Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 14 of 373
Found at i:4123379 original size:19 final size:19
Alignment explanation
Indices: 4123355--4123392 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4123345 TCACGACATT
4123355 GAAGGTTGGGTTTTGCGAC
1 GAAGGTTGGGTTTTGCGAC
4123374 GAAGGTTGGGTTTTGCGAC
1 GAAGGTTGGGTTTTGCGAC
4123393 ATTGGGCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.42, T:0.32
Consensus pattern (19 bp):
GAAGGTTGGGTTTTGCGAC
Found at i:4125499 original size:46 final size:46
Alignment explanation
Indices: 4125430--4125552 Score: 210
Period size: 46 Copynumber: 2.7 Consensus size: 46
4125420 ATAATCTCAC
* *
4125430 CCATAATGAACTCGGAATGCAACTCAACGAGCTCGGGTGTCCGCAT
1 CCATAATGAACTCGGAATACAACTCAACGAGCTCAGGTGTCCGCAT
*
4125476 CCATAATGAACTCGGAATACAACTCAACGAGCTCAGGTGTTCGCAT
1 CCATAATGAACTCGGAATACAACTCAACGAGCTCAGGTGTCCGCAT
*
4125522 CCATAATGAACTCGGAACACAACTCAACGAG
1 CCATAATGAACTCGGAATACAACTCAACGAG
4125553 TTCTGTAACG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAATGAACTCGGAATACAACTCAACGAGCTCAGGTGTCCGCAT
Found at i:4125889 original size:31 final size:32
Alignment explanation
Indices: 4125853--4125916 Score: 121
Period size: 31 Copynumber: 2.0 Consensus size: 32
4125843 TGTATGCATT
4125853 TTAGCATTTTAATAGTTAATGGATG-TGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
4125884 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
4125916 T
1 T
4125917 GGTAAGATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 25 0.78
32 7 0.22
ACGTcount: A:0.30, C:0.06, G:0.25, T:0.39
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:4127425 original size:26 final size:26
Alignment explanation
Indices: 4127396--4127448 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
4127386 TTTACAGTTT
4127396 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
4127422 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
4127448 T
1 T
4127449 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:4133943 original size:32 final size:32
Alignment explanation
Indices: 4133907--4133971 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
4133897 TGTATGCATT
*
4133907 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTAAATGGATGATGGGCA
4133939 TTAGCATTTTAATAGTAAATGGATGATGGGCA
1 TTAGCATTTTAATAGTAAATGGATGATGGGCA
4133971 T
1 T
4133972 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (32 bp):
TTAGCATTTTAATAGTAAATGGATGATGGGCA
Found at i:4135474 original size:26 final size:26
Alignment explanation
Indices: 4135445--4135497 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
4135435 TTTACAGTTT
4135445 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
4135471 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
4135497 T
1 T
4135498 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:4140405 original size:17 final size:16
Alignment explanation
Indices: 4140361--4140406 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
4140351 GATTGCAACA
4140361 AATCAAAGTTCATA-T
1 AATCAAAGTTCATATT
4140376 -ATCAAA-TTGCATATT
1 AATCAAAGTT-CATATT
4140391 GAATCAAAGTTCATAT
1 -AATCAAAGTTCATAT
4140407 CTAGTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.08
14 10 0.38
15 1 0.04
17 11 0.42
18 2 0.08
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (16 bp):
AATCAAAGTTCATATT
Found at i:4144197 original size:15 final size:15
Alignment explanation
Indices: 4144177--4144206 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4144167 TTTCAATAAT
4144177 CTTTCCTTGGTCCCC
1 CTTTCCTTGGTCCCC
4144192 CTTTCCTTGGTCCCC
1 CTTTCCTTGGTCCCC
4144207 TCCTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.47, G:0.13, T:0.40
Consensus pattern (15 bp):
CTTTCCTTGGTCCCC
Found at i:4146774 original size:14 final size:13
Alignment explanation
Indices: 4146753--4146795 Score: 68
Period size: 14 Copynumber: 3.2 Consensus size: 13
4146743 GTTTGTTTCA
4146753 TTGAAAATAATTT
1 TTGAAAATAATTT
4146766 TTAGAAAATAATTT
1 TT-GAAAATAATTT
4146780 TTGAAAAATAATTT
1 TTG-AAAATAATTT
4146794 TT
1 TT
4146796 TTTGAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.11
14 25 0.89
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
TTGAAAATAATTT
Found at i:4146799 original size:17 final size:19
Alignment explanation
Indices: 4146777--4146816 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
4146767 TAGAAAATAA
4146777 TTTTTGAAAAA-TAAT-TT
1 TTTTTGAAAAACTAATATT
4146794 TTTTTGAAAAACTAATATT
1 TTTTTGAAAAACTAATATT
4146813 TTTT
1 TTTT
4146817 AGTATTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 11 0.52
18 4 0.19
19 6 0.29
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTTGAAAAACTAATATT
Found at i:4147355 original size:16 final size:17
Alignment explanation
Indices: 4147336--4147372 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
4147326 TACGTAATAA
4147336 TATTATTTAAAA-TTAT
1 TATTATTTAAAATTTAT
4147352 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
4147368 TATTA
1 TATTA
4147373 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:4147439 original size:22 final size:22
Alignment explanation
Indices: 4147380--4147425 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
4147370 TTAAAATAAA
*
4147380 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
4147400 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
4147422 ATTA
1 ATTA
4147426 TATTAGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 2 0.09
22 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:4148430 original size:17 final size:16
Alignment explanation
Indices: 4148408--4148442 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
4148398 AATACAAAAA
4148408 ATTATTATATTCATTTT
1 ATTATTAT-TTCATTTT
*
4148425 ATTATTATTTTATTTT
1 ATTATTATTTCATTTT
4148441 AT
1 AT
4148443 AAATCCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTATTATTTCATTTT
Found at i:4148469 original size:6 final size:6
Alignment explanation
Indices: 4148458--4148490 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
4148448 CATATTTTAA
4148458 TATAAT TATAAT TATAAT TATAAT TATATAT TA
1 TATAAT TATAAT TATAAT TATAAT TATA-AT TA
4148491 ATACAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TATAAT
Found at i:4151242 original size:24 final size:26
Alignment explanation
Indices: 4151215--4151263 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
4151205 TAATTTAATT
*
4151215 TTTATAATA-TAAAAAT-ATTTTTTA
1 TTTAAAATAGTAAAAATAATTTTTTA
*
4151239 TTTAAAATAGTGAAAATAATTTTTT
1 TTTAAAATAGTAAAAATAATTTTTT
4151264 TTTTGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 6 0.29
26 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTAAAATAGTAAAAATAATTTTTTA
Found at i:4153611 original size:22 final size:22
Alignment explanation
Indices: 4153586--4153636 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
4153576 GCAATATAAA
4153586 AACAAAATGACAACAAAACAAC
1 AACAAAATGACAACAAAACAAC
* *
4153608 AACAAAATGATAGCAAAACAAC
1 AACAAAATGACAACAAAACAAC
*
4153630 AATAAAA
1 AACAAAA
4153637 AGGAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.69, C:0.18, G:0.06, T:0.08
Consensus pattern (22 bp):
AACAAAATGACAACAAAACAAC
Found at i:4161874 original size:31 final size:30
Alignment explanation
Indices: 4161789--4161874 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
4161779 AAGCTTTTTT
* *
4161789 TAAAATAAATTTAATAATTAAATAACTTAAA
1 TAAAA-AATTTTAATAATTTAATAACTTAAA
* *
4161820 TAAAAAATTTTAATAGTTTAATAATTTAAA
1 TAAAAAATTTTAATAATTTAATAACTTAAA
*
4161850 T-AAAAATTTTCGGATAATTTAATAA
1 TAAAAAATTTT--AATAATTTAATAA
4161875 ATATTTTGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 9 0.19
30 22 0.47
31 16 0.34
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (30 bp):
TAAAAAATTTTAATAATTTAATAACTTAAA
Found at i:4164830 original size:50 final size:49
Alignment explanation
Indices: 4164748--4164846 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 49
4164738 TGATCATCTT
*
4164748 ATATCGACTTGATAATATTACTGACAGTTTTGTAAGATTTAAAAGGTGA
1 ATATCGACTTGATAATATTACTGACAGCTTTGTAAGATTTAAAAGGTGA
* * *
4164797 ATATTGACTTGATAATGTTTACTGGCAGCTTTGTAAGATTTAAAAGGTGA
1 ATATCGACTTGATAAT-ATTACTGACAGCTTTGTAAGATTTAAAAGGTGA
4164847 GTGATCGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 15 0.33
50 30 0.67
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.37
Consensus pattern (49 bp):
ATATCGACTTGATAATATTACTGACAGCTTTGTAAGATTTAAAAGGTGA
Found at i:4167704 original size:29 final size:29
Alignment explanation
Indices: 4167662--4167723 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
4167652 AGTCGGGTTC
4167662 TTATATGTATTTTTTAGTTGTATAATAAT
1 TTATATGTATTTTTTAGTTGTATAATAAT
