Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 3 of 175
Found at i:646863 original size:5 final size:5
Alignment explanation
Indices: 646853--646888 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
646843 CACAAAAAAA
646853 TTTAT TTTAT TTTAT TTTA- -TTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
646889 TCTACCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
5 26 0.90
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:646877 original size:13 final size:13
Alignment explanation
Indices: 646859--646886 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
646849 AAAATTTATT
646859 TTATTTTATTTTA
1 TTATTTTATTTTA
646872 TTATTTTATTTTA
1 TTATTTTATTTTA
646885 TT
1 TT
646887 TTTCTACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:646877 original size:18 final size:18
Alignment explanation
Indices: 646854--646888 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
646844 ACAAAAAAAT
646854 TTATTTTATTTTATTTTA
1 TTATTTTATTTTATTTTA
646872 TTATTTTATTTTATTTT
1 TTATTTTATTTTATTTT
646889 TCTACCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
TTATTTTATTTTATTTTA
Found at i:647813 original size:11 final size:11
Alignment explanation
Indices: 647793--647822 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
647783 ACAACAGCAA
647793 CAAAATAATAG
1 CAAAATAATAG
*
647804 CAATATAATAG
1 CAAAATAATAG
647815 CAAAATAA
1 CAAAATAA
647823 CAATAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:649008 original size:37 final size:40
Alignment explanation
Indices: 648952--649051 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 40
648942 AAGTAATAAT
* *
648952 TTGACACCTAGTGTCTCATCG-GTTAAACCG-A-AGTAAA
1 TTGACACCCAGTGTCTCATCGAATTAAACCGAAGAGTAAA
* * **
648989 TTGACACCCAATGTGTCATCGAATTAATTCGAAGTAGTAAA
1 TTGACACCCAGTGTCTCATCGAATTAAACCGAAG-AGTAAA
649030 TTGACACCCAGTGTCTCATCGA
1 TTGACACCCAGTGTCTCATCGA
649052 CTCGAAGTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
37 18 0.35
38 6 0.12
39 1 0.02
41 26 0.51
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (40 bp):
TTGACACCCAGTGTCTCATCGAATTAAACCGAAGAGTAAA
Found at i:649971 original size:5 final size:5
Alignment explanation
Indices: 649961--649989 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
649951 TTCTGTTTAT
649961 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
649990 TACTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:655502 original size:4 final size:4
Alignment explanation
Indices: 655493--655551 Score: 91
Period size: 4 Copynumber: 14.8 Consensus size: 4
655483 TGTCATGTCA
* * *
655493 TATG TATG TATG TATG CATG CATG CATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
655541 TATG TATG TAT
1 TATG TATG TAT
655552 TAGAATTAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.25, C:0.05, G:0.24, T:0.46
Consensus pattern (4 bp):
TATG
Found at i:670379 original size:21 final size:19
Alignment explanation
Indices: 670337--670393 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 19
670327 TTATTATCCT
670337 GAACCCTAA-CCTAGAACTC
1 GAACCCTAACCCT-GAACTC
670356 GAACCCTAGACCCTGAACCTC
1 GAACCCTA-ACCCTGAA-CTC
*
670377 GAACCCCAAACCCTGAA
1 GAA-CCCTAACCCTGAA
670394 TCCCAAACCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.24
20 4 0.12
21 17 0.52
22 4 0.12
ACGTcount: A:0.35, C:0.40, G:0.12, T:0.12
Consensus pattern (19 bp):
GAACCCTAACCCTGAACTC
Found at i:696259 original size:22 final size:21
Alignment explanation
Indices: 696224--696265 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
696214 TTATTTTCTA
*
696224 TTTTAAATATAAAATATTTAT
1 TTTTAAATATAAAAAATTTAT
*
696245 TTTTACATCATAAAAAATTTA
1 TTTTAAAT-ATAAAAAATTTA
696266 AATTAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTAAATATAAAAAATTTAT
Found at i:699511 original size:7 final size:7
Alignment explanation
Indices: 699499--699523 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
699489 TATATTTTTA
699499 TTTTATT
1 TTTTATT
699506 TTTTATT
1 TTTTATT
699513 TTTTATT
1 TTTTATT
699520 TTTT
1 TTTT
699524 GAAAGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:704007 original size:31 final size:31
Alignment explanation
Indices: 703969--704030 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
703959 GCTTATTAAT
703969 AAAGACTTGTTATAAATTAATTCGTATCGGG
1 AAAGACTTGTTATAAATTAATTCGTATCGGG
704000 AAAGACTTGTTATAAATTAATTCGTATCGGG
1 AAAGACTTGTTATAAATTAATTCGTATCGGG
704031 TTTACTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (31 bp):
AAAGACTTGTTATAAATTAATTCGTATCGGG
Found at i:715623 original size:137 final size:140
Alignment explanation
Indices: 715367--715845 Score: 586
Period size: 137 Copynumber: 3.4 Consensus size: 140
715357 CTCTAGCAGA
* * * * * *
715367 AAGGGCGCAAAGCCAAGCTAAAACCCTTAAATTATCTTGCATTCGAAAGAGGTTTTTTGTATGTG
1 AAGGGAGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCG-AAGAGTTTTTTTGTGTGTG
* * * * * *
715432 TCTCTTATTCGAAAGGGTTCAAGACATTTTTGTAGTAGAGCTAAATTCACTAGGCAATGGCAAAA
65 TCTCTCATTTGAAAGGGTTCGAGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCACAA
715497 CTAGTGTTGTT
130 CTAGTGTTGTT
* * * *
715508 AAAGGTGCAAAACCAAGCTAGAACCCTTATATTGTCTTGCATTCG-A-A-TTTTTTTGTGTGTCT
1 AAGGGAGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCGAAGAGTTTTTTTGTGTGTGT
*
715570 CTCTCATTTGAAAGGGTTCGAGATATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCACAAC
66 CTCTCATTTGAAAGGGTTCGAGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCACAAC
*
715635 TGGTGTTGTT
131 TAGTGTTGTT
* * * *
715645 AAGGGAGCAAAGCCGAGCTAGAACCCTAATATTGTCTTGCATTCGAAAGGATTTCTTTCTTGTGA
1 AAGGGAGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCG-AA-GAGTT-TTT-TTGTGT
* * * * *
715710 GTGTTTCTCACTTGAAAGGGTTCGGGACATTTTTGTACTAAAGCTAAATTCATTAGGCAATGTCA
62 GTGTCTCTCATTTGAAAGGGTTCGAGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCA
715775 CAACTAGTGTTGTT
127 CAACTAGTGTTGTT
* ** * * *
715789 AAGGGCGCAAAGCCGGGCTAGAACCCTTATATTGTTTTGCATTTGAAAGGGTTTTTT
1 AAGGGAGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCG-AAGAGTTTTTT
715846 CTTTTTATGT
Statistics
Matches: 293, Mismatches: 38, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
137 119 0.41
138 1 0.00
139 2 0.01
141 41 0.14
142 5 0.02
143 6 0.02
144 119 0.41
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (140 bp):
AAGGGAGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCGAAGAGTTTTTTTGTGTGTGT
CTCTCATTTGAAAGGGTTCGAGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCACAAC
TAGTGTTGTT
Found at i:715767 original size:144 final size:143
Alignment explanation
Indices: 715367--715848 Score: 554
Period size: 144 Copynumber: 3.4 Consensus size: 143
715357 CTCTAGCAGA
* * * * **
715367 AAGGGCGCAAAGCCAAGCTAAAACCCTTAA-ATTATCTTGCATTCGAAA-GAGGTTTT-TTGT-A
1 AAGGGAGCAAAGCCGAGCTAGAACCC-TAATATTGTCTTGCATTCGAAAGGATTTTTTCTTGTGA
* * * * * *
715428 TGTGTCTCTTA-TTCGAAAGGGTTCAAGACATTTTTGTAGTAGAGCTAAATTCACTAGGCAATGG
65 -GTGTTTCTCACTT-GAAAGGGTTCGAGACATTTTTGTACTAAAGCTAAATTCACTAGGCAATGT
*
715492 CAAAACTAGTGTTGTT
128 CACAACTAGTGTTGTT
* * * * * *
715508 AAAGGTGCAAAACCAAGCTAGAACCCTTATATTGTCTTGCATTCG--A--A-TTTTT-TTGTGTG
1 AAGGGAGCAAAGCCGAGCTAGAACCCTAATATTGTCTTGCATTCGAAAGGATTTTTTCTTGTGAG
* * * * *
715567 TCTCTCTCATTTGAAAGGGTTCGAGATATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCAC
66 TGTTTCTCACTTGAAAGGGTTCGAGACATTTTTGTACTAAAGCTAAATTCACTAGGCAATGTCAC
*
715632 AACTGGTGTTGTT
131 AACTAGTGTTGTT
715645 AAGGGAGCAAAGCCGAGCTAGAACCCTAATATTGTCTTGCATTCGAAAGGATTTCTTTCTTGTGA
1 AAGGGAGCAAAGCCGAGCTAGAACCCTAATATTGTCTTGCATTCGAAAGGATTT-TTTCTTGTGA
* *
715710 GTGTTTCTCACTTGAAAGGGTTCGGGACATTTTTGTACTAAAGCTAAATTCATTAGGCAATGTCA
65 GTGTTTCTCACTTGAAAGGGTTCGAGACATTTTTGTACTAAAGCTAAATTCACTAGGCAATGTCA
715775 CAACTAGTGTTGTT
130 CAACTAGTGTTGTT
* * * * * *
715789 AAGGGCGCAAAGCCGGGCTAGAACCCTTATATTGTTTTGCATTTGAAAGGGTTTTTTCTT
1 AAGGGAGCAAAGCCGAGCTAGAACCCTAATATTGTCTTGCATTCGAAAGGATTTTTTCTT
715849 TTTATGTGTG
Statistics
Matches: 295, Mismatches: 36, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
137 116 0.39
138 3 0.01
139 2 0.01
140 2 0.01
141 37 0.13
142 2 0.01
143 9 0.03
144 124 0.42
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (143 bp):
AAGGGAGCAAAGCCGAGCTAGAACCCTAATATTGTCTTGCATTCGAAAGGATTTTTTCTTGTGAG
TGTTTCTCACTTGAAAGGGTTCGAGACATTTTTGTACTAAAGCTAAATTCACTAGGCAATGTCAC
AACTAGTGTTGTT
Found at i:717686 original size:26 final size:26
Alignment explanation
Indices: 717642--717715 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
717632 AAAAGGTAAA
* * *
717642 TGTATGTATGTATGTATGTGTGTGTG
1 TGTATGCATGCATGCATGTGTGTGTG
* *
717668 TTTATGCATGCATGCATGTATGTGTG
1 TGTATGCATGCATGCATGTGTGTGTG
* *
717694 TGTATGTATGCATGCGTGTGTG
1 TGTATGCATGCATGCATGTGTG
717716 CTTTGGAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.16, C:0.07, G:0.32, T:0.45
Consensus pattern (26 bp):
TGTATGCATGCATGCATGTGTGTGTG
Found at i:719446 original size:13 final size:13
Alignment explanation
Indices: 719428--719455 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
719418 GTGTAGTCTT
719428 CAACCGGATTCAC
1 CAACCGGATTCAC
719441 CAACCGGATTCAC
1 CAACCGGATTCAC
719454 CA
1 CA
719456 GCCCAGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.39, G:0.14, T:0.14
Consensus pattern (13 bp):
CAACCGGATTCAC
Found at i:719564 original size:11 final size:11
Alignment explanation
Indices: 719544--719573 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
719534 ATAATAAAAA
719544 TAAAAATATTT
1 TAAAAATATTT
*
719555 TAAAAGTATTT
1 TAAAAATATTT
719566 TAAAAATA
1 TAAAAATA
719574 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TAAAAATATTT
Found at i:719877 original size:31 final size:31
Alignment explanation
Indices: 719842--719900 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
719832 TAACATTATT
*
719842 CATTTGTTAATATGTATTAAAAATTAAATTA
1 CATTTGTTAATATGTATTAAAAAATAAATTA
* * * *
719873 CATTTTTTATTTTTTATTAAAAAATAAA
1 CATTTGTTAATATGTATTAAAAAATAAA
719901 CAAATTAATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (31 bp):
CATTTGTTAATATGTATTAAAAAATAAATTA
Found at i:731233 original size:138 final size:136
Alignment explanation
