Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 318 of 318
Found at i:98849339 original size:25 final size:25
Alignment explanation
Indices: 98849293--98849349 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
98849283 TTAAAAATTA
*
98849293 TAAAAATAAAAATATATTTATTTAT
1 TAAAAATAAAAATATATTTATTCAT
*
98849318 TTAAAATGAAAAA-A-ATTATATTCAT
1 TAAAAAT-AAAAATATATT-TATTCAT
98849343 TAAAAAT
1 TAAAAAT
98849350 CATTAAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 3 0.11
25 19 0.70
26 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
TAAAAATAAAAATATATTTATTCAT
Found at i:98850593 original size:27 final size:28
Alignment explanation
Indices: 98850544--98850596 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
98850534 AAGATGATTA
* *
98850544 TATAAAATTTTTTAATAAATAAAAAATG
1 TATAAAATTATTAAATAAATAAAAAATG
*
98850572 TATAAAATTATTAAAT-ATTAAAAAA
1 TATAAAATTATTAAATAAATAAAAAA
98850597 ACATCTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (28 bp):
TATAAAATTATTAAATAAATAAAAAATG
Found at i:98852803 original size:21 final size:19
Alignment explanation
Indices: 98852779--98852831 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
98852769 TCATACATGA
*
98852779 AATTTTAAAAGAATAATTCTT
1 AATTTTAAAA-AATAA-ACTT
98852800 AA-TTTAAAAAATAAACTT
1 AATTTTAAAAAATAAACTT
98852818 AATTATCTAAAAAA
1 AATT-T-TAAAAAA
98852832 GGTTTCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.18
19 6 0.21
20 8 0.29
21 9 0.32
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.36
Consensus pattern (19 bp):
AATTTTAAAAAATAAACTT
Found at i:98852820 original size:18 final size:20
Alignment explanation
Indices: 98852782--98852821 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
98852772 TACATGAAAT
*
98852782 TTTAAAAGAATAATTCTTAA
1 TTTAAAAGAATAATACTTAA
98852802 TTTAAAA-AATAA-ACTTAA
1 TTTAAAAGAATAATACTTAA
98852820 TT
1 TT
98852822 ATCTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 5 0.26
20 7 0.37
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (20 bp):
TTTAAAAGAATAATACTTAA
Found at i:98854692 original size:15 final size:15
Alignment explanation
Indices: 98854672--98854703 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
98854662 TCATGTGAAA
98854672 GTACTGTTTCCAGTT
1 GTACTGTTTCCAGTT
*
98854687 GTACTGTTTCTAGTT
1 GTACTGTTTCCAGTT
98854702 GT
1 GT
98854704 GCGTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (15 bp):
GTACTGTTTCCAGTT
Found at i:98859198 original size:6 final size:6
Alignment explanation
Indices: 98859187--98859220 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
98859177 TACTTTAGCA
98859187 TTCTCT TTCTCT TTCTCT TTCTCT TTCTCT TTCT
1 TTCTCT TTCTCT TTCTCT TTCTCT TTCTCT TTCT
98859221 GGCTTAGCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCTCT
Found at i:98860477 original size:17 final size:17
Alignment explanation
Indices: 98860434--98860478 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
98860424 AAAATATAGG
*
98860434 AAAAATTATTAAAAAAT
1 AAAAATTATTTAAAAAT
* *
98860451 AAGAATTATTTAAAATT
1 AAAAATTATTTAAAAAT
*
98860468 AAAAAATATTT
1 AAAAATTATTT
98860479 TTAAAAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AAAAATTATTTAAAAAT
Found at i:98861049 original size:18 final size:18
Alignment explanation
Indices: 98861013--98861050 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
98861003 TGTTTGTAAG
* *
98861013 AAATATTTTTGAGATAAA
1 AAATATTTTTGAAAAAAA
98861031 AAATATTTTTGAAAAAAA
1 AAATATTTTTGAAAAAAA
98861049 AA
1 AA
98861051 GTGATCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (18 bp):
AAATATTTTTGAAAAAAA
Found at i:98861535 original size:20 final size:20
Alignment explanation
Indices: 98861510--98861548 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
98861500 AATAAATGTT
98861510 ATAATAATTCATGTAATTGA
1 ATAATAATTCATGTAATTGA
* *
98861530 ATAATATTTTATGTAATTG
1 ATAATAATTCATGTAATTG
98861549 GACAATTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (20 bp):
ATAATAATTCATGTAATTGA
Found at i:98869030 original size:44 final size:47
Alignment explanation
Indices: 98868962--98869056 Score: 153
Period size: 44 Copynumber: 2.1 Consensus size: 47
98868952 TAAATTCGAT
*
98868962 AATT-TTTATGGTAAAAAACAATTAATATATAT-A-ATATAATAAAA
1 AATTATTTATGATAAAAAACAATTAATATATATAAGATATAATAAAA
98869006 AATTATTTATGAT-AAAAACAATTAATATATATAAGATATAATAAAA
1 AATTATTTATGATAAAAAACAATTAATATATATAAGATATAATAAAA
98869052 AATTA
1 AATTA
98869057 AATTTTACTA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
44 23 0.49
45 8 0.17
46 16 0.34
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (47 bp):
AATTATTTATGATAAAAAACAATTAATATATATAAGATATAATAAAA
Found at i:98869115 original size:17 final size:17
Alignment explanation
Indices: 98869086--98869119 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
98869076 AGATTTAGTC
98869086 TTATATTTCTTAAATTT
1 TTATATTTCTTAAATTT
98869103 TTATACTTT-TTAAATTT
1 TTATA-TTTCTTAAATTT
98869120 ATTTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTCTTAAATTT
Found at i:98873147 original size:25 final size:25
Alignment explanation
Indices: 98873113--98873165 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
98873103 TGCTAACTCA
98873113 TTAGCATCCATTTTCTCCTCTCTTC
1 TTAGCATCCATTTTCTCCTCTCTTC
98873138 TTAGCATCCATTTTCTCCTCTCTTC
1 TTAGCATCCATTTTCTCCTCTCTTC
98873163 TTA
1 TTA
98873166 TTACACCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.13, C:0.34, G:0.04, T:0.49
Consensus pattern (25 bp):
TTAGCATCCATTTTCTCCTCTCTTC
Found at i:98876339 original size:22 final size:23
Alignment explanation
Indices: 98876284--98876347 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 23
98876274 ATTTAACAAC
98876284 TCAATAATTTAAATAAAAACATTGA
1 TCAATAATTT-AATAAAAACATT-A
98876309 TCAATAATTTAATAAAAA-ATT-
1 TCAATAATTTAATAAAAACATTA
*
98876330 TCAAATAATTTTATAAAA
1 TC-AATAATTTAATAAAA
98876348 TTTTAAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 2 0.05
22 14 0.38
23 3 0.08
24 8 0.22
25 10 0.27
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (23 bp):
TCAATAATTTAATAAAAACATTA
Found at i:98877744 original size:24 final size:23
Alignment explanation
Indices: 98877700--98877744 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
98877690 TTTAAAAAAT
**
98877700 ATAAATACTTTATTTTTTTATAA
1 ATAAATACTTTATTTAATTATAA
98877723 ATAAATATCTTTATTTAATTAT
1 ATAAATA-CTTTATTTAATTAT
98877745 TGTCATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (23 bp):
ATAAATACTTTATTTAATTATAA
Found at i:98877821 original size:18 final size:18
Alignment explanation
Indices: 98877787--98877821 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
98877777 AAGTTTCATT
*
98877787 AATACAAATATAAATTCA
1 AATACAAATACAAATTCA
*
98877805 AATACAAATACATATTC
1 AATACAAATACAAATTC
98877822 TATCAATTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (18 bp):
AATACAAATACAAATTCA
Found at i:98878747 original size:22 final size:23
Alignment explanation
Indices: 98878704--98878748 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
98878694 TAATATATAA
*
98878704 TTTATTTTTAAATATTAGTTTTT