4167691 TTATATGTATTTTTTAGTTGTATAATAAT
1 TTATATGTATTTTTTAGTTGTATAATAAT
4167720 TTAT
1 TTAT
4167724 CTTCCCTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (29 bp):
TTATATGTATTTTTTAGTTGTATAATAAT
Found at i:4171515 original size:21 final size:19
Alignment explanation
Indices: 4171471--4171515 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
4171461 AAAATAACTA
4171471 TAAAATATTAAAATTATAT
1 TAAAATATTAAAATTATAT
* *
4171490 AAAAAGTATTAAAAATTATGT
1 TAAAA-TATT-AAAATTATAT
4171511 TAAAA
1 TAAAA
4171516 AATTCAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.19
20 4 0.19
21 13 0.62
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
TAAAATATTAAAATTATAT
Found at i:4174845 original size:54 final size:52
Alignment explanation
Indices: 4174694--4174863 Score: 200
Period size: 53 Copynumber: 3.2 Consensus size: 52
4174684 CACGGAAGCA
* * *
4174694 CTTATCACTTTTCTCCGATGCTATAGCCCAGCTATGGTCTTATACAGATCA-C
1 CTTATCACTTTTATCCGATGCCATAGCCCAACTATGGTCTTATACAGAT-ATC
* * *
4174746 TTGTATCACTTTAATCCGAAGCCATAGCCCAACTATGGTCTTATACAGATATC
1 CT-TATCACTTTTATCCGATGCCATAGCCCAACTATGGTCTTATACAGATATC
* *
4174799 GCTTATCACTTGTTTTTCGATGCCATAGCCCAACTATGGTCTTATAC-GAATATC
1 -CTTATCACTT-TTATCCGATGCCATAGCCCAACTATGGTCTTATACAG-ATATC
4174853 ACTTATCACTT
1 -CTTATCACTT
4174864 GTTGCCATGG
Statistics
Matches: 101, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
52 2 0.02
53 52 0.51
54 47 0.47
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (52 bp):
CTTATCACTTTTATCCGATGCCATAGCCCAACTATGGTCTTATACAGATATC
Found at i:4174866 original size:54 final size:52
Alignment explanation
Indices: 4174692--4174863 Score: 211
Period size: 54 Copynumber: 3.2 Consensus size: 52
4174682 TACACGGAAG
* * * *
4174692 CACTTATCACTTTTCTCCGATGCTATAGCCCAGCTATGGTCTTATAC-AGAT
1 CACTTATCACTTTTATCCGATGCCATAGCCCAACTATGGTCTTATACAATAT
* *
4174743 CACTTGTATCACTTTAATCCGAAGCCATAGCCCAACTATGGTCTTATACAGATAT
1 CAC-T-TATCACTTTTATCCGATGCCATAGCCCAACTATGGTCTTATACA-ATAT
* * *
4174798 CGCTTATCACTTGTTTTTCGATGCCATAGCCCAACTATGGTCTTATACGAATAT
1 CACTTATCACTT-TTATCCGATGCCATAGCCCAACTATGGTCTTATAC-AATAT
4174852 CACTTATCACTT
1 CACTTATCACTT
4174864 GTTGCCATGG
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
51 3 0.03
52 1 0.01
53 46 0.45
54 47 0.46
55 6 0.06
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (52 bp):
CACTTATCACTTTTATCCGATGCCATAGCCCAACTATGGTCTTATACAATAT
Found at i:4176959 original size:18 final size:18
Alignment explanation
Indices: 4176936--4176971 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4176926 TTGAGGAGTA
4176936 TGATCAGAATTTATAATG
1 TGATCAGAATTTATAATG
4176954 TGATCAGAATTTATAATG
1 TGATCAGAATTTATAATG
4176972 CGACTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (18 bp):
TGATCAGAATTTATAATG
Found at i:4180886 original size:21 final size:21
Alignment explanation
Indices: 4180860--4180900 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4180850 AGATGAGCGA
* *
4180860 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4180881 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4180901 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4187326 original size:29 final size:30
Alignment explanation
Indices: 4187271--4187334 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
4187261 TAAAATTTAT
* *
4187271 TTGATTCATTTAAATAATATAGCGACTAAA
1 TTGATCCATTTAAATAATAGAGCGACTAAA
* *
4187301 TTGATCCATTT-AATAATAGAGGGACTAAT
1 TTGATCCATTTAAATAATAGAGCGACTAAA
4187330 TTGAT
1 TTGAT
4187335 TTAATCTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (30 bp):
TTGATCCATTTAAATAATAGAGCGACTAAA
Found at i:4189801 original size:17 final size:17
Alignment explanation
Indices: 4189781--4189815 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4189771 ACCATCGTAT
*
4189781 TTTATTTATTTAATAAG
1 TTTATTTATTTAACAAG
4189798 TTTATTTATTTAACAAG
1 TTTATTTATTTAACAAG
4189815 T
1 T
4189816 GATGAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (17 bp):
TTTATTTATTTAACAAG
Found at i:4190499 original size:31 final size:32
Alignment explanation
Indices: 4190464--4190530 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 32
4190454 ATAAAATAAT
*
4190464 AAAA-TGAGATTTAGCTTCCTTAAAAGTTAG-A
1 AAAATTGAG-TTTAGCTCCCTTAAAAGTTAGTA
** *
4190495 AAAATTTTGTTTAGGTCCCTTAAAAGTTAGTA
1 AAAATTGAGTTTAGCTCCCTTAAAAGTTAGTA
4190527 AAAA
1 AAAA
4190531 CAATTTTGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 23 0.77
32 7 0.23
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (32 bp):
AAAATTGAGTTTAGCTCCCTTAAAAGTTAGTA
Found at i:4194020 original size:13 final size:13
Alignment explanation
Indices: 4194002--4194043 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
4193992 CTAGTGTGAG
4194002 AAATGATATTATC
1 AAATGATATTATC
* *
4194015 AAATGAATTTTACC
1 AAATG-ATATTATC
4194029 AAATGATATTATC
1 AAATGATATTATC
4194042 AA
1 AA
4194044 TCCATGTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (13 bp):
AAATGATATTATC
Found at i:4197970 original size:75 final size:75
Alignment explanation
Indices: 4197853--4198129 Score: 284
Period size: 75 Copynumber: 3.8 Consensus size: 75
4197843 CTTTGGAGAT
* * * *
4197853 GAACATTGAATTGTTACCAAAGCCTATAGAAGATTCTACAAGTCCTAAAGAGATGGGTCATAATA
1 GAACATCGAATTGATACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTCATAATA
4197918 TGGAGGAGTG-
66 TGGAGGAG-GA
* * * * *
4197928 GAGCATCGAATTGATATCAAAGCTTATGGAAGATTCTCCAAGTGCTAAAGAGA----TC--AGTA
1 GAACATCGAATTGATACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTCATAATA
4197987 TGGAGGAGGA
66 TGGAGGAGGA
* * * * *
4197997 GAACATCAAACTCATACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATAGAT-ATGAAT
1 GAACATCGAATTGATACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTCAT-AAT
*
4198061 ATGAAGGAGGA
65 ATGGAGGAGGA
* ** * *
4198072 GAACGTTC-AATTGATGTCAAAGCTTATAGAAGATTCTTCAAATGCTAAAGAGATGGGT
1 GAAC-ATCGAATTGATACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGT
4198130 AAGGATGTGG
Statistics
Matches: 166, Mismatches: 27, Indels: 18
0.79 0.13 0.09
Matches are distributed among these distances:
68 1 0.01
69 57 0.34
71 2 0.01
73 1 0.01
75 103 0.62
76 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (75 bp):
GAACATCGAATTGATACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTCATAATA
TGGAGGAGGA
Found at i:4201151 original size:2 final size:2
Alignment explanation
Indices: 4201144--4201177 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4201134 GAGGCAGTGG
4201144 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4201178 CCTGTCACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4202223 original size:13 final size:13
Alignment explanation
Indices: 4202205--4202252 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
4202195 AGTAAATTTG
4202205 ATAATATAAACCT
1 ATAATATAAACCT
* **
4202218 ATAATATGATATGT
1 ATAATAT-AAACCT
4202232 GATAATATAAACCT
1 -ATAATATAAACCT
4202246 ATAATAT
1 ATAATAT
4202253 GATATGCCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 14 0.52
14 6 0.22
15 7 0.26
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (13 bp):
ATAATATAAACCT
Found at i:4202243 original size:28 final size:28
Alignment explanation
Indices: 4202203--4202258 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
4202193 GCAGTAAATT
4202203 TGATAATATAAACCTATAATATGATATG
1 TGATAATATAAACCTATAATATGATATG
4202231 TGATAATATAAACCTATAATATGATATG
1 TGATAATATAAACCTATAATATGATATG
4202259 CCTTAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (28 bp):
TGATAATATAAACCTATAATATGATATG
Found at i:4208627 original size:18 final size:19
Alignment explanation
Indices: 4208593--4208629 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4208583 ATAAATATAA
4208593 ATATATAATTATTATTTAAC
1 ATATATAATTA-TATTTAAC
4208613 ATATATAATTA-ATTTAA
1 ATATATAATTATATTTAA
4208630 TATTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATATAATTATATTTAAC
Found at i:4211082 original size:6 final size:6
Alignment explanation
Indices: 4211057--4211099 Score: 68
Period size: 6 Copynumber: 7.0 Consensus size: 6
4211047 AAATGATTAA
*
4211057 CACAAT CATCAAT CAAAAT CACAAT CACAAT CACAAT CACAAT
1 CACAAT CA-CAAT CACAAT CACAAT CACAAT CACAAT CACAAT
4211100 AAACTTTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (6 bp):
CACAAT
Found at i:4211964 original size:14 final size:14
Alignment explanation
Indices: 4211942--4211990 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
4211932 GTTTATTTAT
*
4211942 ATTATATTAAGTTA
1 ATTAAATTAAGTTA
*
4211956 ATTAAATTATGTTA
1 ATTAAATTAAGTTA
*
4211970 ATGATAATTAAGTTA
1 ATTA-AATTAAGTTA
4211985 AGTTAA
1 A-TTAA
