Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 19 of 135
Found at i:8013016 original size:59 final size:59
Alignment explanation
Indices: 8012850--8013094 Score: 250
Period size: 59 Copynumber: 4.2 Consensus size: 59
8012840 TCCGAGAAAA
* *
8012850 ATGGTCAACACCAAAAAAA-TTGAAATTTTATTTCGAGAAA-A-GGGGTGTCAGCCATTTG
1 ATGGCCAACACAAAAAAAATTTG-AATTTT-TTTCGAGAAATAGGGGGTGTCAGCCATTTG
** ** * *
8012908 ATGGCCAACACAAAAAAAATTAAAAAAAAATTTCTCGAGAAATAGGGGGTGTCGGCCATTTG
1 ATGGCCAACACAAAAAAAATT---TGAATTTTTTTCGAGAAATAGGGGGTGTCAGCCATTTG
* *
8012970 ATGGCCAACACAAAAAAAATTTGAATTTTTTTTGAGAAATAGGGGGTGTCGGCCATTTG
1 ATGGCCAACACAAAAAAAATTTGAATTTTTTTCGAGAAATAGGGGGTGTCAGCCATTTG
* * * * * *
8013029 ATGGTCAATAC-CAAAAAATAT-AATTTTTTT-TACAAATAGGGGGTGTCAGCCATTTG
1 ATGGCCAACACAAAAAAAATTTGAATTTTTTTCGAGAAATAGGGGGTGTCAGCCATTTG
*
8013085 ATAGCCAACA
1 ATGGCCAACA
8013095 TTCCAATTTT
Statistics
Matches: 157, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
56 30 0.19
57 9 0.06
58 25 0.16
59 42 0.27
60 9 0.06
61 5 0.03
62 37 0.24
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (59 bp):
ATGGCCAACACAAAAAAAATTTGAATTTTTTTCGAGAAATAGGGGGTGTCAGCCATTTG
Found at i:8013146 original size:18 final size:17
Alignment explanation
Indices: 8013125--8013159 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8013115 TCTCGTATTT
8013125 TTGTATATCAAAAAAATA
1 TTGTAT-TCAAAAAAATA
*
8013143 TTGTATTTAAAAAAATA
1 TTGTATTCAAAAAAATA
8013160 CATACGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (17 bp):
TTGTATTCAAAAAAATA
Found at i:8018934 original size:22 final size:21
Alignment explanation
Indices: 8018909--8018952 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 21
8018899 TTTGTTTCCT
8018909 TGTGTAGTTGTGGTGGATGACA
1 TGTGTAGTTGTGGTGGAT-ACA
8018931 TGTGTAGTTGTGGTGGATACA
1 TGTGTAGTTGTGGTGGATACA
8018952 T
1 T
8018953 AGTAATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.18, C:0.05, G:0.39, T:0.39
Consensus pattern (21 bp):
TGTGTAGTTGTGGTGGATACA
Found at i:8040645 original size:35 final size:35
Alignment explanation
Indices: 8040591--8040657 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
8040581 CTAACATCCA
*
8040591 AAGGATTAAACCGGGAACGTCTAATAATATTAATT
1 AAGGATTAAACCGGAAACGTCTAATAATATTAATT
** *
8040626 AAGGATTAAATTGGAAACGTCTGATAATATTA
1 AAGGATTAAACCGGAAACGTCTAATAATATTA
8040658 GGGATTGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (35 bp):
AAGGATTAAACCGGAAACGTCTAATAATATTAATT
Found at i:8045573 original size:19 final size:19
Alignment explanation
Indices: 8045545--8045594 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
8045535 GTCCAAAAAA
* *
8045545 TTATACTTTTTAAATTAAT
1 TTATATTTTTTAAATAAAT
*
8045564 TTATATTTTTAAAATAAAT
1 TTATATTTTTTAAATAAAT
8045583 TTA-ATTTTTTAA
1 TTATATTTTTTAA
8045595 TTTATGTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TTATATTTTTTAAATAAAT
Found at i:8049484 original size:15 final size:15
Alignment explanation
Indices: 8049460--8049490 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8049450 TTTTAGATTA
*
8049460 AATTTTATTAAAAAT
1 AATTTCATTAAAAAT
8049475 AATTTCATTAAAAAT
1 AATTTCATTAAAAAT
8049490 A
1 A
8049491 TAATACACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTTCATTAAAAAT
Found at i:8050092 original size:12 final size:12
Alignment explanation
Indices: 8050075--8050099 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8050065 TTTAAATTTT
8050075 TTTATACACACA
1 TTTATACACACA
8050087 TTTATACACACA
1 TTTATACACACA
8050099 T
1 T
8050100 CATTTGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (12 bp):
TTTATACACACA
Found at i:8056626 original size:27 final size:27
Alignment explanation
Indices: 8056561--8056626 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
8056551 ATTCTTCACA
8056561 AATTT-AAAATTTAATTCTATATTTTT
1 AATTTAAAAATTTAATTCTATATTTTT
* * * *
8056587 ATTTTCAAGAATTTAATT-TCTCTTTTT
1 AATTT-AAAAATTTAATTCTATATTTTT
8056614 AGATTTAAAAATT
1 A-ATTTAAAAATT
8056627 CAAGTCCAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 4 0.13
27 14 0.45
28 13 0.42
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (27 bp):
AATTTAAAAATTTAATTCTATATTTTT
Found at i:8068017 original size:16 final size:15
Alignment explanation
Indices: 8067996--8068029 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8067986 AACTTGACAC
8067996 TTTTTTT-TCTAAGCT
1 TTTTTTTGTCTAA-CT
8068011 TTTTTTTGTCTAACT
1 TTTTTTTGTCTAACT
8068026 TTTT
1 TTTT
8068030 CTTAATTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.71
Consensus pattern (15 bp):
TTTTTTTGTCTAACT
Found at i:8068250 original size:31 final size:31
Alignment explanation
Indices: 8068184--8068256 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
8068174 AAAACTTAGG
* **
8068184 TATCAAATTAGGAAAAAATGATAAATTCAGG
1 TATCAAATTAAGAAAAAATGATAAATTCAAA
*
8068215 TATCAAATTAAGAAAAAATG-TCAAGTTCAAA
1 TATCAAATTAAGAAAAAATGAT-AAATTCAAA
8068246 TATCAAATTAA
1 TATCAAATTAA
8068257 ATAAAAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 1 0.03
31 36 0.97
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.27
Consensus pattern (31 bp):
TATCAAATTAAGAAAAAATGATAAATTCAAA
Found at i:8068273 original size:27 final size:26
Alignment explanation
Indices: 8068237--8068289 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
8068227 AAAAAATGTC
8068237 AAGTTCAAATA-TCAAATTAAATAAAAA
1 AAGTTCAAATACT-AAATTAAA-AAAAA
*
8068264 AAGTTTAAATACTAAATTAAAAAAAA
1 AAGTTCAAATACTAAATTAAAAAAAA
8068290 TATCAAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 5 0.21
27 18 0.75
28 1 0.04
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (26 bp):
AAGTTCAAATACTAAATTAAAAAAAA
Found at i:8070530 original size:21 final size:20
Alignment explanation
Indices: 8070494--8070535 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
8070484 AAACATGAAC
*
8070494 TTGAGTTTAGAGTTTAGGGT
1 TTGAGTTTAGAGTTTAAGGT
8070514 TTGAGGTTT-GAGATTTAAGGT
1 TTGA-GTTTAGAG-TTTAAGGT
8070535 T
1 T
8070536 AGATTCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (20 bp):
TTGAGTTTAGAGTTTAAGGT
Found at i:8072207 original size:6 final size:6
Alignment explanation
Indices: 8072189--8072263 Score: 79
Period size: 6 Copynumber: 13.0 Consensus size: 6
8072179 TTAAATTGAT
*
8072189 TTTAAA TTT--A TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTT-AC
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA
*
8072233 CTTAAA TTTAAA TTTAAA TTTAAA TTATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
8072264 ACAAATTTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
4 6 0.10
5 5 0.09
6 41 0.71
7 6 0.10
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:8072207 original size:17 final size:16
Alignment explanation
Indices: 8072189--8072263 Score: 96
Period size: 17 Copynumber: 4.4 Consensus size: 16
8072179 TTAAATTGAT
8072189 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
8072205 TTTAAATTTATCTTAAA
1 TTTAAATTTAT-TTAAA
*
8072222 TTTAAATTTACCTTAAA
1 TTTAAATTTA-TTTAAA
8072239 TTTAAATTTAAATTTAAA
1 TTTAAATTT--ATTTAAA
8072257 TTATAAA
1 TT-TAAA
8072264 ACAAATTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
16 11 0.21
17 29 0.56
18 7 0.13
19 5 0.10
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:8072224 original size:23 final size:23
Alignment explanation
Indices: 8072190--8072259 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
8072180 TAAATTGATT
8072190 TTAAATTT--ATTTAAATTTAAA
1 TTAAATTTAAATTTAAATTTAAA
* **
8072211 TT-TATCTTAAATTTAAATTTACC
1 TTAAAT-TTAAATTTAAATTTAAA
8072234 TTAAATTTAAATTTAAATTTAAA
1 TTAAATTTAAATTTAAATTTAAA
8072257 TTA
1 TTA
8072260 TAAAACAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
23 31 0.79
24 2 0.05
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAATTTAAATTTAAATTTAAA
Found at i:8072733 original size:28 final size:28
Alignment explanation
Indices: 8072695--8072749 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
8072685 AAAGGGTTAC
* *
8072695 AACCCTGTTCTCAAAATCAATATACAAT
1 AACCCTATTCTCAAAATCAATACACAAT
* *
8072723 AACCCTATTCTCGATATCAATACACAA
1 AACCCTATTCTCAAAATCAATACACAA
8072750 GCCCTTTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.42, C:0.27, G:0.04, T:0.27
Consensus pattern (28 bp):
AACCCTATTCTCAAAATCAATACACAAT
Found at i:8074090 original size:162 final size:161
Alignment explanation
Indices: 8073880--8074377 Score: 773
Period size: 162 Copynumber: 3.1 Consensus size: 161
8073870 GGTTTTCAAT
* * ** *
8073880 TTAATCCTTTGACTGTTGGACTG-CCGGAGGTTGCCACGTGTCACTTTTTGGTTTATTTATGCAT
1 TTAATCCTTTGACTGTTTGACTGACCAGAGGCCGCCACGTGTCACTTTTTGGTTTATTTATGTAT
*
8073944 TTAGTCCTTTTTATTTTTAATTTAATTTAATTTAATCCTCAAATCAACTTCTGCTTAATTACAAA
66 CTAGTCCTTTTTATTTTTAATTTAATTTAATTTAATCCTCAAATCAACTTCTGCTTAATTACAAA
*
8074009 ATTGGCCTAAGAATTTTTCAAGATTTATAAA
131 ATTGGCCCAAGAATTTTTCAAGATTTATAAA
8074040 TTAATCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTGGTTTATTTATGTA
1 TTAATCCTTTGACTGTTTGACTG-ACCAGAGGCCGCCACGTGTCACTTTTTGGTTTATTTATGTA
*
8074105 TCTAGTCCTTTTTATTTTTAATTTAATTTAATTTAATCCTCAAATCAACTTTTGCTTAATTACAA
65 TCTAGTCCTTTTTATTTTTAATTTAATTTAATTTAATCCTCAAATCAACTTCTGCTTAATTACAA
8074170 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
130 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
*
8074202 TTAATCCTTTGACTATTTGACTGTACCAGAGGCCGCCACGTGTCACTTTTTGGTTTATTTATGTA
1 TTAATCCTTTGACTGTTTGACTG-ACCAGAGGCCGCCACGTGTCACTTTTTGGTTTATTTATGTA
* * ** ** * *
8074267 TCTAGTCCCTGTCGTTTTTAATTTGTTTTAATTTAATCTTCAAATCAACTTCTGCTTAATTATAA