Indices: 730978--731225 Score: 297
Period size: 138 Copynumber: 1.8 Consensus size: 136
730968 AACGGTTAAC
* *
730978 GATAGTTTAGGGATGTATTTAGAATGATTTAAAGTTTATGGAACAATTTAGAATGAGAGCCATAG
1 GATAGTTTAGGGATGTAATTAGAATGATTTAAAGTTTAGGGAACAATTTAGAAT-AGAGCCATAG
* * * ** * *
731043 TTTGAGGATGTTTTGTGCAATTAACTCTTAAATTAATGATTTAGTAATGAAATAACCTTATTGAT
65 TTTGAGGACGTTTAGTGCAATTAACACTTAAATTAACCA-TAAGAAATGAAATAACCTTATTGAT
731108 ATAACATT
129 ATAACATT
* * *
731116 GATAGTTTCA-GGATGTAATTAGAATGTTTTAAAAGTTT-GGGACCAATTTAGAAT-GAGTCATA
1 GATAGTTT-AGGGATGTAATTAGAATGATTT-AAAGTTTAGGGAACAATTTAGAATAGAGCCATA
*
731178 GTTTGGGGACGTTTAGTGCAATTAACACATTAAATTAACCCA-AAGAAA
64 GTTTGAGGACGTTTAGTGCAATTAACAC-TTAAATTAA-CCATAAGAAA
731226 ATTGAAATTT
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
136 35 0.38
137 9 0.10
138 41 0.44
139 8 0.09
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (136 bp):
GATAGTTTAGGGATGTAATTAGAATGATTTAAAGTTTAGGGAACAATTTAGAATAGAGCCATAGT
TTGAGGACGTTTAGTGCAATTAACACTTAAATTAACCATAAGAAATGAAATAACCTTATTGATAT
AACATT
Found at i:731391 original size:28 final size:27
Alignment explanation
Indices: 731350--731402 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
731340 ATAAACCCTA
* *
731350 AAATTCAATTTAAAAGCCCAAATCCCC
1 AAATTCAATCTAAAACCCCAAATCCCC
*
731377 AAATTCCAATCTAAAACCCCTAATCC
1 AAATT-CAATCTAAAACCCCAAATCC
731403 TCAACCCCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (27 bp):
AAATTCAATCTAAAACCCCAAATCCCC
Found at i:737393 original size:21 final size:21
Alignment explanation
Indices: 737369--737413 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
737359 AATCAAAAAT
**
737369 AAAATAAATTCAAATTTTAAA
1 AAAATAAATAAAAATTTTAAA
* *
737390 AAAATATATAAAAATTTTATA
1 AAAATAAATAAAAATTTTAAA
737411 AAA
1 AAA
737414 TTTCAAAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATAAATAAAAATTTTAAA
Found at i:737657 original size:20 final size:20
Alignment explanation
Indices: 737632--737671 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
737622 AATATAGTCA
737632 TTTGATGAATAAAGTTAAAC
1 TTTGATGAATAAAGTTAAAC
737652 TTTGATGAATAAAGTTAAAC
1 TTTGATGAATAAAGTTAAAC
737672 ATCTTTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (20 bp):
TTTGATGAATAAAGTTAAAC
Found at i:737823 original size:23 final size:23
Alignment explanation
Indices: 737797--737847 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
737787 ATTTTCATAT
737797 AATATT-TTTTAAAATAATTTTTA
1 AATATTATTTTAAAATAA-TTTTA
* * *
737820 AATATTATTTTTAAGTTATTTTA
1 AATATTATTTTAAAATAATTTTA
737843 AATAT
1 AATAT
737848 AAAATATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AATATTATTTTAAAATAATTTTA
Found at i:743603 original size:16 final size:16
Alignment explanation
Indices: 743569--743632 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
743559 CCTTTAAAAT
* *
743569 TTTAAATTA-TTTCAG
1 TTTAAGTTATTTTGAG
*
743584 TTTAAGTAATTTTGAG
1 TTTAAGTTATTTTGAG
* *
743600 TTTAAATTATTTTAAG
1 TTTAAGTTATTTTGAG
743616 TTTTAAGGTTATTTTGA
1 -TTTAA-GTTATTTTGA
743633 TCAGCTCACT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
15 7 0.18
16 18 0.47
17 5 0.13
18 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (16 bp):
TTTAAGTTATTTTGAG
Found at i:749315 original size:19 final size:20
Alignment explanation
Indices: 749283--749324 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
749273 CTAAACGTAC
749283 AAACCCAAACCTCGAAAACA
1 AAACCCAAACCTCGAAAACA
* *
749303 AAACCCTAA-CTCGAGAACA
1 AAACCCAAACCTCGAAAACA
749322 AAA
1 AAA
749325 TTCTATCCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.55, C:0.31, G:0.07, T:0.07
Consensus pattern (20 bp):
AAACCCAAACCTCGAAAACA
Found at i:752359 original size:25 final size:25
Alignment explanation
Indices: 752331--752400 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 25
752321 GATGACTATA
752331 TAAAAATAAATAAAATAATTAAATT
1 TAAAAATAAATAAAATAATTAAATT
** * * **
752356 TAAATTTAAATAATATAAATATTTT
1 TAAAAATAAATAAAATAATTAAATT
752381 TAAAAA-AAATTTAAAATAAT
1 TAAAAATAAA--TAAAATAAT
752401 GTGGGCAAGA
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
24 3 0.09
25 23 0.70
26 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAAAATAAATAAAATAATTAAATT
Found at i:754505 original size:159 final size:159
Alignment explanation
Indices: 754246--754632 Score: 684
Period size: 159 Copynumber: 2.4 Consensus size: 159
754236 AAAAATCTAG
*
754246 TATCTAGTGAGTTGATGAACACAATTTGATATGTTTATGGATTGCCATTGATGAATTTATTTGAT
1 TATCTAGTGAGTTGATGAACACGATTTGATATGTTTATGGATTGCCATTGATGAATTTATTTGAT
*
754311 TCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTAAGAATGTGAAAGCATCTTCGGCT
66 TCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTAAGAATGTGAAAGCATCTTCAGCT
* * *
754376 TGAATGAATGTTTTTGGATACTTTTCTCA
131 CGAATGAAGGTTTTTGGATACTTCTCTCA
*
754405 TATCTAGTGAGTTGATGAACACGATTTGATATGTTTGTGGATTGCCATTGATGAATTTATTTGAT
1 TATCTAGTGAGTTGATGAACACGATTTGATATGTTTATGGATTGCCATTGATGAATTTATTTGAT
754470 TCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTAAGAATGTGAAAGCATCTTCAGCT
66 TCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTAAGAATGTGAAAGCATCTTCAGCT
754535 CGAATGAAGGTTTTTGGATACTTCTCTCA
131 CGAATGAAGGTTTTTGGATACTTCTCTCA
* * *
754564 TATCTAGTGAGTTGATGAACACGATTTGATATGTTTATGAATTGCCATTTGATGAATTGATTTGG
1 TATCTAGTGAGTTGATGAACACGATTTGATATGTTTATGGATTGCCA-TTGATGAATTTATTTGA
754629 TTCT
65 TTCT
754633 GATTGTATTG
Statistics
Matches: 217, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
159 198 0.91
160 19 0.09
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (159 bp):
TATCTAGTGAGTTGATGAACACGATTTGATATGTTTATGGATTGCCATTGATGAATTTATTTGAT
TCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTAAGAATGTGAAAGCATCTTCAGCT
CGAATGAAGGTTTTTGGATACTTCTCTCA
Found at i:756701 original size:31 final size:31
Alignment explanation
Indices: 756656--756787 Score: 99
Period size: 31 Copynumber: 4.4 Consensus size: 31
756646 GTCATATACC
*
756656 ATTTGATACCTGAGTTTAGCTTCAATGTTCA
1 ATTTGGTACCTGAGTTTAGCTTCAATGTTCA
* * * *
756687 ATTTGGTACTTGAGTTTGGCTTCCATGTTTA
1 ATTTGGTACCTGAGTTTAGCTTCAATGTTCA
* * ** ****
756718 ATTTGGCAGCTGAGTTT-TTTTC--CCCCCA
1 ATTTGGTACCTGAGTTTAGCTTCAATGTTCA
* * *
756746 ATTTGGTACCTGAGATTGGCATCAATGTTCA
1 ATTTGGTACCTGAGTTTAGCTTCAATGTTCA
756777 ATTTGGTACCT
1 ATTTGGTACCT
756788 AGATCAAACG
Statistics
Matches: 73, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
28 15 0.21
29 2 0.03
30 3 0.04
31 53 0.73
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (31 bp):
ATTTGGTACCTGAGTTTAGCTTCAATGTTCA
Found at i:757017 original size:31 final size:31
Alignment explanation
Indices: 756982--757065 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
756972 CAAATTGAAG
* *
756982 CCAAATTGAACATTAAAGCTAAATTCAGGTA
1 CCAAATTGAACATTAAAGCCAAATTCAGGGA
** *
757013 CCAAATTGAACATGGAAGCCAAATTCAGGGG
1 CCAAATTGAACATTAAAGCCAAATTCAGGGA
*
757044 CCAAATTGAACATTGAA-CCAAA
1 CCAAATTGAACATTAAAGCCAAA
757066 CTCAAGTGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 5 0.11
31 42 0.89
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (31 bp):
CCAAATTGAACATTAAAGCCAAATTCAGGGA
Found at i:771017 original size:166 final size:165
Alignment explanation
Indices: 770716--771146 Score: 576
Period size: 166 Copynumber: 2.6 Consensus size: 165
770706 TCACTGAAAT
* * * * * *
770716 ATATTTCATGATCAACGAGTTATTTTTTTGAAGGTCACCCGCAAGG-ATTTAAGGTTTAGCAATC
1 ATATTTCATGATCAACGAATTACTTCTTTGAA-GACAACC-CACGGAATTTAAGGTTTAGCAATC
* * * *
770780 ATGTGATTCCATCATGCATGCATTAAGGAGAGAGAGATACTTACTCACTTCATCCTTCATTTACA
64 ATGTGATTCCATCATGCATGCATTACGTAGAGAGAGATAATTACTCACTTCATCCTTCATTCACA
* * *
770845 TGGTTGAGGGTTAAATTTCCACCTATGAGACTAAAAC
129 TGGTTGAGGGTTAAATCTCCACCTATAAAACTAAAAC
* * * *
770882 ATATTTTATGATTAACGAATTACTTCTTTGAAGACCATCCACGAGAATTTAAGGTTTAGCAATCA
1 ATATTTCATGATCAACGAATTACTTCTTTGAAGACAACCCACG-GAATTTAAGGTTTAGCAATCA
* * * *
770947 TGTGATTCCATCATGCATACATTACGTAGAGAGAGATAATTACTCACTTTATCCTTTATTCACGT
65 TGTGATTCCATCATGCATGCATTACGTAGAGAGAGATAATTACTCACTTCATCCTTCATTCACAT
* *
771012 GGTTGAGGGTTCAATCTCCACCTATAAAACTGAAAC
130 GGTTGAGGGTTAAATCTCCACCTATAAAACTAAAAC
* * *
771048 ATATTTCATGATCAACGAATTACTTCTTTGAATACAACCCGCGGAAGTTTAAGGTTTAGTAATCA
1 ATATTTCATGATCAACGAATTACTTCTTTGAAGACAACCCACGGAA-TTTAAGGTTTAGCAATCA
*
771113 TGTGATTCCATCATGTATGCATTACGTAGAGAGA
65 TGTGATTCCATCATGCATGCATTACGTAGAGAGA
771147 TGCTGTCATG
Statistics
Matches: 230, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
164 3 0.01
165 7 0.03
166 220 0.96
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (165 bp):
ATATTTCATGATCAACGAATTACTTCTTTGAAGACAACCCACGGAATTTAAGGTTTAGCAATCAT
GTGATTCCATCATGCATGCATTACGTAGAGAGAGATAATTACTCACTTCATCCTTCATTCACATG
GTTGAGGGTTAAATCTCCACCTATAAAACTAAAAC
Found at i:774202 original size:3 final size:3
Alignment explanation
Indices: 774194--774228 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
774184 AACAAATAGG
774194 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
774229 GGACTAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:775461 original size:106 final size:107
Alignment explanation
Indices: 775276--775488 Score: 401
Period size: 106 Copynumber: 2.0 Consensus size: 107
775266 AAGGTGAATC
775276 ACCTTCTAAAGCCCCATTTTTTATTTCTTTCAATTTTTTCAAAAGCCGAATCTTCTCTTTTTTGT
1 ACCTTCTAAAGCCCCATTTTTTATTTCTTTCAATTTTTTCAAAAGCCGAATCTTCTCTTTTTTGT
*
775341 TACAAAAGTCCCCCCTCC-TTTTTTTGTTTCTTTTTTTTTTT
66 TACAAAAGTCCCCCCTCCTTTTTTTTGTTTCTCTTTTTTTTT
*
775382 ACCTTCTAAAGCCCCCTTTTTTATTTCTTTCAATTTTTTCAAAAGCCGAATCTTCTCTTTTTTGT
1 ACCTTCTAAAGCCCCATTTTTTATTTCTTTCAATTTTTTCAAAAGCCGAATCTTCTCTTTTTTGT
775447 TACAAAAGTCCCCCCTCCTTTTTTTTGTTTCTCTTTTTTTTT
66 TACAAAAGTCCCCCCTCCTTTTTTTTGTTTCTCTTTTTTTTT
775489 CCCTGGTGCG
Statistics
Matches: 104, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
106 82 0.79
107 22 0.21
ACGTcount: A:0.17, C:0.24, G:0.06, T:0.53
Consensus pattern (107 bp):
ACCTTCTAAAGCCCCATTTTTTATTTCTTTCAATTTTTTCAAAAGCCGAATCTTCTCTTTTTTGT
TACAAAAGTCCCCCCTCCTTTTTTTTGTTTCTCTTTTTTTTT
Found at i:776303 original size:109 final size:107
Alignment explanation
Indices: 776154--776369 Score: 405