4211991 TTAGGTCTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 15 0.54
15 11 0.39
16 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (14 bp):
ATTAAATTAAGTTA
Found at i:4211979 original size:20 final size:20
Alignment explanation
Indices: 4211954--4211991 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4211944 TATATTAAGT
*
4211954 TAATTAAATTATGTTAATGA
1 TAATTAAATTAAGTTAATGA
*
4211974 TAATTAAGTTAAGTTAAT
1 TAATTAAATTAAGTTAAT
4211992 TAGGTCTTAA
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:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
TAATTAAATTAAGTTAATGA
Found at i:4216090 original size:22 final size:24
Alignment explanation
Indices: 4216038--4216097 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 24
4216028 CTATTTTTAT
4216038 TAAATAAAATA-AAATTATAACAAC
1 TAAA-AAAATATAAATTATAACAAC
*
4216062 T-ATAAAATATAAA-TATAA-AAC
1 TAAAAAAATATAAATTATAACAAC
4216083 TAAAAAAATTATAAA
1 TAAAAAAA-TATAAA
4216098 AAGGGTGTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 4 0.13
22 16 0.52
23 10 0.32
24 1 0.03
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (24 bp):
TAAAAAAATATAAATTATAACAAC
Found at i:4220377 original size:25 final size:26
Alignment explanation
Indices: 4220328--4220377 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
4220318 CTTTTTCTTT
* *
4220328 TCTTTTCATTTTTAGATTAGGTTTTC
1 TCTTTTCATTTTTAGAATAGATTTTC
4220354 TCTTTTC-TTTTTAGAATAGATTTT
1 TCTTTTCATTTTTAGAATAGATTTT
4220378 ATATTTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.62
Consensus pattern (26 bp):
TCTTTTCATTTTTAGAATAGATTTTC
Found at i:4222904 original size:41 final size:41
Alignment explanation
Indices: 4222859--4222966 Score: 198
Period size: 41 Copynumber: 2.6 Consensus size: 41
4222849 CAAATCATGC
4222859 AAAAATAATTACAATGCATTAGGCTAGCCTACTTTGAATGT
1 AAAAATAATTACAATGCATTAGGCTAGCCTACTTTGAATGT
4222900 AAAAATAATTACAATGCATTAGGCTAGCCTACTTTGAATGT
1 AAAAATAATTACAATGCATTAGGCTAGCCTACTTTGAATGT
* *
4222941 AAAAATAATTACAATGAATGAGGCTA
1 AAAAATAATTACAATGCATTAGGCTA
4222967 TAAATAAAGG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (41 bp):
AAAAATAATTACAATGCATTAGGCTAGCCTACTTTGAATGT
Found at i:4227146 original size:27 final size:27
Alignment explanation
Indices: 4227104--4227159 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
4227094 ATAATAAAAT
* *
4227104 ACTGGTCTTGCTTCTGTCAGAGGCGGC
1 ACTGGTCTTGCCTCTGCCAGAGGCGGC
4227131 ACTGGTCTTGCCTCTGCCAGAGGCGGC
1 ACTGGTCTTGCCTCTGCCAGAGGCGGC
4227158 AC
1 AC
4227160 CAGTTGGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.12, C:0.30, G:0.32, T:0.25
Consensus pattern (27 bp):
ACTGGTCTTGCCTCTGCCAGAGGCGGC
Found at i:4227748 original size:27 final size:27
Alignment explanation
Indices: 4227710--4227765 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
4227700 ATACCAACTG
*
4227710 GTGCCGCCTCTGGCAGAGGCAAGACCA
1 GTGCCGCCTCTGACAGAGGCAAGACCA
* *
4227737 GTGCTGCCTCTGACAGTGGCAAGACCA
1 GTGCCGCCTCTGACAGAGGCAAGACCA
4227764 GT
1 GT
4227766 ATTTTATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.30, G:0.32, T:0.16
Consensus pattern (27 bp):
GTGCCGCCTCTGACAGAGGCAAGACCA
Found at i:4227829 original size:21 final size:21
Alignment explanation
Indices: 4227803--4227843 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4227793 TCAGATTCAA
*
4227803 TTTTTTTACTGTTTTCAACTG
1 TTTTTTTACTATTTTCAACTG
4227824 TTTTTTTACTATTTTCAACT
1 TTTTTTTACTATTTTCAACT
4227844 ATTTGTGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.15, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTTTTTACTATTTTCAACTG
Found at i:4229236 original size:46 final size:46
Alignment explanation
Indices: 4229182--4229359 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
4229172 AATGGTTGAG
4229182 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
* *** * * **
4229228 TATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAA
* *
4229275 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
** * * *
4229321 CGCCCGAGCTCTTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4229360 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
46 69 0.65
47 37 0.35
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
Found at i:4229340 original size:93 final size:93
Alignment explanation
Indices: 4229181--4229352 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
4229171 GAATGGTTGA
* * *
4229181 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATATCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACACCCGAACTCGTTGAGT
4229246 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * *
4229274 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACACCCGAACTCGTTGAGT
4229339 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
4229353 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:4232313 original size:15 final size:15
Alignment explanation
Indices: 4232293--4232361 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
4232283 GTATCTTGGG
4232293 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
4232308 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
4232323 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
4232338 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
4232353 TTTCTTTAT
1 TTTCTTTAT
4232362 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:4232362 original size:30 final size:30
Alignment explanation
Indices: 4232284--4232380 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
4232274 CATAGTATCG
* * * *
4232284 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
4232314 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
4232344 TATCTTGGATTTCTTTATTC-GGTTTTCTTC
1 TATCTTGGATTTCTTTATTCTGGATTTC-TC
4232374 TTATCTT
1 -TATCTT
4232381 TGCTCCATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
29 7 0.12
30 43 0.75
31 7 0.12
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:4234812 original size:46 final size:46
Alignment explanation
Indices: 4234758--4234935 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
4234748 AATGGTTGAG
4234758 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
* *** * * **
4234804 TATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAA
* *
4234851 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
** * *
4234897 CGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4234936 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
46 70 0.65
47 37 0.35
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
Found at i:4234916 original size:93 final size:93
Alignment explanation
Indices: 4234757--4234928 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
4234747 GAATGGTTGA
* * *
4234757 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATATCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACACCCGAACTCGTTGAGT
4234822 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
4234850 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACACCCGAACTCGTTGAGT
4234915 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
4234929 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:4238063 original size:16 final size:16
Alignment explanation
Indices: 4238041--4238175 Score: 83
Period size: 16 Copynumber: 7.8 Consensus size: 16
4238031 AAGTTGTCAA
4238041 AAAATATAAAAATTAT
1 AAAATATAAAAATTAT
* *
4238057 TAAATATAAAAAATAT
1 AAAATATAAAAATTAT
*
4238073 AAAATTATGAAAATTGAT
1 AAAA-TATAAAAATT-AT
*
4238091 ATAAACTTATAAATATTAT
1 A-AAA--TATAAAAATTAT
* *
4238110 AAAAAATTGTAAATATTAT
1 --AAAA-TATAAAAATTAT
4238129 AAATATATAAAAAATCTAAT
1 AAA-ATAT-AAAAAT-T-AT
* *
4238149 AAATTATAAAAAATAT
1 AAAATATAAAAATTAT
4238165 AAAAT-TAAAAA
1 AAAATATAAAAA
4238176 AACATATTTA
Statistics
Matches: 96, Mismatches: 13, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
15 6 0.06
16 23 0.24
17 14 0.15
18 14 0.15
19 21 0.22
20 17 0.18
21 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (16 bp):
AAAATATAAAAATTAT
Found at i:4238086 original size:25 final size:25
Alignment explanation
Indices: 4238039--4238113 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 25
4238029 AAAAGTTGTC
*
4238039 AAAAAATATAAAAATTATTAAATAT
1 AAAAAATATAAAAATTATAAAATAT
4238064 AAAAAATAT-AAAATTATGAAAATTGAT
1 AAAAAATATAAAAATTAT-AAAA-T-AT
** *
4238091 ATAAACTTATAAATATTATAAAA
1 A-AAAAATATAAAAATTATAAAA
4238114 AATTGTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 8 0.20
25 12 0.29
26 1 0.02
27 3 0.07
28 10 0.24
29 7 0.17
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (25 bp):
AAAAAATATAAAAATTATAAAATAT
Found at i:4238094 original size:20 final size:19
Alignment explanation
Indices: 4238069--4238129 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