65 TCTAGTCCTTTTTATTTTTAATTTAATTTAATTTAATCCTCAAATCAACTTCTGCTTAATTACAA
* * *
8074332 AATTGGCCCGACAATTTTTCAAGATTTACAAA
130 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
**
8074364 TTCGTCCTTTGACT
1 TTAATCCTTTGACT
8074378 TCTGGATGCT
Statistics
Matches: 312, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
160 22 0.07
162 290 0.93
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (161 bp):
TTAATCCTTTGACTGTTTGACTGACCAGAGGCCGCCACGTGTCACTTTTTGGTTTATTTATGTAT
CTAGTCCTTTTTATTTTTAATTTAATTTAATTTAATCCTCAAATCAACTTCTGCTTAATTACAAA
ATTGGCCCAAGAATTTTTCAAGATTTATAAA
Found at i:8074493 original size:29 final size:29
Alignment explanation
Indices: 8074451--8074668 Score: 172
Period size: 29 Copynumber: 7.5 Consensus size: 29
8074441 GGACTGTCCA
8074451 AAAATTACCATTTTACCCCCGAACTTTCC
1 AAAATTACCATTTTACCCCCGAACTTTCC
*
8074480 AAAATT-CCATTTTTAACCCCG-A-TTTCACC
1 AAAATTACCA-TTTTACCCCCGAACTTT--CC
*
8074509 AAAAATTACCATTTTACCCCTGAACTTTCC
1 -AAAATTACCATTTTACCCCCGAACTTTCC
*
8074539 AAAATT-CCATTTTAACCCCG-A-TTTCACC
1 AAAATTACCATTTTACCCCCGAACTTT--CC
8074567 AAAAATTACCATTTTACCCCCGAACTTTCC
1 -AAAATTACCATTTTACCCCCGAACTTTCC
*
8074597 AAAATT-CTATTTT-CGGCCCCG-A-TTTCACC
1 AAAATTACCATTTTAC--CCCCGAACTTT--CC
* * *
8074626 AAAAATTACCATTTTGCCCTCGTAA--GTCC
1 -AAAATTACCATTTTACCCCCG-AACTTTCC
8074655 AAAATTACCATTTT
1 AAAATTACCATTTT
8074669 GCCCTCGGGT
Statistics
Matches: 157, Mismatches: 10, Indels: 45
0.74 0.05 0.21
Matches are distributed among these distances:
26 3 0.02
27 8 0.05
28 39 0.25
29 45 0.29
30 42 0.27
31 12 0.08
32 8 0.05
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAACTTTCC
Found at i:8074521 original size:59 final size:59
Alignment explanation
Indices: 8074448--8074640 Score: 334
Period size: 59 Copynumber: 3.3 Consensus size: 59
8074438 CCTGGACTGT
8074448 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
*
8074507 CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* ***
8074565 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTCGGCCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
8074624 CCAAAAATTACCATTTT
1 CCAAAAATTACCATTTT
8074641 GCCCTCGTAA
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
58 56 0.44
59 71 0.56
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:8074666 original size:117 final size:116
Alignment explanation
Indices: 8074448--8074668 Score: 338
Period size: 117 Copynumber: 1.9 Consensus size: 116
8074438 CCTGGACTGT
*
8074448 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTCAACCCCGATTTCACCAAAA
*
8074513 ATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTAACCCCGATTTCA
66 ATTACCATTTTACCCCTGAAC-GTCCAAAATTCCATTTTAACCCCGATTTCA
* **
8074565 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTCGGCCCCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTCAACCCCGATTTCACCAAAA
*
8074630 ATTACCATTTT-GCCCTCGTAA-GTCCAAAATTACCATTTT
66 ATTACCATTTTACCCCT-G-AACGTCCAAAATT-CCATTTT
8074669 GCCCTCGGGT
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
116 13 0.14
117 80 0.84
118 2 0.02
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.33
Consensus pattern (116 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTCAACCCCGATTTCACCAAAA
ATTACCATTTTACCCCTGAACGTCCAAAATTCCATTTTAACCCCGATTTCA
Found at i:8074668 original size:59 final size:57
Alignment explanation
Indices: 8074448--8074668 Score: 309
Period size: 59 Copynumber: 3.8 Consensus size: 57
8074438 CCTGGACTGT
8074448 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAAC-TTCCAAAATTCCA-TTTTAACCCCGATTTCA
*
8074507 CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAAC-TTCCAAAATTCCATTTTAACCCCGATTTCA
* **
8074565 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTCGGCCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAAC-TTCCAAAATTCCATTTT-AACCCCGATTTCA
* * *
8074624 CCAAAAATTACCATTTTGCCCTCGTAA-GTCCAAAATTACCATTTT
1 CCAAAAATTACCATTTTACCCCCG-AACTTCCAAAATT-CCATTTT
8074669 GCCCTCGGGT
Statistics
Matches: 150, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
58 69 0.46
59 79 0.53
60 2 0.01
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.33
Consensus pattern (57 bp):
CCAAAAATTACCATTTTACCCCCGAACTTCCAAAATTCCATTTTAACCCCGATTTCA
Found at i:8076907 original size:23 final size:23
Alignment explanation
Indices: 8076880--8076974 Score: 111
Period size: 23 Copynumber: 4.0 Consensus size: 23
8076870 CTAGCACGCG
8076880 CTCTGATTAGCACTGTGTGTGCT
1 CTCTGATTAGCACTGTGTGTGCT
* *
8076903 CTCTGTTTAGCAC-GTCTCGTGCT
1 CTCTGATTAGCACTGTGT-GTGCT
*
8076926 CTCTGTTATTAGCACTGTGTATGCT
1 CTCTG--ATTAGCACTGTGTGTGCT
* *
8076951 CTCTGATTAGCAGTTTGTGTGCT
1 CTCTGATTAGCACTGTGTGTGCT
8076974 C
1 C
8076975 AGTACTTTGT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
22 3 0.05
23 38 0.63
25 16 0.27
26 3 0.05
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.41
Consensus pattern (23 bp):
CTCTGATTAGCACTGTGTGTGCT
Found at i:8077008 original size:23 final size:23
Alignment explanation
Indices: 8076973--8077066 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
8076963 GTTTGTGTGC
*
8076973 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
8076996 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
8077019 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
* *
8077044 TCAGTACTTCG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
8077066 T
1 T
8077067 TGTTCCGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.27
23 21 0.36
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.44
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:8083319 original size:23 final size:23
Alignment explanation
Indices: 8083293--8083390 Score: 126
Period size: 23 Copynumber: 4.2 Consensus size: 23
8083283 ACACTAGCGC
8083293 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
8083316 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
*
8083339 GCTCTCTGTTATTAGCACTGTGTCT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
8083364 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
8083387 GCTC
1 GCTC
8083391 AGTACTTTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
22 3 0.05
23 42 0.66
25 16 0.25
26 3 0.05
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.41
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:8083345 original size:25 final size:25
Alignment explanation
Indices: 8083294--8083370 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
8083284 CACTAGCGCG
* * *
8083294 CTCTCTGATTAGCACTGTGTGTGCT
1 CTCTCTTATTAGCACTGTCTCTGCT
*
8083319 CTCT-GT-TTAGCAC-GTCTCGTGCT
1 CTCTCTTATTAGCACTGTCTC-TGCT
* *
8083342 CTCTGTTATTAGCACTGTGTCTGCT
1 CTCTCTTATTAGCACTGTCTCTGCT
8083367 CTCT
1 CTCT
8083371 GATTAGCACT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 3 0.07
23 15 0.36
24 1 0.02
25 19 0.45
26 4 0.10
ACGTcount: A:0.10, C:0.27, G:0.21, T:0.42
Consensus pattern (25 bp):
CTCTCTTATTAGCACTGTCTCTGCT
Found at i:8085134 original size:19 final size:20
Alignment explanation
Indices: 8085093--8085135 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
8085083 CATCTATCAA
8085093 CAAAA-ATTTAAAAAAAGTT
1 CAAAATATTTAAAAAAAGTT
8085112 -AAAATATTTAAAAAAA-TT
1 CAAAATATTTAAAAAAAGTT
8085130 CAAAAT
1 CAAAAT
8085136 TTATATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (20 bp):
CAAAATATTTAAAAAAAGTT
Found at i:8091471 original size:17 final size:17
Alignment explanation
Indices: 8091446--8091478 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8091436 GGAAAATATC
*
8091446 TTTATAAAATATATAAT
1 TTTAAAAAATATATAAT
8091463 TTTAAAAAATATATAA
1 TTTAAAAAATATATAA
8091479 AGTTATGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAAAAAATATATAAT
Found at i:8093692 original size:14 final size:14
Alignment explanation
Indices: 8093673--8093703 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8093663 TCCTGTTATT
8093673 ACACTATTATCCAA
1 ACACTATTATCCAA
8093687 ACACTATTATCCAA
1 ACACTATTATCCAA
8093701 ACA
1 ACA
8093704 AGGCATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (14 bp):
ACACTATTATCCAA
Found at i:8097842 original size:18 final size:20
Alignment explanation
Indices: 8097819--8097856 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
8097809 ACGTGCCAAT
8097819 CCAACTAG-ATTTT-AAATG
1 CCAACTAGAATTTTCAAATG
*
8097837 CCAACTTGAATTTTCAAATG
1 CCAACTAGAATTTTCAAATG
8097857 GAATGAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 5 0.29
20 5 0.29
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (20 bp):
CCAACTAGAATTTTCAAATG
Found at i:8098074 original size:15 final size:15
Alignment explanation
Indices: 8098050--8098091 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
8098040 TTAACCCAAA
8098050 GATT-CAATATCTTT
1 GATTCCAATATCTTT
8098064 GATTCCAATA--TTT
1 GATTCCAATATCTTT
*
8098077 GATTCCAATGTCTTT
1 GATTCCAATATCTTT
8098092 AAAATCTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 12 0.50
14 4 0.17
15 8 0.33
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.48
Consensus pattern (15 bp):
GATTCCAATATCTTT
Found at i:8112291 original size:57 final size:58
Alignment explanation
Indices: 8112219--8112334 Score: 173
Period size: 58 Copynumber: 2.0 Consensus size: 58
8112209 TCTTGTTTTG
* * *
8112219 AAATAATTTTCAAATATATA-TAGTTTGAAATTTATGTATTTCAACATAAAATTAGTT
1 AAATAATTTTCAAATATATATTAGTTTCAAATTTATGTATTCCAACAAAAAATTAGTT
*
8112276 AAATAATTCTT-AAATATATATTGGTTTCAAATTTATGTATTCCAACAAAAAATTAGTT
1 AAATAATT-TTCAAATATATATTAGTTTCAAATTTATGTATTCCAACAAAAAATTAGTT
8112334 A
1 A