1 TTTATTTTTAAATATTAATTTTT
* *
98878727 TTTATTTTT-TATTTTAATTTTT
1 TTTATTTTTAAATATTAATTTTT
98878749 ACTTCAATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTATTTTTAAATATTAATTTTT
Found at i:98883831 original size:2 final size:2
Alignment explanation
Indices: 98883824--98883848 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
98883814 GGTTCAACAG
98883824 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
98883849 CACACACATA
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:98885651 original size:18 final size:20
Alignment explanation
Indices: 98885621--98885668 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
98885611 TAGTTTTATA
98885621 TTTAAAA-ATTTTG-AAAA-
1 TTTAAAATATTTTGTAAAAG
*
98885638 TTTATAATATTTTGTAAAAG
1 TTTAAAATATTTTGTAAAAG
98885658 TTTAAAATATT
1 TTTAAAATATT
98885669 ATACAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 6 0.23
18 6 0.23
19 4 0.15
20 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (20 bp):
TTTAAAATATTTTGTAAAAG
Found at i:98889968 original size:30 final size:30
Alignment explanation
Indices: 98889934--98889990 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
98889924 CGTGTTAGTC
*
98889934 TGATTATTAAAATGTTCACTTCTTTAAGTT
1 TGATTATTAAAATGTTCACTGCTTTAAGTT
98889964 TGATTATTAAAATGTTCACTGCTTTAA
1 TGATTATTAAAATGTTCACTGCTTTAA
98889991 ATGTAGTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (30 bp):
TGATTATTAAAATGTTCACTGCTTTAAGTT
Found at i:98890383 original size:21 final size:21
Alignment explanation
Indices: 98890359--98890401 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
98890349 GAATAATATG
*
98890359 ATATATTATAA-AAATATAAAT
1 ATATATTA-AATAAATAAAAAT
*
98890380 ATATTTTAAATAAATAAAAAT
1 ATATATTAAATAAATAAAAAT
98890401 A
1 A
98890402 GATTAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
ATATATTAAATAAATAAAAAT
Found at i:98890487 original size:23 final size:22
Alignment explanation
Indices: 98890440--98890487 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
98890430 TCTTTGAAAA
* *
98890440 TTTAAAATTTAGTTCATTTATT
1 TTTAAAATTTAGTTCATTCACT
98890462 TTTAGAAATTTAGTCTC-TTCACT
1 TTTA-AAATTTAGT-TCATTCACT
98890485 TTT
1 TTT
98890488 CAGATTTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 16 0.73
24 2 0.09
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.56
Consensus pattern (22 bp):
TTTAAAATTTAGTTCATTCACT
Found at i:98892878 original size:118 final size:116
Alignment explanation
Indices: 98892565--98892879 Score: 377
Period size: 118 Copynumber: 2.7 Consensus size: 116
98892555 ATATTAAACA
* * * * *
98892565 TTTTGACGCGAAG-AGAGATGACAACCCAAGCACCCCACCCTGGTTACTCAGCCCA-ACA-TACT
1 TTTTGACGCGAAGTAGA-ATGACAACCCAAGCACCCTACCCCGGTTACTCAG-TCAGTCACGA-T
* * ** *
98892627 CCTAAAATTATTTAT-TTCCGGTTAGCGGAGTTTTACCTAACACGTCACACAACC
63 -CTAAACTTACTTATAACCCGGCTAGCGGAGTTTTACCTAACACGTCACACAACC
*
98892681 TTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAGTCACGATTTG
1 TTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAGTCACGATCT-
** * * * **
98892746 AGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGTCACGTCACACAACC
65 AAACTTACTTATAACC-CGGCTAGCGGAGTTTTACCTAACACGTCACACAACC
98892799 TTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAGTCACGATCTA
1 TTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAGTCACGATCTA
98892864 AACTGTACTTATAACC
66 AACT-TACTTATAACC
98892880 ATGGAAAACA
Statistics
Matches: 169, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
115 3 0.02
116 54 0.32
117 7 0.04
118 105 0.62
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (116 bp):
TTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAGTCACGATCTA
AACTTACTTATAACCCGGCTAGCGGAGTTTTACCTAACACGTCACACAACC
Found at i:98893706 original size:43 final size:41
Alignment explanation
Indices: 98893637--98893738 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 41
98893627 TGAAAAGGGG
* * * *
98893637 TGTTTGGCTGCAGGTTTTGGGGATTCTAAGGCTGGAATAGGAC
1 TGTTTGGCTGCAGGATATGGGCATTCT-AGGCTGGAATA-AAC
*
98893680 TGTTTGGCTGCAGAGATAT-GGCATTCTGGGCTGGAATAAAC
1 TGTTTGGCTGCAG-GATATGGGCATTCTAGGCTGGAATAAAC
*
98893721 TGTTTGGCAGCATGGATA
1 TGTTTGGCTGCA-GGATA
98893739 GGTTGTTTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
41 17 0.33
42 11 0.22
43 20 0.39
44 3 0.06
ACGTcount: A:0.22, C:0.13, G:0.34, T:0.31
Consensus pattern (41 bp):
TGTTTGGCTGCAGGATATGGGCATTCTAGGCTGGAATAAAC
Found at i:98893859 original size:19 final size:20
Alignment explanation
Indices: 98893835--98893897 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 20
98893825 ATATTTAACT
98893835 AAAAT-AAAATAAAAAAAAG
1 AAAATAAAAATAAAAAAAAG
*
98893854 AAAATAATAAATAATAAAAGAAA
1 AAAATAA-AAATAA-AAAA-AAG
*
98893877 AAAATAAAAATAAAAGAAAG
1 AAAATAAAAATAAAAAAAAG
98893897 A
1 A
98893898 TTGGGTTGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.14
20 4 0.11
21 9 0.24
22 10 0.27
23 9 0.24
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (20 bp):
AAAATAAAAATAAAAAAAAG
Found at i:98893874 original size:20 final size:19
Alignment explanation
Indices: 98893840--98893895 Score: 80
Period size: 20 Copynumber: 3.0 Consensus size: 19
98893830 TAACTAAAAT
98893840 AAAAT-AAAA-AAAAGAAA
1 AAAATAAAAATAAAAGAAA
*
98893857 ATAATAAATAATAAAAGAAA
1 AAAATAAA-AATAAAAGAAA
98893877 AAAATAAAAATAAAAGAAA
1 AAAATAAAAATAAAAGAAA
98893896 GATTGGGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.12
18 2 0.06
19 13 0.38
20 15 0.44
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAATAAAAATAAAAGAAA
Found at i:98902410 original size:72 final size:70
Alignment explanation
Indices: 98902274--98902425 Score: 173
Period size: 72 Copynumber: 2.1 Consensus size: 70
98902264 GACTTCAGCA
* ** *
98902274 TGCTCTCTGATATTAGCACGCCAGTGCTCTCTGATTAGCACATTTGTGCTCTTTGATATTTAGCA
1 TGCTCTCTGATACTAGCACGCCAGTGCTCTCTGATTAGCACATCAGTGCTCTCTGATA-TTAGCA
98902339 CACCAG
65 CACCAG
* *
98902345 TGCTCTTTGATTACTAGCACGCCAGTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTG-TA-TA
1 TGCTCTCTGA-TACTAGCACGCCAGTGCTCTCTG--A-TTAGCACATCAGTGCTCTCTGATATTA
**
98902408 GCACTTCAG
62 GCACACCAG
98902417 TGCTCTCTG
1 TGCTCTCTG
98902426 TTCATTAGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
71 9 0.13
72 39 0.57
74 3 0.04
75 17 0.25
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (70 bp):
TGCTCTCTGATACTAGCACGCCAGTGCTCTCTGATTAGCACATCAGTGCTCTCTGATATTAGCAC
ACCAG
Found at i:98902426 original size:22 final size:24
Alignment explanation
Indices: 98902274--98902425 Score: 150
Period size: 25 Copynumber: 6.4 Consensus size: 24
98902264 GACTTCAGCA
*
98902274 TGCTCTCTGATATTAGCACGCCAG
1 TGCTCTCTGATATTAGCACGTCAG
* **
98902298 TGCTCTCTG--ATTAGCACATTTG
1 TGCTCTCTGATATTAGCACGTCAG
* **
98902320 TGCTCTTTGATATTTAGCACACCAG
1 TGCTCTCTGATA-TTAGCACGTCAG
* * *
98902345 TGCTCTTTGATTACTAGCACGCCAG
1 TGCTCTCTGA-TATTAGCACGTCAG
98902370 TGCTCTCTGATATTTAGCACGTCAG
1 TGCTCTCTGATA-TTAGCACGTCAG
*
98902395 TGCTCTCTG-TA-TAGCACTTCAG
1 TGCTCTCTGATATTAGCACGTCAG
98902417 TGCTCTCTG
1 TGCTCTCTG
98902426 TTCATTAGTG
Statistics