4238059 AATATAAAAA
4238069 ATATAAAATTATGAAA-ATT
1 ATATAAAATTAT-AAATATT
*
4238088 GATATAAACTTATAAATATT
1 -ATATAAAATTATAAATATT
* *
4238108 ATAAAAAATTGTAAATATT
1 ATATAAAATTATAAATATT
4238127 ATA
1 ATA
4238130 AATATATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 22 0.61
20 14 0.39
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.38
Consensus pattern (19 bp):
ATATAAAATTATAAATATT
Found at i:4238206 original size:23 final size:23
Alignment explanation
Indices: 4238170--4238221 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
4238160 AATATAAAAT
**
4238170 TAAAAAAACATATTTAAAATTTTA
1 TAAAAAAACATA-TTAAAATTCGA
*
4238194 TAAAAAAA-GTATTAAAATTCGA
1 TAAAAAAACATATTAAAATTCGA
4238216 TAAAAA
1 TAAAAA
4238222 TAATAAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 15 0.60
23 2 0.08
24 8 0.32
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
TAAAAAAACATATTAAAATTCGA
Found at i:4238282 original size:9 final size:9
Alignment explanation
Indices: 4238007--4238285 Score: 111
Period size: 9 Copynumber: 29.8 Consensus size: 9
4237997 TATTTTTCCC
*
4238007 ATAAAAATG
1 ATAAAAATT
*
4238016 ATTAAAAATC
1 A-TAAAAATT
*
4238026 AGAAAAAGTT
1 ATAAAAA-TT
* *
4238036 GTCAAAAAAT
1 AT-AAAAATT
4238046 ATAAAAATT
1 ATAAAAATT
*
4238055 AT-TAAA-T
1 ATAAAAATT
*
4238062 ATAAAAAAT
1 ATAAAAATT
4238071 AT-AAAATT
1 ATAAAAATT
*
4238079 ATGAAAATT
1 ATAAAAATT
*
4238088 GATATAAACTT
1 -ATA-AAAATT
*
4238099 ATAAATATT
1 ATAAAAATT
4238108 ATAAAAAATT
1 AT-AAAAATT
* *
4238118 GTAAATATT
1 ATAAAAATT
*
4238127 ATAAATA-T
1 ATAAAAATT
*
4238135 ATAAAAAAT
1 ATAAAAATT
*
4238144 CTAATAAATT
1 ATAA-AAATT
*
4238154 ATAAAAAAT
1 ATAAAAATT
4238163 AT-AAAATT
1 ATAAAAATT
*
4238171 AAAAAAACATAT
1 -ATAAAA-AT-T
* *
4238183 TTAAAATTTT
1 ATAAAA-ATT
*
4238193 ATAAAAAAAGT
1 AT--AAAAATT
*
4238204 ATTAAAATT
1 ATAAAAATT
*
4238213 CGATAAAAATA
1 --ATAAAAATT
**
4238224 ATAAAAACC
1 ATAAAAATT
4238233 ATAAAAATT
1 ATAAAAATT
*
4238242 ATTAAAA-T
1 ATAAAAATT
*
4238250 ATTAAAAATG
1 A-TAAAAATT
* *
4238260 ATATGAAGTT
1 ATA-AAAATT
4238270 ATAAAAATT
1 ATAAAAATT
4238279 ATAAAAA
1 ATAAAAA
4238286 AGATTCATAA
Statistics
Matches: 199, Mismatches: 49, Indels: 44
0.68 0.17 0.15
Matches are distributed among these distances:
7 3 0.02
8 27 0.14
9 95 0.48
10 42 0.21
11 27 0.14
12 5 0.03
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:4240873 original size:24 final size:25
Alignment explanation
Indices: 4240831--4240878 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
4240821 CATTGTAAGG
*
4240831 GGGTTCTTTTTTTTGGAGAAAAAAA
1 GGGTTCTTTTTTTTAGAGAAAAAAA
4240856 GGGTTC-TTTTTTTAGAGAAAAAA
1 GGGTTCTTTTTTTTAGAGAAAAAA
4240879 GGAGAGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (25 bp):
GGGTTCTTTTTTTTAGAGAAAAAAA
Found at i:4240901 original size:24 final size:23
Alignment explanation
Indices: 4240874--4240924 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 23
4240864 TTTTTAGAGA
4240874 AAAAAGGAGAGA-TTCGAATACAAG
1 AAAAA-GAGAGACTTC-AATACAAG
4240898 AAAAAGAGAGACTTTCAATACAAG
1 AAAAAGAGAGAC-TTCAATACAAG
4240922 AAA
1 AAA
4240925 TACACGAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.24
24 16 0.64
25 3 0.12
ACGTcount: A:0.57, C:0.10, G:0.20, T:0.14
Consensus pattern (23 bp):
AAAAAGAGAGACTTCAATACAAG
Found at i:4241474 original size:30 final size:30
Alignment explanation
Indices: 4241408--4241490 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
4241398 TGTTATTTTC
*
4241408 TATT-TTATTATTACTTTT-ATTACTATTGT
1 TATTATTATTATTA-TTTTCATTACTATCGT
4241437 T-TCTATTATTATTATTTTCATTACT-TCCGT
1 TAT-TATTATTATTATTTTCATTACTAT-CGT
*
4241467 TATTATTATCATTATTTTCTATTA
1 TATTATTATTATTATTTTC-ATTA
4241491 TCATTAATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
28 1 0.02
29 7 0.15
30 33 0.72
31 5 0.11
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (30 bp):
TATTATTATTATTATTTTCATTACTATCGT
Found at i:4241601 original size:22 final size:24
Alignment explanation
Indices: 4241557--4241608 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
4241547 TATATTTACG
*
4241557 TTTTTAATATTATTACCATTATT-
1 TTTTTAATATTATTACCACTATTA
**
4241580 TTTTTAA-ATTATTATTACTATTA
1 TTTTTAATATTATTACCACTATTA
4241603 TTTTTA
1 TTTTTA
4241609 TTATCCGTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTTAATATTATTACCACTATTA
Found at i:4241602 original size:25 final size:23
Alignment explanation
Indices: 4241557--4241607 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 23
4241547 TATATTTACG
4241557 TTTTTAATATTATTACCATTATT
1 TTTTTAATATTATTACCATTATT
*
4241580 TTTTTAAATTATTATTACTATTATT
1 TTTTT-AA-TATTATTACCATTATT
4241605 TTT
1 TTT
4241608 ATTATCCGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 5 0.20
24 2 0.08
25 18 0.72
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTTAATATTATTACCATTATT
Found at i:4241955 original size:125 final size:127
Alignment explanation
Indices: 4241773--4242034 Score: 359
Period size: 125 Copynumber: 2.1 Consensus size: 127
4241763 ATTTTTCAAG
* * * *
4241773 TAAAGGCAATATTCGGTACTTGAAAATTCGAGAAATCGTGTCCTAACGTACTGGGTTTCGGTTTT
1 TAAAGGCAATATTCCGTACTTGAAAATTCGAGAAATCGTGCCCTAACGTACTAGGTTTCGATTTT
* * *
4241838 TTGTTTGATCTAAGTAACTGATTATCC-TTTT-AAATTAAAATACATGAGTTGTAAATAAAA
66 CTGTTTGATCTAAATAACTGAATATCCTTTTTAAAATTAAAATACATGAGTTGTAAATAAAA
* * *
4241898 TAAAGGCAATATTCCGTA-TTTAGAAATTCGAGTAGTCGTGCCCTAACGTACTAGGTTTCGATTT
1 TAAAGGCAATATTCCGTACTTGA-AAATTCGAGAAATCGTGCCCTAACGTACTAGGTTTCGATTT
* * * *
4241962 TCTGTTTGATCTAAATATCTGAATATCCTTTTTAAAATTTAAATACATGAGTTTTAAATGAAA
65 TCTGTTTGATCTAAATAACTGAATATCCTTTTTAAAATTAAAATACATGAGTTGTAAATAAAA
4242025 TAGAAGGCAA
1 TA-AAGGCAA
4242035 GCTCATACTC
Statistics
Matches: 119, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
124 3 0.03
125 77 0.65
126 4 0.03
127 28 0.24
128 7 0.06
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (127 bp):
TAAAGGCAATATTCCGTACTTGAAAATTCGAGAAATCGTGCCCTAACGTACTAGGTTTCGATTTT
CTGTTTGATCTAAATAACTGAATATCCTTTTTAAAATTAAAATACATGAGTTGTAAATAAAA
Found at i:4242054 original size:125 final size:125
Alignment explanation
Indices: 4241808--4242076 Score: 294
Period size: 125 Copynumber: 2.2 Consensus size: 125
4241798 ATTCGAGAAA
* * * * *
4241808 TCGTGTCCTAACGTACTGGGTTTCGGTTTTTTGTTTGATCTAAGTAACTGATTATCCTTTTAAAT
1 TCGTGTCCTAACGTACTAGGTTTCGATTTTCTGTTTGATCTAAATAACTGAATATCCTTTTAAAT
* * * *
4241873 TAAAATACATGAGTTGTAAATAAAATAAAGGCAATATTCCGTATTTAGAAATTCGA-GTAG
66 TAAAATACATGAGTTGTAAATAAAATAAAGGCAATACTCCATATCTAGAAAGTCGAGGT-G
* *
4241933 TCGTGCCCTAACGTACTAGGTTTCGATTTTCTGTTTGATCTAAATATCTGAATATCCTTTTTAAA
1 TCGTGTCCTAACGTACTAGGTTTCGATTTTCTGTTTGATCTAAATAACTGAATATCC-TTTT-AA
* * * * * **
4241998 ATTTAAATACATGAGTTTTAAATGAAATAGAAGGCAA-GCT-CATA-CTCGAGGGTCGAGGTG
64 ATTAAAATACATGAGTTGTAAATAAAATA-AAGGCAATACTCCATATCTAGAAAGTCGAGGTG
* *
4242058 TTGTGTCTTAACGTACTAG
1 TCGTGTCCTAACGTACTAG
4242077 ATATAACATT
Statistics
Matches: 119, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
125 74 0.62
126 9 0.08
127 29 0.24
128 7 0.06
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (125 bp):
TCGTGTCCTAACGTACTAGGTTTCGATTTTCTGTTTGATCTAAATAACTGAATATCCTTTTAAAT
TAAAATACATGAGTTGTAAATAAAATAAAGGCAATACTCCATATCTAGAAAGTCGAGGTG
Found at i:4243496 original size:106 final size:105
Alignment explanation
Indices: 4243363--4243643 Score: 350
Period size: 106 Copynumber: 2.7 Consensus size: 105
4243353 TGTTTGATTG
* * * * * * *
4243363 GTTCGACCACCGGTCGAGTTCTAAAAACCTTGGTCAGAATATTTCATTTTAACATATGCTAATAG
1 GTTCAACCACCAGTCGAGTTTTGAAAACCTTGGTTAGAATA-TTCATTCTGACATATGCTAATAG
* *
4243428 TTGGATGAATCGATCGAATTGGCAAATTGGGGGCGTGATCA
65 TTGGATGAATCGATCGAATTGGCAAATTAGGGGCATGATCA
* *
4243469 GTTCAACCACCAGTCGAGTTTTGAAAACCTAGGTTAGAATATTCTATTCTGACATATGCTAACAG
1 GTTCAACCACCAGTCGAGTTTTGAAAACCTTGGTTAGAATATTC-ATTCTGACATATGCTAATAG
* * * * **
4243534 TTGGATGAATTGATCGAATTGGTAAATTATGGGCATGGTTG
65 TTGGATGAATCGATCGAATTGGCAAATTAGGGGCATGATCA
* *
4243575 GTTCAACCACTAGTCGAGTTTTGAAAA-CTTAGGTTAGAATATT-ATACTGACATATGCTAATAG
1 GTTCAACCACCAGTCGAGTTTTGAAAACCTT-GGTTAGAATATTCATTCTGACATATGCTAATAG
4243638 TTGGAT
65 TTGGAT
4243644 AATGAAATTT
Statistics
Matches: 152, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
104 24 0.16
105 5 0.03
106 123 0.81
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (105 bp):
GTTCAACCACCAGTCGAGTTTTGAAAACCTTGGTTAGAATATTCATTCTGACATATGCTAATAGT
TGGATGAATCGATCGAATTGGCAAATTAGGGGCATGATCA
Found at i:4243806 original size:9 final size:9
Alignment explanation
Indices: 4243794--4243967 Score: 112
Period size: 9 Copynumber: 19.2 Consensus size: 9
4243784 GATTTTTTAA
4243794 TATAATTTT
