAGTTGATTTTTTTGAAAGACAAAAATTAA
66 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAAAAATTGA
*
39037546 AAATACCTCAACGTGTC
128 AAATACCTCAGCGTGTC
* * *
39037563 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTAAAATTTGAAAACAGAAATTGAAATTACCTCA
1 TTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
* * * *
39037628 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAAACTGAAAT
66 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAAA
* *
39037693 TACCTCAGTGTCTC
131 TACCTCAGCGTGTC
** * * *
39037707 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCT
1 TTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-ATTTTGAA-AACAGAAATTGAAATTACCT
** *
39037772 CAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAGACAAAAATT
64 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAAAAATT
* * *
39037837 AAAAATACATCAACGTGTC
126 GAAAATACCTCAGCGTGTC
* *
39037856 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTTA
1 TTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
* *
39037921 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAT
66 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAAA
*
39037986 TACCTCAGCGTCTC
131 TACCTCAGCGTGTC
** * * *
39038000 CCGAGGATCAACTCAGC-TCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACC
1 TTGAGGCTCAACTCA-CTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACC
* ** *
39038064 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATTAAAACACAAAAATTG
63 TCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ACAAAAATTG
*
39038128 AAAATACCTCAGCGTGCC
127 AAAATACCTCAGCGTGTC
** * * *
39038146 CCGAGGCTCAACTCACCTCTTGCAATATGAGCTG-ATTTTGAAAA
1 TTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAA
39038190 AGTAAAAATT
Statistics
Matches: 684, Mismatches: 78, Indels: 28
0.87 0.10 0.04
Matches are distributed among these distances:
143 8 0.01
144 102 0.15
145 29 0.04
146 187 0.27
147 293 0.43
148 15 0.02
149 50 0.07
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (144 bp):
TTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAAA
TACCTCAGCGTGTC
Found at i:39037853 original size:293 final size:287
Alignment explanation
Indices: 39037269--39038832 Score: 1637
Period size: 293 Copynumber: 5.4 Consensus size: 287
39037259 CATGTGTGAT
* * *
39037269 TTGAAGCTCAACTCACCTT-TCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTC
1 TTGAGGCTCAACTCA-TTTCTCGCAATATGAGTT-AATTTTGAAAACAGAAATTGAAATTACCTC
*
39037333 AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTG
64 AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAACAGAAATTG
* * ** * *
39037398 AAAATACCTCAGCATGTCT--TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAA
126 AAATTACCTCAG--TGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAA
* * *
39037460 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAGTATGAGTTGATT
189 ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
39037525 TTTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTC
252 -TTTTGAAA-ACAAAAATTAAAAATACCTCAACGTGTC
*
39037563 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTAAAATTTGAAAACAGAAATTGAAATTACCTCA
1 TTGAGGCTCAACTCATTTCTCGCAATATGAGTT-AATTTTGAAAACAGAAATTGAAATTACCTCA
* *
39037628 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAAACTGAAAT
65 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAT
39037693 TACCTCAGTGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGA
130 TACCTCAGTGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAA-AACAGA
* * *
39037758 AATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTT
194 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT
*
39037823 GAAAGACAAAAATTAAAAATACATCAACGTGTC
256 GAAA-ACAAAAATTAAAAATACCTCAACGTGTC
*
39037856 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTTA
1 TTGAGGCTCAACTCATTTCTCGCAATATGAGTT-AATTTTGAAAACAGAAATTGAAATTACCTCA
39037921 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAT
65 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAT
* * * *
39037986 TACCTCAGCGTCTCCCGAGGATCAACTCAGCTCTCGCAATATGAGTTGATTTTTTTGACAACAGA
130 TACCTCAGTGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAACAGA
* ** *
39038051 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
194 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAA
* * *
39038116 ACACAAAAATTGAAAATACCTCAGCGTGCC
259 A-ACAAAAATTAAAAATACCTCAACGTGTC
** ** * * * *
39038146 CCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAA-AGTAA---AAATTA----A-
1 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTAATTTTGAAAACAGAAATTGAAATTACCTCAG
* * * *
39038202 --------AAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAAT
66 CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAAT
* * *
39038259 TACCTCA-TCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGTTTTGAAA
130 TACCTCAGT-GTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT-TTTT-AAA
* * ** *
39038323 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAAT
189 ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-AT
* * * *
39038388 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
253 TTTGAAAACAAAAATTAAAAATACCTCAACGTGTC
* ** *
39038423 CTGAGGCTCAACTCACCTCTCGCAATAT--G--AA--TT-------GAAA---AAA-TACCACAG
1 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTAATTTTGAAAACAGAAATTGAAATTACCTCAG
* * * * * *
39038471 TGTGTAATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTTAAAAACAGAAATT
66 CGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAACAGAAATT
* *** *
39038536 GAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTT
125 GAAATTACCTCAG--TGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTT
* ** **
39038601 GAAAACAGAAATTGAAAATACCTCAAG-GTGTCTTGAGGCTCAACTCATTTCTCGCAATACAAGT
186 -AAAACAGAAATTGAAAATACCTC-AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
39038665 TGAATTTTGAAAACAGAAATT-GAAATCACCTCAGCGTGTC
249 TG-ATTTTGAAAACAAAAATTAAAAAT-ACCTCAACGTGTC
* * * *
39038705 CTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 TTGAGGCTCAACTCATTTCTCGCAATATGAGTT-A--ATTTTGAA-AACAGAAATTGAAATTACC
* * *
39038770 TCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATT
62 TCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATT
39038833 AAAAGGCTTA
Statistics
Matches: 1113, Mismatches: 98, Indels: 115
0.84 0.07 0.09
Matches are distributed among these distances:
264 2 0.00
265 6 0.01
268 1 0.00
271 2 0.00
272 36 0.03
273 59 0.05
275 1 0.00
276 3 0.00
277 114 0.10
278 6 0.01
279 28 0.03
281 4 0.00
282 145 0.13
283 11 0.01
284 38 0.03
285 7 0.01
287 1 0.00
288 4 0.00
289 15 0.01
290 56 0.05
291 54 0.05
292 12 0.01
293 343 0.31
294 100 0.09
296 4 0.00
297 11 0.01
299 4 0.00
301 32 0.03
302 3 0.00
303 11 0.01
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (287 bp):
TTGAGGCTCAACTCATTTCTCGCAATATGAGTTAATTTTGAAAACAGAAATTGAAATTACCTCAG
CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATT
ACCTCAGTGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAA
TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA
CAAAAATTAAAAATACCTCAACGTGTC
Found at i:39038232 original size:126 final size:127
Alignment explanation
Indices: 39038081--39038311 Score: 331
Period size: 127 Copynumber: 1.8 Consensus size: 127
39038071 GTCCTGAGGC
*
39038081 TCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTGAAAATACCTCAGCGTG
1 TCAACCCACCTCTCGCAATATGAGTTGATAATTGAAAA-ACAAAAATTGAAAATACCTCAGCGTG
* *
39038144 CCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGTAAAAATTAAAAGGT
65 CCCCGAGGCTCAACTCACCTCTCGCAATATAAGCTGATTTTGAAAAAGTAAAAATTAAAAGGT
** * * * * *
39038207 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
1 TCAACCCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
* *
39038272 CCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
66 CCCGAGGCTCAACTCACCTCTCGCAATATAAGCTGATTTT
39038312 TTGTTTTGAA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
126 27 0.30
127 61 0.67
128 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (127 bp):
TCAACCCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
CCCGAGGCTCAACTCACCTCTCGCAATATAAGCTGATTTTGAAAAAGTAAAAATTAAAAGGT
Found at i:39038428 original size:72 final size:72
Alignment explanation
Indices: 39038207--39038832 Score: 466
Period size: 72 Copynumber: 8.6 Consensus size: 72
39038197 ATTAAAAGGT
* * *
39038207 TCAACCCACCTCTCGCAATATGAGTTG-ATTCTTGACAAACAGAAATTGAAATTACCTCATCGTG
1 TCAACTCACCTCTCGCAATATAAGTTGAATT-TTGA-AAACAGAAATTGAAATTACCTCAGCGTG
39038271 TCCTGAGGC
64 TCCTGAGGC
* * *
39038280 TCAACTCACCTCTCGCAATATAAGTTGATTTTTTGTTTTGAAAACAGAAATTGAAAATACCTCAA
1 TCAACTCACCTCTCGCAATATAAGTTGA------ATTTTGAAAACAGAAATTGAAATTACCTCAG
*
39038345 CGTGTCTTGAGGC
60 CGTGTCCTGAGGC
**
39038358 TCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
1 TCAACTCACCTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
39038423 CTGAGGC
66 CTGAGGC
* * * * *
39038430 TCAACTCACCTCTCGCAATATGAA-TTGAA----AAAATACCA-CAGTGTGTAA-T--CTGAAGC
1 TCAACTCACCTCTCGCAATAT-AAGTTGAATTTTGAAA-A-CAGAAAT-TGAAATTACCT-CAGC
*** * *
39038486 -TCAACTCA-CC
61 GTGTCCTGAGGC
* * * * * *** * *
39038496 TC-TCGCA-ATAT-G-AGT-TAA-TTTTTTTTTAAAAACAGAAATTGAAAATACCTCAGCATGTG
1 TCAACTCACCTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGC--GTG
*
39038555 AACC-GAGGC
64 -TCCTGAGGC
* *
39038564 TCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATACCTCAAG-
1 TCAACTCACCTCTCGCAATATAAGTTGA----ATTTTGAAAACAGAAATTGAAATTACCTC-AGC
*
39038628 GTGTCTTGAGGC
61 GTGTCCTGAGGC
** * *
39038640 TCAACTCATTTCTCGCAATACAAGTTGAATTTTGAAAACAGAAATTGAAATCACCTCAGCGTGTC
1 TCAACTCACCTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
39038705 CTGAGGC
66 CTGAGGC
** * * * *
39038712 TCAACTCATTTCTTGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATAAGTTGA--ATTTTGAA-AACAGAAATTGAAATTACCTCAGCGT
39038777 GTCCTGAGGC
63 GTCCTGAGGC
* * *
39038787 TCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT
1 TCAACTCACCTCTCGCAATATAAGTTGAATTTTG-AAAACAGAAATT
39038833 AAAAGGCTTA
Statistics
Matches: 442, Mismatches: 69, Indels: 85
0.74 0.12 0.14
Matches are distributed among these distances:
60 4 0.01
61 1 0.00
62 8 0.02
63 5 0.01
64 9 0.02
65 5 0.01
66 3 0.01
67 8 0.02
68 11 0.02
69 7 0.02
70 8 0.02
71 3 0.01
72 141 0.32
73 32 0.07
74 8 0.02
75 60 0.14
76 33 0.07
78 88 0.20
79 6 0.01
80 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
CTGAGGC
Found at i:39038519 original size:206 final size:206
Alignment explanation
Indices: 39038273--39038659 Score: 548
Period size: 206 Copynumber: 1.9 Consensus size: 206
39038263 TCATCGTGTC
* * *
39038273 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGTTTTGAAAACAGAAATTGAAAAT
1 CTGAAGCTCAACTCACCTCTCGCAATATAAGTT-AATTTTT-TTTTAAAAACAGAAATTGAAAAT
* * **
39038338 ACCTCA-ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAAACAGA
64 ACCTCACACGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAGA
*
39038400 AATTGAAATTACCTC-AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAAAAAAT
128 AATTGAAAATACCTCAAG-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAAAAAAT
39038464 ACCACAGTGTGTAAT
192 ACCACAGTGTGTAAT
*
39038479 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTTAAAAACAGAAATTGAAAATAC
1 CTGAAGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTTTTTAAAAACAGAAATTGAAAATAC
* *
39038544 CTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAG
66 CTCA-CACGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA---TATTTTGAAAACAG
* **
39038609 AAATTGAAAATACCTCAAGGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
127 AAATTGAAAATACCTCAAGGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
39038660 CAAGTTGAAT
Statistics
Matches: 159, Mismatches: 14, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
204 28 0.18
205 6 0.04
206 66 0.42
207 1 0.01
210 56 0.35
211 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (206 bp):
CTGAAGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTTTTTAAAAACAGAAATTGAAAATAC
CTCACACGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAGAAAT
TGAAAATACCTCAAGGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAAAAAATACCA
CAGTGTGTAAT
Found at i:39038567 original size:78 final size:76
Alignment explanation
Indices: 39038479--39038818 Score: 417
Period size: 75 Copynumber: 4.5 Consensus size: 76
39038469 AGTGTGTAAT
* *
39038479 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTTAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
*
39038544 CTCAGCATGTGAAC
66 CTCAGC--GTG-TC
* *
39038558 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
39038622 CTCAAG-GTGTC
66 CTC-AGCGTGTC
* ** ** * *
39038633 TTGAGGCTCAACTCATTTCTCGCAATACAAGTTGA----ATTTTGAAAACAGAAATTG-AAATCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAAT-A
39038693 CCTCAGCGTGTC
65 CCTCAGCGTGTC
** * * *
39038705 CTGAGGCTCAACTCATTTCTTGCAATATGAGTTGA-TTTTTTTTAACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
39038769 CTCAGCGTGTC
66 CTCAGCGTGTC
*
39038780 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
39038819 GAAAAACAAA
Statistics
Matches: 231, Mismatches: 21, Indels: 21
0.85 0.08 0.08
Matches are distributed among these distances:
71 6 0.03
72 59 0.26
75 62 0.27
76 39 0.17
78 62 0.27
79 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (76 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
CTCAGCGTGTC
Found at i:39038642 original size:282 final size:268
Alignment explanation
Indices: 39037931--39038739 Score: 1000
Period size: 282 Copynumber: 2.9 Consensus size: 268
39037921 GCGTGTCCCG
*
39037931 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAATTACCTCAGC
** * * * *
39037995 GTCTCCCGAGGATCAACTCAGCTCTCGCAATATGAGTTGA--TTTTTTTGACAACAGAAATTGAA
66 GT-GACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAA
* * ** * * *
39038058 ATTACCTC-AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-ATTAAAACACA