Matches: 109, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
22 36 0.33
24 14 0.13
25 57 0.52
26 2 0.02
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (24 bp):
TGCTCTCTGATATTAGCACGTCAG
Found at i:98909108 original size:2 final size:2
Alignment explanation
Indices: 98909061--98909091 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
98909051 TGTTTAATGT
98909061 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
98909092 GTTTAAAACA
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:98911114 original size:14 final size:15
Alignment explanation
Indices: 98911092--98911121 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
98911082 TTCATTTAAA
98911092 TTAATTTAAAAACAT
1 TTAATTTAAAAACAT
98911107 TTAA-TTAAAAACAT
1 TTAATTTAAAAACAT
98911121 T
1 T
98911122 CTTTTGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAATTTAAAAACAT
Found at i:98914354 original size:16 final size:16
Alignment explanation
Indices: 98914323--98914356 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
98914313 ATGCGAAGAA
98914323 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
98914339 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
98914355 TA
1 TA
98914357 AATTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:98914358 original size:25 final size:26
Alignment explanation
Indices: 98914348--98914410 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 26
98914338 TTATTTTTAA
98914348 AATTTATT-AAATTAAAATATTAAAT
1 AATTTATTAAAATTAAAATATTAAAT
98914373 AATTTATTAAAATAATAAATCATATT-AAT
1 AATTTATTAAAAT--TAAA--ATATTAAAT
98914402 AATTTATTA
1 AATTTATTA
98914411 TATGACTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
25 8 0.24
26 4 0.12
28 4 0.12
29 12 0.36
30 5 0.15
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTTATTAAAATTAAAATATTAAAT
Found at i:98919230 original size:12 final size:12
Alignment explanation
Indices: 98919197--98919231 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
98919187 GTTTACAAAC
98919197 AAGCTCGTTTAA
1 AAGCTCGTTTAA
*
98919209 AAACTCGTTTAA
1 AAGCTCGTTTAA
*
98919221 AAGCTTGTTTA
1 AAGCTCGTTTA
98919232 TTGGCTCGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (12 bp):
AAGCTCGTTTAA
Found at i:98919501 original size:23 final size:23
Alignment explanation
Indices: 98919475--98919539 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
98919465 TTATTAACAT
*
98919475 TGTTCGTGAACATGTTCGTTTAA
1 TGTTAGTGAACATGTTCGTTTAA
* *
98919498 TGTTTGTGAACATGTTCGATTAA
1 TGTTAGTGAACATGTTCGTTTAA
*
98919521 -GTTAAATGAACATGTTCGT
1 TGTT-AGTGAACATGTTCGT
98919540 GAACATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 3 0.08
23 33 0.92
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.42
Consensus pattern (23 bp):
TGTTAGTGAACATGTTCGTTTAA
Found at i:98919548 original size:23 final size:23
Alignment explanation
Indices: 98919504--98919549 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
98919494 TTAATGTTTG
* *
98919504 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
98919527 TGAACATGTTCG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
98919550 CAAACGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:98927526 original size:22 final size:22
Alignment explanation
Indices: 98927483--98927536 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
98927473 TGCACCTCTA
*
98927483 TCTCGAGAC-AAAGACCACTTG
1 TCTCGAGACTAAAGACCAATTG
* *
98927504 TCTCGAGACTTAAGATCAATTG
1 TCTCGAGACTAAAGACCAATTG
*
98927526 TCTCAAGACTA
1 TCTCGAGACTA
98927537 TACATTTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (22 bp):
TCTCGAGACTAAAGACCAATTG
Found at i:98930770 original size:8 final size:8
Alignment explanation
Indices: 98930757--98930786 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
98930747 AACCAAGCAA
98930757 TATAAAAT
1 TATAAAAT
98930765 TATAAAAT
1 TATAAAAT
*
98930773 TATATAAT
1 TATAAAAT
98930781 TATAAA
1 TATAAA
98930787 TAAAGAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TATAAAAT
Found at i:98935753 original size:13 final size:14
Alignment explanation
Indices: 98935735--98935765 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
98935725 ATGTATGAAT
98935735 ATATACATATAT-A
1 ATATACATATATCA
98935748 ATATACATATATCA
1 ATATACATATATCA
98935762 ATAT
1 ATAT
98935766 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATACATATATCA
Found at i:98936342 original size:15 final size:16
Alignment explanation
Indices: 98936324--98936357 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
98936314 AAAAAGAAGA
98936324 GAGAAAAGGAGAG-GG
1 GAGAAAAGGAGAGAGG
98936339 GAG-AAAGGAGAGAGG
1 GAGAAAAGGAGAGAGG
98936354 GAGA
1 GAGA
98936358 GGGGAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (16 bp):
GAGAAAAGGAGAGAGG
Found at i:98936343 original size:22 final size:22
Alignment explanation
Indices: 98936318--98936370 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
98936308 AGAAAAAAAA
98936318 AGAAGAGAGAAAAGGAGAGGGG
1 AGAAGAGAGAAAAGGAGAGGGG
* *
98936340 AGAA-AGGAGAGAGGGAGAGGGG
1 AGAAGA-GAGAAAAGGAGAGGGG
*
98936362 AGAGGAGAG
1 AGAAGAGAG
98936371 GGCTCCGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (22 bp):
AGAAGAGAGAAAAGGAGAGGGG
Found at i:98945633 original size:23 final size:23
Alignment explanation
Indices: 98945588--98945633 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
98945578 AGGTGGAGAT
* *
98945588 TGTTGAAAAGTCAATTAAGGGAG
1 TGTTGAAAAGTCAATAAAAGGAG
98945611 TGTTGAAAAGTCAA-AAATAGGAG
1 TGTTGAAAAGTCAATAAA-AGGAG
98945634 GTGCAATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.43, C:0.04, G:0.28, T:0.24
Consensus pattern (23 bp):
TGTTGAAAAGTCAATAAAAGGAG
Found at i:98948380 original size:30 final size:30
Alignment explanation
Indices: 98948327--98948384 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
98948317 ATATGTGGAA
*
98948327 ACTAGGTTGTTAGGCTACAAGCTTTCCACT
1 ACTAGGTTGTTAGGCAACAAGCTTTCCACT
**
98948357 ACTAGGTTGTTAGGCAATTAGCTTTCCA
1 ACTAGGTTGTTAGGCAACAAGCTTTCCA
98948385 AAAATGTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (30 bp):
ACTAGGTTGTTAGGCAACAAGCTTTCCACT
Found at i:98953545 original size:16 final size:17
Alignment explanation
Indices: 98953524--98953555 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
98953514 TAGAATTGAG
98953524 TTGAGAAATT-ATTTAA
1 TTGAGAAATTAATTTAA
98953540 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
98953556 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:98956101 original size:24 final size:24
Alignment explanation
Indices: 98956072--98956120 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
98956062 TTTGAATTTT
98956072 TATTTTAGAGTTTCTAATTTTAAA
1 TATTTTAGAGTTTCTAATTTTAAA
98956096 TATTTTAGAGTTTCTAATTTTAAA
1 TATTTTAGAGTTTCTAATTTTAAA
98956120 T
1 T
98956121 TCTCTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (24 bp):
TATTTTAGAGTTTCTAATTTTAAA
Found at i:98961150 original size:16 final size:16
Alignment explanation
Indices: 98961117--98961177 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
98961107 TACTTATTAT
98961117 TAATATAAAATAATAA