1 TATAATTTT
*
4243803 TATAAGTTTA
1 TATAA-TTTT
4243813 TATCAATTTT
1 TAT-AATTTT
* *
4243823 AATATTTTT
1 TATAATTTT
4243832 TATAATATTT
1 TATAAT-TTT
4243842 TAT--TTTT
1 TATAATTTT
*
4243849 AATAATTTT
1 TATAATTTT
*
4243858 AATAATTTT
1 TATAATTTT
4243867 TAT-A-TTT
1 TATAATTTT
*
4243874 TAAATATGTTT
1 TATA-AT-TTT
4243885 TATTAA-TTT
1 TA-TAATTTT
4243894 TATAATTTT
1 TATAATTTT
*
4243903 TTTAATTTT
1 TATAATTTT
* *
4243912 AATATTTTAT
1 TATAATTT-T
4243922 TATCAATTTT
1 TAT-AATTTT
*
4243932 AAT-A-TTT
1 TATAATTTT
*
4243939 TA-ATTTTT
1 TATAATTTT
4243947 TATAATATTT
1 TATAAT-TTT
4243957 TATAATTTT
1 TATAATTTT
4243966 TA
1 TA
4243968 ATCATTTTAA
Statistics
Matches: 128, Mismatches: 20, Indels: 34
0.70 0.11 0.19
Matches are distributed among these distances:
7 14 0.11
8 11 0.09
9 58 0.45
10 32 0.25
11 12 0.09
12 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (9 bp):
TATAATTTT
Found at i:4243847 original size:17 final size:17
Alignment explanation
Indices: 4243825--4243959 Score: 55
Period size: 17 Copynumber: 7.2 Consensus size: 17
4243815 TCAATTTTAA
4243825 TATTTTTTATAATATTT
1 TATTTTTTATAATATTT
*
4243842 TATTTTTAATAAT-TTT
1 TATTTTTTATAATATTT
4243858 AATAATTTTTATATTTTAAATATGTTT
1 --T-ATTTTT-TA---T-AATA--TTT
4243885 TATTAATTTTATAAT-TTT
1 TATT--TTTTATAATATTT
*
4243903 T-TTAATTT-TAATATTT
1 TATT-TTTTATAATATTT
4243919 TATTATCAATTT-TAATATTT
1 TATT-T---TTTATAATATTT
4243939 TAATTTTTTATAATATTT
1 T-ATTTTTTATAATATTT
4243957 TAT
1 TAT
4243960 AATTTTTAAT
Statistics
Matches: 94, Mismatches: 4, Indels: 40
0.68 0.03 0.29
Matches are distributed among these distances:
15 4 0.04
16 11 0.12
17 22 0.23
18 14 0.15
19 6 0.06
20 14 0.15
21 6 0.06
22 1 0.01
23 1 0.01
24 6 0.06
25 3 0.03
26 3 0.03
27 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (17 bp):
TATTTTTTATAATATTT
Found at i:4243848 original size:26 final size:27
Alignment explanation
Indices: 4243818--4243902 Score: 95
Period size: 26 Copynumber: 3.2 Consensus size: 27
4243808 GTTTATATCA
4243818 ATTTTAATATTTTTTATAATATTTTAT
1 ATTTTAATATTTTTTATAATATTTTAT
* *
4243845 -TTTTAATAATTTTAATAAT-TTTTAT
1 ATTTTAATATTTTTTATAATATTTTAT
* *
4243870 ATTTTAAATATGTTTTATTA-ATTTTAT
1 ATTTT-AATATTTTTTATAATATTTTAT
4243897 AATTTT
1 -ATTTT
4243903 TTTAATTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 6 0.12
26 21 0.44
27 16 0.33
28 5 0.10
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (27 bp):
ATTTTAATATTTTTTATAATATTTTAT
Found at i:4249018 original size:56 final size:56
Alignment explanation
Indices: 4248926--4249037 Score: 161
Period size: 56 Copynumber: 2.0 Consensus size: 56
4248916 AAAACCTCAC
* * *
4248926 AGAACCAAAGGAAGCAGCCAGAAATGATGATTGGAGCTGTCAATCAGAGGAAATAA
1 AGAACCAAAGGAAGCAGCCAGAAACGATGATCGGAGCTGTCAAACAGAGGAAATAA
* * * *
4248982 AGAATCAAAGGAAGCCGCCAGAAACGATGATCGGAGCTGTTAAACATAGGAAATAA
1 AGAACCAAAGGAAGCAGCCAGAAACGATGATCGGAGCTGTCAAACAGAGGAAATAA
4249038 CTGGCAATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.45, C:0.15, G:0.26, T:0.14
Consensus pattern (56 bp):
AGAACCAAAGGAAGCAGCCAGAAACGATGATCGGAGCTGTCAAACAGAGGAAATAA
Found at i:4250287 original size:30 final size:28
Alignment explanation
Indices: 4250229--4250287 Score: 66
Period size: 30 Copynumber: 2.0 Consensus size: 28
4250219 AAGTAATATG
* *
4250229 GAGAGAAACTCAAAAACAAAAATTGAGA
1 GAGAGAAACGCAAAAACAAAAATAGAGA
4250257 GAGATGAAACGCAAAGAACAACAAA-AGAGA
1 GAGA-GAAACGCAAA-AACAA-AAATAGAGA
4250287 G
1 G
4250288 CTTTGAGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 9 0.35
30 10 0.38
31 3 0.12
ACGTcount: A:0.59, C:0.12, G:0.22, T:0.07
Consensus pattern (28 bp):
GAGAGAAACGCAAAAACAAAAATAGAGA
Found at i:4254953 original size:12 final size:12
Alignment explanation
Indices: 4254946--4255010 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
4254936 ACACACACAT
*
4254946 ACATACACACAC
1 ACATACATACAC
*
4254958 GCACATACATACAT
1 --ACATACATACAC
* *
4254972 ACATACATGCAT
1 ACATACATACAC
*
4254984 ACAGACATACAC
1 ACATACATACAC
*
4254996 ACATGCATACAC
1 ACATACATACAC
4255008 ACA
1 ACA
4255011 CATCCATCCA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
12 33 0.77
14 10 0.23
ACGTcount: A:0.46, C:0.32, G:0.06, T:0.15
Consensus pattern (12 bp):
ACATACATACAC
Found at i:4254967 original size:4 final size:4
Alignment explanation
Indices: 4254960--4255072 Score: 77
Period size: 4 Copynumber: 28.0 Consensus size: 4
4254950 ACACACACGC
* * * *
4254960 ACAT ACAT ACAT ACAT ACAT GCAT ACAG ACAT ACAC ACAT GCAT AC--
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * *
4255006 ACAC ACAT CCAT CCAT GCAT ACAT ACAT ACAT AAAT GAAAT ATAT CCACAC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT -ACAT ACAT --ACAT
4255057 ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT
4255073 GCATGTGCAT
Statistics
Matches: 87, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
2 2 0.02
4 79 0.91
5 4 0.05
6 2 0.02
ACGTcount: A:0.46, C:0.28, G:0.04, T:0.21
Consensus pattern (4 bp):
ACAT
Found at i:4254998 original size:42 final size:42
Alignment explanation
Indices: 4254946--4255036 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
4254936 ACACACACAT
* *
4254946 ACATACACACACGCACATACATACATACATACATGCATACAG
1 ACATACACACACGCACACACACACATACATACATGCATACAG
* * * * *
4254988 ACATACACACATGCATACACACACATCCATCCATGCATACAT
1 ACATACACACACGCACACACACACATACATACATGCATACAG
4255030 ACATACA
1 ACATACA
4255037 TAAATGAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.44, C:0.33, G:0.05, T:0.18
Consensus pattern (42 bp):
ACATACACACACGCACACACACACATACATACATGCATACAG
Found at i:4257181 original size:32 final size:32
Alignment explanation
Indices: 4257140--4257206 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
4257130 GAAGAGTGCA
4257140 ATCCGTTCGCCTCTCCGGGCAGAATTGACCCT
1 ATCCGTTCGCCTCTCCGGGCAGAATTGACCCT
*
4257172 ATCCGTTCGCCTCTCCGGGCAGAATTGATCCT
1 ATCCGTTCGCCTCTCCGGGCAGAATTGACCCT
4257204 ATC
1 ATC
4257207 TCATATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.16, C:0.36, G:0.21, T:0.27
Consensus pattern (32 bp):
ATCCGTTCGCCTCTCCGGGCAGAATTGACCCT
Found at i:4262417 original size:6 final size:6
Alignment explanation
Indices: 4262406--4262437 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
4262396 TGTACCTCAT
*
4262406 TTCCTC TTCCTC TTCCTC TTCCTC GTCCTC TT
1 TTCCTC TTCCTC TTCCTC TTCCTC TTCCTC TT
4262438 TCACGGCCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (6 bp):
TTCCTC
Found at i:4266984 original size:14 final size:13
Alignment explanation
Indices: 4266953--4266989 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4266943 AATTTTTTAA
4266953 AAAAATAAAACCC
1 AAAAATAAAACCC
4266966 AAAAATAAAACCC
1 AAAAATAAAACCC
*
4266979 AGAAAAGAAAA
1 A-AAAATAAAA
4266990 AAATTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.73, C:0.16, G:0.05, T:0.05
Consensus pattern (13 bp):
AAAAATAAAACCC
Found at i:4267804 original size:30 final size:30
Alignment explanation
Indices: 4267770--4267828 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
4267760 CTTAATAAAC
*
4267770 AAATACCTCTAAAATAATAATAAAATTAAT
1 AAATACCTCTAAAATAATAACAAAATTAAT
** *
4267800 AAATATTTTTAAAATAATAACAAAATTAA
1 AAATACCTCTAAAATAATAACAAAATTAA
4267829 CAATAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAACAAAATTAAT
Found at i:4267946 original size:17 final size:17
Alignment explanation
Indices: 4267921--4267954 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4267911 AAATAATAAG
*
4267921 AAAATAATATTTTTTTA
1 AAAAAAATATTTTTTTA
4267938 AAAAAAATATTTTTTTA
1 AAAAAAATATTTTTTTA
4267955 TCCTTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAAAAATATTTTTTTA
Found at i:4276494 original size:45 final size:44
Alignment explanation
Indices: 4276412--4276500 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 44
4276402 TCACCTAAAC
*
4276412 TTCATCTGTCACTATCAATCAATTTATTTACATAGTAACTTGAT
1 TTCATCTGTCACTATCAACCAATTTATTTACATAGTAACTTGAT
* * * *
4276456 TTCATTTGTCATTATCAACCTAATTTCTTTACTTAGTAACTTGAT
1 TTCATCTGTCACTATCAACC-AATTTATTTACATAGTAACTTGAT
4276501 CCATAGAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 17 0.44
45 22 0.56
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (44 bp):
TTCATCTGTCACTATCAACCAATTTATTTACATAGTAACTTGAT
Found at i:4277624 original size:29 final size:29
Alignment explanation
Indices: 4277588--4277647 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
4277578 TCATTTTTAT
4277588 AAAAGAATTATTTTAAGGCATTAAGTAAA
1 AAAAGAATTATTTTAAGGCATTAAGTAAA
4277617 AAAAGAATTATTTTAAGGCATTAAGTAAA
1 AAAAGAATTATTTTAAGGCATTAAGTAAA
4277646 AA
1 AA
4277648 CATAATGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.30