8112335 TATTGTAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 17 0.32
58 36 0.68
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (58 bp):
AAATAATTTTCAAATATATATTAGTTTCAAATTTATGTATTCCAACAAAAAATTAGTT
Found at i:8119391 original size:6 final size:7
Alignment explanation
Indices: 8119361--8119389 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
8119351 ATAAATAAAA
8119361 GGAAGGG
1 GGAAGGG
8119368 GGAAGGG
1 GGAAGGG
8119375 GGAAGGG
1 GGAAGGG
8119382 GGAAGGG
1 GGAAGGG
8119389 G
1 G
8119390 AATTAGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.72, T:0.00
Consensus pattern (7 bp):
GGAAGGG
Found at i:8120349 original size:24 final size:24
Alignment explanation
Indices: 8120317--8120365 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
8120307 AATTTTTGTT
*
8120317 AAATTCAAGTACCACATTGAAAAA
1 AAATACAAGTACCACATTGAAAAA
*
8120341 AAATACAAGTACCACATTTAAAAA
1 AAATACAAGTACCACATTGAAAAA
8120365 A
1 A
8120366 CTGTCAACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.57, C:0.16, G:0.06, T:0.20
Consensus pattern (24 bp):
AAATACAAGTACCACATTGAAAAA
Found at i:8122108 original size:2 final size:2
Alignment explanation
Indices: 8122069--8122093 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8122059 TAAAAGCCTT
8122069 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8122094 TTAGAACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8122997 original size:167 final size:168
Alignment explanation
Indices: 8122704--8123039 Score: 665
Period size: 167 Copynumber: 2.0 Consensus size: 168
8122694 GAAAATATAG
8122704 AGAATTTTAATTTTAATTTTTTTTAAATAATTTAGTTTAAATATTTTTGATAAAGTGTTATTTCA
1 AGAATTTTAATTTTAATTTTTTTTAAATAATTTAGTTTAAATATTTTTGATAAAGTGTTATTTCA
8122769 ATTAACATTTTAGATTTAAAAAAAATATTATATGCTTGCAGATATATTTAAAAATGTAAACATCG
66 ATTAACATTTTAGATTTAAAAAAAATATTATATGCTTGCAGATATATTTAAAAATGTAAACATCG
8122834 ATGTAAGTTGAAATATAGAATTCATAACAATTTCAAAT
131 ATGTAAGTTGAAATATAGAATTCATAACAATTTCAAAT
8122872 AGAATTTTAATTTTAATTTTTTTTAAATAATTTAGTTTAAATATTTTTGATAAAGTGTTATTTCA
1 AGAATTTTAATTTTAATTTTTTTTAAATAATTTAGTTTAAATATTTTTGATAAAGTGTTATTTCA
8122937 ATTAACATTTTAGATTT-AAAAAAATATTATATGCTTGCAGATATATTTAAAAATGTAAACATCG
66 ATTAACATTTTAGATTTAAAAAAAATATTATATGCTTGCAGATATATTTAAAAATGTAAACATCG
8123001 ATGTAAGTTGAAATATAGAATTCATAACAATTTCAAAT
131 ATGTAAGTTGAAATATAGAATTCATAACAATTTCAAAT
8123039 A
1 A
8123040 TTCTAAAATC
Statistics
Matches: 168, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
167 86 0.51
168 82 0.49
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.43
Consensus pattern (168 bp):
AGAATTTTAATTTTAATTTTTTTTAAATAATTTAGTTTAAATATTTTTGATAAAGTGTTATTTCA
ATTAACATTTTAGATTTAAAAAAAATATTATATGCTTGCAGATATATTTAAAAATGTAAACATCG
ATGTAAGTTGAAATATAGAATTCATAACAATTTCAAAT
Found at i:8131308 original size:32 final size:31
Alignment explanation
Indices: 8131203--8131308 Score: 79
Period size: 32 Copynumber: 3.3 Consensus size: 31
8131193 TAAAAATAAT
* * * **
8131203 AACCAAAATAGCAGCAAAACAACAAAAATAGC
1 AACCAAAACAACATCAAAACAGTAAAAA-AGC
* * * *
8131235 AACAAAAATAACATCAATACAGTAAAAAAAC
1 AACCAAAACAACATCAAAACAGTAAAAAAGC
*
8131266 AGCACC-AAACAACAATCAAAACGGTAAAAAAGC
1 A--ACCAAAACAAC-ATCAAAACAGTAAAAAAGC
8131299 AACCAAAACA
1 AACCAAAACA
8131309 GTAAAAAAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
31 6 0.10
32 33 0.57
33 19 0.33
ACGTcount: A:0.63, C:0.22, G:0.08, T:0.08
Consensus pattern (31 bp):
AACCAAAACAACATCAAAACAGTAAAAAAGC
Found at i:8133402 original size:16 final size:16
Alignment explanation
Indices: 8133381--8133413 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8133371 TACTTTCCCT
*
8133381 AATTGAGTTGGTGTCG
1 AATTGAATTGGTGTCG
8133397 AATTGAATTGGTGTCG
1 AATTGAATTGGTGTCG
8133413 A
1 A
8133414 GTTGGCTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.33, T:0.36
Consensus pattern (16 bp):
AATTGAATTGGTGTCG
Found at i:8136553 original size:15 final size:15
Alignment explanation
Indices: 8136533--8136564 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8136523 ATATTTTGGC
8136533 CGGAACGGGTCAAAT
1 CGGAACGGGTCAAAT
8136548 CGGAACGGGTCAAAT
1 CGGAACGGGTCAAAT
8136563 CG
1 CG
8136565 AGCTCGAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.34, T:0.12
Consensus pattern (15 bp):
CGGAACGGGTCAAAT
Found at i:8157888 original size:22 final size:24
Alignment explanation
Indices: 8157844--8157889 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
8157834 AATATTTAAA
*
8157844 TTTTTTACTTTACTTATATTAATT
1 TTTTTTACTTTACTTATACTAATT
8157868 TTTTTTACTTTAC-TAT-CTAATT
1 TTTTTTACTTTACTTATACTAATT
8157890 AAATTCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 3 0.14
24 13 0.62
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTTTACTTTACTTATACTAATT
Found at i:8158326 original size:14 final size:15
Alignment explanation
Indices: 8158306--8158342 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
8158296 ATAGGTGAAA
8158306 AAAAAATTTAA-TAT
1 AAAAAATTTAATTAT
*
8158320 TAAAAATTTAATTAT
1 AAAAAATTTAATTAT
8158335 AAAAAATT
1 AAAAAATT
8158343 AGTATTGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAAATTTAATTAT
Found at i:8163401 original size:23 final size:23
Alignment explanation
Indices: 8163369--8163482 Score: 124
Period size: 23 Copynumber: 5.0 Consensus size: 23
8163359 TCACCGTTCA
* *
8163369 GCACTATGTGTGCTTACTGTTTC
1 GCACTTTGTGTGCCTACTGTTTC
8163392 GCACTTTGTGTGCCTACTGTTTC
1 GCACTTTGTGTGCCTACTGTTTC
*
8163415 GCACTTCGTGTGCCTACTGATTT-
1 GCACTTTGTGTGCCTACTG-TTTC
* * * *
8163438 GCGCTATGTGCGCCTACTGATT-
1 GCACTTTGTGTGCCTACTGTTTC
* *
8163460 GCACTGTGTGTGCTTACTGTTTC
1 GCACTTTGTGTGCCTACTGTTTC
8163483 TCCAGCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
22 19 0.25
23 54 0.71
24 3 0.04
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (23 bp):
GCACTTTGTGTGCCTACTGTTTC
Found at i:8176715 original size:21 final size:23
Alignment explanation
Indices: 8176685--8176727 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
8176675 ATATATATTT
8176685 TTTAA-ATTTTCTT-TTCTCTCC
1 TTTAATATTTTCTTCTTCTCTCC
*
8176706 TTTAATTTTTTCTTCTTCTCTC
1 TTTAATATTTTCTTCTTCTCTC
8176728 TTCTTACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
23 7 0.37
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTAATATTTTCTTCTTCTCTCC
Found at i:8177092 original size:55 final size:55
Alignment explanation
Indices: 8177008--8177111 Score: 172
Period size: 55 Copynumber: 1.9 Consensus size: 55
8176998 ATGTGATATG
* * * *
8177008 TAACAATCGATTTAAATATATAAACAATCGATTCAAAAGAATCAGTATTTTAACA
1 TAACAATCAATTTAAACATATAAAAAATCGATTCAAAAGAAGCAGTATTTTAACA
8177063 TAACAATCAATTTAAACATATAAAAAATCGATTCAAAAGAAGCAGTATT
1 TAACAATCAATTTAAACATATAAAAAATCGATTCAAAAGAAGCAGTATT
8177112 CCAACAATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (55 bp):
TAACAATCAATTTAAACATATAAAAAATCGATTCAAAAGAAGCAGTATTTTAACA
Found at i:8181625 original size:24 final size:23
Alignment explanation
Indices: 8181598--8181666 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
8181588 TACACCCTAT
*
8181598 ATTACGGGATGATCGTAATGTGAG
1 ATTACGGGATGATCG-AATGTGAA
* * *
8181622 ATTATGGGATTGTTAGAATGTGAA
1 ATTACGGGA-TGATCGAATGTGAA
*
8181646 ATTTCGGGATGATCGGAATGT
1 ATTACGGGATGATC-GAATGT
8181667 TAAAATTCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
23 3 0.09
24 28 0.80
25 4 0.11
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.33
Consensus pattern (23 bp):
ATTACGGGATGATCGAATGTGAA
Found at i:8185123 original size:17 final size:17
Alignment explanation
Indices: 8185101--8185139 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
8185091 AGGTGGAGAA
* *
8185101 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
8185118 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
8185135 CTTGT
1 CTTGT
8185140 CAAGGAGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:8185191 original size:41 final size:41
Alignment explanation
Indices: 8185129--8185224 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
8185119 TTGTTCGTAG
*
8185129 AGAATTCTTGTCAAGGAGGAGATTGTTAGAATTGGGTGACT
1 AGAATTCTTGTTAAGGAGGAGATTGTTAGAATTGGGTGACT
* * *
8185170 AGAATTCTTATTAAGGTGGAGATTGTTAGATTTGGGTGACT
1 AGAATTCTTGTTAAGGAGGAGATTGTTAGAATTGGGTGACT
8185211 AGAATTCTTGTTAA
1 AGAATTCTTGTTAA
8185225 AATGAAATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.29, C:0.06, G:0.28, T:0.36
Consensus pattern (41 bp):
AGAATTCTTGTTAAGGAGGAGATTGTTAGAATTGGGTGACT
Found at i:8185847 original size:20 final size:20
Alignment explanation
Indices: 8185820--8185914 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 20
8185810 TGGTATCACA
*
8185820 TTAGAAATTTTGGTATTTGG
1 TTAGAAATTTTAGTATTTGG
* **
8185840 TTATAAATTTTAGTA-TCCG
1 TTAGAAATTTTAGTATTTGG
*
8185859 TTAGAAATGTTAGTATTTGG
1 TTAGAAATTTTAGTATTTGG
* *
8185879 TTAGAAATTATAATATTTGG
1 TTAGAAATTTTAGTATTTGG
* *
8185899 ATAAAAATTTTAGTAT
1 TTAGAAATTTTAGTAT
8185915 CGCATTAAAA
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
19 15 0.25
20 44 0.75
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (20 bp):
TTAGAAATTTTAGTATTTGG
Found at i:8187967 original size:17 final size:17
Alignment explanation
Indices: 8187942--8187975 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8187932 TACTAAAATA
8187942 ATACAAAAAAAATATAT
1 ATACAAAAAAAATATAT
* *
8187959 ATACCAAAATAATATAT
1 ATACAAAAAAAATATAT
8187976 TCCTCCCGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (17 bp):
ATACAAAAAAAATATAT
Found at i:8189212 original size:17 final size:17
Alignment explanation