1 TAATATAAAATAATAA
*
98961133 TAATAATAAAATTA-AA
1 TAAT-ATAAAATAATAA
* *
98961149 TACTATAATAATAGT-A
1 TAATATAA-AATAATAA
*
98961165 TAAAATAAAATAA
1 TAATATAAAATAA
98961178 GAACACAGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
15 8 0.23
16 19 0.54
17 8 0.23
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (16 bp):
TAATATAAAATAATAA
Found at i:98961170 original size:21 final size:22
Alignment explanation
Indices: 98961117--98961177 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
98961107 TACTTATTAT
98961117 TAATATAAAATAATAATAATAA
1 TAATATAAAATAATAATAATAA
* * *
98961139 TAAAATTAAATACT-ATAATAA
1 TAATATAAAATAATAATAATAA
*
98961160 TAGTATAAAATAA-AATAA
1 TAATATAAAATAATAATAA
98961178 GAACACAGTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
TAATATAAAATAATAATAATAA
Found at i:98964418 original size:31 final size:32
Alignment explanation
Indices: 98964369--98964434 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
98964359 TAATAATGAT
* *
98964369 AAAATTATACTTTGATTCTTTTAAAATTAATAA
1 AAAATTATACTTTAATTCTTTAAAAATT-ATAA
98964402 AAAATTA-A-TTTAATTCTTTAAAAATTATAA
1 AAAATTATACTTTAATTCTTTAAAAATTATAA
98964432 AAA
1 AAA
98964435 TATAGACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 7 0.23
31 16 0.52
32 1 0.03
33 7 0.23
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (32 bp):
AAAATTATACTTTAATTCTTTAAAAATTATAA
Found at i:98964699 original size:24 final size:24
Alignment explanation
Indices: 98964655--98964705 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
98964645 AGTTGATTCT
* *
98964655 TTTTGTATTAAAAAATTATTATTTA
1 TTTTATATTAAAAAA-TATTAATTA
98964680 TTTTATATATAAAAAA-ATTAATTA
1 TTTTATAT-TAAAAAATATTAATTA
98964704 TT
1 TT
98964706 AAATATATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 9 0.39
25 7 0.30
26 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTTATATTAAAAAATATTAATTA
Found at i:98976115 original size:30 final size:30
Alignment explanation
Indices: 98976063--98976122 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
98976053 GGATGGAAGT
**** *
98976063 GGAGTAAAAGTTTTGGGGGAAAAGTGAAAA
1 GGAGTAAAAGTTTTAAAAGAAAAGTAAAAA
98976093 GGAGTAAAAGTTTTAAAAGAAAAGTAAAAA
1 GGAGTAAAAGTTTTAAAAGAAAAGTAAAAA
98976123 TGTTCGAGAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.28, T:0.20
Consensus pattern (30 bp):
GGAGTAAAAGTTTTAAAAGAAAAGTAAAAA
Found at i:98976180 original size:9 final size:9
Alignment explanation
Indices: 98976166--98976202 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
98976156 TATAGTTTGA
98976166 TATTCGAAT
1 TATTCGAAT
98976175 TATTCGAAT
1 TATTCGAAT
* *
98976184 TATTTGAGT
1 TATTCGAAT
98976193 TATTCGAAT
1 TATTCGAAT
98976202 T
1 T
98976203 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:98977636 original size:25 final size:25
Alignment explanation
Indices: 98977602--98977661 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
98977592 TGGTAAGGTG
98977602 ATTTATTTAATGAATTTTGAAAGAT
1 ATTTATTTAATGAATTTTGAAAGAT
98977627 ATTTATTTAATGAATTTTGAAAGAT
1 ATTTATTTAATGAATTTTGAAAGAT
98977652 ATGTTATTTA
1 AT-TTATTTA
98977662 TTTTTATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 27 0.79
26 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (25 bp):
ATTTATTTAATGAATTTTGAAAGAT
Found at i:98978298 original size:35 final size:35
Alignment explanation
Indices: 98978239--98978305 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
98978229 TATTTGTTTT
*
98978239 AATTATATAATTAATGATATTTAAA-TATAATTTA
1 AATTATATAATTAATGATAATTAAATTATAATTTA
*
98978273 AATTATATGAATTTATGATAATTAAATTATAAT
1 AATTATAT-AATTAATGATAATTAAATTATAAT
98978306 GACATTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 8 0.28
35 15 0.52
36 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (35 bp):
AATTATATAATTAATGATAATTAAATTATAATTTA
Found at i:98978307 original size:25 final size:23
Alignment explanation
Indices: 98978263--98978323 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 23
98978253 TGATATTTAA
98978263 ATATAATTTAAATTATATGA-ATTT
1 ATATAA-TTAAATTATATGACA-TT
98978287 ATGATAATTAAATTATAATGACATT
1 AT-ATAATTAAATTAT-ATGACATT
*
98978312 ATATTATTAAAT
1 ATATAATTAAAT
98978324 AAATCAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 20 0.61
25 12 0.36
26 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (23 bp):
ATATAATTAAATTATATGACATT
Found at i:98978313 original size:35 final size:34
Alignment explanation
Indices: 98978239--98978321 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 34
98978229 TATTTGTTTT
* *
98978239 AATTATATAATTAATGATATTTAAATATAATTTA
1 AATTATATAATTAATGATAATTAAATATAATTGA
*
98978273 AATTATATGAATTTATGATAATTAAATTATAA-TGA
1 AATTATAT-AATTAATGATAATTAAA-TATAATTGA
* *
98978308 CATTATATTATTAA
1 AATTATATAATTAA
98978322 ATAAATCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 12 0.29
35 24 0.59
36 5 0.12
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (34 bp):
AATTATATAATTAATGATAATTAAATATAATTGA
Found at i:98978367 original size:70 final size:70
Alignment explanation
Indices: 98978279--98978420 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
98978269 TTTAAATTAT
*
98978279 ATGAATTTATGATAATTAAATTATAATGACATTATATTATTAAATAAATCAAAATATGCCAATTG
1 ATGAATTCATGATAATTAAATTATAATGACATTATATTATTAAATAAATCAAAATATGCCAATTG
98978344 TATGG
66 TATGG
98978349 ATGAATTCATGATAATTAAATTATAATGACATTATATTATTAAATAAATCAAAATATGCCAATTG
1 ATGAATTCATGATAATTAAATTATAATGACATTATATTATTAAATAAATCAAAATATGCCAATTG
98978414 TATGG
66 TATGG
98978419 AT
1 AT
98978421 ATGATAAAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (70 bp):
ATGAATTCATGATAATTAAATTATAATGACATTATATTATTAAATAAATCAAAATATGCCAATTG
TATGG
Found at i:98982180 original size:40 final size:40
Alignment explanation
Indices: 98982130--98982207 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
98982120 AATTATAGAA
* *
98982130 TACTGAATATTGTTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTGTTATGAGTACTGAATTGAACTGTGAAGT
* *
98982170 TACTGAATATTGTTATGTGTACTGCATTGAACTGTGAA
1 TACTGAATATTGTTATGAGTACTGAATTGAACTGTGAA
98982208 ATTATCGAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (40 bp):
TACTGAATATTGTTATGAGTACTGAATTGAACTGTGAAGT
Found at i:98982476 original size:45 final size:46
Alignment explanation
Indices: 98982419--98982514 Score: 117
Period size: 45 Copynumber: 2.1 Consensus size: 46
98982409 TGCTGACTAT
* **
98982419 TGTTA-CTGTTACTGTTATTGATTCGA-CACTTTGTGTGTCGAATAC
1 TGTTACCTGTTACTATTACAGATT-GAGCACTTTGTGTGTCGAATAC
* *
98982464 TGTTACCT-TTACTATTACAGATTTAGCACTTTGTGTGTTGAATAC
1 TGTTACCTGTTACTATTACAGATTGAGCACTTTGTGTGTCGAATAC
98982509 TGTTAC
1 TGTTAC
98982515 TGCTACCGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
44 1 0.02
45 41 0.93
46 2 0.05
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.45
Consensus pattern (46 bp):
TGTTACCTGTTACTATTACAGATTGAGCACTTTGTGTGTCGAATAC
Found at i:98984700 original size:63 final size:62
Alignment explanation
Indices: 98984622--98984746 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 62
98984612 AGTTCCTATA