Consensus pattern (29 bp):
AAAAGAATTATTTTAAGGCATTAAGTAAA
Found at i:4278033 original size:21 final size:22
Alignment explanation
Indices: 4278009--4278049 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
4277999 ATGGTATATA
4278009 AAAATGTACA-AGTA-ATATAAT
1 AAAAT-TACATAGTATATATAAT
4278030 AAAATTACATAGTATATATA
1 AAAATTACATAGTATATATA
4278050 TACGTTAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (22 bp):
AAAATTACATAGTATATATAAT
Found at i:4278651 original size:21 final size:22
Alignment explanation
Indices: 4278627--4278679 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
4278617 TATACCAAAC
*
4278627 AAAATATACGCATAATATA-TT
1 AAAATATACGCATAATATACAT
** *
4278648 AAAATATATACATAATGTACAT
1 AAAATATACGCATAATATACAT
4278670 AAAATATACG
1 AAAATATACG
4278680 TATATACATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (22 bp):
AAAATATACGCATAATATACAT
Found at i:4282981 original size:5 final size:5
Alignment explanation
Indices: 4282946--4282977 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
4282936 GATTAAAGTA
*
4282946 TAATT TAATT TAATT TAATT TAATT TATTT TA
1 TAATT TAATT TAATT TAATT TAATT TAATT TA
4282978 TTTTTTTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TAATT
Found at i:4283040 original size:23 final size:23
Alignment explanation
Indices: 4282988--4283087 Score: 79
Period size: 22 Copynumber: 4.5 Consensus size: 23
4282978 TTTTTTTATG
* *
4282988 ATTA-ATTTTAAAAAATTTGAAAT
1 ATTATATTTT-AAATATTTTAAAT
*
4283011 -TTATATTTGAAATATTTTATAAT
1 ATTATATTTTAAATATTTTA-AAT
4283034 ATT-TATTTTTAAA-ATTTTAAAT
1 ATTATA-TTTTAAATATTTTAAAT
*
4283056 ATTATTTTTTAAATA--TTAAAT
1 ATTATATTTTAAATATTTTAAAT
*
4283077 A-TATTTTTTAA
1 ATTATATTTTAA
4283088 TAATATAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
20 10 0.15
21 7 0.11
22 24 0.36
23 17 0.26
24 8 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTATATTTTAAATATTTTAAAT
Found at i:4283062 original size:21 final size:21
Alignment explanation
Indices: 4282999--4283084 Score: 86
Period size: 21 Copynumber: 4.0 Consensus size: 21
4282989 TTAATTTTAA
* *
4282999 AAAATTTGAAAT-TTATATTTG
1 AAAATTTTAAATATTAT-TTTT
4283020 AAATATTTTATAATATTTATTTTT
1 AAA-ATTTTA-AATA-TTATTTTT
4283044 AAAATTTTAAATATTATTTTT
1 AAAATTTTAAATATTATTTTT
* *
4283065 TAAATATTAAATA-TATTTTT
1 AAAATTTTAAATATTATTTTT
4283085 TAATAATATA
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
20 7 0.12
21 22 0.39
22 9 0.16
23 9 0.16
24 6 0.11
25 4 0.07
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
AAAATTTTAAATATTATTTTT
Found at i:4283064 original size:22 final size:22
Alignment explanation
Indices: 4282999--4283101 Score: 88
Period size: 22 Copynumber: 4.7 Consensus size: 22
4282989 TTAATTTTAA
* * *
4282999 AAAATTTGAAAT-TTATATTTG
1 AAAATTTTAAATATTATTTTTT
4283020 AAATATTTTATAATATT-TATTTTT
1 AAA-ATTTTA-AATATTAT-TTTTT
4283044 AAAATTTTAAATATTATTTTTT
1 AAAATTTTAAATATTATTTTTT
*
4283066 -AAATATTAAATA-TATTTTTT
1 AAAATTTTAAATATTATTTTTT
* *
4283086 AATAATATAAAATATT
1 AA-AATTTTAAATATT
4283102 TAAATATTTC
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
20 8 0.12
21 15 0.22
22 26 0.38
23 12 0.17
24 8 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
AAAATTTTAAATATTATTTTTT
Found at i:4283085 original size:21 final size:21
Alignment explanation
Indices: 4283031--4283101 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
4283021 AATATTTTAT
*
4283031 AATATTTATTTTTAAAATTTTA
1 AATA-TTATTTTTAAAATATTA
*
4283053 AATATTATTTTTTAAATATTA
1 AATATTATTTTTAAAATATTA
*
4283074 AATA-TATTTTTTAATAATATAA
1 AATATTA-TTTTTAA-AATATTA
4283096 AATATT
1 AATATT
4283102 TAAATATTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 2 0.05
21 25 0.60
22 14 0.33
23 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATATTATTTTTAAAATATTA
Found at i:4283191 original size:21 final size:21
Alignment explanation
Indices: 4283152--4283191 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4283142 TTTTATAATA
*
4283152 TTTTAAATATTATTTAATTTG
1 TTTTAAATATTATTAAATTTG
4283173 TTTTATAATATT-TTAAATT
1 TTTTA-AATATTATTAAATT
4283192 ATAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTAAATATTATTAAATTTG
Found at i:4283200 original size:13 final size:13
Alignment explanation
Indices: 4283182--4283206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4283172 GTTTTATAAT
4283182 ATTTTAAATTATA
1 ATTTTAAATTATA
4283195 ATTTTAAATTAT
1 ATTTTAAATTAT
4283207 TTTAAAGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTTAAATTATA
Found at i:4283302 original size:23 final size:24
Alignment explanation
Indices: 4283268--4283319 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
4283258 TATTTTATTT
*
4283268 AAAAAATGAAAATTAA-ATTAATTA
1 AAAAAATGAAAA-AAAGATTAATTA
*
4283292 AAAAAAT-AAAAAAAGATTTATTA
1 AAAAAATGAAAAAAAGATTAATTA
4283315 AAAAA
1 AAAAA
4283320 GATTTATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 16 0.64
24 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAAAATGAAAAAAAGATTAATTA
Found at i:4283319 original size:14 final size:14
Alignment explanation
Indices: 4283300--4283327 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4283290 TAAAAAAATA
4283300 AAAAAAGATTTATT
1 AAAAAAGATTTATT
4283314 AAAAAAGATTTATT
1 AAAAAAGATTTATT
4283328 TGTTAAAAAA
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:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AAAAAAGATTTATT
Found at i:4283405 original size:13 final size:13
Alignment explanation
Indices: 4283364--4283398 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
4283354 TATATATATC
4283364 TTAAAAATAAAAA
1 TTAAAAATAAAAA
* *
4283377 TTTAAATTAAAAA
1 TTAAAAATAAAAA
4283390 TTAAAAATA
1 TTAAAAATA
4283399 TATATTATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAAATAAAAA
Found at i:4283688 original size:62 final size:62
Alignment explanation
Indices: 4283606--4283729 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 62
4283596 CGTTGATCCT
* * *
4283606 CGATGAAGTGTGATTCGTATTTGCTCCAAAACACATTTTAATATCTGCATAATATAAAAAAA
1 CGATAAAGTGTGATCCGTATTTACTCCAAAACACATTTTAATATCTGCATAATATAAAAAAA
* * * *
4283668 CGATAAAGTGTGATCCGTATTTACTTCAGAAGACATTTTAATATCTGCGTAATATAAAAAAA
1 CGATAAAGTGTGATCCGTATTTACTCCAAAACACATTTTAATATCTGCATAATATAAAAAAA
4283730 ACATATATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (62 bp):
CGATAAAGTGTGATCCGTATTTACTCCAAAACACATTTTAATATCTGCATAATATAAAAAAA
Found at i:4284161 original size:10 final size:10
Alignment explanation
Indices: 4284146--4284191 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
4284136 AATCATAATT
4284146 TAAAATATTA
1 TAAAATATTA
4284156 TAAAATAAATTA
1 TAAAAT--ATTA
4284168 -AATAATATT-
1 TAA-AATATTA
4284177 TAAAATATTA
1 TAAAATATTA
4284187 TAAAA
1 TAAAA
4284192 CTAATAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
9 6 0.19
10 16 0.52
11 2 0.06
12 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TAAAATATTA
Found at i:4284296 original size:20 final size:21
Alignment explanation
Indices: 4284246--4284293 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
4284236 CTTTATATTA
*
4284246 TTAAAAAAT-ATATTTAATAT
1 TTAAAAAATAATATTTAAAAT
4284266 TTAAAAAATAATATTTAAAAT
1 TTAAAAAATAATATTTAAAAT
4284287 TTAAAAA
1 TTAAAAA
4284294 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAAAATAATATTTAAAAT
Found at i:4284309 original size:33 final size:33
Alignment explanation
Indices: 4284267--4284363 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 33
4284257 ATTTAATATT
4284267 TAAAAAATAATATTTAAAATTTAAAAATAAAAA
1 TAAAAAATAATATTTAAAATTTAAAAATAAAAA
* * *
4284300 TAAAAAATAATATTTTAAATTTAGAAAA-ATAAT
1 TAAAAAATAATATTTAAAATTTA-AAAATAAAAA
*
4284333 TTAAAAATATATATTTAAAATTTTAAAAATA
1 TAAAAAATA-ATATTTAAAA-TTTAAAAATA
4284364 TATATTATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
33 33 0.60
34 17 0.31
35 5 0.09
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (33 bp):
TAAAAAATAATATTTAAAATTTAAAAATAAAAA
Found at i:4284360 original size:22 final size:23
Alignment explanation
Indices: 4284325--4284393 Score: 88
Period size: 22 Copynumber: 3.0 Consensus size: 23
4284315 TAAATTTAGA
4284325 AAAATAATTTAAAAATATATATTT
1 AAAAT-ATTTAAAAATATATATTT
4284349 AAAAT-TTTAAAAATATATATTAT
1 AAAATATTTAAAAATATATATT-T
* *
4284372 AAAATATTT-CAAATATACATTT
1 AAAATATTTAAAAATATATATTT
4284394 CAAGTTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
22 17 0.41
23 16 0.39
24 8 0.20
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAATATTTAAAAATATATATTT
Found at i:4290815 original size:20 final size:20
Alignment explanation
Indices: 4290761--4290809 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