Period size: 109 Copynumber: 2.0 Consensus size: 107
776144 GCACCAGGGG
776154 AAAAAAAAAAGAGAAACAAAAAAAGGAGGGGGGACTTTTGTAACAAAAAAGAGAAGATTCGGCTT
1 AAAAAAAAAAGAGAAACAAAAAAAGGAGGGGGGACTTTTGTAACAAAAAAGAGAAGATTCGGCTT
776219 TTGAAAAAATTGAAAGAAATAAAAAAGGGGGCTTTAGAAGGT
66 TTGAAAAAATTGAAAGAAATAAAAAAGGGGGCTTTAGAAGGT
*
776261 AAAAAAAAAAGAGAAACAAAAAAAAGGAGGGGAGGACTTTTGTAATAAAAAAGAGAAGATTCGGC
1 AAAAAAAAAAGAGAAAC-AAAAAAAGGAGGGG-GGACTTTTGTAACAAAAAAGAGAAGATTCGGC
776326 TTTTGAAAAAATTGAAAGAAATAAAAAAGGGGGCTTTAGAAGGT
64 TTTTGAAAAAATTGAAAGAAATAAAAAAGGGGGCTTTAGAAGGT
776370 GATTCACCTT
Statistics
Matches: 106, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
107 17 0.16
108 14 0.13
109 75 0.71
ACGTcount: A:0.53, C:0.05, G:0.25, T:0.17
Consensus pattern (107 bp):
AAAAAAAAAAGAGAAACAAAAAAAGGAGGGGGGACTTTTGTAACAAAAAAGAGAAGATTCGGCTT
TTGAAAAAATTGAAAGAAATAAAAAAGGGGGCTTTAGAAGGT
Found at i:777423 original size:3 final size:3
Alignment explanation
Indices: 777415--777449 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
777405 GATTTAGTCC
777415 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
777450 CCTATTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:783552 original size:3 final size:3
Alignment explanation
Indices: 783544--783581 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
783534 CAGTCCTTGC
783544 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
783582 CTCTCCCCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:785701 original size:51 final size:52
Alignment explanation
Indices: 785642--785744 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 52
785632 CATTTACCAC
* *
785642 GTGCAATATCACGCCTTTGTCTCGATGCATGAAAAAGACATTA-ACCTTATA
1 GTGCAATATCACGCCTTTGTCTCGATGCATAAAAAAGACATAATACCTTATA
* * * *
785693 GTGCAATATCATGCCTTTGTTTCGATGTATAAAAAAGATATAATACCTTATA
1 GTGCAATATCACGCCTTTGTCTCGATGCATAAAAAAGACATAATACCTTATA
785745 TGATGATTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
51 37 0.82
52 8 0.18
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (52 bp):
GTGCAATATCACGCCTTTGTCTCGATGCATAAAAAAGACATAATACCTTATA
Found at i:785827 original size:153 final size:151
Alignment explanation
Indices: 785546--785845 Score: 424
Period size: 153 Copynumber: 2.0 Consensus size: 151
785536 AGCATGCAAA
* * *
785546 AATATCATGCTTTTGTCTCAATGTATGAAAAAGACATAAACCTTGTATGATGATTTCAGTGCTAA
1 AATATCATGCCTTTGTCTCAATGTATAAAAAAGACATAAACCTTATATGATGATTTCAGTGCTAA
*
785611 TGCATTTGCTTTGATTAAGTTCATTTACCACGTGCAATATCACGCCTTTGTCTCGATGCATGAAA
66 TGCATTTGCTTTGATTAAGTTCATTTACCACGTGCAATATCACACCTTTGTCTCGATGCATGAAA
*
785676 AAGACATTAACCTTATAGTGC
131 AAGACATAAACCTTATAGTGC
* * *
785697 AATATCATGCCTTTGTTTCGATGTATAAAAAAGATATAATACCTTATATGATGATTTCAGTGCTA
1 AATATCATGCCTTTGTCTCAATGTATAAAAAAGACATAA-ACCTTATATGATGATTTCAGTGCTA
* * * * *
785762 ATGCA-TTGGTTGTGATTTAAGTTCATTTAGCTCGTGCGATATCACACCTTTGT-TCCGATGTAT
65 ATGCATTTGCTT-TGA-TTAAGTTCATTTACCACGTGCAATATCACACCTTTGTCT-CGATGCAT
*
785825 GAAATAGACATAAACCTTATA
127 GAAAAAGACATAAACCTTATA
785846 TGATGATTTC
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
151 39 0.30
152 33 0.25
153 59 0.45
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (151 bp):
AATATCATGCCTTTGTCTCAATGTATAAAAAAGACATAAACCTTATATGATGATTTCAGTGCTAA
TGCATTTGCTTTGATTAAGTTCATTTACCACGTGCAATATCACACCTTTGTCTCGATGCATGAAA
AAGACATAAACCTTATAGTGC
Found at i:785879 original size:101 final size:103
Alignment explanation
Indices: 785706--785891 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 103
785696 CAATATCATG
* * *
785706 CCTTTGTTTCGATGTATAAAAAAGATATAATACCTTATATGATGATTTCAGTGCTAATGCATTGG
1 CCTTTGTTCCGATGTATAAAAAAGACATAATACCTTATATGATGATTTCAATGCTAATGCATTGG
785771 TTGTGATTT-AAGTTCATTTAGCTCGTGCGATATCACA
66 TTGTGATTTAAAGTTCATTTAGCTCGTGCGATATCACA
* * *
785808 CCTTTGTTCCGATGTATGAAATAGACATAA-ACCTTATATGATGATTTCAATGCTAATGCATTTG
1 CCTTTGTTCCGATGTATAAAAAAGACATAATACCTTATATGATGATTTCAATGCTAATGCATTGG
*
785872 TTTTGATTTAAAGTTCATTT
66 TTGTGATTTAAAGTTCATTT
785892 TGTTGACATA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
101 40 0.53
102 36 0.47
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (103 bp):
CCTTTGTTCCGATGTATAAAAAAGACATAATACCTTATATGATGATTTCAATGCTAATGCATTGG
TTGTGATTTAAAGTTCATTTAGCTCGTGCGATATCACA
Found at i:788784 original size:30 final size:28
Alignment explanation
Indices: 788731--788799 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 28
788721 TGATAAACTG
* *
788731 AAAAATTAAATGTTGACATATTAAATGCT
1 AAAATTTAAATATTGACATATTAAATG-T
788760 AAAATTTTAAATATTGAACA-ATTAAATGT
1 AAAA-TTTAAATATTG-ACATATTAAATGT
*
788789 TAAATTTAAAT
1 AAAATTTAAAT
788800 TATAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 7 0.20
29 8 0.23
30 17 0.49
31 3 0.09
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (28 bp):
AAAATTTAAATATTGACATATTAAATGT
Found at i:789177 original size:16 final size:17
Alignment explanation
Indices: 789152--789185 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
789142 GTTGAAGCTC
789152 TTAAAAAATAAT-TAAT
1 TTAAAAAATAATATAAT
*
789168 TTAAATAATAATATAAT
1 TTAAAAAATAATATAAT
789185 T
1 T
789186 GTTTTGCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAAATAATATAAT
Found at i:794472 original size:18 final size:17
Alignment explanation
Indices: 794449--794487 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
794439 TAATTTTTGA
*
794449 AATTTTGTTTATGGTTTT
1 AATTTTGTTTA-AGTTTT
*
794467 AATTTTTTTTAAGTTTT
1 AATTTTGTTTAAGTTTT
794484 AATT
1 AATT
794488 AAATTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (17 bp):
AATTTTGTTTAAGTTTT
Found at i:799532 original size:18 final size:19
Alignment explanation
Indices: 799509--799544 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
799499 AATTTTAAAA
*
799509 ATAAAT-TTTAGAGTTTTT
1 ATAAATATTTAGAATTTTT
799527 ATAAATATTTAGAATTTT
1 ATAAATATTTAGAATTTT
799545 CGAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
ATAAATATTTAGAATTTTT
Found at i:799557 original size:40 final size:41
Alignment explanation
Indices: 799468--799558 Score: 96
Period size: 40 Copynumber: 2.2 Consensus size: 41
799458 TCCCAATGTT
* * * *
799468 ATTATTTTAGAATTTTTTTTATAATTTTTATAATTTTAAAA
1 ATTATTTTAGAAGTTTTTATATAATATTTAGAATTTTAAAA
* *
799509 ATAAATTTTAG-AGTTTTTATA-AATATTTAGAATTTTCGAAA
1 AT-TATTTTAGAAGTTTTTATATAATATTTAGAATTTT-AAAA
799550 ATTATTTTA
1 ATTATTTTA
799559 ATTTTTTTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
40 19 0.46
41 15 0.37
42 7 0.17
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.55
Consensus pattern (41 bp):
ATTATTTTAGAAGTTTTTATATAATATTTAGAATTTTAAAA
Found at i:800640 original size:12 final size:13
Alignment explanation
Indices: 800617--800646 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
800607 GGGTTTTCTC
800617 ATTTTTTGTTTTA
1 ATTTTTTGTTTTA
800630 ATTTTTT-TTTTA
1 ATTTTTTGTTTTA
800642 ATTTT
1 ATTTT
800647 CAGAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (13 bp):
ATTTTTTGTTTTA
Found at i:807443 original size:27 final size:27
Alignment explanation
Indices: 807399--807509 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
807389 TATTTCGGAA
*
807399 ACCAACAGAGGTACGTCGATACAAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
* * * *
807426 ATCAACAAAGGTATGTCGATCCAAGAG
1 ACCAACAAAGGTACGTCGATACAAGGG
* * *
807453 ACCAACAGAGGTACGTCGATCCGAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
* *
807480 ACCAACAAAGGTATGTTGATACAAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
807507 ACC
1 ACC
807510 GTGATTTTCA
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (27 bp):
ACCAACAAAGGTACGTCGATACAAGGG
Found at i:807461 original size:54 final size:54
Alignment explanation
Indices: 807399--807509 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 54
807389 TATTTCGGAA
* *
807399 ACCAACAGAGGTACGTCGATACAAGGGATCAACAAAGGTATGTCGATCCAAGAG
1 ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
* * * *
807453 ACCAACAGAGGTACGTCGATCCGAGGGACCAACAAAGGTATGTTGATACAAGGG
1 ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
807507 ACC
1 ACC
807510 GTGATTTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (54 bp):
ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
Found at i:810054 original size:19 final size:19
Alignment explanation
Indices: 809996--810054 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 19
809986 ACATTGACAG
809996 GAGTTAGCAGTATAGTAAT
1 GAGTTAGCAGTATAGTAAT
* *
810015 GAAGAGATAG-AGAAT-GT-AT
1 ---GAGTTAGCAGTATAGTAAT
810034 GAGTTAGCAGTATAGTAAT
1 GAGTTAGCAGTATAGTAAT
810053 GA
1 GA
810055 AGAGATAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
16 6 0.20
17 4 0.13
18 2 0.07
19 6 0.20
20 2 0.07
21 4 0.13
22 6 0.20
ACGTcount: A:0.41, C:0.03, G:0.29, T:0.27
Consensus pattern (19 bp):
GAGTTAGCAGTATAGTAAT
Found at i:819047 original size:19 final size:20
Alignment explanation
Indices: 819007--819050 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
818997 GTCTCTTTAG
* *
819007 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
819026 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
819045 GCATTA
1 GCATTA
819051 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:823516 original size:88 final size:88
Alignment explanation
Indices: 823367--824102 Score: 1079
Period size: 88 Copynumber: 8.4 Consensus size: 88
823357 ATGAAGTTAC
* * * *
823367 AGATCTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACATAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
823432 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
*
823455 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
*
823520 TGATGGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
* *
823543 AGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGATTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
823608 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
* *
823631 AGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGATTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
823696 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
*