98984622 GTCAAAATTAACAATTTTTACTTTACAAACTAGTCCTTTTTTCATATCTAACCAAACAACATC
1 GTCAAAATTAACAATTTTTACTTTACAAACTAGTCC-TTTTTCATATCTAACCAAACAACATC
98984685 GTCAAAATTAACAATTTTTACTTTACAAACTAGTCCTTTTTCATATCTAACCAAACAACATC
1 GTCAAAATTAACAATTTTTACTTTACAAACTAGTCCTTTTTCATATCTAACCAAACAACATC
98984747 AAAAACTTTA
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 26 0.42
63 36 0.58
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.36
Consensus pattern (62 bp):
GTCAAAATTAACAATTTTTACTTTACAAACTAGTCCTTTTTCATATCTAACCAAACAACATC
Found at i:98987495 original size:17 final size:17
Alignment explanation
Indices: 98987472--98987514 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
98987462 GATTGGACTA
98987472 GACTACTCTT-TGGTCTTT
1 GACTACT-TTCTGGT-TTT
98987490 GA-TACTTTCTGGTTTT
1 GACTACTTTCTGGTTTT
98987506 GACTACTTT
1 GACTACTTT
98987515 AAGATTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 7 0.30
17 14 0.61
18 2 0.09
ACGTcount: A:0.14, C:0.19, G:0.16, T:0.51
Consensus pattern (17 bp):
GACTACTTTCTGGTTTT
Found at i:98989300 original size:27 final size:25
Alignment explanation
Indices: 98989262--98989314 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
98989252 ATGAGTTTGA
98989262 TATTTTTTTAATATAATATC-TGTAT
1 TATTTTTTTAATATAATA-CGTGTAT
*
98989287 TATTTTTATCTAATTTAATACGTGTAT
1 TATTTTT-T-TAATATAATACGTGTAT
98989314 T
1 T
98989315 TTATAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 7 0.29
26 2 0.08
27 15 0.62
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (25 bp):
TATTTTTTTAATATAATACGTGTAT
Found at i:98991668 original size:2 final size:2
Alignment explanation
Indices: 98991661--98991700 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
98991651 TGCATCCACC
98991661 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98991701 TAAATGTACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98992110 original size:30 final size:28
Alignment explanation
Indices: 98992074--98992134 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 28
98992064 ACTTAACAAG
98992074 CAAATGT-TTCTAAAATAATAACAAAATTAA
1 CAAATGTCTT-TAAAATAA-AA-AAAATTAA
98992104 CAAATGTCTTTAAAATAAAAAAAATTAA
1 CAAATGTCTTTAAAATAAAAAAAATTAA
98992132 CAA
1 CAA
98992135 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 11 0.37
29 2 0.07
30 15 0.50
31 2 0.07
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (28 bp):
CAAATGTCTTTAAAATAAAAAAAATTAA
Found at i:98992202 original size:11 final size:11
Alignment explanation
Indices: 98992171--98992210 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
98992161 ACAATAACAA
*
98992171 CAAAATAGTAG
1 CAAAATAATAG
*
98992182 CAACATAATAG
1 CAAAATAATAG
*
98992193 TAAAATAATAG
1 CAAAATAATAG
98992204 CAAAATA
1 CAAAATA
98992211 GGGTGAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:98997776 original size:7 final size:7
Alignment explanation
Indices: 98997764--98997814 Score: 95
Period size: 7 Copynumber: 7.4 Consensus size: 7
98997754 TTTAAATTCG
98997764 AAAAATA
1 AAAAATA
98997771 AAAAATA
1 AAAAATA
98997778 AAAAATA
1 AAAAATA
98997785 AAAAATA
1 AAAAATA
98997792 AAAAATA
1 AAAAATA
98997799 AAAAAT-
1 AAAAATA
98997805 AAAAATA
1 AAAAATA
98997812 AAA
1 AAA
98997815 CCCTTACCTG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.14
7 37 0.86
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:99000272 original size:27 final size:25
Alignment explanation
Indices: 99000226--99000277 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 25
99000216 TCATCTGATA
99000226 TCTTTATTTTTTTTTATCAGTTTGG
1 TCTTTATTTTTTTTTATCAGTTTGG
99000251 TCTTTATATCTTTTTTTATCAGTTTGG
1 TCTTTAT-T-TTTTTTTATCAGTTTGG
99000278 CCTCTTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 7 0.28
26 1 0.04
27 17 0.68
ACGTcount: A:0.13, C:0.10, G:0.12, T:0.65
Consensus pattern (25 bp):
TCTTTATTTTTTTTTATCAGTTTGG
Found at i:99001011 original size:20 final size:21
Alignment explanation
Indices: 99000978--99001024 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
99000968 TAAAAATACC
99000978 ATAAAATTCATAAAACTTTTCT
1 ATAAAATTCATAAAA-TTTTCT
99001000 -TAAAATTC-TAAAATTTTCT
1 ATAAAATTCATAAAATTTTCT
99001019 ATAAAA
1 ATAAAA
99001025 AACCCTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 10 0.42
21 8 0.33
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAAATTCATAAAATTTTCT
Found at i:99006718 original size:46 final size:46
Alignment explanation
Indices: 99006658--99006883 Score: 328
Period size: 46 Copynumber: 4.9 Consensus size: 46
99006648 TTTGACATGA
* * * * * *
99006658 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
99006704 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
99006750 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
99006796 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
99006842 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTATC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
99006884 TTTCAACCAT
Statistics
Matches: 166, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 162 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:99006885 original size:30 final size:30
Alignment explanation
Indices: 99006849--99006913 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
99006839 GGCTGCCATG
99006849 GTATCTTTCAACCATGGTCTTACACATTTC
1 GTATCTTTCAACCATGGTCTTACACATTTC
99006879 GTATCTTTCAACCATGGTCTTACACATTTC
1 GTATCTTTCAACCATGGTCTTACACATTTC
*
99006909 ATATC
1 GTATC
99006914 AGGTTGCCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.25, C:0.26, G:0.09, T:0.40
Consensus pattern (30 bp):
GTATCTTTCAACCATGGTCTTACACATTTC
Found at i:99006894 original size:76 final size:76
Alignment explanation
Indices: 99006803--99006952 Score: 282
Period size: 76 Copynumber: 2.0 Consensus size: 76
99006793 GGTTGCCATG
99006803 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTC
99006868 TTACACATTTC
66 TTACACATTTC
* *
99006879 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTGTCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTC
99006944 TTACACATT
66 TTACACATT
99006953 GCATATCAGG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (76 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTC
TTACACATTTC
Found at i:99006911 original size:122 final size:122
Alignment explanation
Indices: 99006757--99007000 Score: 470
Period size: 122 Copynumber: 2.0 Consensus size: 122
99006747 CGTTGCCATG
99006757 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
*
99006822 TTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
66 TTACACATTGCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
99006879 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTGTCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
99006944 TTACACATTGCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
66 TTACACATTGCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
99007001 ATATTAGAGA
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.36
Consensus pattern (122 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
TTACACATTGCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