130 AATACCTCAAG-GTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAA-ACA
* * * *
39038121 AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTG
193 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGA----A--TTG
*
39038186 AAAAAGTAAAAATTAAA
252 AAAAAATAAAAATTAAA
* * * * * *
39038203 AGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAATTACCTCAGC
*
39038268 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGTTTTGAAAACAGAAATTG
66 GTGACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTT-TTTTGAAAACAGAAATTG
*
39038333 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACA
128 AAAATACCTCAAGGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACA
*
39038398 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAAAAAA
193 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAATTGAAAAAA
**
39038463 TACCACAGTGTGTAATCTGA
258 TA--A-A-AAT-TAA----A
* *
39038483 A-GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTTAAAAACAGAAATTGAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTAAAAACAGAAATTGAAATTACCTC
39038547 AGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAA
63 AGC--GTG-ACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAA
*
39038612 TTGAAAATACCTCAAGGTGTCTTGAGGCTCAACTCATTTCTCGCAATACAAGTTGAATTTTGAAA
125 TTGAAAATACCTCAAGGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAA
* ** *
39038677 ACAGAAATTGAAATCACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTTGCAATATGAGTTGA
190 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAATTGA
39038740 TTTTTTTTAA
Statistics
Matches: 469, Mismatches: 45, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
271 10 0.02
272 32 0.07
273 61 0.13
274 1 0.00
275 1 0.00
276 6 0.01
277 116 0.25
278 6 0.01
279 27 0.06
280 2 0.00
282 164 0.35
283 5 0.01
284 36 0.08
285 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (268 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAATTACCTCAGC
GTGACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAA
ATACCTCAAGGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAA
ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAATTGAAAAAATAA
AAATTAAA
Found at i:39038779 original size:147 final size:148
Alignment explanation
Indices: 39038519--39038836 Score: 398
Period size: 147 Copynumber: 2.1 Consensus size: 148
39038509 GTTAATTTTT
*
39038519 TTTTAAAAACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATA
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATA
* *
39038584 TAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATACCTCAAGGTGTCTTGAGGCTCAACTCAT
65 TAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATACCTCAAGGTGTCCTGAGGCTCAACTCAC
* *
39038649 TTCTCGCAATACAAGTTGAA
130 CTCTAGCAATACAAGTTG-A
* ** *
39038669 TTTTGAAAACAGAAATTG-AAATCACCTCAGC-GTG-TCCTGAGGCTCAACTCATTTCTTGCAAT
1 TTTTGAAAACAGAAATTGAAAAT-ACCTCAGCAGTGAACC-GAGGCTCAACTCACCTCTCGCAAT
* *
39038731 ATGAGTTGA-TTTTTTTT-AACAACAGAAATTGAAATTACCTC-AGCGTGTCCTGAGGCTCAACT
64 ATAAGTTGATTTTTTTTTGAA-AACAGAAATTGAAAATACCTCAAG-GTGTCCTGAGGCTCAACT
**
39038793 CACCTCTAGCAATATGAGTTGA
127 CACCTCTAGCAATACAAGTTGA
*
39038815 TTTTGAAAAACAAAAATT-AAAA
1 TTTTG-AAAACAGAAATTGAAAA
39038837 GGCTTAACTC
Statistics
Matches: 148, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
146 10 0.07
147 77 0.52
148 32 0.22
149 4 0.03
150 25 0.17
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (148 bp):
TTTTGAAAACAGAAATTGAAAATACCTCAGCAGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
AAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATACCTCAAGGTGTCCTGAGGCTCAACTCACC
TCTAGCAATACAAGTTGA
Found at i:39038805 original size:75 final size:74
Alignment explanation
Indices: 39038479--39038818 Score: 411
Period size: 78 Copynumber: 4.5 Consensus size: 74
39038469 AGTGTGTAAT
* *
39038479 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTTAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTT-AAAACAGAAATTGAAAATAC
*
39038544 CTCAGCATGTGAAC
64 CTCAGC--GTG-TC
*
39038558 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTT-AAAACAGAAATTGAAAATAC
39038622 CTCAAG-GTGTC
64 CTC-AGCGTGTC
* ** ** * *
39038633 TTGAGGCTCAACTCATTTCTCGCAATACAAGTTGA--ATTTTGAAAACAGAAATTG-AAATCACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAAAT-ACC
39038695 TCAGCGTGTC
65 TCAGCGTGTC
** * *
39038705 CTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAA-AACAGAAATTGAAAATACC
39038770 TCAGCGTGTC
65 TCAGCGTGTC
*
39038780 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
39038819 GAAAAACAAA
Statistics
Matches: 232, Mismatches: 21, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
71 6 0.03
72 54 0.23
73 4 0.02
74 6 0.03
75 61 0.26
76 36 0.16
78 62 0.27
79 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:39038983 original size:70 final size:70
Alignment explanation
Indices: 39038836--39039010 Score: 212
Period size: 70 Copynumber: 2.5 Consensus size: 70
39038826 AAAAATTAAA
* * * * * **
39038836 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
39038900 CCCCG
66 CCCCG
*
39038905 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
39038969 GTCTTG
65 GCCCCG
39038975 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
39039011 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
69 27 0.29
70 61 0.66
71 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:39047345 original size:12 final size:12
Alignment explanation
Indices: 39047325--39047360 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
39047315 TCGGATATGC
*
39047325 AATGTATGAATG
1 AATGCATGAATG
39047337 AATGCATGAATG
1 AATGCATGAATG
39047349 AATGCATGAATG
1 AATGCATGAATG
39047361 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:39049017 original size:27 final size:28
Alignment explanation
Indices: 39048969--39049022 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
39048959 TAAAATAGGA
* *
39048969 AAAATAATATATTTGGTAATAATAATAT
1 AAAATAATATATATGGTAATAAAAATAT
39048997 AAAATAATA-ATAT-GTACATAAAAATA
1 AAAATAATATATATGGTA-ATAAAAATA
39049023 CATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.13
27 11 0.48
28 9 0.39
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (28 bp):
AAAATAATATATATGGTAATAAAAATAT
Found at i:39049923 original size:25 final size:25
Alignment explanation
Indices: 39049861--39049922 Score: 101
Period size: 24 Copynumber: 2.6 Consensus size: 25
39049851 TTTTTTGGGG
39049861 GGGTTAGG-TTTTTCTTTTTCTTTT
1 GGGTTAGGTTTTTTCTTTTTCTTTT
39049885 GGGTTAGGTTTTTTCTTTTT-TTTT
1 GGGTTAGGTTTTTTCTTTTTCTTTT
*
39049909 TGGTTAGGTTTTTT
1 GGGTTAGGTTTTTT
39049923 TTGGGGGGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
24 25 0.69
25 11 0.31
ACGTcount: A:0.05, C:0.05, G:0.23, T:0.68
Consensus pattern (25 bp):
GGGTTAGGTTTTTTCTTTTTCTTTT
Found at i:39051910 original size:37 final size:37
Alignment explanation
Indices: 39051869--39051957 Score: 169
Period size: 37 Copynumber: 2.4 Consensus size: 37
39051859 ATTTATTTAA