823719 AGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
*
823784 TGATGGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
* *
823807 AGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGATTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
823872 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
* * * *
823895 AGATCTTGCCTTCTTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
* * **
823960 T-AGTGGAGCTGGTTAAAGA-AGC
66 TGA-TAGAGCTGGTTGAAGACAAA
* * * ** *
823982 AGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCATCCATCGATT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGGTT
* * * * **
824045 G-CAGTGGAGCTAGTTAAAGA-AGC
65 GTGA-TAGAGCTGGTTGAAGACAAA
* *
824068 AGATCTTGCCTTCCTGCATTAACAGCAAAGCAGAT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGAT
824103 AAAAAAACAA
Statistics
Matches: 609, Mismatches: 36, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
85 5 0.01
86 68 0.11
87 36 0.06
88 500 0.82
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
TGATAGAGCTGGTTGAAGACAAA
Found at i:828479 original size:4 final size:4
Alignment explanation
Indices: 828464--828497 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
828454 AGGTAACTTT
*
828464 CATA CCTA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CA
828498 AAAGCCGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:834414 original size:14 final size:14
Alignment explanation
Indices: 834369--834448 Score: 54
Period size: 14 Copynumber: 5.5 Consensus size: 14
834359 TATATAAATT
834369 TATTAAATTAAAAA
1 TATTAAATTAAAAA
* * *
834383 TACATAAAAATATTAAA
1 T--ATTAAATTA-AAAA
834400 TATTAAATTAAAAA
1 TATTAAATTAAAAA
*
834414 TA-TAAATATAAATA
1 TATTAAAT-TAAAAA
**
834428 TATTATTTTAAAAA
1 TATTAAATTAAAAA
*
834442 TTTTAAA
1 TATTAAA
834449 ACAATGTGAG
Statistics
Matches: 48, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
13 5 0.10
14 22 0.46
15 10 0.21
16 7 0.15
17 4 0.08
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (14 bp):
TATTAAATTAAAAA
Found at i:834439 original size:28 final size:27
Alignment explanation
Indices: 834360--834442 Score: 76
Period size: 31 Copynumber: 2.9 Consensus size: 27
834350 AAAACGATAT
*
834360 ATATAAATTTATTAAATTAAAAATACATAAAA
1 ATATAAA-ATATTAAATTAAAAAT--AT--AA
*
834392 ATATTAAATATTAAATTAAAAATATAA
1 ATATAAAATATTAAATTAAAAATATAA
**
834419 ATATAAATATATTATTTTAAAAAT
1 ATATAAA-ATATTAAATTAAAAAT
834443 TTTAAAACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 8 0.18
28 14 0.31
29 2 0.04
31 15 0.33
32 6 0.13
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (27 bp):
ATATAAAATATTAAATTAAAAATATAA
Found at i:843332 original size:24 final size:25
Alignment explanation
Indices: 843295--843341 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
843285 TACTTCAATT
*
843295 CTAAAATCTGAAAA-AATGAAAGCG
1 CTAAAATCTGAAAATAATAAAAGCG
843319 CTAAAATTCT-AAAATAATAAAAG
1 CTAAAA-TCTGAAAATAATAAAAG
843342 TATAGGGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.21
Consensus pattern (25 bp):
CTAAAATCTGAAAATAATAAAAGCG
Found at i:844724 original size:164 final size:163
Alignment explanation
Indices: 844401--844732 Score: 418
Period size: 165 Copynumber: 2.0 Consensus size: 163
844391 TTTTGTTATA
* * * *
844401 ATTAAAAATTGGGATTATTTTATTATTATTTTAATAACCTCGTTATAGGTTTGGATCATATCTGT
1 ATTAAAAATTGAGATTAATTTATTATTATTTTAACAACCTCATTATAGGTTTGGATCATATCTGT
* * * * **
844466 TCTTTTTGACACGATGTTTAAAACTACTTATAATCCCTTCTCAACTCATAAATAGGTTGATAATG
66 TCTTTTTGACACAATATCTAAAACTACCTATAATCCCTTCTCAACTCATAAATAGGAGGATAATG
* * *
844531 CGTTTTAACGCACTCGAATCTACGTCCACTTGC
131 CATTTCAACGCACTCGAATCTACGTCCACTTAC
* * *
844564 ATTAAAATTTGAGATTAATTTATTATTATTATTTAACAATCTCATTATAGGTTCT-GATTATATC
1 ATTAAAAATTGAGATTAATTTATTATTA-T-TTTAACAACCTCATTATAGGTT-TGGATCATATC
* *
844628 TGTAT-TTTTTTACACAATATCTAAAACTACCTATAATCCCTTC-CAACTCATAAGTAGGAGGAT
63 TGT-TCTTTTTGACACAATATCTAAAACTACCTATAATCCCTTCTCAACTCATAAATAGGAGGAT
** *
844691 AATGCATTTCAGTGCACTCGAATTTACGTCCACTTAC
127 AATGCATTTCAACGCACTCGAATCTACGTCCACTTAC
844728 ATTAA
1 ATTAA
844733 CAATAATGTT
Statistics
Matches: 144, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
163 25 0.17
164 54 0.38
165 63 0.44
166 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (163 bp):
ATTAAAAATTGAGATTAATTTATTATTATTTTAACAACCTCATTATAGGTTTGGATCATATCTGT
TCTTTTTGACACAATATCTAAAACTACCTATAATCCCTTCTCAACTCATAAATAGGAGGATAATG
CATTTCAACGCACTCGAATCTACGTCCACTTAC
Found at i:844895 original size:25 final size:25
Alignment explanation
Indices: 844840--844898 Score: 66
Period size: 29 Copynumber: 2.2 Consensus size: 25
844830 ATTTATCGAT
*
844840 TTATT-AAAAATATAATAATTATTT
1 TTATTAAAAAATATAATAATTATTA
844864 TTAATTAAAAAATATAGTATTAATTATTA
1 TT-ATTAAAAAATATA--A-TAATTATTA
844893 TTATTA
1 TTATTA
844899 TTATTCATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 2 0.07
25 3 0.10
26 9 0.31
28 5 0.17
29 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TTATTAAAAAATATAATAATTATTA
Found at i:854416 original size:16 final size:16
Alignment explanation
Indices: 854392--854425 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
854382 CCCAAAAATG
* *
854392 ATCTGAACCCGAATTA
1 ATCTAAACCCAAATTA
854408 ATCTAAACCCAAATTA
1 ATCTAAACCCAAATTA
854424 AT
1 AT
854426 TCGATCTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.26
Consensus pattern (16 bp):
ATCTAAACCCAAATTA
Found at i:856743 original size:23 final size:22
Alignment explanation
Indices: 856716--856772 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
856706 TGTTGGTAGG
856716 TTTATATTTAT-ATTATTTATTAT
1 TTTATATTTATAATT-TTT-TTAT
856739 TTTATATTTAATAATTTTTTTAT
1 TTTATATTT-ATAATTTTTTTAT
*
856762 TTTTTATTTAT
1 TTTATATTTAT
856773 TAAAATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 2 0.06
23 21 0.68
24 5 0.16
25 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTATATTTATAATTTTTTTAT
Found at i:858692 original size:2 final size:2
Alignment explanation
Indices: 858687--858712 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
858677 TATACACATG
858687 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
858713 TATATACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:861855 original size:4 final size:4
Alignment explanation
Indices: 861846--861875 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
861836 AATCTTTAGG
861846 ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
861876 GATAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:864148 original size:101 final size:103
Alignment explanation
Indices: 864018--864287 Score: 364
Period size: 101 Copynumber: 2.6 Consensus size: 103
864008 AATTTAAAAA
* ** * **
864018 AAAAAGGAAAAAAATTTTAATTGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAATTTTT
1 AAAAAGAAAAAAAATTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTT
*
864083 TTTTTATTTTTTTCGTATACTGATATCTGATTCTG-AC
66 TTTTTATTTTTTTCGTATACTGATATCTGACTCTGAAC
*** * * *
864120 -GCGAGAAGAAAAATTAAAATTGTACTGGGTGCTGGCCATTGACAGGCCAACACCCAAAAAATTT
1 AAAAAGAAAAAAAATTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTT
*
864184 TTTTTATTTTTTTTGTATACTGATATCTGACTCTGATAC
66 TTTTTATTTTTTTCGTATACTGATATCTGACTCTGA-AC
864223 AAAAAAAGAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
1 --AAAAAGAAAAAAAA-TTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
864288 AATTCGTTTT
Statistics
Matches: 142, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
101 85 0.60
103 2 0.01
106 9 0.06
107 46 0.32
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (103 bp):
AAAAAGAAAAAAAATTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTT
TTTTTATTTTTTTCGTATACTGATATCTGACTCTGAAC
Found at i:884808 original size:10 final size:10
Alignment explanation
Indices: 884793--884823 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
884783 TGTGAACCAT
*
884793 GTGGGGATGG
1 GTGGGGAGGG
884803 GTGGGGAGGG
1 GTGGGGAGGG
884813 GTGGGGAGGG
1 GTGGGGAGGG
884823 G
1 G
884824 GGTTGCAACT
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:0.10, C:0.00, G:0.77, T:0.13
Consensus pattern (10 bp):
GTGGGGAGGG
Found at i:885042 original size:23 final size:23
Alignment explanation
Indices: 884983--885043 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
884973 AAGATGGAAT
*
884983 TTAAT-TAT-ATTTTTTTATGAA
1 TTAATATATAATTTTATTATGAA
* * * *
885004 TTAAAATGTAAGTTTATTATGTA
1 TTAATATATAATTTTATTATGAA
885027 TTAATATATAATTTTAT
1 TTAATATATAATTTTAT
885044 CTTTCTTGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 4 0.13
22 2 0.07
23 24 0.80
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (23 bp):
TTAATATATAATTTTATTATGAA
Found at i:889204 original size:14 final size:14
Alignment explanation
Indices: 889185--889214 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
889175 AACTTCTAGC
889185 AACCCTAAATCCTA
1 AACCCTAAATCCTA
*
889199 AACCCTAAATCTTA
1 AACCCTAAATCCTA
889213 AA
1 AA
889215 TAATAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCTAAATCCTA
Found at i:889671 original size:21 final size:21
Alignment explanation
Indices: 889646--889688 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
889636 AATCCGAATC
889646 ATCAAATCCAAAATAACCCAA
1 ATCAAATCCAAAATAACCCAA
*
889667 ATCAAATCCAAAATAACTCAA
1 ATCAAATCCAAAATAACCCAA
889688 A
1 A
889689 CCTGAAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.58, C:0.26, G:0.00, T:0.16
Consensus pattern (21 bp):
ATCAAATCCAAAATAACCCAA
Found at i:915997 original size:20 final size:21
Alignment explanation
Indices: 915958--915997 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
915948 CAAGGTGCGA
*
915958 TACAGATACATTTGATTCTTT
1 TACAGATACATTTGAATCTTT
*
915979 TACAGATATA-TTGAATCTT
1 TACAGATACATTTGAATCTT
915998 ATCTATCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (21 bp):
TACAGATACATTTGAATCTTT
Found at i:919449 original size:113 final size:113
Alignment explanation
Indices: 919250--919462 Score: 302
Period size: 113 Copynumber: 1.9 Consensus size: 113
919240 GGCCCCCCCA
* * * * *
919250 AAAATGGAAAATTTCCTTATAGTCCCTTTAAAATTTTGTAATATTCTAAACAAGGACAATAGTAA
1 AAAATGGAAAATTTCCTTACAGTCCCTTTAAAA-TTTATAAGATTCTAAACAAGAACAACAGTAA