4290751 GCTTATTTTG
*
4290761 AGTAAATGGAATGGAAAGTA
1 AGTAAATGGAATGGTAAGTA
*
4290781 AGTAAATAGAATGGTAAGTA
1 AGTAAATGGAATGGTAAGTA
4290801 AGTAAATGG
1 AGTAAATGG
4290810 CGTGGTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (20 bp):
AGTAAATGGAATGGTAAGTA
Found at i:4303447 original size:3 final size:3
Alignment explanation
Indices: 4303439--4303478 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
4303429 TGTTAAGGTT
4303439 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4303479 GAAAACATAA
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:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4304388 original size:74 final size:74
Alignment explanation
Indices: 4304267--4304414 Score: 233
Period size: 74 Copynumber: 2.0 Consensus size: 74
4304257 GATTGCTCGG
* *
4304267 ATTGGATTGAACACAAGATAGAGTACAGTAGTGATATGGCATGTTGTAGGGGATTGGAGTGGACA
1 ATTGGATTGAACACAAGATAAAGTACAATAGTGATATGGCATGTTGTAGGGGATTGGAGTGGACA
*
4304332 TGGTTTGGA
66 TGGTATGGA
* * * *
4304341 ATTGGATTGAACGCAGGATAAAGTACAATCGTGATATGGCATGTTGTAGGGGATTGGAGTGGAGA
1 ATTGGATTGAACACAAGATAAAGTACAATAGTGATATGGCATGTTGTAGGGGATTGGAGTGGACA
4304406 TGGTATGGA
66 TGGTATGGA
4304415 GAGATGTATA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.30, C:0.07, G:0.36, T:0.28
Consensus pattern (74 bp):
ATTGGATTGAACACAAGATAAAGTACAATAGTGATATGGCATGTTGTAGGGGATTGGAGTGGACA
TGGTATGGA
Found at i:4304542 original size:35 final size:35
Alignment explanation
Indices: 4304492--4304595 Score: 138
Period size: 35 Copynumber: 3.0 Consensus size: 35
4304482 TCTCTGTTTG
*
4304492 GCGTGTTTCGATTGGACTTGCTCTTATGAGCATTA
1 GCGTGTTTCGATTGGACTAGCTCTTATGAGCATTA
* *
4304527 GCGTGTTTC-AGTTGGACTAGCTCTTATGAGTATTG
1 GCGTGTTTCGA-TTGGACTAGCTCTTATGAGCATTA
* * *
4304562 GCGTGTTACGTTTGGACTAGCTCTTGTGAGCATT
1 GCGTGTTTCGATTGGACTAGCTCTTATGAGCATT
4304596 TGATGTATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
34 1 0.02
35 59 0.98
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.39
Consensus pattern (35 bp):
GCGTGTTTCGATTGGACTAGCTCTTATGAGCATTA
Found at i:4311455 original size:43 final size:43
Alignment explanation
Indices: 4311377--4311462 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
4311367 AATTTGTGGT
* * *
4311377 GTTTGTTGGGAAAGCGCCACTAAAAGCCATGGCTTTTAGCGGC
1 GTTTGTTGGGAAAGCGCCACTAAAAGCAATAGCTTTTAACGGC
* *
4311420 GTTTG-TGGGAAAAGCGCCGCTAAAAGTAATAGCTTTTAACGGC
1 GTTTGTTGGG-AAAGCGCCACTAAAAGCAATAGCTTTTAACGGC
4311463 ATTTTTTTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 4 0.11
43 33 0.89
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
GTTTGTTGGGAAAGCGCCACTAAAAGCAATAGCTTTTAACGGC
Found at i:4311660 original size:32 final size:32
Alignment explanation
Indices: 4311584--4311662 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
4311574 TTCCTTCATT
* * * *
4311584 AAAATCCAACCAAATACAACAAATATAGTAT-
1 AAAATACAACAAAAAACAACAAATATAGCATA
* * *
4311615 AAAATGCAGCAAAAAACAACAAATTTAGCATA
1 AAAATACAACAAAAAACAACAAATATAGCATA
4311647 AAAATACAACAAAAAA
1 AAAATACAACAAAAAA
4311663 TATTAATTCT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 25 0.64
32 14 0.36
ACGTcount: A:0.63, C:0.16, G:0.05, T:0.15
Consensus pattern (32 bp):
AAAATACAACAAAAAACAACAAATATAGCATA
Found at i:4311909 original size:21 final size:21
Alignment explanation
Indices: 4311885--4311950 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
4311875 TTTTGCTCTG
4311885 CTCTG-CTGCCATCGCTGCTGC
1 CTCTGCCT-CCATCGCTGCTGC
*
4311906 CTCTGCCTCCCTCGCTGCTG-
1 CTCTGCCTCCATCGCTGCTGC
* * *
4311926 TTGCTGCCTCCCTCTCTGCTGC
1 CT-CTGCCTCCATCGCTGCTGC
4311948 CTC
1 CTC
4311951 CGCTCTAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 1 0.03
21 34 0.89
22 3 0.08
ACGTcount: A:0.02, C:0.47, G:0.20, T:0.32
Consensus pattern (21 bp):
CTCTGCCTCCATCGCTGCTGC
Found at i:4311947 original size:15 final size:16
Alignment explanation
Indices: 4311927--4311956 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4311917 TCGCTGCTGT
4311927 TGCTGCCTCC-CTCTC
1 TGCTGCCTCCGCTCTC
4311942 TGCTGCCTCCGCTCT
1 TGCTGCCTCCGCTCT
4311957 AAGTTGTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.50, G:0.17, T:0.33
Consensus pattern (16 bp):
TGCTGCCTCCGCTCTC
Found at i:4313979 original size:17 final size:17
Alignment explanation
Indices: 4313945--4314084 Score: 69
Period size: 17 Copynumber: 8.7 Consensus size: 17
4313935 TTAACAATAC
4313945 ATTATTTCA-TAT-TATT
1 ATTATTT-ATTATATATT
4313961 ATTATTTATTATATATT
1 ATTATTTATTATATATT
*
4313978 ATT-TTTCA-CA-A-ATT
1 ATTATTT-ATTATATATT
4313992 ATT-TTTATTAT-T-TT
1 ATTATTTATTATATATT
4314006 ACATTA-TTATT-TATA-T
1 --ATTATTTATTATATATT
4314022 ATTA-TTATTATAT-TT
1 ATTATTTATTATATATT
4314037 -TTACTTGTATTATATATTT
1 ATTA-TT-TATTATATA-TT
*
4314056 ATTAATTATT-TATATAT
1 ATTATTTATTATATAT-T
*
4314073 ATTATATATTAT
1 ATTATTTATTAT
4314085 TTTTACATAT
Statistics
Matches: 98, Mismatches: 5, Indels: 40
0.69 0.03 0.28
Matches are distributed among these distances:
13 1 0.01
14 24 0.24
15 7 0.07
16 26 0.27
17 29 0.30
18 5 0.05
19 3 0.03
20 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (17 bp):
ATTATTTATTATATATT
Found at i:4313981 original size:30 final size:31
Alignment explanation
Indices: 4313945--4314077 Score: 80
Period size: 34 Copynumber: 4.2 Consensus size: 31
4313935 TTAACAATAC
4313945 ATTATTT-CATATTATTATTATTTATTATAT
1 ATTATTTACATATTATTATTATTTATTATAT
* * * *
4313975 ATTATTTTTCACAAATTATTTTTATTATTTTACATT
1 ATTA--TTT-ACATATTATTATTATT-TATTATA-T
*
4314011 ATTATTTATATATTATTATTATATT-TT-TACT
1 ATTATTTACATATTATTATTAT-TTATTATA-T
*
4314042 -TGTA-TTATATATTTATTAATTATTTA-TATAT
1 AT-TATTTACATA-TTATT-ATTATTTATTATAT
4314073 ATTAT
1 ATTAT
4314078 ATATTATTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 26
0.70 0.08 0.23
Matches are distributed among these distances:
30 12 0.15
31 15 0.19
32 13 0.16
33 13 0.16
34 17 0.21
35 5 0.06
36 5 0.06
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (31 bp):
ATTATTTACATATTATTATTATTTATTATAT
Found at i:4314182 original size:17 final size:18
Alignment explanation
Indices: 4314162--4314217 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
4314152 TTATAGTTTA
4314162 TATTTTTATATAAT-TAT
1 TATTTTTATATAATATAT
*
4314179 TATTCTTATA-AATATAT
1 TATTTTTATATAATATAT
*
4314196 T-TTTATTATATATTATAT
1 TATTT-TTATATAATATAT
4314214 TATT
1 TATT
4314218 AAATATCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.16
17 18 0.56
18 7 0.22
19 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTATATAATATAT
Found at i:4314221 original size:30 final size:31
Alignment explanation
Indices: 4314160--4314223 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
4314150 TATTATAGTT
*
4314160 TATATTTTTATATAATTATTATTCTTATAAA
1 TATATTTTTATATAATTATTATTCATATAAA
4314191 TATATTTTTATTATATATTA-TATT-AT-TAAA
1 TATATTTTTA-TATA-ATTATTATTCATATAAA
4314221 TAT
1 TAT
4314224 CACACTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
31 11 0.37
32 8 0.27
33 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (31 bp):
TATATTTTTATATAATTATTATTCATATAAA
Found at i:4326350 original size:205 final size:205
Alignment explanation
Indices: 4325984--4326361 Score: 677
Period size: 205 Copynumber: 1.8 Consensus size: 205
4325974 TAGGCCGCAG
4325984 CATAGAAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGAAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
* *
4326049 CTTACAAGAAGCGAATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGAAGCGAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
* *
4326114 AAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGG
131 AAGATGATTTGGCATCTCTATACTATCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGG
4326179 GGAGCAGATA
196 GGAGCAGATA
* *
4326189 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCTTTGTG
1 CATAGAAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
4326254 CTTACAATG-AGCGAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
66 CTTACAA-GAAGCGAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
*
4326318 TAAGATGATTTGGCATCTCTGTACTATCAGAGAACAAATCGAAG
130 TAAGATGATTTGGCATCTCTATACTATCAGAGAACAAATCGAAG
4326362 AAGCAGATTT
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
205 164 0.99
206 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
CATAGAAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAGAAGCGAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
AAGATGATTTGGCATCTCTATACTATCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGG
GGAGCAGATA
Found at i:4328245 original size:31 final size:31
Alignment explanation
Indices: 4328191--4328250 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