39051869 AAAATTCAATATATACATGCATTAATTTACATTCTAT
1 AAAATTCAATATATACATGCATTAATTTACATTCTAT
39051906 AAAATTCAATATATACATGCATTAATTTACATTCTAT
1 AAAATTCAATATATACATGCATTAATTTACATTCTAT
*
39051943 AAATTTCAATATATA
1 AAAATTCAATATATA
39051958 TTTATTTAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (37 bp):
AAAATTCAATATATACATGCATTAATTTACATTCTAT
Found at i:39062300 original size:20 final size:21
Alignment explanation
Indices: 39062271--39062311 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
39062261 ACACCTTCAA
39062271 TTTTCCCTTTTTC-TTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
*
39062291 TTTTCTCTTTTTCTTTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
39062312 CTTCCCCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTCCCTTTTTCTTTCTTTC
Found at i:39062753 original size:19 final size:21
Alignment explanation
Indices: 39062707--39062753 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
39062697 TATAATAAAT
* *
39062707 TAATTTAATATCATTTATTAC
1 TAATTAAATATCATATATTAC
39062728 TAA-TAAATAT-ATATATTA-
1 TAATTAAATATCATATATTAC
39062746 TAATTAAA
1 TAATTAAA
39062754 ATCTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 11 0.48
20 6 0.26
21 3 0.13
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATTAAATATCATATATTAC
Found at i:39063151 original size:128 final size:127
Alignment explanation
Indices: 39062923--39063178 Score: 329
Period size: 128 Copynumber: 2.0 Consensus size: 127
39062913 AAATTCACTT
* * *
39062923 AATTAAACTCTAATTAACCACTCAATTAACTTTTAAATATTTTTGATAAATATTTACGGATCCAT
1 AATTAAACTCTAATTAACCACTCAATTAACTTGTAAATATTTTTAATAAATATTTACGAATCCAT
* * * * *
39062988 TTTTTTAGTAACATAGACTTGAAAATACACTTTTTCGATAACCG-TAAAATTCGGGTTATTACA
66 TTTTATAG-AACAGAGACTCGAAAATACACTTTTTCAAT-ACCGATAAAATTCGGGTCATTACA
* *
39063051 AATTAAACTCTAATTAACCACTCATTTTACTTCGTAAATATTTTTAATAAATATTTACGAATCCA
1 AATTAAACTCTAATTAACCACTCAATTAACTT-GTAAATATTTTTAATAAATATTTACGAATCCA
* * *
39063116 TTTTTCATA-AACAGAGA-TCCGAAATTACATTTTTTCAATATCGATAAAATTCGGGTCATTACA
65 TTTTT-ATAGAACAGAGACT-CGAAAATACACTTTTTCAATACCGATAAAATTCGGGTCATTACA
39063179 TATTTTCACT
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
127 4 0.04
128 71 0.64
129 34 0.31
130 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (127 bp):
AATTAAACTCTAATTAACCACTCAATTAACTTGTAAATATTTTTAATAAATATTTACGAATCCAT
TTTTATAGAACAGAGACTCGAAAATACACTTTTTCAATACCGATAAAATTCGGGTCATTACA
Found at i:39064502 original size:30 final size:29
Alignment explanation
Indices: 39064418--39064560 Score: 128
Period size: 30 Copynumber: 4.9 Consensus size: 29
39064408 AAAAAATTAT
*
39064418 ATTTTGACCCCTAAACTTTTTGTAAATTAC
1 ATTTTGACCCCTAAACTTTTT-TAAATTTC
*
39064448 ATTTTAACCCCTAAACTTTTTTTAAATTTC
1 ATTTTGACCCCTAAAC-TTTTTTAAATTTC
* *
39064478 ATTTTGACCCCTAGACTTTATTTAAACTTC
1 ATTTTGACCCCTAAACTTT-TTTAAATTTC
* ** ** *
39064508 AATTCAACCCCTAAACTGTCCTTAAATTAC
1 ATTTTGACCCCTAAACT-TTTTTAAATTTC
* *
39064538 AATTTGA-CCTTAAA-TTTTTTAAA
1 ATTTTGACCCCTAAACTTTTTTAAA
39064561 AATTACACTT
Statistics
Matches: 92, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
27 6 0.07
28 1 0.01
29 9 0.10
30 70 0.76
31 6 0.07
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (29 bp):
ATTTTGACCCCTAAACTTTTTTAAATTTC
Found at i:39064533 original size:60 final size:60
Alignment explanation
Indices: 39064411--39064546 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 60
39064401 AAAATAAAAA
* * * * **
39064411 AAATTATATTTTGACCCCTAAACTTTTTGTAAATTACATTTTAACCCCTAAACTTTTTTT
1 AAATTACATTTTGACCCCTAAACTTTTTGTAAATTACAATTCAACCCCTAAACTGTCCTT
* *
39064471 AAATTTCATTTTGACCCCTAGACTTTATT-TAAACTT-CAATTCAACCCCTAAACTGTCCTT
1 AAATTACATTTTGACCCCTAAACTTT-TTGTAAA-TTACAATTCAACCCCTAAACTGTCCTT
*
39064531 AAATTACAATTTGACC
1 AAATTACATTTTGACC
39064547 TTAAATTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
60 60 0.94
61 4 0.06
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.41
Consensus pattern (60 bp):
AAATTACATTTTGACCCCTAAACTTTTTGTAAATTACAATTCAACCCCTAAACTGTCCTT
Found at i:39065204 original size:37 final size:37
Alignment explanation
Indices: 39065150--39065227 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
39065140 GTTAGTGAGA
* * *
39065150 TGGGGTAGTTTGTGTTGGGTTTGAAATATTGAGTTAG
1 TGGGGTAGTCTGTGTTGGGCTTGAAATATTAAGTTAG
* * *
39065187 TGGGTTAGTCTGTGTTGGGCTTGGATTATTAAGTTAG
1 TGGGGTAGTCTGTGTTGGGCTTGAAATATTAAGTTAG
39065224 TGGG
1 TGGG
39065228 CTGGGGTTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.17, C:0.03, G:0.38, T:0.42
Consensus pattern (37 bp):
TGGGGTAGTCTGTGTTGGGCTTGAAATATTAAGTTAG
Found at i:39065603 original size:14 final size:15
Alignment explanation
Indices: 39065579--39065607 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39065569 TATATCATGT
39065579 ATATATATATTTTTA
1 ATATATATATTTTTA
39065594 ATAT-TATATTTTTA
1 ATATATATATTTTTA
39065608 TGTACCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATATATATTTTTA
Found at i:39065700 original size:26 final size:27
Alignment explanation
Indices: 39065642--39065702 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
39065632 TATCACATTA
39065642 TTCATACATTTTATTATATGAGTATAT
1 TTCATACATTTTATTATATGAGTATAT
*
39065669 AT-ATAC-TTTTA-TATAT-AGTATTATT
1 TTCATACATTTTATTATATGAGTA-TA-T
39065694 TTCATACAT
1 TTCATACAT
39065703 CATTATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 4 0.14
24 7 0.25
25 7 0.25
26 8 0.29
27 2 0.07
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.52
Consensus pattern (27 bp):
TTCATACATTTTATTATATGAGTATAT
Found at i:39065773 original size:22 final size:22
Alignment explanation
Indices: 39065746--39065813 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
39065736 TATTATCATT
39065746 TATTTTAATATTATTATGTATA
1 TATTTTAATATTATTATGTATA
* *
39065768 TATTTTAACATTACTA-GTTATA
1 TATTTTAATATTATTATG-TATA
* *
39065790 TATTTTTACTA-TCTTATGTATA
1 TA-TTTTAATATTATTATGTATA
39065812 TA
1 TA
39065814 CTTCAAACAC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 29 0.78
23 7 0.19
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (22 bp):
TATTTTAATATTATTATGTATA
Found at i:39069817 original size:100 final size:100
Alignment explanation
Indices: 39069644--39069847 Score: 408
Period size: 100 Copynumber: 2.0 Consensus size: 100
39069634 TGATGCCGAT
39069644 TATTATCATGAAATATTATGCTTTGTGGTTATTGTTGAATAATATGTAATTATGTGAATTACTTG
1 TATTATCATGAAATATTATGCTTTGTGGTTATTGTTGAATAATATGTAATTATGTGAATTACTTG
39069709 ATGAGTATGAACTATCACCGAAGTATCGATTTCGA
66 ATGAGTATGAACTATCACCGAAGTATCGATTTCGA
39069744 TATTATCATGAAATATTATGCTTTGTGGTTATTGTTGAATAATATGTAATTATGTGAATTACTTG
1 TATTATCATGAAATATTATGCTTTGTGGTTATTGTTGAATAATATGTAATTATGTGAATTACTTG
39069809 ATGAGTATGAACTATCACCGAAGTATCGATTTCGA
66 ATGAGTATGAACTATCACCGAAGTATCGATTTCGA
39069844 TATT
1 TATT
39069848 CTGTGGAAGA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 104 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (100 bp):
TATTATCATGAAATATTATGCTTTGTGGTTATTGTTGAATAATATGTAATTATGTGAATTACTTG