*
919315 AATTACATTGAACCACACATTTACACATAGTAAGACTTCGACCCTAAAC
65 AATTACAATGAACCACACATTTACACATAGTAAGACTTCGACCCTAAAC
* * * *
919364 AAAATGGGAACTTTCCTTACAGTCCCTCTTGAAA-TTATAAGATTTTAAACAAGAACAACAGTAA
1 AAAATGGAAAATTTCCTTACAGTCCCT-TTAAAATTTATAAGATTCTAAACAAGAACAACAGTAA
*
919428 ATTTACAATGAACCACACATTTACACATAGTAAGA
65 AATTACAATGAACCACACATTTACACATAGTAAGA
919463 TTTCCTTGTA
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
113 58 0.67
114 24 0.28
115 5 0.06
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (113 bp):
AAAATGGAAAATTTCCTTACAGTCCCTTTAAAATTTATAAGATTCTAAACAAGAACAACAGTAAA
ATTACAATGAACCACACATTTACACATAGTAAGACTTCGACCCTAAAC
Found at i:923045 original size:24 final size:24
Alignment explanation
Indices: 923013--923080 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
923003 CCCCCCTAAG
* *
923013 TACAAGTACATATATATATGCATA
1 TACATGTACATATATATATACATA
* * *
923037 TACATGTACATGTATGTAAACATA
1 TACATGTACATATATATATACATA
* *
923061 TACTTAATACATATATATAT
1 TACAT-GTACATATATATAT
923081 TGCCAATATT
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
24 23 0.70
25 10 0.30
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (24 bp):
TACATGTACATATATATATACATA
Found at i:942285 original size:72 final size:74
Alignment explanation
Indices: 942116--942286 Score: 256
Period size: 76 Copynumber: 2.3 Consensus size: 74
942106 AAATTTTGGA
* * *
942116 TTTCTTCGAGGCTTCGTCTTTCTTGAGATATTTGTGTTCGATTTTCAATTCATTCTTGGGATTCT
1 TTTCTTCGAGGCTTCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAATTCA-TC-TGAGATTCT
942181 TTAACCTCGGC
64 TTAACCTCGGC
*
942192 TTTCTTCGAGGCTTCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAGTTC-TC-GAGATTCTTT
1 TTTCTTCGAGGCTTCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAATTCATCTGAGATTCTTT
942255 AACCTCGGC
66 AACCTCGGC
* *
942264 TTTCTTCAAGGCCTCGTCCTTCT
1 TTTCTTCGAGGCTTCGTCCTTCT
942287 CGAGTTTGTC
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
72 39 0.44
74 2 0.02
76 48 0.54
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.45
Consensus pattern (74 bp):
TTTCTTCGAGGCTTCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAATTCATCTGAGATTCTTT
AACCTCGGC
Found at i:942308 original size:72 final size:72
Alignment explanation
Indices: 942175--942309 Score: 180
Period size: 72 Copynumber: 1.9 Consensus size: 72
942165 TCATTCTTGG
* * * ** * *
942175 GATTCTTTAACCTCGGCTTTCTTCGAGGCTTCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAG
1 GATTCTTTAACCTCGGCTTTCTTCAAGGCCTCGTCCTTCTCGAGATACTCCTCTTCCATTTTCAG
942240 TTCTCGA
66 TTCTCGA
* **
942247 GATTCTTTAACCTCGGCTTTCTTCAAGGCCTCGTCCTTCTCGAGTTTGTCCTCTTCCATTTTC
1 GATTCTTTAACCTCGGCTTTCTTCAAGGCCTCGTCCTTCTCGAGATACTCCTCTTCCATTTTC
942310 CTCTGTTTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 53 1.00
ACGTcount: A:0.13, C:0.27, G:0.17, T:0.43
Consensus pattern (72 bp):
GATTCTTTAACCTCGGCTTTCTTCAAGGCCTCGTCCTTCTCGAGATACTCCTCTTCCATTTTCAG
TTCTCGA
Found at i:946543 original size:53 final size:53
Alignment explanation
Indices: 946486--946637 Score: 232
Period size: 53 Copynumber: 2.9 Consensus size: 53
946476 AATGATCGGA
* * *
946486 TTTTGGAGGACGTATTCCGCGTCTCGAATGTGAGCGTCGAGCCAATGACCGAC
1 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAATGACCGAC
* * * *
946539 TTTTGGAGGATGAATTTCGTGTCTCGAATGTGAGCGTTGAGCCAACGACCGGC
1 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAATGACCGAC
*
946592 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCAAGCCAAT
1 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAAT
946638 CGGTTAAAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 88 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (53 bp):
TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAATGACCGAC
Found at i:951270 original size:12 final size:12
Alignment explanation
Indices: 951253--951277 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
951243 CAGAAGCTAT
951253 TAACAAAATTTA
1 TAACAAAATTTA
951265 TAACAAAATTTA
1 TAACAAAATTTA
951277 T
1 T
951278 GTTATAAAAT
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (12 bp):
TAACAAAATTTA
Found at i:951393 original size:24 final size:24
Alignment explanation
Indices: 951361--951410 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
951351 ACCAGTGAAC
*
951361 CATAGACGAAATAAATACATAAAG
1 CATAGACGAAAGAAATACATAAAG
951385 CATAGACGAAAGAAATACATAAAG
1 CATAGACGAAAGAAATACATAAAG
951409 CA
1 CA
951411 ACGGAGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.14
Consensus pattern (24 bp):
CATAGACGAAAGAAATACATAAAG
Found at i:953171 original size:29 final size:29
Alignment explanation
Indices: 953114--953171 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
953104 TATCAAACTG
* *
953114 GACCAAAACATAACACAAGTAGCAGATTA
1 GACCAAAACATAACACAAATACCAGATTA
*
953143 GACCAAAA-ACTAACACAAATACCATATTA
1 GACCAAAACA-TAACACAAATACCAGATTA
953172 AAAAAAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.53, C:0.22, G:0.09, T:0.16
Consensus pattern (29 bp):
GACCAAAACATAACACAAATACCAGATTA
Found at i:956106 original size:39 final size:38
Alignment explanation
Indices: 956074--956762 Score: 746
Period size: 39 Copynumber: 18.1 Consensus size: 38
956064 CTTCTCACTT
* * * **
956074 TCTTCTAGTTCACGTGCCTCCTTCTCTTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* *
956113 TCTTCTCGTTCAC--G-TGCC-TC--CTTC-TCT-TTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTTC
956143 TCTTCTCGTTCACGAGCTTCCTTCAA-------T-TTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTTC
* * *
956173 TCTTCTCGCTCACGAGCTTCCTTCAATCTCTTGTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
*
956212 TCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* * *
956251 TCTTCTTGTTCACGAGCTTCTTTCAACTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* *
956290 TCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCAATC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
** * *
956329 TCTTCTCGTTCACGAATTTCCTTCAATCTCCTCTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
*
956368 TCTTCTCGTTCACAAGCTTCCTTCAATTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
*
956407 TCTTCTAGTTCACGAGCTTCCTTCAATTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
*
956446 TCTTCTAGTTCACGAGCTTCCTTCAATTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
*
956485 TCTTCTAGTTCACGAGCTTCCTTCAATTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* * * *
956524 TCTTCTCGCTCACGAGCCTCCCTCAATCTCTTCTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
956563 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTATC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCT-TC
* * * *
956602 TCTTCTCGTTCACGAGCCTCCCTCAATCTCCTCTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* *
956641 TCTTCTCGTTCATGAGCTTCCTTCAATTTTTTCTCCTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCT-CTTC
* * * **
956680 TCTTCTAGTTCACGTGCCTCCTTCTCTTTCTTC-CTTCTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-T-TC
*
956719 TCTTCTCGTTCATGAGCTTCCTTCAATTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
956758 TCTTC
1 TCTTC
956763 CTGCTGAACA
Statistics
Matches: 565, Mismatches: 64, Indels: 42
0.84 0.10 0.06
Matches are distributed among these distances:
30 45 0.08
32 4 0.01
33 6 0.01
34 2 0.00
35 2 0.00
36 2 0.00
37 3 0.01
38 2 0.00
39 494 0.87
40 5 0.01
ACGTcount: A:0.11, C:0.35, G:0.08, T:0.46
Consensus pattern (38 bp):
TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTTC
Found at i:956139 original size:30 final size:30
Alignment explanation
Indices: 956103--956196 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
956093 CCTTCTCTTT
* *
956103 CTTCTCTTTCTCTTCTCGTTCACGTGCCTC
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTC
956133 CTTCTCTTTCTCTTCTCGTTCACGAGCTTC
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTC
** *
956163 CTTCAATTTCTCTTCTCGCTCACGAGCTTC
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTC
956193 CTTC
1 CTTC
956197 AATCTCTTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.07, C:0.38, G:0.10, T:0.45
Consensus pattern (30 bp):
CTTCTCTTTCTCTTCTCGTTCACGAGCTTC
Found at i:956303 original size:117 final size:117
Alignment explanation
Indices: 956169--956762 Score: 823
Period size: 117 Copynumber: 5.1 Consensus size: 117
956159 CTTCCTTCAA
* *
956169 TTTCTCTTCTCGCTCACGAGCTTCCTTCAATCTCTTGTCATTCTCTTCTCGTTCACGAGCTTCCT
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
* * * *
956234 TCAATCTCTTCTCATTCTCTTCTTGTTCACGAGCTTCTTTCAACTTCTTCTC
66 TCAATTTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
* **
956286 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCAATCTCTTCTCGTTCACGAATTTCCT
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
* * *
956351 TCAATCTCCTCTCATTCTCTTCTCGTTCACAAGCTTCCTTCAATTTCTTCTC
66 TCAATTTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
* * * *
956403 TTTCTCTTCTAGTTCACGAGCTTCCTTCAATTTCTTCTCTTTCTCTTCTAGTTCACGAGCTTCCT
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
* *
956468 TCAATTTCTTCTCTTTCTCTTCTAGTTCACGAGCTTCCTTCAATTTCTTCTC
66 TCAATTTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
* * *
956520 TTTCTCTTCTCGCTCACGAGCCTCCCTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
* * * *
956585 TCAATTTCTTCTC-TATCTCTTCTCGTTCACGAGCCTCCCTCAATCTCCTCTC
66 TCAATTTCTTCTCAT-TCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
* * * * * * * *
956637 ATTCTCTTCTCGTTCATGAGCTTCCTTCAATTTTTTCTCCTTCTCTTCTAGTTCACGTGCCTCCT
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
** * *
956702 TCTCTTTCTTC-CTTCTCTCTTCTCGTTCATGAGCTTCCTTCAATTTCTTCTC
66 TCAATTTCTTCTCAT-TCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
956754 TTTCTCTTC
1 TTTCTCTTC
956763 CTGCTGAACA
Statistics
Matches: 421, Mismatches: 54, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
116 2 0.00
117 419 1.00
ACGTcount: A:0.12, C:0.35, G:0.07, T:0.46
Consensus pattern (117 bp):
TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
TCAATTTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
Found at i:964686 original size:27 final size:27
Alignment explanation