Indices: 8189179--8189211 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
8189169 AATTCAATTG
8189179 ATATATTTAAATATTTT
1 ATATATTTAAATATTTT
8189196 ATATA-TTAAATATTTT
1 ATATATTTAAATATTTT
8189212 TTAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTTAAATATTTT
Found at i:8191609 original size:6 final size:6
Alignment explanation
Indices: 8191598--8191656 Score: 93
Period size: 6 Copynumber: 9.8 Consensus size: 6
8191588 GGCCATTAAA
*
8191598 TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT CT-TATT
1 TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT -TATGTT
8191646 TATGTT TATGT
1 TATGTT TATGT
8191657 ATGCAAATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
5 1 0.02
6 47 0.96
7 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (6 bp):
TATGTT
Found at i:8194633 original size:25 final size:26
Alignment explanation
Indices: 8194583--8194657 Score: 84
Period size: 25 Copynumber: 2.9 Consensus size: 26
8194573 TAACCTTCTG
* *
8194583 TTTCCTTTTCTTCTTCAAAACTTTTA-
1 TTTCCTTTCCTTCTTCAAAA-ATTTAC
8194609 TTTCCTTTCCTTCTTCAAAAATTTAC
1 TTTCCTTTCCTTCTTCAAAAATTTAC
*
8194635 TGTT--ATTCCTTCTTCAAAAATTT
1 T-TTCCTTTCCTTCTTCAAAAATTT
8194658 GCTGTTAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
25 22 0.50
26 20 0.45
27 2 0.05
ACGTcount: A:0.23, C:0.23, G:0.01, T:0.53
Consensus pattern (26 bp):
TTTCCTTTCCTTCTTCAAAAATTTAC
Found at i:8194662 original size:25 final size:25
Alignment explanation
Indices: 8194615--8194664 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
8194605 TTTATTTCCT
8194615 TTCCTTCTTCAAAAATTTACTGTTA
1 TTCCTTCTTCAAAAATTTACTGTTA
*
8194640 TTCCTTCTTCAAAAATTTGCTGTTA
1 TTCCTTCTTCAAAAATTTACTGTTA
8194665 AACAGATCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.48
Consensus pattern (25 bp):
TTCCTTCTTCAAAAATTTACTGTTA
Found at i:8194737 original size:27 final size:27
Alignment explanation
Indices: 8194699--8194759 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
8194689 GCATTGACAA
8194699 AGGCACCACTAGTGCCGCCTACCCAGT
1 AGGCACCACTAGTGCCGCCTACCCAGT
**
8194726 AGGCACCACTAGTGCCGCCTACCTGGT
1 AGGCACCACTAGTGCCGCCTACCCAGT
8194753 AGGCACC
1 AGGCACC
8194760 TCTTGTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.21, C:0.39, G:0.25, T:0.15
Consensus pattern (27 bp):
AGGCACCACTAGTGCCGCCTACCCAGT
Found at i:8195148 original size:27 final size:27
Alignment explanation
Indices: 8195110--8195190 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
8195100 AAATACGAGT
* *
8195110 TGGTGCCACCTGATAGAAAGGCACCAC
1 TGGTGCCGCCTGACAGAAAGGCACCAC
**
8195137 TGGTGCCGCCTGACAGGTAGGCACCAC
1 TGGTGCCGCCTGACAGAAAGGCACCAC
* **
8195164 TGGTGCCGCCTGTCAGGTAGGCACCAC
1 TGGTGCCGCCTGACAGAAAGGCACCAC
8195191 CCATTTATAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.21, C:0.32, G:0.31, T:0.16
Consensus pattern (27 bp):
TGGTGCCGCCTGACAGAAAGGCACCAC
Found at i:8201779 original size:125 final size:125
Alignment explanation
Indices: 8201557--8201809 Score: 488
Period size: 125 Copynumber: 2.0 Consensus size: 125
8201547 GTAGACCCAA
8201557 AGTGAGAATTGGAATGTCTTTGCAATGAGAAGTGAGAATCAAACACACATGCACCCCAAAATATT
1 AGTGAGAATTGGAATGTCTTTGCAATGAGAAGTGAGAATCAAACACACATGCACCCCAAAATATT
8201622 TTTTAAAGCTATGTAGAAAACAGCCCCAGGGTCATTACAATGACGTTTCGTTGACAATGT
66 TTTTAAAGCTATGTAGAAAACAGCCCCAGGGTCATTACAATGACGTTTCGTTGACAATGT
*
8201682 AGTGAGAATTGGAATGTCTTTGGAATGAGAAGTGAGAATCAAACACACATGCACCCCAAAATATT
1 AGTGAGAATTGGAATGTCTTTGCAATGAGAAGTGAGAATCAAACACACATGCACCCCAAAATATT
*
8201747 TTTTAAAGCTATGTAGAAAACAGCCCCAGGGTCATTACAATGACGTTTCGTTGGCAATGT
66 TTTTAAAGCTATGTAGAAAACAGCCCCAGGGTCATTACAATGACGTTTCGTTGACAATGT
8201807 AGT
1 AGT
8201810 CCAATATATT
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 126 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (125 bp):
AGTGAGAATTGGAATGTCTTTGCAATGAGAAGTGAGAATCAAACACACATGCACCCCAAAATATT
TTTTAAAGCTATGTAGAAAACAGCCCCAGGGTCATTACAATGACGTTTCGTTGACAATGT
Found at i:8222730 original size:59 final size:59
Alignment explanation
Indices: 8222656--8222837 Score: 226
Period size: 59 Copynumber: 3.1 Consensus size: 59
8222646 TAATCTGATA
*
8222656 AAAAAATCAAATTTTTGGGTGTT-AGCCATGCAATGGCCGACATCCCTTTTTTGTTAGAT
1 AAAAAATCAAATTTTTGGGTGTTGA-CCATGCAATGGCCGACACCCCTTTTTTGTTAGAT
** * * * **
8222715 AAAAAATTTAATTTTTTGGTGTTGACTATGCAATGGCCGACACCCCTATTTAATCT-GAT
1 AAAAAATCAAATTTTTGGGTGTTGACCATGCAATGGCCGACACCCCTTTTTTGT-TAGAT
* * *
8222774 AAAAAATCAAATTTTTGAGTATTGACCATGCAATGGCCGACACCCCTTTTTTG-CAGAT
1 AAAAAATCAAATTTTTGGGTGTTGACCATGCAATGGCCGACACCCCTTTTTTGTTAGAT
8222832 AAAAAA
1 AAAAAA
8222838 ATTTTAAATT
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
58 9 0.09
59 91 0.89
60 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (59 bp):
AAAAAATCAAATTTTTGGGTGTTGACCATGCAATGGCCGACACCCCTTTTTTGTTAGAT
Found at i:8222944 original size:68 final size:70
Alignment explanation
Indices: 8222785--8222991 Score: 276
Period size: 67 Copynumber: 2.9 Consensus size: 70
8222775 AAAAATCAAA
*
8222785 TTTTTGAGTATTGACCATGCAATGGCCGACACCCCTTTTTTGCAGATAAAAAAATTTTAAATTTT
1 TTTTTG-GTGTTGACCATGCAATGGCCGACACCCC-TTTTT-CAGATAAAAAAA-TTTAAATTTT
8222850 TTTGAAATT
62 TTTGAAATT
* *
8222859 TTTTTGGTGTTG-GCATGCAATGGCCGACACCCCTTTTTCAGATAAAAAAA-TT-AATTTTTTTT
1 TTTTTGGTGTTGACCATGCAATGGCCGACACCCCTTTTTCAGATAAAAAAATTTAAATTTTTTTG
*
8222921 AATTT
66 AAATT
* * * *
8222926 TTTTTGGTGTTGATCATGCAATGGCCTACACTCCCTTTTTCAGATAAAAAATTTTAAATATTTTT
1 TTTTTGGTGTTGACCATGCAATGGCCGACAC-CCCTTTTTCAGATAAAAAAATTTAAATTTTTTT
8222991 G
65 G
8222992 GTGTTGGCCA
Statistics
Matches: 120, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
67 25 0.21
68 18 0.15
69 19 0.16
70 14 0.12
71 13 0.11
72 20 0.17
73 5 0.04
74 6 0.05
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.43
Consensus pattern (70 bp):
TTTTTGGTGTTGACCATGCAATGGCCGACACCCCTTTTTCAGATAAAAAAATTTAAATTTTTTTG
AAATT
Found at i:8222990 original size:60 final size:59
Alignment explanation
Indices: 8222925--8223075 Score: 182
Period size: 60 Copynumber: 2.5 Consensus size: 59
8222915 TTTTTTAATT
* * *
8222925 TTTTTTGGTGTTGATCATGCAATGGCCTACACTCCCTTTTTCA-GATAAAAAATTTTAAA
1 TTTTTTGGTGTTGGTCATGCAATGGCCGACACCCCCTTTTT-ATGATAAAAAATTTTAAA
* * *
8222984 TATTTTTGGTGTTGGCCATGCCATAGCCGACACCCCCTTTTTATTTGATAAAAAA--TTAAA
1 T-TTTTTGGTGTTGGTCATGCAATGGCCGACACCCCCTTTTTA--TGATAAAAAATTTTAAA
*
8223044 TTTTTTGGTGTTGGTCATGTAATGGCCGACAC
1 TTTTTTGGTGTTGGTCATGCAATGGCCGACAC
8223076 AAACTTTCCC
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
59 29 0.37
60 40 0.51
62 9 0.12
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (59 bp):
TTTTTTGGTGTTGGTCATGCAATGGCCGACACCCCCTTTTTATGATAAAAAATTTTAAA
Found at i:8223902 original size:17 final size:17
Alignment explanation
Indices: 8223882--8223935 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
8223872 AAAAAATAAT
8223882 AATTAGAATATACAGGA
1 AATTAGAATATACAGGA
*
8223899 AATTAGAA-A-ATA--A
1 AATTAGAATATACAGGA
8223912 AATTA-AATATACAGGA
1 AATTAGAATATACAGGA
8223928 AATTAGAA
1 AATTAGAA
8223936 ATTAAGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 2 0.07
13 7 0.23
14 2 0.07
15 2 0.07
16 7 0.23
17 10 0.33
ACGTcount: A:0.59, C:0.04, G:0.13, T:0.24
Consensus pattern (17 bp):
AATTAGAATATACAGGA
Found at i:8223920 original size:29 final size:31
Alignment explanation
Indices: 8223874--8223936 Score: 112
Period size: 29 Copynumber: 2.1 Consensus size: 31
8223864 AAATTTTAAA
8223874 AAAATAATAATTAGAATATACAGGAAATTAG
1 AAAATAATAATTAGAATATACAGGAAATTAG
8223905 AAAATAA-AATTA-AATATACAGGAAATTAG
1 AAAATAATAATTAGAATATACAGGAAATTAG
8223934 AAA
1 AAA
8223937 TTAAGTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 20 0.62
30 5 0.16
31 7 0.22
ACGTcount: A:0.62, C:0.03, G:0.11, T:0.24
Consensus pattern (31 bp):
AAAATAATAATTAGAATATACAGGAAATTAG
Found at i:8225199 original size:30 final size:32
Alignment explanation
Indices: 8225146--8225204 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
8225136 TTTAAAATTC
8225146 AAAAATATAAAAAAAACATTTCGAAAATAGAA
1 AAAAATATAAAAAAAACATTTCGAAAATAGAA
* *
8225178 AAAAATATTATAAAAA-A-TTCGAAAATA
1 AAAAATATAAAAAAAACATTTCGAAAATA
8225205 TATCTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 10 0.40
31 1 0.04
32 14 0.56
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (32 bp):
AAAAATATAAAAAAAACATTTCGAAAATAGAA
Found at i:8226540 original size:168 final size:169
Alignment explanation
Indices: 8226311--8227463 Score: 1554
Period size: 168 Copynumber: 6.8 Consensus size: 169
8226301 TAAATTTAAA
* * *
8226311 ATTTGATAAAAATTGTAATATAATAATAA-TTTTTTATTTAAATATTTAAAATTAG-TAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAATTTTTTTATTTAAATA-TGAAAATTTGATAAATAAT
*
8226374 GTATTGTCAAATCAACACATTATTTGATAAAAAATTTAATATAATAATAA-TTTTTATTTAAATA
65 ATATTGTCAAATCAACACATTATTTGATAAAAAATTTAATATAATAATAATTTTTTATTTAAATA
*
8226438 TTTAAATTCAG-TAAATAATGTATTATCAAATCAACACATT
130 TTTAAATT-AGATAAATAATATATTATCAAATCAACACATT
*
8226478 ATTTGAT-AAAATTATAATATAATAATAATCTTTTTTATTTAAATATGAAAATTTGATAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAAT-TTTTTTATTTAAATATGAAAATTTGATAAATAAT
* *
8226542 GTATTGTCAAATCAACACATTATTTGAT-AAAAATTGTAATATAATAATAATTTTTAATTTAAAT
65 ATATTGTCAAATCAACACATTATTTGATAAAAAATT-TAATATAATAATAATTTTTTATTTAAAT
*
8226606 ATTTAAAATTAG-TAAATAATGTATTATCAAATCAACACATT
129 ATTT-AAATTAGATAAATAATATATTATCAAATCAACACATT
* * * *
8226647 ATTTGATAAAAATTGTAATATAATAATAA-TTTTTAATTTAAATATTTAAAATTAG-TAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAATTTTTTTATTTAAATA-TGAAAATTTGATAAATAAT