ATGAGTATGAACTATCACCGAAGTATCGATTTCGA
Found at i:39069998 original size:46 final size:46
Alignment explanation
Indices: 39069945--39070123 Score: 220
Period size: 46 Copynumber: 3.9 Consensus size: 46
39069935 GGATATTTGG
39069945 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *
39069991 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA
*
39070037 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* ** * *
39070084 ACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39070124 GCGGGTTACA
Statistics
Matches: 115, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 70 0.61
47 33 0.29
48 2 0.02
50 4 0.03
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:39070103 original size:93 final size:93
Alignment explanation
Indices: 39069944--39070116 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
39069934 GGGATATTTG
* *
39069944 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCATCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
39070009 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
39070037 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
39070102 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
39070117 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:39072514 original size:4 final size:4
Alignment explanation
Indices: 39072507--39072535 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
39072497 CATTTATTTG
39072507 TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
39072536 GCATATCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:39080019 original size:44 final size:44
Alignment explanation
Indices: 39079951--39080068 Score: 175
Period size: 44 Copynumber: 2.7 Consensus size: 44
39079941 TTATGCCTAA
* *
39079951 AAAAAAGATCAAGGTGAAATCCCGAAAAGGGCGTCTTGGTTAAC
1 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAAC
39079995 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAAC
1 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAAC
* * *
39080039 ACAAAAGAT-TAGGATAAAAACCCGAAAAGG
1 AAAAAAGATCAAGG-TGAAAACCCGAAAAGG
39080069 CTTTCTAATG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
43 3 0.04
44 65 0.96
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (44 bp):
AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAAC
Found at i:39082617 original size:48 final size:48
Alignment explanation
Indices: 39082557--39082845 Score: 479
Period size: 48 Copynumber: 6.0 Consensus size: 48
39082547 TATAGATATG
*
39082557 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
39082605 TGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATATATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
39082653 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
** * *
39082701 TGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGATATATATATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
39082749 TGTGGTAAATCCAAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
39082797 TGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
39082845 T
1 T
39082846 ATTGTGGCCG
Statistics
Matches: 222, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 222 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:39083028 original size:37 final size:37
Alignment explanation
Indices: 39082978--39083124 Score: 258
Period size: 37 Copynumber: 4.0 Consensus size: 37
39082968 GGAAATATAT
39082978 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
39083015 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
39083052 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
39083089 TCCGGGTAAGACCCGATAACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
39083125 TCGAGCTAAA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:39084945 original size:76 final size:75
Alignment explanation
Indices: 39084842--39085105 Score: 295
Period size: 76 Copynumber: 3.5 Consensus size: 75
39084832 TCTGTTCGTT
* * *
39084842 AAAATAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
39084907 GTCTTTCGAAA
66 GTCTTTC-AAA
* * * * * *
39084918 AAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGCTGAAGTAATTTT-AATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTTC
* * *
39084982 TTTACTCATAAAA
65 TGT-CT-TTCAAA
**
39084995 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACACGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAAGACACGCTGAGGTATTTTCAATT
39085059 TCTGT-TTTC--A
63 TCTGTCTTTCAAA
*
39085069 AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
39085106 GGGCCACATG
Statistics
Matches: 158, Mismatches: 23, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
71 1 0.01
73 1 0.01
74 35 0.22
76 52 0.33
77 44 0.28
78 7 0.04
79 18 0.11
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (75 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
GTCTTTCAAA
Found at i:39085093 original size:74 final size:74
Alignment explanation
Indices: 39084842--39085140 Score: 274
Period size: 74 Copynumber: 4.0 Consensus size: 74
39084832 TCTGTTCGTT
* ** *
39084842 AAAATAAACTCATATTGCA-AGAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAATT
1 AAAATCAACTCATATTG-AGAGAGGTGAGTTGAGCCT-TGGCCACACGCTGAGGTATTTTCAATT
39084904 TCTGTCTTTCGAAA
64 TCTGT-TTTC--AA
* * * *
39084918 AAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTTAGG--ACACGCTGAAGTAATTTT-AATT
1 AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTT-GGCCACACGCTGAGGT-ATTTTCAATT
39084980 T-T-TTTACTCATAAAA
64 TCTGTTT--TC----AA
*
39084995 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTTGGC-CACACGCTGAGGTATTTTCAATTT
39085060 CTGTTTTC-A
65 CTGTTTTCAA
* * **
39085069 AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGGCCACATGCCAAGGTATTTTCAATTT
1 AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCT-TGGCCACACGCTGAGGTATTTTCAATTT
*
39085134 TTGTTTT
65 CTGTTTT
39085141 TAATTTCCGT
Statistics
Matches: 191, Mismatches: 18, Indels: 30
0.80 0.08 0.13
Matches are distributed among these distances:
73 2 0.01
74 64 0.34
75 6 0.03
76 49 0.26
77 43 0.23
78 5 0.03
79 18 0.09
80 1 0.01
81 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (74 bp):
AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTTGGCCACACGCTGAGGTATTTTCAATTTC
TGTTTTCAA
Found at i:39085387 original size:77 final size:77
Alignment explanation
Indices: 39085173--39085450 Score: 285
Period size: 80 Copynumber: 3.5 Consensus size: 77
39085163 ATATATATAT
* *
39085173 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATT
39085238 TCTGTTTTTCAAAAAA
66 TCTGTTTTT----AAA
* * * *
39085254 AAAAT-AACTCATATTACGAGAGGTGAATTGAGGCTCGGGTCACATGCCGAGATATTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATT
39085318 TCTGTCTTTT-AA
66 TCTGT-TTTTAAA
* * * * *
39085330 AAAATCAACTCATATTGCGAGAGTTGAGTTAAGCCTCAGGTCACACGCTGAGGTA-TTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAA--
* *
39085394 TTTTTTGCTTTTT-CA
64 -TTTCTG-TTTTTAAA
* * * * *