Found at i:99006933 original size:46 final size:46
Alignment explanation
Indices: 99006879--99007004 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
99006869 TACACATTTC
*
99006879 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATG
* *
99006925 GTGTCTTTCAACCATGGTCTTACACATTGCATATCAGGCTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATG
99006971 GTATCTTTCAACCATGGTCTTACACATTTCATAT
1 GTATCTTTCAACCATGGTCTTACACATTTCATAT
99007005 TAGAGAGCAC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATG
Found at i:99006970 original size:76 final size:76
Alignment explanation
Indices: 99006811--99006972 Score: 243
Period size: 76 Copynumber: 2.1 Consensus size: 76
99006801 TGGTATCTTT
99006811 CAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 CAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACAT
* * ***
99006876 TTCGTATCTTT
66 TGCATATCAGG
* *
99006887 CAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTGTCTTTCAACCATGGTCTTACACAT
1 CAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACAT
99006952 TGCATATCAGG
66 TGCATATCAGG
**
99006963 CTGCCATGGT
1 CAACCATGGT
99006973 ATCTTTCAAC
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (76 bp):
CAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACAT
TGCATATCAGG
Found at i:99016614 original size:19 final size:19
Alignment explanation
Indices: 99016587--99016666 Score: 60
Period size: 19 Copynumber: 4.3 Consensus size: 19
99016577 ATTTTTCTAG
*
99016587 ATTATTATTATATATATTA
1 ATTAATATTATATATATTA
* *
99016606 ATTAATATTA-AGATATAA
1 ATTAATATTATATATATTA
*
99016624 ATTATAAATTAT-TAT-TTA
1 ATTA-ATATTATATATATTA
**
99016642 ATTGGTATTATAT-TATTAA
1 ATTAATATTATATATATT-A
99016661 ATTAAT
1 ATTAAT
99016667 GAATAGTTTA
Statistics
Matches: 45, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
17 6 0.13
18 18 0.40
19 21 0.47
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
ATTAATATTATATATATTA
Found at i:99016960 original size:31 final size:32
Alignment explanation
Indices: 99016894--99016966 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
99016884 ATTGGTAAGT
* *
99016894 AGATATTTATTATTTATTATTATTAAGTTAAA
1 AGATATTTATTAATTATAATTATTAAGTTAAA
*
99016926 AGATATTTATTAATTA-AATTATTATA-TTATA
1 AGATATTTATTAATTATAATTATTA-AGTTAAA
*
99016957 AGATTTTTAT
1 AGATATTTAT
99016967 ATGATAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 20 0.56
32 16 0.44
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.53
Consensus pattern (32 bp):
AGATATTTATTAATTATAATTATTAAGTTAAA
Found at i:99017232 original size:2 final size:2
Alignment explanation
Indices: 99017225--99017266 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
99017215 TTATAATAAT
99017225 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
99017267 AAAGTCATAA
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:99018606 original size:36 final size:36
Alignment explanation
Indices: 99018557--99018625 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
99018547 GTCAAAGGAT
*
99018557 AATATGTGGTTATAATTGTAGTAATTAGAACATCTA
1 AATATGTGCTTATAATTGTAGTAATTAGAACATCTA
* *
99018593 AATATGTGCTTATAATTTTAGTAATTAGTACAT
1 AATATGTGCTTATAATTGTAGTAATTAGAACAT
99018626 AGTAATTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (36 bp):
AATATGTGCTTATAATTGTAGTAATTAGAACATCTA
Found at i:99018629 original size:50 final size:50
Alignment explanation
Indices: 99018575--99018670 Score: 174
Period size: 50 Copynumber: 1.9 Consensus size: 50
99018565 GTTATAATTG
99018575 TAGTAATTAGAACATCTAAATATGTGCTTATAATTTTAGTAATTAGTACA
1 TAGTAATTAGAACATCTAAATATGTGCTTATAATTTTAGTAATTAGTACA
* *
99018625 TAGTAATTAGTACATCTAAATATGTGGTTATAATTTTAGTAATTAG
1 TAGTAATTAGAACATCTAAATATGTGCTTATAATTTTAGTAATTAG
99018671 GTGCATAGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.42
Consensus pattern (50 bp):
TAGTAATTAGAACATCTAAATATGTGCTTATAATTTTAGTAATTAGTACA
Found at i:99018630 original size:14 final size:14
Alignment explanation
Indices: 99018611--99018639 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
99018601 CTTATAATTT
99018611 TAGTAATTAGTACA
1 TAGTAATTAGTACA
99018625 TAGTAATTAGTACA
1 TAGTAATTAGTACA
99018639 T
1 T
99018640 CTAAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (14 bp):
TAGTAATTAGTACA
Found at i:99019399 original size:32 final size:30
Alignment explanation
Indices: 99019334--99019400 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
99019324 GATATATTAT
* *
99019334 ATTTTTATAGTTTTTAAAAAATTAAATTAA
1 ATTTTTATAGTTTTTAAAAAACTAAAGTAA
*
99019364 ATTTTTTTA-TTTTTAAGAAAGACTAAAGTATA
1 ATTTTTATAGTTTTTAA-AAA-ACTAAAGTA-A
99019396 ATTTT
1 ATTTT
99019401 GCAGTCATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 7 0.23
30 11 0.35
31 7 0.23
32 6 0.19
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (30 bp):
ATTTTTATAGTTTTTAAAAAACTAAAGTAA
Found at i:99020065 original size:11 final size:11
Alignment explanation
Indices: 99020049--99020074 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
99020039 GAACTTGATT
99020049 AATATAACATC
1 AATATAACATC
99020060 AATATAACATC
1 AATATAACATC
99020071 AATA
1 AATA
99020075 GTTTTAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (11 bp):
AATATAACATC
Found at i:99031624 original size:31 final size:31
Alignment explanation
Indices: 99031589--99031647 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
99031579 TGATTTAAAA
* *
99031589 TAAT-ATAACATTTATATAAATTTTGATATAT
1 TAATAATAACA-TAATATAAATTTAGATATAT
*
99031620 TAATAATAATATAATATAAATTTAGATA
1 TAATAATAACATAATATAAATTTAGATA
99031648 AACTGATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.79
32 5 0.21
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (31 bp):
TAATAATAACATAATATAAATTTAGATATAT
Found at i:99032231 original size:35 final size:35
Alignment explanation
Indices: 99032192--99032272 Score: 144
Period size: 35 Copynumber: 2.3 Consensus size: 35
99032182 CTTTCGAGAA
99032192 TATCTTCAAGTGTTTGGCTCGCTTTCTTTGCTTCG
1 TATCTTCAAGTGTTTGGCTCGCTTTCTTTGCTTCG
*
99032227 TATCTTCAAGCGTTTGGCTCGCTTTCTTTGCTTCG
1 TATCTTCAAGTGTTTGGCTCGCTTTCTTTGCTTCG
*
99032262 TATGTTCAAGT
1 TATCTTCAAGT
99032273 TTGGTTCATC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (35 bp):
TATCTTCAAGTGTTTGGCTCGCTTTCTTTGCTTCG
Found at i:99038423 original size:40 final size:40
Alignment explanation
Indices: 99038363--99038589 Score: 364
Period size: 40 Copynumber: 5.7 Consensus size: 40
99038353 CAATTGAGGA
*
99038363 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGCTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
99038403 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
99038443 TTATATCCAGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
99038483 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
99038523 TTATTTCCGGGTTAAATCTCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
99038563 TTATATCCGGGCTAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
99038590 ATTAGGTTGG
Statistics
Matches: 174, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 174 1.00