* *
8226710 GTATTGTCAAATCAACACATTATTTGAT-AAAAATTATAATATAATAATAATTTTTGATTTAAAT
65 ATATTGTCAAATCAACACATTATTTGATAAAAAATT-TAATATAATAATAATTTTTTATTTAAAT
* *
8226774 ATTTAAATTTAG-TAAATAATATATTGTCAAATCAATACATT
129 ATTTAAA-TTAGATAAATAATATATTATCAAATCAACACATT
* *
8226815 ATTTGATAAAAATTATAATATAATAATAATATTTTTATTTAAATATGAAAATTTGATAAATAATA
1 ATTTGATAAAAATTTTAATATAATAATAATTTTTTTATTTAAATATGAAAATTTGATAAATAATA
*
8226880 TATTGTCAAATCAACACATTATTTGATAAAAATTTTAATATAATAATAATCTTTTTTATTTAAAT
66 TATTGTCAAATCAACACATTATTTGATAAAAAATTTAATATAATAATAA--TTTTTTATTTAAAT
** * *
8226945 ATGAAAATTTGATAAATAATATGTTATCAAATCAACACATT
129 ATTTAAATTAGATAAATAATATATTATCAAATCAACACATT
*
8226986 ATTTGATAAAAATTTTAATATAATAATAATCTTTTTTATTTAAATATGAAAAATTGATAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAAT-TTTTTTATTTAAATATGAAAATTTGATAAATAAT
* * *
8227051 ATGTTATCAAATCAACACATTATTTGATAAAAATTTTAATATAATAATAATCTTTTTTATTTAAA
65 ATATTGTCAAATCAACACATTATTTGATAAAAAATTTAATATAATAATAA--TTTTTTATTTAAA
** * * * ** *
8227116 TATGAAAATTTGATAAATAATATGTTGTCAAATCAGTATATT
128 TATTTAAATTAGATAAATAATATATTATCAAATCAACACATT
* *
8227158 ATTTGATAAAAATTTTAATATAATAATAATGTTTTTATTTAAATATGAAAATTTGATAAATAATT
1 ATTTGATAAAAATTTTAATATAATAATAATTTTTTTATTTAAATATGAAAATTTGATAAATAATA
8227223 TATTGTCAAATCAACAC--------AT-AAAAATTGTAATATAATAATAATATTTTTTATTTAAA
66 TATTGTCAAATCAACACATTATTTGATAAAAAATT-TAATATAATAAT-A-ATTTTTTATTTAAA
** * * *
8227279 TATGAAAATTTGATAAATAATGTATTATCAAATCAACACATC
128 TATTTAAATTAGATAAATAATATATTATCAAATCAACACATT
*
8227321 ATTTGATAAAAATTTTAATATAATAATGATCTTTTTTATTTAAATATGAAAATTTGATAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAAT-TTTTTTATTTAAATATGAAAATTTGATAAATAAT
* * *
8227386 ACATTGTCAAATAAACACATTATTTGATAAAAATTTTAATATAATAATAATCTTTTTTATTTAAA
65 ATATTGTCAAATCAACACATTATTTGATAAAAAATTTAATATAATAATAA--TTTTTTATTTAAA
8227451 TAATGTTAAATTA
128 T-AT-TTAAATTA
8227464 TTTTTAAATG
Statistics
Matches: 895, Mismatches: 58, Indels: 59
0.88 0.06 0.06
Matches are distributed among these distances:
162 6 0.01
163 91 0.10
164 49 0.05
165 1 0.00
166 20 0.02
167 25 0.03
168 219 0.24
169 124 0.14
170 35 0.04
171 121 0.14
172 191 0.21
173 8 0.01
174 5 0.01
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (169 bp):
ATTTGATAAAAATTTTAATATAATAATAATTTTTTTATTTAAATATGAAAATTTGATAAATAATA
TATTGTCAAATCAACACATTATTTGATAAAAAATTTAATATAATAATAATTTTTTATTTAAATAT
TTAAATTAGATAAATAATATATTATCAAATCAACACATT
Found at i:8226670 original size:45 final size:44
Alignment explanation
Indices: 8226610--8226754 Score: 128
Period size: 45 Copynumber: 3.4 Consensus size: 44
8226600 TTAAATATTT
8226610 AAAATTAGTAAATAATGTATTATCAAATCAACACATTATTTGATA
1 AAAATTAGTAAATAATGTATT-TCAAATCAACACATTATTTGATA
* ** **
8226655 AAAATT-GTAATATAATAATAATTTTTAATTTA-A-A-TA-TT--T-
1 AAAATTAGTAA-ATAAT-GT-ATTTCAAATCAACACATTATTTGATA
8226694 AAAATTAGTAAATAATGTATTGTCAAATCAACACATTATTTGATA
1 AAAATTAGTAAATAATGTATT-TCAAATCAACACATTATTTGATA
8226739 AAAATTA-TAATATAAT
1 AAAATTAGTAA-ATAAT
8226755 AATAATTTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 26
0.68 0.09 0.23
Matches are distributed among these distances:
37 3 0.04
38 6 0.08
39 12 0.16
40 6 0.08
41 2 0.03
42 4 0.05
43 2 0.03
44 9 0.12
45 24 0.31
46 6 0.08
47 3 0.04
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (44 bp):
AAAATTAGTAAATAATGTATTTCAAATCAACACATTATTTGATA
Found at i:8226991 original size:86 final size:85
Alignment explanation
Indices: 8226311--8227452 Score: 1604
Period size: 86 Copynumber: 13.5 Consensus size: 85
8226301 TAAATTTAAA
* * *
8226311 ATTTGATAAAAATTGTAATATAATAATAA-TTTTTTATTTAAATATTTAAAATTAG-TAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAATTTTTTTATTTAAATA-TGAAAATTTGATAAATAAT
*
8226374 GTATTGTCAAATCAACACATT
65 ATATTGTCAAATCAACACATT
* ** *
8226395 ATTTGATAAAAAATTTAATATAATAATAA--TTTTTATTTAAATATTTAAA-TTCAGTAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAATTTTTTTATTTAAATATGAAAATTTGA-TAAATAAT
* *
8226457 GTATTATCAAATCAACACATT
65 ATATTGTCAAATCAACACATT
*
8226478 ATTTGAT-AAAATTATAATATAATAATAATCTTTTTTATTTAAATATGAAAATTTGATAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAAT-TTTTTTATTTAAATATGAAAATTTGATAAATAAT
*
8226542 GTATTGTCAAATCAACACATT
65 ATATTGTCAAATCAACACATT
* * * *
8226563 ATTTGATAAAAATTGTAATATAATAATAA-TTTTTAATTTAAATATTTAAAATTAG-TAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAATTTTTTTATTTAAATA-TGAAAATTTGATAAATAAT
* *
8226626 GTATTATCAAATCAACACATT
65 ATATTGTCAAATCAACACATT
* * * *
8226647 ATTTGATAAAAATTGTAATATAATAATAA-TTTTTAATTTAAATATTTAAAATTAG-TAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAATTTTTTTATTTAAATA-TGAAAATTTGATAAATAAT
*
8226710 GTATTGTCAAATCAACACATT
65 ATATTGTCAAATCAACACATT
* * **
8226731 ATTTGATAAAAATTATAATATAATAATAA-TTTTTGATTTAAATATTTAAATTT-AGTAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAATTTTTTTATTTAAATATGAAAATTTGA-TAAATAAT
*
8226794 ATATTGTCAAATCAATACATT
65 ATATTGTCAAATCAACACATT
* *
8226815 ATTTGATAAAAATTATAATATAATAATAATATTTTTATTTAAATATGAAAATTTGATAAATAATA
1 ATTTGATAAAAATTTTAATATAATAATAATTTTTTTATTTAAATATGAAAATTTGATAAATAATA
8226880 TATTGTCAAATCAACACATT
66 TATTGTCAAATCAACACATT
8226900 ATTTGATAAAAATTTTAATATAATAATAATCTTTTTTATTTAAATATGAAAATTTGATAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAAT-TTTTTTATTTAAATATGAAAATTTGATAAATAAT
* *
8226965 ATGTTATCAAATCAACACATT
65 ATATTGTCAAATCAACACATT
*
8226986 ATTTGATAAAAATTTTAATATAATAATAATCTTTTTTATTTAAATATGAAAAATTGATAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAAT-TTTTTTATTTAAATATGAAAATTTGATAAATAAT
* *
8227051 ATGTTATCAAATCAACACATT
65 ATATTGTCAAATCAACACATT
8227072 ATTTGATAAAAATTTTAATATAATAATAATCTTTTTTATTTAAATATGAAAATTTGATAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAAT-TTTTTTATTTAAATATGAAAATTTGATAAATAAT
* ** *
8227137 ATGTTGTCAAATCAGTATATT
65 ATATTGTCAAATCAACACATT
* *
8227158 ATTTGATAAAAATTTTAATATAATAATAATGTTTTTATTTAAATATGAAAATTTGATAAATAATT
1 ATTTGATAAAAATTTTAATATAATAATAATTTTTTTATTTAAATATGAAAATTTGATAAATAATA
8227223 TATTGTCAAATCAACAC---
66 TATTGTCAAATCAACACATT
*
8227240 -----ATAAAAATTGTAATATAATAATAATATTTTTTATTTAAATATGAAAATTTGATAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAAT-TTTTTTATTTAAATATGAAAATTTGATAAATAAT
* * *
8227300 GTATTATCAAATCAACACATC
65 ATATTGTCAAATCAACACATT
*
8227321 ATTTGATAAAAATTTTAATATAATAATGATCTTTTTTATTTAAATATGAAAATTTGATAAATAAT
1 ATTTGATAAAAATTTTAATATAATAATAAT-TTTTTTATTTAAATATGAAAATTTGATAAATAAT
* *
8227386 ACATTGTCAAATAAACACATT
65 ATATTGTCAAATCAACACATT
8227407 ATTTGATAAAAATTTTAATATAATAATAATCTTTTTTATTTAAATA
1 ATTTGATAAAAATTTTAATATAATAATAAT-TTTTTTATTTAAATA
8227453 ATGTTAAATT
Statistics
Matches: 978, Mismatches: 58, Indels: 42
0.91 0.05 0.04
Matches are distributed among these distances:
77 24 0.02
78 49 0.05
81 1 0.00
82 24 0.02
83 56 0.06
84 250 0.26
85 184 0.19
86 390 0.40
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (85 bp):
ATTTGATAAAAATTTTAATATAATAATAATTTTTTTATTTAAATATGAAAATTTGATAAATAATA
TATTGTCAAATCAACACATT
Found at i:8231492 original size:122 final size:120
Alignment explanation
Indices: 8231312--8231606 Score: 300
Period size: 120 Copynumber: 2.5 Consensus size: 120
8231302 GAAGTTGGTA
* * **** *
8231312 TCGGCCATTACATGGCCAACACC-AAAAAAATT---AATTTTTTACCAAATAAAAAGTGGGTGTC
1 TCGGCCATGACATGACCAACACCAAAAAAAATTGAAAATTTTTTATTTGA-AAAAAGAGGGTGTC
* *
8231373 GGCCATAGCATAGTCAACA-CCAAAAAATTTTAAATTTTTTATCTGACAAAAAGAGGATG
65 GACCATAGCATAGCCAACACCCAAAAAA--TT-AATTTTTTATCT-ACAAAAAGAGGATG
* *
8231432 TCGGCCATGGA-ATGACCGACA-C-AAAAAAATTTAAAATTTTTTTATTTGAAAAAAGAGGGTGT
1 TCGGCCAT-GACATGACCAACACCAAAAAAAATTGAAAA-TTTTTTATTTGAAAAAAGAGGGTGT
* * * * *
8231494 CGACCATTGCATGGCCAACACCCAAAAAATTGATTTTTTATCTACAAAAAGGGGGTG
64 CGACCATAGCATAGCCAACACCCAAAAAATTAATTTTTTATCTACAAAAAGAGGATG
* * *
8231551 TCGGCCATTACATGGCCAACACCAAAAAAAATTGAAAATTTTTTATTTGAGAAAAG
1 TCGGCCATGACATGACCAACACCAAAAAAAATTGAAAATTTTTTATTTGAAAAAAG
8231607 TAATGACCAA
Statistics
Matches: 146, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
118 1 0.01
119 38 0.26
120 45 0.31
121 16 0.11
122 30 0.21
123 16 0.11
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (120 bp):
TCGGCCATGACATGACCAACACCAAAAAAAATTGAAAATTTTTTATTTGAAAAAAGAGGGTGTCG
ACCATAGCATAGCCAACACCCAAAAAATTAATTTTTTATCTACAAAAAGAGGATG
Found at i:8231585 original size:59 final size:60
Alignment explanation
Indices: 8231312--8231583 Score: 261
Period size: 61 Copynumber: 4.5 Consensus size: 60
8231302 GAAGTTGGTA
* ** * *
8231312 TCGGCCATTACATGGCCAACACC-AAAAAAATTAATTTTTTACCAAATAAAAAGTGGGTG
1 TCGGCCATTACATGGCCAACACCAAAAAAAATTAATTTTTTATCTGACAAAAAGAGGGTG
* * ** *
8231371 TCGGCCA-TAGCATAGTCAACACCAAAAAATTTTAAATTTTTTATCTGACAAAAAGAGGATG
1 TCGGCCATTA-CATGGCCAACACCAAAAAAAATT-AATTTTTTATCTGACAAAAAGAGGGTG
* * * * *
8231432 TCGGCCATGGA-ATGACCGACA-CAAAAAAATTTAAAATTTTTTTATTTGA-AAAAAGAGGGTG
1 TCGGCCAT-TACATGGCCAACACCAAAAAAAATT--AA-TTTTTTATCTGACAAAAAGAGGGTG
* * * * *
8231493 TCGACCATTGCATGGCCAACACC-CAAAAAATTGATTTTTTATCT-ACAAAAAGGGGGTG
1 TCGGCCATTACATGGCCAACACCAAAAAAAATTAATTTTTTATCTGACAAAAAGAGGGTG
8231551 TCGGCCATTACATGGCCAACACCAAAAAAAATT
1 TCGGCCATTACATGGCCAACACCAAAAAAAATT
8231584 GAAAATTTTT
Statistics
Matches: 171, Mismatches: 31, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
57 1 0.01
58 43 0.25
59 27 0.16
60 17 0.10
61 70 0.41
62 12 0.07
63 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.26
Consensus pattern (60 bp):
TCGGCCATTACATGGCCAACACCAAAAAAAATTAATTTTTTATCTGACAAAAAGAGGGTG
Found at i:8231816 original size:59 final size:59