Indices: 964648--964703 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
964638 AACATGCAAA
964648 CTCACCTGCCTTTCTTTGGTAAGGTTT
1 CTCACCTGCCTTTCTTTGGTAAGGTTT
964675 CTCACCTGCCTTTCTTTGGTAAGGTTT
1 CTCACCTGCCTTTCTTTGGTAAGGTTT
964702 CT
1 CT
964704 GATAGTGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.11, C:0.27, G:0.18, T:0.45
Consensus pattern (27 bp):
CTCACCTGCCTTTCTTTGGTAAGGTTT
Found at i:968517 original size:32 final size:32
Alignment explanation
Indices: 968475--968545 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
968465 TTCAAATTAT
968475 TTTAAATTATTTC-AGATTTG-TGTATTTTTAGA
1 TTTAAATTATTTCGAG-TTTGAT-TATTTTTAGA
* *
968507 TTTAATTTATTTCGAGTTTGAATTATTTTTATA
1 TTTAAATTATTTCGAGTTTG-ATTATTTTTAGA
968540 TTTAAA
1 TTTAAA
968546 ATTCGACATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
32 16 0.48
33 16 0.48
34 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.58
Consensus pattern (32 bp):
TTTAAATTATTTCGAGTTTGATTATTTTTAGA
Found at i:972306 original size:391 final size:391
Alignment explanation
Indices: 971372--972404 Score: 1442
Period size: 393 Copynumber: 2.6 Consensus size: 391
971362 TAGAGAATGG
971372 AGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGATACAAAACTGGGAACTTTTACATCA
1 AGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGATACAAAACTGGGAACTTTTACATCA
*
971437 ATATCATTTTCAATAGGAACAACAAAAATGGATGGATCAAGG---TTCGGTCATGAA-TTCTGAA
66 ATCTCATTTTCAATAGGAACAACAAAAATGGATGGATCAAGGTTCTTCGGTCATGAATTTCTGAA
* * * *
971498 GTCTTGTATCACTTTGAGAGCTAGA-AAGTTACTAACCTATGAGATTCATATTTTCATTTATCAT
131 GTCTCGTATTACTTCGAGAGCTAGATAA-TTACTAA-CTATGAGATTCATATTTTTATTTATCAT
* * *
971562 AAAAGCAACATGATCCAAAATGTAGTGAATTATAGCTTGTATTAAATGAACATACCAGTTTTGGT
194 AAAAGCAACATGATCCAACATGTAGTGAATTATAGCTTATGTTAAATGAACATACCAGTTTTGGT
* * * * **
971627 CATTAATTATACAAAATATATTTTCATTATAAGTTTCTAGCGAATTCCAGCACTGTCACACAAAA
259 CATTAATTATACAAAAGATAGTTTCATCATAAGTTTCTAGCGAACTCCAGCACCATCACACAAAA
* * *
971692 AATTCTTAATTCTGAAGTTGCACAGAGAATTCAATTTAACCTCCTAACACACACATATGACGGAA
324 AATTCTTAATTCTGAACTTACACAGAGAATCCAATTTAACCTCCTAACACACACATATGACGGAA
971757 CAA
389 CAA
* * * * *
971760 AGGGAAGAGTCGAAGCAACTAATCAGAAAGTTTAACACGATACAGAAA-TGGGAAATTTTTTACA
1 AGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGATACA-AAACTGGG-AA-CTTTTACA
*
971824 TCAATCTCATTTTCAATAGGAACAACAAAAATGAATGGATCAAGGTTCGTTCGGTCATGAATTTC
63 TCAATCTCATTTTCAATAGGAACAACAAAAATGGATGGATCAAGGTTC-TTCGGTCATGAATTTC
* * *
971889 TGAAGTCTCTTATTACTTCGAGAGCTAGATAATTACTAGA-TATGAGATGCATATTTTTATTCAT
127 TGAAGTCTCGTATTACTTCGAGAGCTAGATAATTACTA-ACTATGAGATTCATATTTTTATTTAT
* * *
971953 CATGAGAGCAACATGATCCAACACGTAGTGAATTATAGCTTATGTTAAATGAACATACC-GCTTT
191 CATAAAAGCAACATGATCCAACATGTAGTGAATTATAGCTTATGTTAAATGAACATACCAG-TTT
* * * * *
972017 TGGTCATTGATTATACACAAGATAGTTTCATCATAAGTTTCTAGCGAACTCCAGCCCCATCGCTC
255 TGGTCATTAATTATACAAAAGATAGTTTCATCATAAGTTTCTAGCGAACTCCAGCACCATCACAC
* * *
972082 -AAAAATTCTTAATTCTGAACTTACACAGA-AACTCCAATTTAACTTGCTAACACACATATATGA
320 AAAAAATTCTTAATTCTGAACTTACACAGAGAA-TCCAATTTAACCTCCTAACACACACATATGA
972145 -GAGAACAA
384 CG-GAACAA
* * *
972153 AGGGAAGAGACAAAGCAATTATTCAGAAAGTTCAACAAGATACAAAACT-GGAAGCTTTTACATT
1 AGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGATACAAAACTGGGAA-CTTTTACATC
* *
972217 GATCTCATTTTCAGTAGGAACAACAAAAATGGATGGATCAAGGTTCATTCGGTCATGAATTTCTG
65 AATCTCATTTTCAATAGGAACAACAAAAATGGATGGATCAAGGTTC-TTCGGTCATGAATTTCTG
* **
972282 AAGTCTCGTATTACTTCAAGAGCTAGATAATTACTAACCTATGAGATTCATATTTTTATTTGCCA
129 AAGTCTCGTATTACTTCGAGAGCTAGATAATTACTAA-CTATGAGATTCATATTTTTATTTATCA
*
972347 TAAAAGCAAACATCATCCAACATGTAGTGAATTATAGCTTATGTTAAATGAACATACC
193 TAAAAGC-AACATGATCCAACATGTAGTGAATTATAGCTTATGTTAAATGAACATACC
972405 TTTAATCATA
Statistics
Matches: 568, Mismatches: 60, Indels: 29
0.86 0.09 0.04
Matches are distributed among these distances:
388 44 0.08
389 5 0.01
390 51 0.09
391 105 0.18
392 35 0.06
393 148 0.26
394 143 0.25
395 34 0.06
396 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (391 bp):
AGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGATACAAAACTGGGAACTTTTACATCA
ATCTCATTTTCAATAGGAACAACAAAAATGGATGGATCAAGGTTCTTCGGTCATGAATTTCTGAA
GTCTCGTATTACTTCGAGAGCTAGATAATTACTAACTATGAGATTCATATTTTTATTTATCATAA
AAGCAACATGATCCAACATGTAGTGAATTATAGCTTATGTTAAATGAACATACCAGTTTTGGTCA
TTAATTATACAAAAGATAGTTTCATCATAAGTTTCTAGCGAACTCCAGCACCATCACACAAAAAA
TTCTTAATTCTGAACTTACACAGAGAATCCAATTTAACCTCCTAACACACACATATGACGGAACA
A
Found at i:987416 original size:249 final size:250
Alignment explanation
Indices: 986967--987425 Score: 645
Period size: 249 Copynumber: 1.8 Consensus size: 250
986957 AAATAGATCG
** * * * *
986967 AAATTCTTTGTTTTTGAAAGGAAATGTATATTCCCGAAATGTAGCTTAGGTACAACAATCTCAAC
1 AAATTCTTTGTTCATAAAAGGAAATCTATATTCCCAAAATGCAGCTTAGGT--AACAATCTCAAC
* * * *
987032 TTTAGAATGCCCTATGTGAACAAAACCTAGTTATGATCCAACAATAGTTTGGTCTTAATCTAAGA
64 TCTAGAATGCCCTATGTGAACAAAACCTAGTTACGATCCAACAATAGGTTGGTCTTAAACTAAGA
* **
987097 CAAAACACATAATTTCTCAGCTAAAGACTGCCCTATGTATTTTCCAACCGCACCGTGTCTGGAAA
129 CAAAACACA-AATTTCTCAGCTAAAGACTGCCCTATGTATTTTCCAACCGCACCATGTCCAGAAA
987162 TTGTATCCGTCCGGCAAAAAACCAAATTTAAGCCAAAGGAAATCCCAAGAATATAGAA
193 TTGTATCCGTCCGGCAAAAAACCAAATTTAAGCCAAAGGAAATCCCAAGAATATAGAA
* *
987220 AAATTCTTTGTTCATAAAAGGAATTCTATATTTCCAAAATGCAGCTTAGGT-ACAATCTCAACTC
1 AAATTCTTTGTTCATAAAAGGAAATCTATATTCCCAAAATGCAGCTTAGGTAACAATCTCAACTC
*
987284 TAGACA-GCCCTATGTGAAACAAAACCTAGTTACGGTCCAACAATAGGTTGGTCTTAAACTAAGA
66 TAGA-ATGCCCTATGTG-AACAAAACCTAGTTACGATCCAACAATAGGTTGGTCTTAAACTAAGA
* * * * ** *
987348 TAGAACAC-AATTTCTCAGCTAAAGATTGCCCTATGTATTTTCCGACCGTGCCATGTCCAGATAT
129 CAAAACACAAATTTCTCAGCTAAAGACTGCCCTATGTATTTTCCAACCGCACCATGTCCAGAAAT
987412 TGTATCCGTCCGGC
194 TGTATCCGTCCGGC
987426 TTGAATGGCA
Statistics
Matches: 181, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
249 62 0.34
250 26 0.14
251 50 0.28
253 43 0.24
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (250 bp):
AAATTCTTTGTTCATAAAAGGAAATCTATATTCCCAAAATGCAGCTTAGGTAACAATCTCAACTC
TAGAATGCCCTATGTGAACAAAACCTAGTTACGATCCAACAATAGGTTGGTCTTAAACTAAGACA
AAACACAAATTTCTCAGCTAAAGACTGCCCTATGTATTTTCCAACCGCACCATGTCCAGAAATTG
TATCCGTCCGGCAAAAAACCAAATTTAAGCCAAAGGAAATCCCAAGAATATAGAA
Found at i:987685 original size:203 final size:202
Alignment explanation
Indices: 987240--987754 Score: 562
Period size: 203 Copynumber: 2.5 Consensus size: 202
987230 TTCATAAAAG
* * *
987240 GAATTCTATATTTCCAAAATGCAGCTTAGGT---ACAATCTCAACTCTAGACA-G-CCCTATGTG
1 GAATTCTATATTCCCAAAATGCAGCTTAAGTACAACAATCTCAACTATAGA-ATGTCCC-ATGTG
* * * * *
987300 AAACAAAACCTAGTTACGGTCCAACAATAGGTTGGTCTTAAACTAAGATAGAACACAATTTCTCA
64 -AATAAAACCTAGTTATGG----ACCA-A--TTGGTCTTAATCTAAGACAGAACACAATTTCTCA
* * * *
987365 GCTAAAGATTGCCCTATGTATTTTCCGACCGTGCCATGTCCAGATATTGTATCCGTCCGGCTTGA
121 ACTAAAGACTGCCCTATCTATTTTCCGACCGCGCCATGTCCAGATATTGTATCCGTCCGGCTTGA
** *
987430 ATGGCAATCTCTTCCCA
186 ACAGCAATCTCTTCCAA
* * * * *
987447 GAATTCTATATTCCCAACATGCAGCTTAAGTACAACAATCTCAATTCTAGACTTTCCCATGTGAA
1 GAATTCTATATTCCCAAAATGCAGCTTAAGTACAACAATCTCAACTATAGAATGTCCCATGTGAA
* *
987512 TAAAA-CTGAGTTAT-GATCCAATTGGCCTTAATCTAAGACAGAACACACAATTTCTTAACTAAA
66 TAAAACCT-AGTTATGGA-CCAATTGGTCTTAATCTAAGACAG-A-ACACAATTTCTCAACTAAA
* * *
987575 GACTGCTCTATCTATTTTCCGCCCGCGCCATGTCCAGATATTGTAT-CGTCCGGCTTGAACAGTA
127 GACTGCCCTATCTATTTTCCGACCGCGCCATGTCCAGATATTGTATCCGTCCGGCTTGAACAGCA
987639 ATCTC-TCCAAA
192 ATCTCTTCC-AA
* * *
987650 GAATTCTCTATTCCCAAAATGCAGCTTAGGTACAACAATCTCAACTATAGAATGTCCTATGTGAA
1 GAATTCTATATTCCCAAAATGCAGCTTAAGTACAACAATCTCAACTATAGAATGTCCCATGTGAA
* *
987715 TAAAACCTAGTTATGGACCAACTGGTCTTAATCTATGACA
66 TAAAACCTAGTTATGGACCAATTGGTCTTAATCTAAGACA
987755 TCACAATTTT
Statistics
Matches: 262, Mismatches: 34, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
202 20 0.08
203 110 0.42
204 64 0.24
205 2 0.01
207 28 0.11
208 3 0.01
209 11 0.04
210 21 0.08
211 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (202 bp):
GAATTCTATATTCCCAAAATGCAGCTTAAGTACAACAATCTCAACTATAGAATGTCCCATGTGAA
TAAAACCTAGTTATGGACCAATTGGTCTTAATCTAAGACAGAACACAATTTCTCAACTAAAGACT
GCCCTATCTATTTTCCGACCGCGCCATGTCCAGATATTGTATCCGTCCGGCTTGAACAGCAATCT
CTTCCAA
Found at i:994382 original size:26 final size:26
Alignment explanation
Indices: 994352--994406 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
994342 CAAATTTTAG
* *
994352 AAGGACTAAAGCCTGAATTAAACCAA
1 AAGGACTAAAACCAGAATTAAACCAA
994378 AAGGACTAAAACCAGAATTAAACCAA
1 AAGGACTAAAACCAGAATTAAACCAA
994404 AAG
1 AAG
994407 TTTCAGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.18, G:0.15, T:0.13
Consensus pattern (26 bp):
AAGGACTAAAACCAGAATTAAACCAA
Found at i:1004249 original size:29 final size:29
Alignment explanation
Indices: 1004185--1004249 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
1004175 ATTTTATATT
1004185 TTAAAAAATAAAAGGACTAAATTCATAAA
1 TTAAAAAATAAAAGGACTAAATTCATAAA
1004214 --AATAAAAGTATAAA-GACTAAATTCA-AAA
1 TTAA-AAAA-TA-AAAGGACTAAATTCATAAA
1004242 TTAAAAAA
1 TTAAAAAA
1004250 AAGTAAAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
27 2 0.06
28 7 0.23
29 17 0.55
30 5 0.16
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (29 bp):
TTAAAAAATAAAAGGACTAAATTCATAAA
Found at i:1006317 original size:267 final size:273
Alignment explanation
Indices: 1005860--1006354 Score: 682
Period size: 267 Copynumber: 1.8 Consensus size: 273
1005850 TTCTTTTTTT
* * **
1005860 AAAAAACTCTTTAAACTCCTAAAATTTTTGGAAATTTTAATTAGGCCCTCTGAAACTTAATCTCA
1 AAAAAAATCTTTAAACTCCTAAAATTTTTGAAAATTTTAATTAGGCCCTCCAAAACTTAATCTCA
* *
1005925 TTATCTGCCATTGAATATATATTATTGAAGGACTTTTGATTCTTTTGAGAAAAGTTGGACACAAA
66 TGATCTGCCATTGAATATATA-TA-TGAA-GACTTTCGATTCTTTTGAGAAAAGTTGGACACAAA
* * *
1005990 AACCTGTTGAGTATTTACCTCTCAAAATGTCCGATATTTCTTTTCGGCAGAGATTTAATCACAAT
128 AACCTGTTGAATATTTACCTCTCAAAATGTCCGATATTTATTTTCGACAGAGATTTAATCACAAT
*** * **
1006055 GTTGGGCCTGTTGAGGGATTCATCGACTTCAAATAAACAATGCTCTTAAAAAGTTAATTAGACCC
193 GTTAAACCTATTGAAAGATTCATCGACTTCAAATAAACAATGCTCTTAAAAAGTTAATTAGACCC
1006120 CCAAAATTATTTAGAA
258 CCAAAATTATTTAGAA
* * **