4328181 ATTTTTATTA
*
4328191 TTTTACATTATTATTTATATATT-ATTATAT
1 TTTTACATTATTATATATATATTAATTATAT
* *
4328221 TTTTACTTGTATTATATATTTATTAATTAT
1 TTTTACAT-TATTATATATATATTAATTAT
4328251 TTATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.28
31 13 0.52
32 5 0.20
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (31 bp):
TTTTACATTATTATATATATATTAATTATAT
Found at i:4328368 original size:17 final size:18
Alignment explanation
Indices: 4328348--4328403 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
4328338 TTATAGTTTA
4328348 TATTTTTATATAAT-TAT
1 TATTTTTATATAATATAT
*
4328365 TATTCTTATA-AATATAT
1 TATTTTTATATAATATAT
*
4328382 T-TTTATTATATATTATAT
1 TATTT-TTATATAATATAT
4328400 TATT
1 TATT
4328404 AAATATCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.16
17 18 0.56
18 7 0.22
19 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTATATAATATAT
Found at i:4328407 original size:30 final size:31
Alignment explanation
Indices: 4328346--4328409 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
4328336 TATTATAGTT
*
4328346 TATATTTTTATATAATTATTATTCTTATAAA
1 TATATTTTTATATAATTATTATTCATATAAA
4328377 TATATTTTTATTATATATTA-TATT-AT-TAAA
1 TATATTTTTA-TATA-ATTATTATTCATATAAA
4328407 TAT
1 TAT
4328410 CACACTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
31 11 0.37
32 8 0.27
33 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (31 bp):
TATATTTTTATATAATTATTATTCATATAAA
Found at i:4334508 original size:9 final size:9
Alignment explanation
Indices: 4334494--4334714 Score: 194
Period size: 9 Copynumber: 25.7 Consensus size: 9
4334484 TAACTCTAAT
4334494 TAAGTTATG
1 TAAGTTATG
4334503 TAAGTTATG
1 TAAGTTATG
* * *
4334512 ATATGATATA
1 -TAAGTTATG
*
4334522 T-ATTTATG
1 TAAGTTATG
*
4334530 -CA-TTATG
1 TAAGTTATG
*
4334537 TAAGTTATT
1 TAAGTTATG
*
4334546 TAAATTATG
1 TAAGTTATG
4334555 TAAGTTATG
1 TAAGTTATG
*
4334564 TGAGTTATG
1 TAAGTTATG
*
4334573 TGAGTTATG
1 TAAGTTATG
4334582 TAAGTTATG
1 TAAGTTATG
*
4334591 TAA---ATA
1 TAAGTTATG
*
4334597 TAAGTTATA
1 TAAGTTATG
4334606 TAAGTTATG
1 TAAGTTATG
*
4334615 TGAGTTATG
1 TAAGTTATG
4334624 T-A---A-G
1 TAAGTTATG
4334628 TAAGTTATG
1 TAAGTTATG
*
4334637 TGAGTTATG
1 TAAGTTATG
4334646 TAAGTTATG
1 TAAGTTATG
* *
4334655 TAAATTATA
1 TAAGTTATG
4334664 TAAGTTATG
1 TAAGTTATG
4334673 TAAGTTATG
1 TAAGTTATG
*
4334682 TGAGTTATG
1 TAAGTTATG
*
4334691 TAAGTTATA
1 TAAGTTATG
*
4334700 TGAGTTATG
1 TAAGTTATG
4334709 TAAGTT
1 TAAGTT
4334715 CAAGTATATA
Statistics
Matches: 171, Mismatches: 29, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 5 0.03
7 5 0.03
8 7 0.04
9 144 0.84
10 6 0.04
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:4334634 original size:22 final size:22
Alignment explanation
Indices: 4334606--4334650 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4334596 ATAAGTTATA
4334606 TAAGTTATGTGAGTTATGTAAG
1 TAAGTTATGTGAGTTATGTAAG
4334628 TAAGTTATGTGAGTTATGTAAG
1 TAAGTTATGTGAGTTATGTAAG
4334650 T
1 T
4334651 TATGTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (22 bp):
TAAGTTATGTGAGTTATGTAAG
Found at i:4335087 original size:61 final size:62
Alignment explanation
Indices: 4335007--4335127 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 62
4334997 ATATTTATAA
* *
4335007 AAATTATATTAATTTAATAATATTTAAATAAATTAATCCAAATTATATT-ATTAATTAATCC
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATTAATTAAATAATCC
4335068 AAATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATTAATTAAATAAT
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATTAATTAAATAAT
4335128 AATTAAATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 48 0.84
62 9 0.16
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (62 bp):
AAATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATTAATTAAATAATCC
Found at i:4335106 original size:39 final size:39
Alignment explanation
Indices: 4335059--4335162 Score: 199
Period size: 39 Copynumber: 2.7 Consensus size: 39
4335049 TTATATTATT
*
4335059 AATTAATCCAAATTATATTAATTAAATAATATTTAAATA
1 AATTAATCCAAATTATATTAATTAAATAATAATTAAATA
4335098 AATTAATCCAAATTATATTAATTAAATAATAATTAAATA
1 AATTAATCCAAATTATATTAATTAAATAATAATTAAATA
4335137 AATTAATCCAAATTATATTAATTAAA
1 AATTAATCCAAATTATATTAATTAAA
4335163 ATAAGATTGA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (39 bp):
AATTAATCCAAATTATATTAATTAAATAATAATTAAATA
Found at i:4335117 original size:15 final size:14
Alignment explanation
Indices: 4335056--4335158 Score: 62
Period size: 14 Copynumber: 7.8 Consensus size: 14
4335046 AAATTATATT
4335056 ATTA-ATTAATCCAA
1 ATTATATTAAT-CAA
*
4335070 ATTATATTAATTAA
1 ATTATATTAATCAA
*
4335084 ATAATATT--T-AA
1 ATTATATTAATCAA
*
4335095 A-TAAATTAATCCAA
1 ATTATATTAAT-CAA
*
4335109 ATTATATTAATTAA
1 ATTATATTAATCAA
*
4335123 A-TA-A-TAATTAA
1 ATTATATTAATCAA
*
4335134 A-TAAATTAATCCAA
1 ATTATATTAAT-CAA
4335148 ATTATATTAAT
1 ATTATATTAAT
4335159 TAAAATAAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 19
0.72 0.08 0.19
Matches are distributed among these distances:
10 4 0.06
11 13 0.18
12 4 0.06
13 6 0.08
14 22 0.31
15 22 0.31
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTATATTAATCAA
Found at i:4335132 original size:11 final size:12
Alignment explanation
Indices: 4335075--4335162 Score: 63
Period size: 11 Copynumber: 6.8 Consensus size: 12
4335065 TCCAAATTAT
4335075 ATTAATTAAATA
1 ATTAATTAAATA
*
4335087 A-TATTTAAATAA
1 ATTAATTAAAT-A
*
4335099 ATTAATCCAAATTA
1 ATTAAT-TAAA-TA
4335113 TATTAATTAAATA
1 -ATTAATTAAATA
4335126 A-TAATTAAATAA
1 ATTAATTAAAT-A
*
4335138 ATTAATCCAAATTA
1 ATTAAT-TAAA-TA
4335152 TATTAATTAAA
1 -ATTAATTAAA
4335163 ATAAGATTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
11 17 0.28
12 6 0.10
13 9 0.15
14 14 0.23
15 14 0.23
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTAATTAAATA
Found at i:4335136 original size:8 final size:9
Alignment explanation
Indices: 4335068--4335142 Score: 53
Period size: 9 Copynumber: 7.8 Consensus size: 9
4335058 TAATTAATCC
*
4335068 AAATTATAT
1 AAATTAAAT
*
4335077 TAATTAAAT
1 AAATTAAAT
4335086 AATATTTAAAT
1 AA-A-TTAAAT
4335097 AAATT-AAT
1 AAATTAAAT
*
4335105 CCAAATTATAT
1 --AAATTAAAT
*
4335116 TAATTAAAT
1 AAATTAAAT
4335125 AATAATTAAAT
1 -A-AATTAAAT
4335136 AAATTAA
1 AAATTAA
4335143 TCCAAATTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
8 3 0.06
9 23 0.44
10 8 0.15
11 18 0.35
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (9 bp):
AAATTAAAT
Found at i:4335164 original size:15 final size:14
Alignment explanation
Indices: 4334981--4335162 Score: 94
Period size: 15 Copynumber: 13.0 Consensus size: 14
4334971 GGAAAAAAAT
*
4334981 TTATTTTAATTAAA
1 TTATATTAATTAAA
* *
4334995 TTATATTTATAAAAA
1 TTATATTAAT-TAAA
*
4335010 TTATATTAATTTAA
1 TTATATTAATTAAA
* *
4335024 TAATATTTAAATAAA
1 TTATA-TTAATTAAA
* *
4335039 TTA-ATCCAAATTATA
1 TTATAT--TAATTAAA
*
4335054 TTATTAATTAATCCAAA
1 TTA-T-ATTAAT-TAAA
4335071 TTATATTAATTAAA
1 TTATATTAATTAAA
*
4335085 -TA-A-TATTTAAA
1 TTATATTAATTAAA
* *
4335096 -TAAATTAATCCAAA
1 TTATATTAAT-TAAA
4335110 TTATATTAATTAAA
1 TTATATTAATTAAA
4335124 -TA-A-TAATTAAA
1 TTATATTAATTAAA
* *
4335135 -TAAATTAATCCAAA
1 TTATATTAAT-TAAA
4335149 TTATATTAATTAAA
1 TTATATTAATTAAA
4335163 ATAAGATTGA
Statistics
Matches: 127, Mismatches: 25, Indels: 32
0.69 0.14 0.17
Matches are distributed among these distances:
11 19 0.15
12 4 0.03
13 12 0.09
14 30 0.24
15 51 0.40
16 4 0.03
17 5 0.04
18 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
TTATATTAATTAAA
Found at i:4338928 original size:3 final size:3
Alignment explanation
Indices: 4338916--4338947 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4338906 TTTTTCTCTT
*
4338916 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4338948 TACTATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:4339328 original size:21 final size:21
Alignment explanation
Indices: 4339302--4339356 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
4339292 AGTTTAAGGT
**
4339302 TTTATGGTTTTGGATTTAGGG
1 TTTATGGTTTTAAATTTAGGG
* *
4339323 TTTATGATTTAAAATTTAGGG
1 TTTATGGTTTTAAATTTAGGG
*
4339344 TTTATAGTTTTAA
1 TTTATGGTTTTAA
4339357 GACGTTTTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (21 bp):
TTTATGGTTTTAAATTTAGGG
Found at i:4340187 original size:20 final size:19
Alignment explanation
Indices: 4340162--4340199 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4340152 ATTTGACCAA
4340162 ATTTCTTGAAAATAAATTAG
1 ATTTC-TGAAAATAAATTAG
*
4340182 ATTTCTGTAAATAAATTA
1 ATTTCTGAAAATAAATTA
4340200 ACTCATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (19 bp):
ATTTCTGAAAATAAATTAG
Done.