Alignment explanation
Indices: 8231634--8231921 Score: 280
Period size: 60 Copynumber: 4.8 Consensus size: 59
8231624 AATTTTGATA
* * * *
8231634 TTTTTATCAGATAAATAGGGGTGTCGGTCATTGCATGGTCAACA-CAAACAAATTTTGAATT
1 TTTTTATCAGATAAAAAGAGGTGTCGGCCATTGCATGGCCAACACCAAA-AAA--TTGAATT
* * * * * * *
8231695 TTTTTATCTGA-AAAAAGAGAGTGTTGGCCATTACATGGCTAATACCCAAAAATTTGATTT
1 TTTTTATCAGATAAAAAGAG-GTGTCGGCCATTGCATGGCCAACA-CCAAAAAATTGAATT
* * * *
8231755 TTTTTATCAGATAAATAGAGGTGTCAGCCATTGCATGGTCAACACCAAAAAATT-AAAT
1 TTTTTATCAGATAAAAAGAGGTGTCGGCCATTGCATGGCCAACACCAAAAAATTGAATT
* * * *
8231813 TTTTTATCTGACAAAAA-AGGGATGTCGGCCATTGCATGGCCAACACCCAAAAATTTAATT
1 TTTTTATCAGATAAAAAGA-GG-TGTCGGCCATTGCATGGCCAACACCAAAAAATTGAATT
*
8231873 TTTTTATCAGATTAAAAAGGGGTGTCGGCCA-TGCAATGGCCAACACCAA
1 TTTTTATCAGA-TAAAAAGAGGTGTCGGCCATTGC-ATGGCCAACACCAA
8231922 GTTTTTTTTT
Statistics
Matches: 184, Mismatches: 33, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
57 1 0.01
58 18 0.10
59 42 0.23
60 75 0.41
61 42 0.23
62 2 0.01
63 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (59 bp):
TTTTTATCAGATAAAAAGAGGTGTCGGCCATTGCATGGCCAACACCAAAAAATTGAATT
Found at i:8231841 original size:286 final size:287
Alignment explanation
Indices: 8231347--8231865 Score: 669
Period size: 286 Copynumber: 1.8 Consensus size: 287
8231337 AAAAATTAAT
8231347 TTTTTACCAAATAAAAAGTGGGTGTCGGCCATAGCATAGTCAACACCAAAAAATTTTAAATTTTT
1 TTTTTACCAAATAAAAAGTGGGTGTCGGCCATAGCATAGTCAACACCAAAAAATTTTAAATTTTT
*
8231412 TATCTGACAAAAAGAGGATGTCGGCCATGGAATGACCGACACAAAAAAATTTAAAATTTTTTTAT
66 TATCTGACAAAAAGAGGATGTCGGCCATGGAATGACCAACACAAAAAAATTTAAAATTTTTTTAT
** *
8231477 TTGAAAAAAGAGGGTGTCGACCATTGCATGGCCAACACCCAAAAAATTGATTTTTTATCTACAAA
131 CAGAAAAAAGAGGGTGTCGACCATTGCATGGCCAACACCCAAAAAATTAATTTTTTATCTACAAA
* *
8231542 AAGGGGGTGTCGGCCATTACATGGCCAACACCAAAAAAAATTGAAAATTTTTTATTTGAGAAAAG
196 AAAGGGATGTCGGCCATTACATGGCCAACACCAAAAAAAATTGAAAATTTTTTATTTGAGAAAAG
8231607 TAATGACCAACACCTAAAATTTTGATA
261 TAATGACCAACACCTAAAATTTTGATA
* * * * * * *
8231634 TTTTTATCAGATAAATAG-GGGTGTCGGTCATTGCATGGTCAACA-CAAACAAATTTTGAATTTT
1 TTTTTACCAAATAAAAAGTGGGTGTCGGCCATAGCATAGTCAACACCAAA-AAATTTT-AAATTT
* * * * * ** * *
8231697 TTTATCTGA-AAAAAGA-GAGTGTTGGCCAT-TACATGGCTAATACCCAAAAATTT-GATTTTTT
64 TTTATCTGACAAAAAGAGGA-TGTCGGCCATGGA-ATGACCAACACAAAAAAATTTAAAATTTTT
* *
8231758 TTATCAGATAAATAGA-GGTGTC-AGCCATTGCATGGTCAACA-CCAAAAAATTAAATTTTTTAT
127 TTATCAGA-AAAAAGAGGGTGTCGA-CCATTGCATGGCCAACACCCAAAAAATT-AATTTTTTAT
* *
8231820 CTGACAAAAAAGGGATGTCGGCCATTGCATGGCCAACACCCAAAAA
189 CT-ACAAAAAAGGGATGTCGGCCATTACATGGCCAACACCAAAAAA
8231866 TTTAATTTTT
Statistics
Matches: 198, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
284 11 0.06
285 52 0.26
286 106 0.54
287 29 0.15
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (287 bp):
TTTTTACCAAATAAAAAGTGGGTGTCGGCCATAGCATAGTCAACACCAAAAAATTTTAAATTTTT
TATCTGACAAAAAGAGGATGTCGGCCATGGAATGACCAACACAAAAAAATTTAAAATTTTTTTAT
CAGAAAAAAGAGGGTGTCGACCATTGCATGGCCAACACCCAAAAAATTAATTTTTTATCTACAAA
AAAGGGATGTCGGCCATTACATGGCCAACACCAAAAAAAATTGAAAATTTTTTATTTGAGAAAAG
TAATGACCAACACCTAAAATTTTGATA
Found at i:8231874 original size:119 final size:120
Alignment explanation
Indices: 8231613--8231921 Score: 378
Period size: 119 Copynumber: 2.6 Consensus size: 120
8231603 AAAGTAATGA
* * * * *
8231613 CCAACACCTAAAATTTTGATATTTTTATCAGATAAATAGGGGTGTCGGTCATTGCATGGTCAACA
1 CCAACACCCAAAAATTTAATTTTTTTATCAGATAAATAGGGGTGTCGGCCATTGCATGGTCAACA
* *
8231678 -CAAACAAATTTTGAATTTTTTTATCTGAAAAAAGAGAGTGTTGGCCATTACATGG
66 CCAAACAAA-TTTGAAATTTTTTATCTGAAAAAAGAGAGTGTCGGCCATTACATGG
* * * * *
8231733 CTAATACCCAAAAATTTGATTTTTTTTATCAGATAAATAGAGGTGTCAGCCATTGCATGGTCAAC
1 CCAACACCCAAAAATTT-AATTTTTTTATCAGATAAATAGGGGTGTCGGCCATTGCATGGTCAAC
* *
8231798 ACCAAA-AAA-TT-AAATTTTTTATCTGACAAAAA-AGGGATGTCGGCCATTGCATGG
65 ACCAAACAAATTTGAAATTTTTTATCTGA-AAAAAGAGAG-TGTCGGCCATTACATGG
* *
8231852 CCAACACCCAAAAATTTAATTTTTTTATCAGATTAAAAAGGGGTGTCGGCCA-TGCAATGGCCAA
1 CCAACACCCAAAAATTTAATTTTTTTATCAGA-TAAATAGGGGTGTCGGCCATTGC-ATGGTCAA
8231916 CACCAA
64 CACCAA
8231922 GTTTTTTTTT
Statistics
Matches: 162, Mismatches: 21, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
118 34 0.21
119 66 0.41
120 13 0.08
121 45 0.28
122 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (120 bp):
CCAACACCCAAAAATTTAATTTTTTTATCAGATAAATAGGGGTGTCGGCCATTGCATGGTCAACA
CCAAACAAATTTGAAATTTTTTATCTGAAAAAAGAGAGTGTCGGCCATTACATGG
Found at i:8237988 original size:26 final size:25
Alignment explanation
Indices: 8237948--8237997 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
8237938 TAAGAAAAGA
*
8237948 AAAAAATAATAATAACAGTAAAAAAT
1 AAAAAATAATAATAA-ACTAAAAAAT
8237974 AAAAAATAA-AGATAAACTAAAAAA
1 AAAAAATAATA-ATAAACTAAAAAA
8237998 GCACGAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (25 bp):
AAAAAATAATAATAAACTAAAAAAT
Found at i:8237989 original size:20 final size:19
Alignment explanation
Indices: 8237943--8237989 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
8237933 TAAATTAAGA
*
8237943 AAAGA-AAAAAATAATAAT
1 AAAGATAAAAAATAAAAAT
8237961 AACAG-TAAAAAATAAAAAAT
1 AA-AGATAAAAAAT-AAAAAT
8237981 AAAGATAAA
1 AAAGATAAA
8237990 CTAAAAAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 2 0.08
19 11 0.46
20 11 0.46
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (19 bp):
AAAGATAAAAAATAAAAAT
Found at i:8240204 original size:22 final size:22
Alignment explanation
Indices: 8240119--8240197 Score: 113
Period size: 22 Copynumber: 3.5 Consensus size: 22
8240109 GCTGGAGAAA
*
8240119 CAGTAAGCACACACAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
8240141 CCAGTAGGCACACACAGTGCAAT
1 -CAGTAGGCACACACAGTGCAAT
* * *
8240164 CAGTAGGCGCATATAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
8240186 CAGTAGGCACAC
1 CAGTAGGCACAC
8240198 GAAGTGCGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
22 29 0.58
23 21 0.42
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (22 bp):
CAGTAGGCACACACAGTGCAAT
Found at i:8240213 original size:45 final size:46
Alignment explanation
Indices: 8240115--8240218 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 46
8240105 AAGTGCTGGA
*
8240115 GAAACAGTAAGCACACACAGTGCAATCCAGTAGGCACACACAGTGC
1 GAAACAGTAAGCGCACACAGTGCAATCCAGTAGGCACACACAGTGC
* * * *
8240161 -AATCAGTAGGCGCATATAGTGCAAT-CAGTAGGCACACGA-AGTGC
1 GAAACAGTAAGCGCACACAGTGCAATCCAGTAGGCACAC-ACAGTGC
8240205 GAAACAGTAAGCGC
1 GAAACAGTAAGCGC
8240219 GCTAGCGTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
44 17 0.35
45 32 0.65
ACGTcount: A:0.38, C:0.24, G:0.25, T:0.13
Consensus pattern (46 bp):
GAAACAGTAAGCGCACACAGTGCAATCCAGTAGGCACACACAGTGC
Found at i:8249636 original size:21 final size:20
Alignment explanation
Indices: 8249598--8249645 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
8249588 AATTAAAAAC
8249598 AAGAAAAAAACAAAAATT-G
1 AAGAAAAAAACAAAAATTAG
* *
8249617 AAAGAAACAAAACTAGAATTAG
1 -AAGAAA-AAAACAAAAATTAG
8249639 AAGAAAA
1 AAGAAAA
8249646 TAGGGTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.29
21 16 0.67
22 1 0.04
ACGTcount: A:0.71, C:0.06, G:0.12, T:0.10
Consensus pattern (20 bp):
AAGAAAAAAACAAAAATTAG
Found at i:8265178 original size:20 final size:20
Alignment explanation
Indices: 8265155--8265197 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
8265145 TTTATTTATT
8265155 AAATAATAAGTTTATAAATA
1 AAATAATAAGTTTATAAATA
*
8265175 AAATAATAATTTTATAAATA
1 AAATAATAAGTTTATAAATA
8265195 AAA
1 AAA
8265198 CATTAAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAATAATAAGTTTATAAATA
Found at i:8267232 original size:20 final size:20
Alignment explanation
Indices: 8267205--8267259 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 20
8267195 TATATTATTG
8267205 TTTA-AATTTTTATTCAACA
1 TTTATAATTTTTATTCAACA
*
8267224 TTTATAA--TTTATTCAATA
1 TTTATAATTTTTATTCAACA
*
8267242 ATTATATATTTTT-TTCAA
1 TTTATA-ATTTTTATTCAA
8267260 GTTAAGTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 15 0.50
19 5 0.17
20 7 0.23
21 3 0.10
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTATAATTTTTATTCAACA
Found at i:8268056 original size:17 final size:17
Alignment explanation
Indices: 8268025--8268059 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8268015 TGGACCCAAG
*
8268025 CTTTCTTTTTCCTATTA
1 CTTTCTTTTACCTATTA
*
8268042 CTTTCTTTTAGCTATTA
1 CTTTCTTTTACCTATTA
8268059 C
1 C
8268060 CAAATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.23, G:0.03, T:0.60
Consensus pattern (17 bp):
CTTTCTTTTACCTATTA
Found at i:8271228 original size:21 final size:21
Alignment explanation
Indices: 8271198--8271240 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8271188 GATTAGTTAA
8271198 TACAAAAAAAAAAATCAAAAT
1 TACAAAAAAAAAAATCAAAAT
* * *
8271219 TACAACAAAAAAATTTAAAAT
1 TACAAAAAAAAAAATCAAAAT
8271240 T
1 T
8271241 TAAGCTCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (21 bp):
TACAAAAAAAAAAATCAAAAT
Found at i:8276990 original size:10 final size:10
Alignment explanation
Indices: 8276972--8277002 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8276962 TTTATGCTTA
*
8276972 GATTCTCTAT
1 GATTTTCTAT
8276982 GATTTTCTAT
1 GATTTTCTAT
8276992 GATTTTCTAT
1 GATTTTCTAT
8277002 G
1 G
8277003 CTTAGTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.55
Consensus pattern (10 bp):
GATTTTCTAT
Found at i:8284013 original size:16 final size:17
Alignment explanation
Indices: 8283992--8284033 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