1006136 AAAAAAATCTTTAAACT-CTTAAATTTTATGAAAATTTTAGTTAGGCTTTCCAAAACTTAATCTC
1 AAAAAAATCTTTAAACTCCTAAAATTTT-TGAAAATTTTAATTAGGCCCTCCAAAACTTAATCTC
* *
1006200 GTGATCTGCCATTG-A-ATATA-A-G-A-ACTTTCGATTCTTTTGAGAAAAGTTGGACACGAAAG
65 ATGATCTGCCATTGAATATATATATGAAGACTTTCGATTCTTTTGAGAAAAGTTGGACAC-AAAA
* *
1006259 GCC-GTTGAATATTTACCTCTCAAAATGTCCGATATTTATTTTCGATAGAGATTTAATCACAATG
129 ACCTGTTGAATATTTACCTCTCAAAATGTCCGATATTTATTTTCGACAGAGATTTAATCACAATG
1006323 TTAAACCTATTGAAAGATTCATCGACTTCAAA
194 TTAAACCTATTGAAAGATTCATCGACTTCAAA
1006355 AAAATAATAC
Statistics
Matches: 194, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
267 113 0.58
268 5 0.03
269 1 0.01
270 1 0.01
272 1 0.01
274 5 0.03
275 10 0.05
276 58 0.30
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (273 bp):
AAAAAAATCTTTAAACTCCTAAAATTTTTGAAAATTTTAATTAGGCCCTCCAAAACTTAATCTCA
TGATCTGCCATTGAATATATATATGAAGACTTTCGATTCTTTTGAGAAAAGTTGGACACAAAAAC
CTGTTGAATATTTACCTCTCAAAATGTCCGATATTTATTTTCGACAGAGATTTAATCACAATGTT
AAACCTATTGAAAGATTCATCGACTTCAAATAAACAATGCTCTTAAAAAGTTAATTAGACCCCCA
AAATTATTTAGAA
Found at i:1006848 original size:13 final size:13
Alignment explanation
Indices: 1006827--1006860 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
1006817 TTGATTCATG
1006827 TTTTAATTAAATA
1 TTTTAATTAAATA
*
1006840 TTTTTATT-AATA
1 TTTTAATTAAATA
1006852 TTTTAATTA
1 TTTTAATTA
1006861 TTTAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAATTAAATA
Found at i:1010482 original size:16 final size:17
Alignment explanation
Indices: 1010449--1010486 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1010439 GAAACATTTA
*
1010449 TTTTAATGTTTTAGTAT
1 TTTTAATGTATTAGTAT
*
1010466 TTTTTATGTATTA-TAT
1 TTTTAATGTATTAGTAT
1010482 TTTTA
1 TTTTA
1010487 TAAAAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (17 bp):
TTTTAATGTATTAGTAT
Found at i:1022263 original size:19 final size:18
Alignment explanation
Indices: 1022239--1022295 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 18
1022229 TCTAATTAAG
1022239 TAATAATTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
* * *
1022258 TAATAAACTATTCTCATT
1 TAATAATCTATTTTAATT
1022276 TAATAACTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
1022295 T
1 T
1022296 TAAAAAAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATAATCTATTTTAATT
Found at i:1022268 original size:18 final size:19
Alignment explanation
Indices: 1022247--1022295 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
1022237 AGTAATAATT
1022247 CTATTTTAATTTAATAA-A
1 CTATTTTAATTTAATAACA
* * *
1022265 CTATTCTCATTTAATAACT
1 CTATTTTAATTTAATAACA
1022284 CTATTTTAATTT
1 CTATTTTAATTT
1022296 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (19 bp):
CTATTTTAATTTAATAACA
Found at i:1022447 original size:98 final size:94
Alignment explanation
Indices: 1022276--1022454 Score: 272
Period size: 98 Copynumber: 1.9 Consensus size: 94
1022266 TATTCTCATT
1022276 TAATAACTCTATTTTAATTTTAAAAAAATTAAATTAAAAATTAAATTTTTTTAAAAATTAAAATA
1 TAATAACTCTATTTTAATTTTAAAAAAATTAAATTAAAAATTAAATTTTTTT-AAAATTAAAATA
1022341 GAGTTATTAAATGAGAGAATTCTAATTAAG
65 GAGTTATTAAATGAGAGAATTCTAATTAAG
*
1022371 TAATAACTCTATTTTAA-TTTAAAAAATTTAAATTAAAATAGTTTACTTAATTTTTTT-AAATTA
1 TAATAACTCTATTTTAATTTTAAAAAAATTAAATTAAAA-A--TTA---AATTTTTTTAAAATTA
1022434 AAATAGAGTTATTAAATGAGA
60 AAATAGAGTTATTAAATGAGA
1022455 ATAGTTTATT
Statistics
Matches: 77, Mismatches: 1, Indels: 9
0.89 0.01 0.10
Matches are distributed among these distances:
94 20 0.26
95 18 0.23
97 3 0.04
98 27 0.35
100 9 0.12
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (94 bp):
TAATAACTCTATTTTAATTTTAAAAAAATTAAATTAAAAATTAAATTTTTTTAAAATTAAAATAG
AGTTATTAAATGAGAGAATTCTAATTAAG
Found at i:1022489 original size:18 final size:19
Alignment explanation
Indices: 1022426--1022484 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
1022416 CTTAATTTTT
1022426 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
1022445 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
1022463 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
1022482 TTA
1 TTA
1022485 CTTAATTAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:1023044 original size:27 final size:27
Alignment explanation
Indices: 1023003--1023054 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1022993 CATTTTAGTC
*
1023003 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGACACCATTGGTGCCGCCAATCT
*
1023030 CTTTGACACCTTTGGTGCCGCCAAT
1 CTTTGACACCATTGGTGCCGCCAAT
1023055 GTAATTGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.31
Consensus pattern (27 bp):
CTTTGACACCATTGGTGCCGCCAATCT
Found at i:1023120 original size:19 final size:19
Alignment explanation
Indices: 1023083--1023121 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1023073 CTATTGTCAG
* *
1023083 GTTTTTTTTTCTGTTTTTT
1 GTTTTTTTTTCTATATTTT
*
1023102 GTTTTTTTTTGTATATTTT
1 GTTTTTTTTTCTATATTTT
1023121 G
1 G
1023122 GTAAACAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.03, G:0.13, T:0.79
Consensus pattern (19 bp):
GTTTTTTTTTCTATATTTT
Found at i:1023143 original size:26 final size:27
Alignment explanation
Indices: 1023114--1023176 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
1023104 TTTTTTTTGT
1023114 ATATTTTGGTAAACAAAAAAA-TTATA
1 ATATTTTGGTAAACAAAAAAAGTTATA
*
1023140 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAACAAAAAAAGTTATA
1023167 ATATTTTGGT
1 ATATTTTGGT
1023177 TATTTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 20 0.57
27 15 0.43
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.40
Consensus pattern (27 bp):
ATATTTTGGTAAACAAAAAAAGTTATA
Found at i:1024858 original size:30 final size:27
Alignment explanation
Indices: 1024818--1024886 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 27
1024808 AATATTAAGT
*
1024818 AAACTTAAATTTTAAAATTTAAAATATAAA
1 AAAC-TAAATTTTAAAA-ATAAAATA-AAA
*
1024848 AAGACTAAATTTTTAAAAATAAAATAACA
1 AA-ACTAAA-TTTTAAAAATAAAATAAAA
1024877 AAACTAAATT
1 AAACTAAATT
1024887 CCAAATATGC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 2 0.06
28 6 0.17
29 4 0.11
30 13 0.37
31 10 0.29
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (27 bp):
AAACTAAATTTTAAAAATAAAATAAAA
Found at i:1027722 original size:34 final size:35
Alignment explanation
Indices: 1027684--1027750 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
1027674 CAGTAAAATA
* *
1027684 TTTTCCGTAAAATGATT-TCTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTCACTGAAAAATATTTTAC
*
1027718 TTTTCTGTAAAATGATTCACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTCACTGAAAAATATTTT
1027751 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTCACTGAAAAATATTTTAC
Found at i:1035105 original size:23 final size:22
Alignment explanation
Indices: 1035077--1035120 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
1035067 ATGATGTTGG
*
1035077 AATTAGAATTATTATTTTATTTC
1 AATTAGAATTA-AATTTTATTTC
1035100 AATTAGAATTAAATTTTATTT
1 AATTAGAATTAAATTTTATTT
1035121 GAAAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (22 bp):
AATTAGAATTAAATTTTATTTC
Found at i:1055216 original size:41 final size:41
Alignment explanation
Indices: 1055159--1055242 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
1055149 AAACCTTGCA
1055159 CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
1 CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
1055200 CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
1 CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
1055241 CA
1 CA
1055243 TAATGATCCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (41 bp):
CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
Found at i:1063211 original size:123 final size:124
Alignment explanation
Indices: 1063067--1063327 Score: 344
Period size: 123 Copynumber: 2.1 Consensus size: 124
1063057 AACACTTTGT
* * * * *
1063067 TAATGAATTAATTTGATAATAGATAAAAATTAAAGTTTTATGAAATTTTTTATCCTAAAGTTTTT
1 TAATTAATTAATTTGATAATAGATAAAAATCAAAATTTTATGAAATTTTGTATCCTAAAGTTTTA
** * * ** *
1063132 ATTTTTTCATTAATCTT-AACAATTTAATAAGTAAGAAATTTAAATTTATAAAAAAACC
66 AAATTTTCATTAATCTTAAAAAAATTAATAAACAAGAAACTTAAATTTATAAAAAAACC
* * *
1063190 TAATTAATTAATTTGATAATAGATGACAATCAAAATTTTATGAAATTTTGTATCTTAAAGTTTTA
1 TAATTAATTAATTTGATAATAGATAAAAATCAAAATTTTATGAAATTTTGTATCCTAAAGTTTTA
* * *
1063255 AAATTTTCATTAATCTTAAAAAAAATTAATAAACAAGAAACTTAAATTTATCAAAACACT
66 AAATTTTCATTAATCTT-AAAAAAATTAATAAACAAGAAACTTAAATTTATAAAAAAACC
1063315 TAATTAATTAATT
1 TAATTAATTAATT
1063328 AATTTGATAA
Statistics
Matches: 118, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
123 72 0.61
125 46 0.39
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (124 bp):
TAATTAATTAATTTGATAATAGATAAAAATCAAAATTTTATGAAATTTTGTATCCTAAAGTTTTA
AAATTTTCATTAATCTTAAAAAAATTAATAAACAAGAAACTTAAATTTATAAAAAAACC
Found at i:1063350 original size:123 final size:121
Alignment explanation
Indices: 1063037--1063350 Score: 297
Period size: 123 Copynumber: 2.5 Consensus size: 121
1063027 ATTTATAATT
* ** * *
1063037 AAGAAAATTAATTTTATCAAAACACTTTGTTAATGAATTAATTTGATAATAGATAAAAATTAAAG
1 AAGAAAATTAAATTTATCAAAACACTTAATTAATTAATTAATTTGATAATCGAT---AA--AAA-
* * ** * * **
1063102 TTTTATGAAATTTTTTATCCTAAAGTTTTTATTTTTTCATTAATCTTAACAATTTAATAAGT
60 TTTTATGAAATTTTGTATCCTAAAGTTTTAAAATTTTCATTAATCTTAAAAAATTAATAAAC
* * * * * * * * *
1063164 AAGAAATTTAAATTTATAAAAAAACCTAATTAATTAATTTGATAATAGATGA-CAATCAAAATTT
1 AAGAAAATTAAATTTATCAAAACACTTAATTAATTAA-TT-A-ATTTGATAATCGATAAAAATTT
*
1063228 TATGAAATTTTGTATCTTAAAGTTTTAAAATTTTCATTAATCTTAAAAAAAATTAATAAAC
63 TATGAAATTTTGTATCCTAAAGTTTTAAAATTTTCATTAATCTT--AAAAAATTAATAAAC
* *
1063289 AAGAAACTTAAATTTATCAAAACACTTAATTAATTAATTAATTTGATAATCGATAACAATTT
1 AAGAAAATTAAATTTATCAAAACACTTAATTAATTAATTAATTTGATAATCGATAAAAATTT
1063351 GATTTATTTT
Statistics
Matches: 148, Mismatches: 33, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
122 6 0.04
123 52 0.35
124 5 0.03
125 44 0.30
126 1 0.01
127 29 0.20
128 2 0.01
129 3 0.02
130 6 0.04
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (121 bp):
AAGAAAATTAAATTTATCAAAACACTTAATTAATTAATTAATTTGATAATCGATAAAAATTTTAT