39085409 AAGATCAACTCATAATCCGAGAGGTGAGTTGAACTTCGGGTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
39085451 GCATCCCAAC
Statistics
Matches: 166, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
76 14 0.08
77 40 0.24
79 44 0.27
80 59 0.36
81 9 0.05
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (77 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATT
TCTGTTTTTAAA
Found at i:39085707 original size:30 final size:29
Alignment explanation
Indices: 39085667--39085804 Score: 93
Period size: 30 Copynumber: 4.6 Consensus size: 29
39085657 AAAAATAAAA
*
39085667 AAATTATATTTTAACCCTTAAACTTTT-TGT
1 AAATT-TATTTTGACCCTTAAACTTTTCT-T
*
39085697 AAATTGTATTTTGA-CCTCTAACCTTTTCTT
1 AAATT-TATTTTGACCCT-TAAACTTTTCTT
*
39085727 AAATTTCATTTTGACCCCTAAACTTTAT-TT
1 AAATTT-ATTTTGACCCTTAAACTTT-TCTT
* * * * * *
39085757 AAACTTCACTTCGACCCCTAAAATTTCCTT
1 AAA-TTTATTTTGACCCTTAAACTTTTCTT
*
39085787 AAATTATAATTTGACCCT
1 AAATT-TATTTTGACCCT
39085805 AAATATTTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
29 6 0.07
30 74 0.86
31 6 0.07
ACGTcount: A:0.30, C:0.21, G:0.04, T:0.44
Consensus pattern (29 bp):
AAATTTATTTTGACCCTTAAACTTTTCTT
Found at i:39087071 original size:27 final size:25
Alignment explanation
Indices: 39087006--39087076 Score: 67
Period size: 26 Copynumber: 2.9 Consensus size: 25
39086996 TTATCATTTA
*
39087006 TTTT-AATA-TTATTATGTATATAT
1 TTTTCAATATTTATTATGTATACAT
* *
39087029 TTTTC-ATATATGTTATGTACATACAT
1 TTTTCAATATTTATTATGT--ATACAT
*
39087055 TTTTCAATATTTATTATATATA
1 TTTTCAATATTTATTATGTATA
39087077 TATTATGTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
23 7 0.19
24 7 0.19
25 3 0.08
26 10 0.27
27 10 0.27
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTTCAATATTTATTATGTATACAT
Found at i:39097641 original size:3 final size:3
Alignment explanation
Indices: 39097618--39097728 Score: 82
Period size: 3 Copynumber: 37.7 Consensus size: 3
39097608 AAATATATAT
* * * * * * * *
39097618 ATA ATA GTA ATA AAA AAA ATA ATA GTA ATA ATA ATT ACA AAA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
39097666 ATA A-A GTA A-A ATG ATA ATA ATA CTA ATG TTA ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
39097712 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
39097729 TGGACATAAA
Statistics
Matches: 81, Mismatches: 25, Indels: 4
0.74 0.23 0.04
Matches are distributed among these distances:
2 3 0.04
3 78 0.96
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:39101171 original size:30 final size:30
Alignment explanation
Indices: 39101135--39101233 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
39101125 CTAGCCTTTG
39101135 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
39101165 CCACCACCAACTCCACTAACCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* **
39101195 CCACTACTTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
39101225 CCACCACCA
1 CCACCACCA
39101234 CTTGTACCTA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.27, C:0.49, G:0.05, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:39101820 original size:27 final size:25
Alignment explanation
Indices: 39101780--39101850 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
39101770 ATTCTAAATT
*
39101780 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATAT-TTAATA
* *
39101805 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
*
39101830 CTATATTATTTATATATATTT
1 CTATATTATGTATATATATTT
39101851 TTTCCTACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 2 0.05
25 37 0.95
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:39101918 original size:25 final size:24
Alignment explanation
Indices: 39101868--39101930 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
39101858 CATGTTATCT
*
39101868 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
39101894 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
39101919 TACATATTTTTT
1 TATGTATTTTTT
39101931 TTATATCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:39101968 original size:79 final size:78
Alignment explanation
Indices: 39101794--39101968 Score: 176
Period size: 79 Copynumber: 2.2 Consensus size: 78
39101784 ATTACGTATA
* * * * *
39101794 TATATATTATACTATTTTATGTATATATCTTTAATACTATATTATTTATATATATTTTTTCCTAC
1 TATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATATTTTTTCATAC
*
39101859 ATGTTATCTTATG
66 ATGTTATCATATG
* * * * * *
39101872 TATATATTTTAATTATATTATGTATGTATTTTTTACACTATATTATGTACATAT-TTTTTTTATA
1 TATATATTAT-ACTATATTATGTATATATCTTTAACACTATATTATGTACATATATTTTTTCATA
39101936 TCTAT-TTCATACATATG
65 -C-ATGTT-AT-CATATG
39101953 TATATATTATA-TATAT
1 TATATATTATACTATAT
39101969 CTTAACATTA
Statistics
Matches: 79, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
78 17 0.22
79 43 0.54
80 5 0.06
81 14 0.18
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (78 bp):
TATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATATTTTTTCATAC
ATGTTATCATATG
Found at i:39102020 original size:25 final size:24
Alignment explanation
Indices: 39101992--39102047 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
39101982 GTTATATTTT
*
39101992 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
39102017 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
39102040 CACTATTA
1 CACTATTA
39102048 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:39103169 original size:17 final size:15
Alignment explanation
Indices: 39103139--39103178 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
39103129 ATTAAAAATA
39103139 TTAAATAAATGAATT
1 TTAAATAAATGAATT
39103154 TTAAATTAATATGAATT
1 TTAAA-TAA-ATGAATT
39103171 TT-AATAAA
1 TTAAATAAA
39103179 AAAATACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 8 0.35
16 5 0.22
17 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (15 bp):
TTAAATAAATGAATT
Found at i:39113728 original size:19 final size:18
Alignment explanation
Indices: 39113675--39113728 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
39113665 TAAACTTATT
39113675 AAAAAACATTATATTTTTTA
1 AAAAAAC-TTATA-TTTTTA
** *
39113695 AATTAATTTATATTTTTA
1 AAAAAACTTATATTTTTA
39113713 AAAAAACTTATCATTT
1 AAAAAACTTAT-ATTT
39113729 ATGTATAACA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 14 0.52
19 9 0.33
20 4 0.15
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAAAACTTATATTTTTA
Found at i:39116031 original size:9 final size:9
Alignment explanation
Indices: 39116017--39116095 Score: 65
Period size: 9 Copynumber: 9.0 Consensus size: 9
39116007 TGAAGGAATG
39116017 ATTTATTTT
1 ATTTATTTT
39116026 ATTTATTTT
1 ATTTATTTT
* * *
39116035 GTTGATGTT
1 ATTTATTTT
* *
39116044 AATAATTTAT
1 ATTTATTT-T
39116054 ATTTATTTT
1 ATTTATTTT
* *
39116063 -GTT-CTTT
1 ATTTATTTT
39116070 -TTTATTTT
1 ATTTATTTT
39116078 ATTTATTTT
1 ATTTATTTT
39116087 ATTTATTTT
1 ATTTATTTT
39116096 TTTTCTTTTT
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
7 5 0.09
8 5 0.09
9 37 0.69
10 7 0.13
ACGTcount: A:0.22, C:0.01, G:0.05, T:0.72