8283982 TGATGATATC
8283992 AATTGAATTCATTTT-T
1 AATTGAATTCATTTTAT
* *
8284008 AATTGATTTTATTTTAT
1 AATTGAATTCATTTTAT
*
8284025 AATTTAATT
1 AATTGAATT
8284034 ATCGTTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (17 bp):
AATTGAATTCATTTTAT
Found at i:8284404 original size:17 final size:18
Alignment explanation
Indices: 8284361--8284405 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
8284351 TAAAAATTAA
8284361 TTATATT-AATTATATAT
1 TTATATTAAATTATATAT
*
8284378 TT-TAAATAAATT-TATAT
1 TTAT-ATTAAATTATATAT
8284395 TTATATTAAAT
1 TTATATTAAAT
8284406 CATTAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
16 1 0.04
17 17 0.74
18 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATATTAAATTATATAT
Found at i:8293787 original size:22 final size:23
Alignment explanation
Indices: 8293762--8293805 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
8293752 GGATAATAAA
8293762 AAATAAATTTTT-ATTTTTTTAG
1 AAATAAATTTTTCATTTTTTTAG
** *
8293784 AAATTGATTTTTCGTTTTTTTA
1 AAATAAATTTTTCATTTTTTTA
8293806 ATATACTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (23 bp):
AAATAAATTTTTCATTTTTTTAG
Found at i:8294137 original size:2 final size:2
Alignment explanation
Indices: 8294130--8294179 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
8294120 TCAACTTTAT
8294130 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8294172 TA TA TA TA
1 TA TA TA TA
8294180 ATTTTAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8294740 original size:34 final size:34
Alignment explanation
Indices: 8294675--8294741 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
8294665 ACCTTTTACT
* * *
8294675 TCTCTTGACTTTTAATCATTCATCTTTCTTAACA
1 TCTCTTGACTTTGAATCATTCATATTCCTTAACA
8294709 TCTCTTGACTTTGAATC-TTCCATATTCCTTAAC
1 TCTCTTGACTTTGAATCATT-CATATTCCTTAAC
8294742 TTTTTATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 2 0.07
34 27 0.93
ACGTcount: A:0.22, C:0.25, G:0.04, T:0.48
Consensus pattern (34 bp):
TCTCTTGACTTTGAATCATTCATATTCCTTAACA
Found at i:8299373 original size:17 final size:17
Alignment explanation
Indices: 8299351--8299409 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
8299341 TCTCTTGACT
8299351 TTTAACCTTCCATATTC
1 TTTAACCTTCCATATTC
*
8299368 TTTAACC-TCCAT-TGACC
1 TTTAACCTTCCATAT--TC
8299385 TTTAACCTTCCATATTC
1 TTTAACCTTCCATATTC
8299402 TTTAACCT
1 TTTAACCT
8299410 CCCTTGACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 24 0.67
18 5 0.14
19 1 0.03
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.44
Consensus pattern (17 bp):
TTTAACCTTCCATATTC
Found at i:8299389 original size:34 final size:34
Alignment explanation
Indices: 8299345--8299441 Score: 149
Period size: 34 Copynumber: 2.9 Consensus size: 34
8299335 TTCATCTCTC
*
8299345 TTGACTTTTAACCTTCCATATTCTTTAACCTCCA
1 TTGACATTTAACCTTCCATATTCTTTAACCTCCA
* *
8299379 TTGACCTTTAACCTTCCATATTCTTTAACCTCCC
1 TTGACATTTAACCTTCCATATTCTTTAACCTCCA
* *
8299413 TTGACATTTAACCTTCCATCTTCCTTAAC
1 TTGACATTTAACCTTCCATATTCTTTAAC
8299442 TTTTCATATT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.23, C:0.32, G:0.03, T:0.42
Consensus pattern (34 bp):
TTGACATTTAACCTTCCATATTCTTTAACCTCCA
Found at i:8299786 original size:17 final size:17
Alignment explanation
Indices: 8299764--8299808 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
8299754 TATCAGTTCA
8299764 AGTCAATTTTTCTATTT
1 AGTCAATTTTTCTATTT
8299781 AGTCAATTTTTCTATTT
1 AGTCAATTTTTCTATTT
8299798 AGTCAATTTTT
1 AGTCAATTTTT
8299809 TTGCTCAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.58
Consensus pattern (17 bp):
AGTCAATTTTTCTATTT
Found at i:8312706 original size:2 final size:2
Alignment explanation
Indices: 8312699--8312725 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8312689 ATTCTTTAAG
8312699 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
8312726 GCTTAATCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8319896 original size:82 final size:82
Alignment explanation
Indices: 8319794--8319945 Score: 209
Period size: 82 Copynumber: 1.9 Consensus size: 82
8319784 GTTAATTATA
* * ** *
8319794 TATATATATTATAATTTATCATAAAATTAGTTGTATGTTT-AGAGTTTAAGGTTA-TGTATCATT
1 TATATATATTATAATCTATCATAAAATTAATTACACGTTTAAG-GTTTAAGGTTACT-TATCATT
8319857 AATATAATATAATATTGAT
64 AATATAATATAATATTGAT
* *
8319876 TATATATATTATAATCTATCATAAAGTTAATTACACGTTTAAGGTTTCAGGTTACTTATCATTAA
1 TATATATATTATAATCTATCATAAAATTAATTACACGTTTAAGGTTTAAGGTTACTTATCATTAA
8319941 TATAA
66 TATAA
8319946 AAAGGAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
82 58 0.95
83 3 0.05
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (82 bp):
TATATATATTATAATCTATCATAAAATTAATTACACGTTTAAGGTTTAAGGTTACTTATCATTAA
TATAATATAATATTGAT
Found at i:8327560 original size:19 final size:19
Alignment explanation
Indices: 8327536--8327573 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8327526 TGTTCATTTC
*
8327536 TCAATAGTTGATT-TCCCTT
1 TCAATAATT-ATTATCCCTT
8327555 TCAATAATTATTATCCCTT
1 TCAATAATTATTATCCCTT
8327574 GCTTTGCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.47
Consensus pattern (19 bp):
TCAATAATTATTATCCCTT
Found at i:8329778 original size:24 final size:25
Alignment explanation
Indices: 8329750--8329809 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
8329740 AGCCATTTCA
* *
8329750 TATTTTATTTAAGATT-TTAAATTT
1 TATTTTATTTAAAATTATTAAAATT
8329774 TA-TTTATTTAAAATTATTAAAATT
1 TATTTTATTTAAAATTATTAAAATT
*
8329798 TATAATTATTTA
1 TAT-TTTATTTA
8329810 TGTCTCAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 12 0.40
24 11 0.37
26 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
TATTTTATTTAAAATTATTAAAATT
Found at i:8329780 original size:23 final size:26
Alignment explanation
Indices: 8329744--8329809 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
8329734 TGATCTAGCC
*
8329744 ATTTCATATTTTATTTAAGATT-TT-AA
1 ATTT-ATA-TTTATTTAAAATTATTAAA
8329770 ATTT-TATTTATTTAAAATTATTAAA
1 ATTTATATTTATTTAAAATTATTAAA
*
8329795 ATTTATAATTATTTA
1 ATTTATATTTATTTA
8329810 TGTCTCAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 12 0.34
24 4 0.11
25 6 0.17
26 13 0.37
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (26 bp):
ATTTATATTTATTTAAAATTATTAAA
Found at i:8333898 original size:13 final size:14
Alignment explanation
Indices: 8333880--8333910 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8333870 CAGTCATCGT
8333880 AAATAAA-TTTTTA
1 AAATAAACTTTTTA
8333893 AAATAAACTTTTTA
1 AAATAAACTTTTTA
8333907 AAAT
1 AAAT
8333911 TTATAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATAAACTTTTTA
Found at i:8335908 original size:23 final size:24
Alignment explanation
Indices: 8335860--8335911 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
8335850 TTTATCACAT
* * *
8335860 ATTTT-AATTATATTTCATAATTA
1 ATTTTAAATAATATATCATAATAA
8335883 ATTTTAAATAATATATCA-AATAA
1 ATTTTAAATAATATATCATAATAA
8335906 ATTTTA
1 ATTTTA
8335912 TAACTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTTAAATAATATATCATAATAA
Found at i:8339293 original size:2 final size:2
Alignment explanation
Indices: 8339286--8339323 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8339276 CAAATCTAAT
8339286 TC TC 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 TC TC
8339324 ATGTTCTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8350843 original size:2 final size:2
Alignment explanation
Indices: 8350836--8350860 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8350826 GGTGCTTTAC
8350836 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8350861 AGCCTTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8351068 original size:4 final size:4
Alignment explanation
Indices: 8351059--8351085 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8351049 GAGAAGATGG
8351059 GACT GACT GACT GACT GACT GACT GAC
1 GACT GACT GACT GACT GACT GACT GAC
8351086 CCCAAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (4 bp):
GACT
Found at i:8351297 original size:22 final size:21
Alignment explanation
Indices: 8351272--8351325 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
8351262 TATTTTGGTT
*
8351272 ATTTAATTATTGATTCTTTTAA
1 ATTTAAATATT-ATTCTTTTAA
* *
8351294 ATTTAAAAATTATTTTTTTAA
1 ATTTAAATATTATTCTTTTAA
*
8351315 AATTAAATATT
1 ATTTAAATATT
8351326 TTAAACACTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTAAATATTATTCTTTTAA
Found at i:8355230 original size:2 final size:2
Alignment explanation
Indices: 8355225--8355266 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
8355215 CTCTCCGCAA
8355225 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8355267 CGTGTGAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8357709 original size:21 final size:21
Alignment explanation
Indices: 8357684--8357734 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
8357674 TAGTACAGTT
* *
8357684 TTCTACCGATACAAGT-TTCAG
1 TTCTACCGAAACAAGTCTT-AC
*
8357705 TTCTACCAAAACAAGTCTTAC
1 TTCTACCGAAACAAGTCTTAC
8357726 TTCTACCGA
1 TTCTACCGA
8357735 CACCAAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (21 bp):
TTCTACCGAAACAAGTCTTAC
Found at i:8358453 original size:36 final size:36
Alignment explanation
Indices: 8358404--8358540 Score: 238
Period size: 36 Copynumber: 3.8 Consensus size: 36
8358394 TCGTTATTCG
*
8358404 TTTTACTCCCTATTGACCCAAAGGTCATAATGCTCA
1 TTTTACTCCCTATTGACCCAAAGGTCATGATGCTCA
*
8358440 TTTTACTCTCTATTGACCCAAAGGTCATGATGCTCA
1 TTTTACTCCCTATTGACCCAAAGGTCATGATGCTCA
*
8358476 TTTTACTCCCTATTGACCCAGAGGTCATGATGCTCA