GAAATTTTGTATCCTAAAGTTTTAAAATTTTCATTAATCTTAAAAAATTAATAAAC
Found at i:1064081 original size:26 final size:26
Alignment explanation
Indices: 1064052--1064102 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
1064042 AAAATTAACA
1064052 TTTA-TATATGATTTTATTCATTATTT
1 TTTATTATATGA-TTTATTCATTATTT
*
1064078 TTTATTCTATGATTTATTCATTATT
1 TTTATTATATGATTTATTCATTATT
1064103 GAGAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (26 bp):
TTTATTATATGATTTATTCATTATTT
Found at i:1065354 original size:19 final size:19
Alignment explanation
Indices: 1065301--1065357 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
1065291 AAATTTCAAC
*
1065301 CAAATAA-AAGTAAAAGTAA
1 CAAATAATAATTAAAA-TAA
* *
1065320 CAAA-ATTCAATGAAAATAA
1 CAAATAAT-AATTAAAATAA
1065339 CAAATAATAATTAAAATAA
1 CAAATAATAATTAAAATAA
1065358 AATATAATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 1 0.03
19 21 0.70
20 8 0.27
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (19 bp):
CAAATAATAATTAAAATAA
Found at i:1096077 original size:28 final size:28
Alignment explanation
Indices: 1096042--1096100 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
1096032 AAATGTTTTA
*
1096042 TTTATTTATTTAAAGAAATAAGTCAATT
1 TTTATTTATTTAAAGAAATAAATCAATT
*
1096070 TTTATTTATTTAATGAAATAAATCAATT
1 TTTATTTATTTAAAGAAATAAATCAATT
1096098 TTT
1 TTT
1096101 TCAGTTGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (28 bp):
TTTATTTATTTAAAGAAATAAATCAATT
Found at i:1097121 original size:17 final size:17
Alignment explanation
Indices: 1097099--1097132 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1097089 CATAGAATGA
1097099 GTTAATATGAAAATAGG
1 GTTAATATGAAAATAGG
1097116 GTTAATATGAAAATAGG
1 GTTAATATGAAAATAGG
1097133 AATTTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (17 bp):
GTTAATATGAAAATAGG
Found at i:1103014 original size:26 final size:26
Alignment explanation
Indices: 1102971--1103072 Score: 80
Period size: 26 Copynumber: 3.7 Consensus size: 26
1102961 CTTCCATGTT
** *
1102971 TAATTTGGTACCCAAGTTTTCCTTTC
1 TAATTTGGTACCTGAGTTTTCATTTC
*
1102997 TAATTTGGTACTTGAGTTTGACTTCAATGTTC
1 TAATTTGGTACCTGAG-TT---TTC-AT-TTC
**
1103029 -AATTTGGTACCTGAGTTTTTTTTTC
1 TAATTTGGTACCTGAGTTTTCATTTC
*
1103054 TAATTTGGTACTTGAGTTT
1 TAATTTGGTACCTGAGTTT
1103073 GGCTTTAATA
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
25 3 0.05
26 31 0.51
27 4 0.07
30 5 0.08
31 15 0.25
32 3 0.05
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.50
Consensus pattern (26 bp):
TAATTTGGTACCTGAGTTTTCATTTC
Found at i:1103033 original size:57 final size:57
Alignment explanation
Indices: 1102960--1103073 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 57
1102950 GGTGAATTTT
* *
1102960 ACTTCCATGTTTAATTTGGTACCCAAGTTTTCCTTTCTAATTTGGTACTTGAGTTTG
1 ACTTCAATGTTCAATTTGGTACCCAAGTTTTCCTTTCTAATTTGGTACTTGAGTTTG
** **
1103017 ACTTCAATGTTCAATTTGGTACCTGAGTTTTTTTTTCTAATTTGGTACTTGAGTTTG
1 ACTTCAATGTTCAATTTGGTACCCAAGTTTTCCTTTCTAATTTGGTACTTGAGTTTG
1103074 GCTTTAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (57 bp):
ACTTCAATGTTCAATTTGGTACCCAAGTTTTCCTTTCTAATTTGGTACTTGAGTTTG
Found at i:1104460 original size:24 final size:24
Alignment explanation
Indices: 1104427--1104475 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1104417 TAATTTTTTA
*
1104427 AAAATTATAAAAATATATATTATT
1 AAAATGATAAAAATATATATTATT
* *
1104451 AAAATGATAAAATTATATTTTATT
1 AAAATGATAAAAATATATATTATT
1104475 A
1 A
1104476 TAATTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAAATGATAAAAATATATATTATT
Found at i:1105372 original size:19 final size:20
Alignment explanation
Indices: 1105348--1105392 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
1105338 TTAATTAATT
*
1105348 CAAATTCAAATA-AAATACC
1 CAAATTCAAATATAAATACA
*
1105367 CAAATT-TAATATAAATACA
1 CAAATTCAAATATAAATACA
1105386 CAAATTC
1 CAAATTC
1105393 GGATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.27
Consensus pattern (20 bp):
CAAATTCAAATATAAATACA
Found at i:1117069 original size:31 final size:31
Alignment explanation
Indices: 1117034--1117093 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1117024 AACAACTCAA
1117034 TGACTTAAATAAAAACTTTCAAATAGTTCAG
1 TGACTTAAATAAAAACTTTCAAATAGTTCAG
* **
1117065 TGACTTAAATAAAAGCTTTTGAATAGTTC
1 TGACTTAAATAAAAACTTTCAAATAGTTC
1117094 GAAGAACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAGTTCAG
Found at i:1118091 original size:13 final size:14
Alignment explanation
Indices: 1118073--1118101 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1118063 TTCCTTCACC
1118073 AAATAAATA-AATA
1 AAATAAATATAATA
1118086 AAATAAATATAATA
1 AAATAAATATAATA
1118100 AA
1 AA
1118102 TAAGTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAAATATAATA
Found at i:1120704 original size:29 final size:29
Alignment explanation
Indices: 1120659--1120719 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
1120649 ATTACTCAAT
* * *
1120659 TATGAAAATTTATAAAATAATCATCCAAC
1 TATGAAAAGTTACAAAATAATCACCCAAC
**
1120688 TATGAAAAGTTACAAAATTGTCACCCAAC
1 TATGAAAAGTTACAAAATAATCACCCAAC
1120717 TAT
1 TAT
1120720 TCAATTTCTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.30
Consensus pattern (29 bp):
TATGAAAAGTTACAAAATAATCACCCAAC
Found at i:1122916 original size:21 final size:21
Alignment explanation
Indices: 1122877--1122916 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1122867 ACCCCAAACT
* *
1122877 TAAACCTTGAATCTTAAATCC
1 TAAACCTTGAACCTCAAATCC
*
1122898 TAAATCTTGAACCTCAAAT
1 TAAACCTTGAACCTCAAAT
1122917 TCCAAGCTCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (21 bp):
TAAACCTTGAACCTCAAATCC
Found at i:1126106 original size:15 final size:15
Alignment explanation
Indices: 1126086--1126130 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
1126076 AAACCAAGAA
*
1126086 GCTGTTGTTGCTGCT
1 GCTGTTGTTGTTGCT
1126101 GCTGTTGTTGTTGCT
1 GCTGTTGTTGTTGCT
*
1126116 GCTGCTGTTGTTGCT
1 GCTGTTGTTGTTGCT
1126131 CTTGTTCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.00, C:0.18, G:0.33, T:0.49
Consensus pattern (15 bp):
GCTGTTGTTGTTGCT
Found at i:1126111 original size:18 final size:18
Alignment explanation
Indices: 1126088--1126128 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
1126078 ACCAAGAAGC
1126088 TGTTGTTGCTGCTGCTGT
1 TGTTGTTGCTGCTGCTGT
1126106 TGTTGTTGCTGCTGCTGT
1 TGTTGTTGCTGCTGCTGT
1126124 TGTTG
1 TGTTG
1126129 CTCTTGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.00, C:0.15, G:0.34, T:0.51
Consensus pattern (18 bp):
TGTTGTTGCTGCTGCTGT
Found at i:1129906 original size:21 final size:22
Alignment explanation
Indices: 1129866--1129906 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1129856 CGACGTGGTA
* *
1129866 TATTTAACTATATTAGATAAAT
1 TATTTAACTATATAAAATAAAT
1129888 TATTTAA-TATATAAAATAA
1 TATTTAACTATATAAAATAA
1129907 GAAAGTACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TATTTAACTATATAAAATAAAT
Found at i:1134059 original size:7 final size:7
Alignment explanation
Indices: 1134047--1134079 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
1134037 TTTTACATCA
1134047 AATCTCG
1 AATCTCG
1134054 AATCTCG
1 AATCTCG
1134061 AATCTCG
1 AATCTCG
1134068 AA-CTCCG
1 AATCT-CG
1134075 AATCT
1 AATCT
1134080 AGATTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 2 0.08
7 20 0.83
8 2 0.08
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.27
Consensus pattern (7 bp):
AATCTCG
Found at i:1134732 original size:3 final size:3
Alignment explanation
Indices: 1134724--1134765 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1134714 ACTTACAATG
1134724 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1134766 TTGTTCTACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1137806 original size:6 final size:6
Alignment explanation
Indices: 1137761--1137823 Score: 56
Period size: 6 Copynumber: 10.0 Consensus size: 6
1137751 TTTTACTTAA
* *
1137761 ATATTT ATATAT ATATTT CAAATCTT CATATTT AATATTT ATATTT -TATTT
1 ATATTT ATATTT ATATTT -ATAT-TT -ATATTT -ATATTT ATATTT ATATTT
*
1137812 ATATTT TTATTT
1 ATATTT ATATTT
1137824 CTAGAGTGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.10
6 26 0.54
7 11 0.23
8 6 0.12
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (6 bp):
ATATTT
Found at i:1137817 original size:17 final size:18
Alignment explanation
Indices: 1137789--1137823 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1137779 CAAATCTTCA
1137789 TATTTAATATTTATATTT
1 TATTTAATATTTATATTT
*
1137807 TATTT-ATATTTTTATTT
1 TATTTAATATTTATATTT
1137824 CTAGAGTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTAATATTTATATTT
Found at i:1146326 original size:15 final size:16
Alignment explanation
Indices: 1146306--1146352 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
1146296 GATTAATATT
1146306 TTTTATAATTTAT-AA
1 TTTTATAATTTATAAA
*
1146321 TTTTATATTTTATGAAAA
1 TTTTATAATTTAT--AAA
1146339 TTTTATATATTTAT
1 TTTTATA-ATTTAT
1146353 TTCTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 12 0.46
18 9 0.35
19 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTATAATTTATAAA
Found at i:1146373 original size:30 final size:32
Alignment explanation
Indices: 1146305--1146373 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 32
1146295 GGATTAATAT
*
1146305 TTTTTATAATTTATAATTTTATATTTTATGAAA
1 TTTTTATAATTTAT-ATTCTATATTTTATGAAA
*
1146338 ATTTTATATATTTAT-TTCTAT-TTTTAT-AAA
1 TTTTTATA-ATTTATATTCTATATTTTATGAAA
1146368 TTTTTA
1 TTTTTA
1146374 AAGTTGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
30 8 0.25
31 6 0.19
32 5 0.16
33 7 0.22
34 6 0.19
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (32 bp):
TTTTTATAATTTATATTCTATATTTTATGAAA
Found at i:1147191 original size:31 final size:30
Alignment explanation
Indices: 1147142--1147200 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
1147132 TTTTGGTGGT
*
1147142 AAATATCAAAATTATACATAAACTTTGACC
1 AAATATCAAAATCATACATAAACTTTGACC
* * *
1147172 AAATATACAATATCATACATGAATTTTGA
1 AAATAT-CAAAATCATACATAAACTTTGA
1147201 TTTTGCGCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (30 bp):
AAATATCAAAATCATACATAAACTTTGACC
Done.