Consensus pattern (9 bp):
ATTTATTTT
Found at i:39116104 original size:9 final size:9
Alignment explanation
Indices: 39116053--39116106 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
39116043 TAATAATTTA
*
39116053 TATTTATTT
1 TATTTTTTT
*
39116062 TGTTCTTTTT
1 TATT-TTTTT
*
39116072 TATTTTATT
1 TATTTTTTT
*
39116081 TATTTTATT
1 TATTTTTTT
39116090 TATTTTTTT
1 TATTTTTTT
*
39116099 TCTTTTTT
1 TATTTTTT
39116107 CTTTCTTTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
9 31 0.82
10 7 0.18
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (9 bp):
TATTTTTTT
Found at i:39116905 original size:22 final size:22
Alignment explanation
Indices: 39116877--39116947 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
39116867 TGTGTCTTAG
* *
39116877 TCACACGGTCGTGTGCCTCTCT
1 TCACACGGCCGTGTGCCTCTCA
* * * *
39116899 TCACACGACCGTATTCCTCT-G
1 TCACACGGCCGTGTGCCTCTCA
*
39116920 TCACACGGCCGTGTGCCCCTCA
1 TCACACGGCCGTGTGCCTCTCA
39116942 TCACAC
1 TCACAC
39116948 AGGCTTTTGA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 16 0.42
22 22 0.58
ACGTcount: A:0.15, C:0.41, G:0.18, T:0.25
Consensus pattern (22 bp):
TCACACGGCCGTGTGCCTCTCA
Found at i:39121851 original size:14 final size:14
Alignment explanation
Indices: 39121832--39121858 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39121822 ACAATAAATC
39121832 ATAATTCAAAATAT
1 ATAATTCAAAATAT
39121846 ATAATTCAAAATA
1 ATAATTCAAAATA
39121859 GTCCTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATTCAAAATAT
Found at i:39121930 original size:37 final size:37
Alignment explanation
Indices: 39121889--39121965 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
39121879 TTTATACTTG
39121889 TTATCAACTAATGTTTATTAGTAAAATTACAATTACA
1 TTATCAACTAATGTTTATTAGTAAAATTACAATTACA
*
39121926 TTATCAACTAATGTTTATTAGTAAAATTACATTTACA
1 TTATCAACTAATGTTTATTAGTAAAATTACAATTACA
39121963 TTA
1 TTA
39121966 AAAATCTATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (37 bp):
TTATCAACTAATGTTTATTAGTAAAATTACAATTACA
Found at i:39126540 original size:20 final size:20
Alignment explanation
Indices: 39126517--39126555 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39126507 TGTGATACCT
*
39126517 ACTAAATGAGTATGATCTGC
1 ACTAAATGAATATGATCTGC
**
39126537 ACTATCTGAATATGATCTG
1 ACTAAATGAATATGATCTG
39126556 AATCTGTATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (20 bp):
ACTAAATGAATATGATCTGC
Found at i:39127545 original size:19 final size:20
Alignment explanation
Indices: 39127521--39127559 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
39127511 AATTTAAGAG
39127521 ATTTT-AATAAAGATGAGAA
1 ATTTTAAATAAAGATGAGAA
*
39127540 ATTTTAGAATAAGGATGAGA
1 ATTTTA-AATAAAGATGAGA
39127560 GTTGTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
21 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.31
Consensus pattern (20 bp):
ATTTTAAATAAAGATGAGAA
Found at i:39129144 original size:25 final size:25
Alignment explanation
Indices: 39129102--39129156 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
39129092 TATTAAATAT
*
39129102 TAAAATAATAATATAAATATTCTTTC
1 TAAAATAATAATAAAAATATT-TTTC
39129128 TAAAA-AATAATAAAAATATTTTTC
1 TAAAATAATAATAAAAATATTTTTC
39129152 -AAAAT
1 TAAAAT
39129157 TTTTTAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 4 0.15
24 4 0.15
25 14 0.52
26 5 0.19
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAAATAATAATAAAAATATTTTTC
Found at i:39130999 original size:25 final size:25
Alignment explanation
Indices: 39130970--39131026 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
39130960 CACTAATCAA
39130970 AGTTTAAGT-GTGAAACTAAAAACAG
1 AGTTTAAGTAG-GAAACTAAAAACAG
*
39130995 AGTTTAAGTAGGAAACTAAAAATAG
1 AGTTTAAGTAGGAAACTAAAAACAG
39131020 AGTTTAA
1 AGTTTAA
39131027 CTGGGAGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.26
Consensus pattern (25 bp):
AGTTTAAGTAGGAAACTAAAAACAG
Found at i:39131915 original size:20 final size:20
Alignment explanation
Indices: 39131878--39131915 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
39131868 TGTGGATTCC
**
39131878 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTCCCTTGGG
39131898 ACACGCCCGTGTCCCTTG
1 ACACGCCCGTGTCCCTTG
39131916 TCCGTGGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.37, G:0.32, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTCCCTTGGG
Found at i:39136343 original size:48 final size:46
Alignment explanation
Indices: 39136276--39136503 Score: 239
Period size: 48 Copynumber: 4.9 Consensus size: 46
39136266 CGTTCGGGTT
* *
39136276 AGATGTGTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCTTAG
1 AGATGTGTGCCAGTGTAAGA-CATGTATGGGACATGGCATCGGC-TAG
* *
39136324 AGATGTGTGCCAGTGTAAGATCATGTTTGGGACATGGCATCGACGTAG
1 AGATGTGTGCCAGTGTAAGA-CATGTATGGGACATGGCATCGGC-TAG
* * * **
39136372 AGATGAGTGCCAGTGTAAGACATATCTGGGACAT-GCATCGGCCTCT
1 AGATGTGTGCCAGTGTAAGACATGTATGGGACATGGCATCGG-CTAG
** *
39136418 AGATGTAAGCCAGTGTAAGACATGTATGGGACA-AGCATCGGCTACG
1 AGATGTGTGCCAGTGTAAGACATGTATGGGACATGGCATCGGCTA-G
* * *
39136464 AGACGTGT--CAGTGTAAGACAAGTATGGGACATGACATCGG
1 AGATGTGTGCCAGTGTAAGACATGTATGGGACATGGCATCGG
39136504 TAACTTGGCC
Statistics
Matches: 152, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
44 22 0.14
45 8 0.05
46 47 0.31
47 13 0.09
48 62 0.41
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
AGATGTGTGCCAGTGTAAGACATGTATGGGACATGGCATCGGCTAG
Found at i:39138639 original size:3 final size:3
Alignment explanation
Indices: 39138631--39138671 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
39138621 TATATACACG
39138631 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
39138672 GATTGTACAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:39139494 original size:3 final size:3
Alignment explanation
Indices: 39139486--39139525 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
39139476 TGGTGTAGAG
39139486 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
39139526 GAAATTCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:39144167 original size:32 final size:32
Alignment explanation
Indices: 39144131--39144191 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
39144121 AAACTCGAAT
* *
39144131 TTCGAGTTAA-TCAAATCAAGTCGTTTGAATTA
1 TTCGAGTAAACTCAAAT-AAGTAGTTTGAATTA
39144163 TTCGAGTAAACTCAAATAAGTAGTTTGAA
1 TTCGAGTAAACTCAAATAAGTAGTTTGAA
39144192 CCGAGTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (32 bp):
TTCGAGTAAACTCAAATAAGTAGTTTGAATTA
Found at i:39144320 original size:18 final size:19
Alignment explanation
Indices: 39144285--39144322 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
39144275 CAAAAATTAA
39144285 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
39144304 AAAAATTCCAAAT-TTTAT
1 AAAAATTCAAAATATTTAT
39144322 A
1 A
39144323 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:39149712 original size:20 final size:21
Alignment explanation