1 TTTTACTCCCTATTGACCCAAAGGTCATGATGCTCA
*
8358512 TTTTACTCCCTATTAACCCAAAGGTCATG
1 TTTTACTCCCTATTGACCCAAAGGTCATG
8358541 CCTATTACTA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 95 1.00
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (36 bp):
TTTTACTCCCTATTGACCCAAAGGTCATGATGCTCA
Found at i:8364052 original size:17 final size:17
Alignment explanation
Indices: 8363989--8364054 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
8363979 AATTTAAAGT
8363989 ATATTAAAA-AATATAA
1 ATATTAAAATAATATAA
* *
8364005 AT-TTATACTAAATATATA
1 ATATTAAAAT-AATATA-A
***
8364023 ATATTATTTTAATATAA
1 ATATTAAAATAATATAA
8364040 ATATTAAAATAATAT
1 ATATTAAAATAATAT
8364055 TAAGATAGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
15 4 0.10
16 2 0.05
17 19 0.49
18 9 0.23
19 5 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATTAAAATAATATAA
Found at i:8379604 original size:20 final size:19
Alignment explanation
Indices: 8379565--8379604 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8379555 AATTTTAACC
* *
8379565 AAATAAATCTTAATATTCA
1 AAATAAATATTAAAATTCA
8379584 AAATAAATATTAAAAATTCA
1 AAATAAATATT-AAAATTCA
8379604 A
1 A
8379605 TATTATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATAAATATTAAAATTCA
Found at i:8384617 original size:61 final size:60
Alignment explanation
Indices: 8384504--8384625 Score: 140
Period size: 61 Copynumber: 2.0 Consensus size: 60
8384494 ATTTGTATAA
* * * *
8384504 TAATAAATTTAGCCCTTAAAATTTTACATATTTTATCAAGTTGGTCCTAATTCTAGAAAAAT
1 TAATAAATTTAACCCTT-AAATTTTACACATTTTATCAAGTTAGTCCTAATTC-AAAAAAAT
* *
8384566 TAATAAATTTAACTCTT-AATGTTTACACATTTTATCAATTTAGT-CTAAATTCAAAAAAAT
1 TAATAAATTTAACCCTTAAAT-TTTACACATTTTATCAAGTTAGTCCT-AATTCAAAAAAAT
8384626 AAACAAAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
60 12 0.23
61 25 0.48
62 15 0.29
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (60 bp):
TAATAAATTTAACCCTTAAATTTTACACATTTTATCAAGTTAGTCCTAATTCAAAAAAAT
Found at i:8387413 original size:26 final size:26
Alignment explanation
Indices: 8387377--8387429 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
8387367 CAACAACAAA
8387377 GTTTTAGAGAATGGAAATCAAATTGT
1 GTTTTAGAGAATGGAAATCAAATTGT
8387403 GTTTTAGAGAATGGAAATCAAATTGT
1 GTTTTAGAGAATGGAAATCAAATTGT
8387429 G
1 G
8387430 AGCATCTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.34
Consensus pattern (26 bp):
GTTTTAGAGAATGGAAATCAAATTGT
Found at i:8391622 original size:17 final size:18
Alignment explanation
Indices: 8391590--8391623 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8391580 CGAATATATC
8391590 AAAGAAAAAAAGAATTAA
1 AAAGAAAAAAAGAATTAA
*
8391608 AAAGATAAAAA-AATTA
1 AAAGAAAAAAAGAATTA
8391624 CCTTCAGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (18 bp):
AAAGAAAAAAAGAATTAA
Found at i:8392027 original size:2 final size:2
Alignment explanation
Indices: 8392020--8392050 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8392010 TGCTACATTT
8392020 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8392051 GAAATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8396826 original size:6 final size:6
Alignment explanation
Indices: 8396817--8396852 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
8396807 GGATTGAATT
8396817 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG
8396853 AGACTATGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:8398300 original size:21 final size:20
Alignment explanation
Indices: 8398276--8398317 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
8398266 ATGTTTATTT
*
8398276 TAAATATGTATTATAAAATAA
1 TAAATATGCATT-TAAAATAA
*
8398297 TAAATATGCATTTTAAATAA
1 TAAATATGCATTTAAAATAA
8398317 T
1 T
8398318 GTTCAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (20 bp):
TAAATATGCATTTAAAATAA
Found at i:8398526 original size:33 final size:31
Alignment explanation
Indices: 8398460--8398530 Score: 74
Period size: 33 Copynumber: 2.3 Consensus size: 31
8398450 AGTAAATAAT
*
8398460 AATTATTTATAAAATTTAATTAGAATATATA
1 AATTATTTATAAAATTTAAATAGAATATATA
* *
8398491 AATTATGTTTTAAATATTTAAATATAATCAT-TA
1 AATTAT-TTATAAA-ATTTAAATAGAAT-ATATA
8398524 AA-TATTT
1 AATTATTT
8398531 GTAATTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
31 8 0.24
32 9 0.26
33 15 0.44
34 2 0.06
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (31 bp):
AATTATTTATAAAATTTAAATAGAATATATA
Found at i:8404539 original size:18 final size:18
Alignment explanation
Indices: 8404516--8404550 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8404506 AATTTCAAGT
*
8404516 AAAGTGTTTTATGAAAGC
1 AAAGTGTTATATGAAAGC
8404534 AAAGTGTTATATGAAAG
1 AAAGTGTTATATGAAAG
8404551 TGAATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (18 bp):
AAAGTGTTATATGAAAGC
Found at i:8408053 original size:13 final size:13
Alignment explanation
Indices: 8408037--8408061 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8408027 AATATTTGCA
8408037 ATATATGTAAAAT
1 ATATATGTAAAAT
8408050 ATATATGTAAAA
1 ATATATGTAAAA
8408062 ATAACGTATA
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
ATATATGTAAAAT
Found at i:8408257 original size:20 final size:19
Alignment explanation
Indices: 8408218--8408284 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
8408208 TTATCTGAAC
8408218 ATAAAAAAAT-ATTAATTTTT
1 ATAAAAAAATAATT-A-TTTT
*
8408238 TTAAAAAAATAATTCATTTT
1 ATAAAAAAATAATT-ATTTT
* *
8408258 ACAGAAAAATAACTTATTTT
1 ATAAAAAAATAA-TTATTTT
*
8408278 CTAAAAA
1 ATAAAAA
8408285 TTATTTTTCA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 31 0.84
21 6 0.16
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (19 bp):
ATAAAAAAATAATTATTTT
Found at i:8416489 original size:22 final size:22
Alignment explanation
Indices: 8416432--8416489 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 22
8416422 ATTCATCAAA
*
8416432 TAATTTTTTAATATA---AATT
1 TAATTTTTTAATATATTTAACT
*
8416451 TAATATTTATAA-A-ATTTAACT
1 TAAT-TTTTTAATATATTTAACT
8416472 TAATTTTTTAATATATTT
1 TAATTTTTTAATATATTT
8416490 TATATCTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
18 1 0.03
19 5 0.17
20 12 0.40
21 8 0.27
22 4 0.13
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATTTTTTAATATATTTAACT
Found at i:8417098 original size:25 final size:26
Alignment explanation
Indices: 8417070--8417140 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 26
8417060 TTATAATGAG
*
8417070 TTTATTTAAAGATAAAAA-A-TAAAA
1 TTTATTAAAAGATAAAAATATTAAAA
*
8417094 TTTTAGTTGAAATGATAAAAATATTAAAA
1 -TTTA-TT-AAAAGATAAAAATATTAAAA
*
8417123 ATTA-TAAAAGATAAAAAT
1 TTTATTAAAAGATAAAAAT
8417141 TTCGATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
25 16 0.42
26 3 0.08
27 10 0.26
28 4 0.11
29 5 0.13
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (26 bp):
TTTATTAAAAGATAAAAATATTAAAA
Found at i:8428961 original size:23 final size:23
Alignment explanation
Indices: 8428891--8428962 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 23
8428881 AAAATAAAAG
*
8428891 ATAAAATATTTTCATATATTTTAAT
1 ATAAAATATTTT-AAATA-TTTAAT
*
8428916 ATAAAATA--TT-AA-A-TTATT
1 ATAAAATATTTTAAATATTTAAT
8428934 ATAAAATATTTTAAATATTTAAT
1 ATAAAATATTTTAAATATTTAAT
8428957 ATAAAA
1 ATAAAA
8428963 ATAAATAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
18 12 0.31
20 3 0.08
21 3 0.08
22 1 0.03
23 12 0.31
25 8 0.21
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAAAATATTTTAAATATTTAAT
Found at i:8429296 original size:23 final size:23
Alignment explanation
Indices: 8429263--8429324 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
8429253 ATTCCTTCCC
8429263 TTTA-ATT-TTTTATATTAAATT
1 TTTATATTCTTTTATATTAAATT
*
8429284 TTTATATTCTTTTATATTCAATT
1 TTTATATTCTTTTATATTAAATT
8429307 TTTATATTCTTTTATATT
1 TTTATATTCTTTTATATT
8429325 TTGGTTTTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
21 4 0.11
22 3 0.08
23 31 0.82
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTATATTCTTTTATATTAAATT
Found at i:8429298 original size:10 final size:10
Alignment explanation
Indices: 8429283--8429324 Score: 57
Period size: 10 Copynumber: 3.9 Consensus size: 10
8429273 TATATTAAAT
8429283 TTTTATATTC
1 TTTTATATTC
8429293 TTTTATATTC
1 TTTTATATTC
8429303 AATTTTTATATTC
1 ---TTTTATATTC
8429316 TTTTATATT
1 TTTTATATT
8429325 TTGGTTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 19 0.66
13 10 0.34
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTATATTC
Found at i:8429315 original size:13 final size:13
Alignment explanation
Indices: 8429269--8429315 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
8429259 TCCCTTTAAT
*
8429269 TTTTTATATTAAA
1 TTTTTATATTCAA
8429282 TTTTTATATTC--
1 TTTTTATATTCAA
8429293 -TTTTATATTCAA
1 TTTTTATATTCAA
8429305 TTTTTATATTC
1 TTTTTATATTC
8429316 TTTTATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 10 0.33
13 20 0.67
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTTATATTCAA
Found at i:8429404 original size:41 final size:42
Alignment explanation
Indices: 8429346--8429424 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
8429336 TTAGTTTTTA
*
8429346 TTTGCCTTTGTGGCACGTTTTTCCTCTA-CTTTGTGGTACGCT
1 TTTGCCTTTATGGCACG-TTTTCCTCTACCTTTGTGGTACGCT
*
8429388 TTTG-CTTTATGGCACGTTTTCGTCTACCTTTGTGGTA
1 TTTGCCTTTATGGCACGTTTTCCTCTACCTTTGTGGTA
8429425 GATTTGTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 9 0.26
41 21 0.62
42 4 0.12
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.48
Consensus pattern (42 bp):
TTTGCCTTTATGGCACGTTTTCCTCTACCTTTGTGGTACGCT
Done.