Indices: 39149667--39149718 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
39149657 ATGTGAAAAA
*
39149667 TAAATAAATAATTCATGAAGT
1 TAAATAAATAACTCATGAAGT
* *
39149688 TAAATAAATAACTC-TTAATT
1 TAAATAAATAACTCATGAAGT
39149708 TAAATAAATAA
1 TAAATAAATAA
39149719 TTATTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (21 bp):
TAAATAAATAACTCATGAAGT
Found at i:39150782 original size:18 final size:17
Alignment explanation
Indices: 39150750--39150785 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
39150740 TGTTTTAAAA
39150750 AATTAAATAAAAATATT
1 AATTAAATAAAAATATT
*
39150767 AATTAATATAATAATATT
1 AATTAA-ATAAAAATATT
39150785 A
1 A
39150786 GGCTTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTAAATAAAAATATT
Found at i:39151299 original size:13 final size:11
Alignment explanation
Indices: 39151273--39151310 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
39151263 GATATTTCAG
39151273 TAACATTTTTC
1 TAACATTTTTC
39151284 TAACATTTATTCC
1 TAACATTT-TT-C
39151297 TAACATTTTTC
1 TAACATTTTTC
39151308 TAA
1 TAA
39151311 AATATAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 12 0.48
12 4 0.16
13 9 0.36
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (11 bp):
TAACATTTTTC
Found at i:39151516 original size:20 final size:19
Alignment explanation
Indices: 39151483--39151543 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
39151473 TTATCTCAAT
39151483 TAATCTAAAATAATATGAGA
1 TAATC-AAAATAATATGAGA
*
39151503 TAATCAAAATTAATA-GAGTT
1 TAATCAAAA-TAATATGAG-A
39151523 TAATC--AATAATATGAGA
1 TAATCAAAATAATATGAGA
39151540 TAAT
1 TAAT
39151544 AATAATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 9 0.25
18 5 0.14
19 7 0.19
20 15 0.42
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (19 bp):
TAATCAAAATAATATGAGA
Found at i:39151546 original size:20 final size:19
Alignment explanation
Indices: 39151491--39151549 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
39151481 ATTAATCTAA
39151491 AATAATATGAGATAATCAA-
1 AATAATATGAGATAAT-AAT
*
39151510 AATTAATA-GAG-T-TTAAT
1 AA-TAATATGAGATAATAAT
39151527 CAATAATATGAGATAATAAT
1 -AATAATATGAGATAATAAT
39151547 AAT
1 AAT
39151550 TATTAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 2 0.06
17 6 0.19
18 6 0.19
19 9 0.28
20 9 0.28
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.32
Consensus pattern (19 bp):
AATAATATGAGATAATAAT
Found at i:39159540 original size:253 final size:253
Alignment explanation
Indices: 39159092--39159597 Score: 1012
Period size: 253 Copynumber: 2.0 Consensus size: 253
39159082 ACTACCCAAA
39159092 TATGGTAGTTTTCATTATTAAAAACTGATGGTGGAGAAGGTGTAAAGCTAGTAAAAGATATTATA
1 TATGGTAGTTTTCATTATTAAAAACTGATGGTGGAGAAGGTGTAAAGCTAGTAAAAGATATTATA
39159157 GAAAAAATAACAAGAAACCAGAGGTTGTTCTTTCTTTTTTAACAACTCAAAGGCCTTCAAAGACG
66 GAAAAAATAACAAGAAACCAGAGGTTGTTCTTTCTTTTTTAACAACTCAAAGGCCTTCAAAGACG
39159222 GCTGGCTCTAGATACCAATTGTTGGTTCTTTTTTCTAAGAAAGAAAATATGGATAGATCAAACTT
131 GCTGGCTCTAGATACCAATTGTTGGTTCTTTTTTCTAAGAAAGAAAATATGGATAGATCAAACTT
39159287 TAGCAATCAAAATTGACTTGCTGTTCTTTTTTTTCCATTTTAATGCATTTGTTTACAT
196 TAGCAATCAAAATTGACTTGCTGTTCTTTTTTTTCCATTTTAATGCATTTGTTTACAT
39159345 TATGGTAGTTTTCATTATTAAAAACTGATGGTGGAGAAGGTGTAAAGCTAGTAAAAGATATTATA
1 TATGGTAGTTTTCATTATTAAAAACTGATGGTGGAGAAGGTGTAAAGCTAGTAAAAGATATTATA
39159410 GAAAAAATAACAAGAAACCAGAGGTTGTTCTTTCTTTTTTAACAACTCAAAGGCCTTCAAAGACG
66 GAAAAAATAACAAGAAACCAGAGGTTGTTCTTTCTTTTTTAACAACTCAAAGGCCTTCAAAGACG
39159475 GCTGGCTCTAGATACCAATTGTTGGTTCTTTTTTCTAAGAAAGAAAATATGGATAGATCAAACTT
131 GCTGGCTCTAGATACCAATTGTTGGTTCTTTTTTCTAAGAAAGAAAATATGGATAGATCAAACTT
39159540 TAGCAATCAAAATTGACTTGCTGTTCTTTTTTTTCCATTTTAATGCATTTGTTTACAT
196 TAGCAATCAAAATTGACTTGCTGTTCTTTTTTTTCCATTTTAATGCATTTGTTTACAT
39159598 ACAAATATAC
Statistics
Matches: 253, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
253 253 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (253 bp):
TATGGTAGTTTTCATTATTAAAAACTGATGGTGGAGAAGGTGTAAAGCTAGTAAAAGATATTATA
GAAAAAATAACAAGAAACCAGAGGTTGTTCTTTCTTTTTTAACAACTCAAAGGCCTTCAAAGACG
GCTGGCTCTAGATACCAATTGTTGGTTCTTTTTTCTAAGAAAGAAAATATGGATAGATCAAACTT
TAGCAATCAAAATTGACTTGCTGTTCTTTTTTTTCCATTTTAATGCATTTGTTTACAT
Found at i:39169379 original size:16 final size:16
Alignment explanation
Indices: 39169358--39169391 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
39169348 ATCTTTCAAC
39169358 TAAGGTCTAACTTATT
1 TAAGGTCTAACTTATT
39169374 TAAGGTCTAACTTATT
1 TAAGGTCTAACTTATT
39169390 TA
1 TA
39169392 GGCGTATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
TAAGGTCTAACTTATT
Found at i:39173882 original size:3 final size:3
Alignment explanation
Indices: 39173874--39174203 Score: 153
Period size: 3 Copynumber: 110.0 Consensus size: 3
39173864 AAAAGAAAAT
* * * *
39173874 ATA ATA ATA ATA ATA ATG ATG ATA A-A GATA GTA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * * * * * *
39173919 ATA AAA ATG ATT GTA ATA ATA ATG GTA ATA ATA ATAA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * * *
39173965 ATA ATA CATTA ATA AGA ATA ATG ATA GTA A-A TTA ATA ATA ACA ATA
1 ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
39174011 ATA A-A A-A ATA ATA GAAA ATA ATA ATA ATA A-A CTA AGGA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
* * * * * * *
39174055 AAA ATA CTA ACA ATA AT- ATAA ATA ATA ATA AAA ACA ACA AGA GA-A
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * **
39174100 ATA GTA ACA ATA ATA GTA ATA AAA AGG ATA A-A AGTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
* *
39174145 ATA ACA ATA ATA ATA A-A ATTA ATA ATA A-A ATA A-A ATTA ATCA ATT
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA A-TA AT-A ATA
*
39174190 TTA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA
39174204 GCAAATTAAC
Statistics
Matches: 243, Mismatches: 61, Indels: 46
0.69 0.17 0.13
Matches are distributed among these distances:
2 20 0.08
3 199 0.82
4 22 0.09
5 2 0.01
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:39173963 original size:10 final size:10
Alignment explanation
Indices: 39173945--39174086 Score: 82
Period size: 10 Copynumber: 14.2 Consensus size: 10
39173935 TAATAATGGT
39173945 AATAATAATA
1 AATAATAATA
*
39173955 AATAGTAAT-
1 AATAATAATA
*
39173964 AATAATACATT
1 AATAATA-ATA
*
39173975 AATAAGAAT-
1 AATAATAATA
* *
39173984 AATGATAGTA
1 AATAATAATA
39173994 AATTAATAATAA
1 AA-TAATAAT-A
*
39174006 CAATAATAAAA
1 -AATAATAATA
39174017 AATAATAGA-A
1 AATAATA-ATA
39174027 AATAATAAT-
1 AATAATAATA
**
39174036 AATAAACTAAGG
1 AAT-AA-TAATA
39174048 AATAATAA-A
1 AATAATAATA
* *
39174057 AATACTAA-C
1 AATAATAATA
39174066 AATAAT-ATA
1 AATAATAATA
39174075 AATAATAATA
1 AATAATAATA
39174085 AA
1 AA
39174087 AACAACAAGA
Statistics
Matches: 104, Mismatches: 15, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
8 1 0.01
9 34 0.33
10 39 0.38
11 18 0.17
12 10 0.10
13 2 0.02
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.27
Consensus pattern (10 bp):
AATAATAATA
Done.