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:99046597 original size:24 final size:23
Alignment explanation
Indices: 99046548--99046599 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
99046538 TGGTGACAAA
* *
99046548 AAAAACAGATTAAATAAACAATT
1 AAAAACAGAATAAATAAACAACT
* *
99046571 AAAAAGAGAATAAATAAATTAACT
1 AAAAACAGAATAAATAAA-CAACT
99046595 AAAAA
1 AAAAA
99046600 TAACATCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (23 bp):
AAAAACAGAATAAATAAACAACT
Found at i:99050768 original size:2 final size:2
Alignment explanation
Indices: 99050755--99050792 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
99050745 TAATTGAGTA
* *
99050755 AT AT AT AC AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99050793 TCAAATAGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:99050776 original size:16 final size:16
Alignment explanation
Indices: 99050755--99050792 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
99050745 TAATTGAGTA
99050755 ATATATACATATATAT
1 ATATATACATATATAT
99050771 ATATATACATATATAT
1 ATATATACATATATAT
99050787 ATATAT
1 ATATAT
99050793 TCAAATAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATATACATATATAT
Found at i:99053363 original size:19 final size:19
Alignment explanation
Indices: 99053339--99053376 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
99053329 GAAATGAATA
*
99053339 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
99053358 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
99053377 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:99054306 original size:19 final size:20
Alignment explanation
Indices: 99054273--99054312 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
99054263 ATATATATAT
99054273 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
99054292 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
99054312 A
1 A
99054313 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:99054582 original size:9 final size:8
Alignment explanation
Indices: 99054553--99054596 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
99054543 AGAGGTTAGG
*
99054553 TTTTTTTC
1 TTTTTTTA
*
99054561 TTTTCTTCA
1 TTTT-TTTA
99054570 TTTTTTTA
1 TTTTTTTA
99054578 TTTTTTTA
1 TTTTTTTA
99054586 -TTTTTTA
1 TTTTTTTA
99054593 TTTT
1 TTTT
99054597 GGGTTGTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 7 0.23
8 18 0.58
9 6 0.19
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTA
Found at i:99054588 original size:16 final size:17
Alignment explanation
Indices: 99054553--99054596 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
99054543 AGAGGTTAGG
*
99054553 TTTTTTTCTTTTCTTCA
1 TTTTTTTATTTTCTTCA
*
99054570 TTTTTTTATTTT-TTTA
1 TTTTTTTATTTTCTTCA
99054586 -TTTTTTATTTT
1 TTTTTTTATTTT
99054597 GGGTTGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 3 0.12
17 11 0.44
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTTATTTTCTTCA
Found at i:99054985 original size:43 final size:44
Alignment explanation
Indices: 99054886--99055544 Score: 1102
Period size: 44 Copynumber: 15.4 Consensus size: 44
99054876 CCCCGTCTAA
* *
99054886 TACAGAGACGCCAAATCCGTTATCTTCGATCTACTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
99054930 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCT-CGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
99054973 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
99055017 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
99055061 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTTCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
99055101 TACAGAGACGCCAAATCTGTTATCTTCGAT-TGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
99055144 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
99055188 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
99055232 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC-CCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
99055275 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTG-CGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
99055318 T--AGAGACGCCAAATCTGTTATCTTCGATCTGCTCT-CG-CGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
99055358 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
99055402 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCT-CGCCAC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
99055441 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
99055485 TACAGAGACGCCAAAT-TGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
99055528 TACAGAGACGCCAAATC
1 TACAGAGACGCCAAATC
99055545 ATCTTGGATT
Statistics
Matches: 583, Mismatches: 15, Indels: 34
0.92 0.02 0.05
Matches are distributed among these distances:
39 22 0.04
40 59 0.10
41 33 0.06
42 34 0.06
43 190 0.33
44 245 0.42
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.28
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:99055003 original size:87 final size:88
Alignment explanation
Indices: 99054886--99055544 Score: 1102
Period size: 87 Copynumber: 7.7 Consensus size: 88
99054876 CCCCGTCTAA
* *
99054886 TACAGAGACGCCAAATCCGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
99054951 ATCTTCGATCTGCTCT-CGCCGC
66 ATCTTCGATCTGCTCTCCGCCGC
99054973 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
99055038 ATCTTCGATCTGCTCTCCGCCGC
66 ATCTTCGATCTGCTCTCCGCCGC
* *
99055061 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
99055122 ATCTTCGAT-TGCTCTCCGCCGC
66 ATCTTCGATCTGCTCTCCGCCGC
99055144 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
99055209 ATCTTCGATCTGCTCTCCGCCGC
66 ATCTTCGATCTGCTCTCCGCCGC
*
99055232 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC-CCGCTACAGAGATGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
*
99055296 ATCTTCGATCTGCTCTCTG-CGC
66 ATCTTCGATCTGCTCTCCGCCGC
99055318 T--AGAGACGCCAAATCTGTTATCTTCGATCTGCTCT-CG-CGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
99055379 ATCTTCGATCTGCTCTCCGCCGC
66 ATCTTCGATCTGCTCTCCGCCGC
* * *
99055402 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCT-CGCCACTACAGAGATGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
99055462 ATCTTCGATCTGCTCTCCGCCGC
66 ATCTTCGATCTGCTCTCCGCCGC
*
99055485 TACAGAGACGCCAAAT-TGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC
99055545 ATCTTGGATT
Statistics
Matches: 539, Mismatches: 17, Indels: 32
0.92 0.03 0.05
Matches are distributed among these distances:
82 18 0.03
83 131 0.24
84 90 0.17
86 33 0.06
87 193 0.36
88 74 0.14
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.28
Consensus pattern (88 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
ATCTTCGATCTGCTCTCCGCCGC
Found at i:99055868 original size:61 final size:65
Alignment explanation
Indices: 99055754--99055872 Score: 192
Period size: 61 Copynumber: 1.9 Consensus size: 65
99055744 GTATCCATGC
99055754 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGTT
1 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGTT
* *
99055819 TTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGTTCCTAACTAAATG
1 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATG
99055873 AATGGTTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
61 29 0.56
62 1 0.02
63 1 0.02
64 1 0.02
65 20 0.38
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (65 bp):
TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGTT
Found at i:99062754 original size:26 final size:26
Alignment explanation
Indices: 99062725--99062806 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
99062715 TGGTACAAAT
*
99062725 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
99062751 TGATAATGGATTAAGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
99062777 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
99062803 TGAT
1 TGAT
99062807 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:99067096 original size:22 final size:22
Alignment explanation
Indices: 99067068--99067116 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
99067058 TGACCTCTGA
99067068 GCATCAGCGTCTAACCTTAGAT
1 GCATCAGCGTCTAACCTTAGAT
99067090 GCATCAGCGTCTAACCTTAGAT
1 GCATCAGCGTCTAACCTTAGAT
99067112 GCATC
1 GCATC
99067117 TTCTCTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (22 bp):
GCATCAGCGTCTAACCTTAGAT
Found at i:99070214 original size:19 final size:19
Alignment explanation
Indices: 99070190--99070227 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
99070180 GAAATGAATA
*
99070190 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
99070209 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
99070228 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:99071420 original size:7 final size:8
Alignment explanation
Indices: 99071400--99071435 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
99071390 GTTTTTTTCT
99071400 TTTTCTTTA
1 TTTT-TTTA
99071409 TTTTTTTA
1 TTTTTTTA
99071417 TTTTTTTA
1 TTTTTTTA
99071425 -TTTTTTA
1 TTTTTTTA
99071432 TTTT
1 TTTT
99071436 GGGTTGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.27
8 15 0.58
9 4 0.15
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTTTA
Found at i:99071424 original size:16 final size:16
Alignment explanation
Indices: 99071400--99071435 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 16
99071390 GTTTTTTTCT
99071400 TTTTCTTTATTTTTTTA
1 TTTTCTTTA-TTTTTTA
99071417 TTTT-TTTATTTTTTA
1 TTTTCTTTATTTTTTA
99071432 TTTT
1 TTTT
99071436 GGGTTGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
16 4 0.21
17 4 0.21
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTCTTTATTTTTTA
Found at i:99072743 original size:18 final size:18
Alignment explanation
Indices: 99072708--99072794 Score: 70
Period size: 18 Copynumber: 4.6 Consensus size: 18
99072698 ATTAGTTAAT
* *
99072708 TTTATTATTTTTGCTATTA
1 TTTA-TATTATTGTTATTA
99072727 TTTATATTATTGTTATTA
1 TTTATATTATTGTTATTA
* *
99072745 TCATTCATATGTA-TATCATTA
1 T--TT-ATAT-TATTGTTATTA
99072766 TTTATATTATTGTTATTA
1 TTTATATTATTGTTATTA
99072784 -TTACTATTATT
1 TTTA-TATTATT
99072795 TTGTTTTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
17 5 0.09
18 30 0.54
19 6 0.11
20 2 0.04
21 11 0.20
22 2 0.04
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTATATTATTGTTATTA
Found at i:99072871 original size:43 final size:45
Alignment explanation
Indices: 99072824--99072907 Score: 113
Period size: 43 Copynumber: 1.9 Consensus size: 45
99072814 TATTACTATA
*
99072824 TTATTATTATCTT-TT-TTATTTTCTATTACTA-TATT-TAATCTTT
1 TTATTATTA-CTTGTTATTACTTTC-ATTACTATTATTGTAATCTTT
99072867 TTATTATTACTTGTTATTACTTTCATTACTATTATTGTAAT
1 TTATTATTACTTGTTATTACTTTCATTACTATTATTGTAAT
99072908 GGGCCAAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
42 3 0.08
43 18 0.50
44 11 0.31
45 4 0.11
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (45 bp):
TTATTATTACTTGTTATTACTTTCATTACTATTATTGTAATCTTT
Found at i:99075671 original size:18 final size:18
Alignment explanation
Indices: 99075645--99075695 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
99075635 ATATTAGTTT
*
99075645 TAAAAAAATAATATATAG
1 TAAATAAATAATATATAG
99075663 TAAATAAATAAT-TA-A-
1 TAAATAAATAATATATAG
*
99075678 TTAATAAA-AATATATAG
1 TAAATAAATAATATATAG
99075695 T
1 T
99075696 GTGAGTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 3 0.11
15 9 0.32
16 2 0.07
17 3 0.11
18 11 0.39
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
TAAATAAATAATATATAG
Found at i:99077283 original size:20 final size:20
Alignment explanation
Indices: 99077258--99077299 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
99077248 GGTCTATTTT
99077258 GTAATTGTAATGGGTCAAGG
1 GTAATTGTAATGGGTCAAGG
99077278 GTAATTGTAATGGGTCAAGG
1 GTAATTGTAATGGGTCAAGG
99077298 GT
1 GT
99077300 GTAAATGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.36, T:0.31
Consensus pattern (20 bp):
GTAATTGTAATGGGTCAAGG
Found at i:99077798 original size:82 final size:82
Alignment explanation
Indices: 99077668--99077823 Score: 253
Period size: 82 Copynumber: 1.9 Consensus size: 82
99077658 CTTGAATTCA
**
99077668 TTTGAGAATGTTTGAGAGTTCATATCTGCATATCCTCGATTTGTCCTTGTAAGCACAATGATGCC
1 TTTGAGAACATTTGAGAGTTCATATCTGCATATCCTCGATTTGTCCTTGTAAGCACAATGATGCC
99077733 AAACCATCTAGAGTTTG
66 AAACCATCTAGAGTTTG
*
99077750 TTTGAGAACATTTGAGAG-T-ATATCTGCAATGTCCTCGATTTGTCCCTTGTAAGCACAATGATG
1 TTTGAGAACATTTGAGAGTTCATATCTGC-ATATCCTCGATTTGT-CCTTGTAAGCACAATGATG
99077813 CCAAACCATCT
64 CCAAACCATCT
99077824 TAGATCTGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
80 8 0.12
81 15 0.22
82 46 0.67
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (82 bp):
TTTGAGAACATTTGAGAGTTCATATCTGCATATCCTCGATTTGTCCTTGTAAGCACAATGATGCC
AAACCATCTAGAGTTTG
Found at i:99078115 original size:111 final size:111
Alignment explanation
Indices: 99077960--99078254 Score: 538
Period size: 111 Copynumber: 2.7 Consensus size: 111
99077950 CAGTATAAAC
*
99077960 ATCTGAAGGT-TAGATCTGCCGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATT
1 ATCTGAA-GTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATT
*
99078024 TGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCA
65 TGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTGCTTCA
*
99078071 ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGACTGAGAGTCAAATCTGCTATGTCCTCGATTT
1 ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTT
99078136 GTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTGCTTCA
66 GTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTGCTTCA
99078182 ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTT
1 ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTT
*
99078247 GTTTCTTG
66 GTTCCTTG
99078255 AATACCAAAT
Statistics
Matches: 178, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
110 2 0.01
111 176 0.99
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (111 bp):
ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTT
GTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTGCTTCA
Found at i:99078235 original size:222 final size:222
Alignment explanation
Indices: 99077750--99078254 Score: 664
Period size: 222 Copynumber: 2.2 Consensus size: 222
99077740 CTAGAGTTTG
* * * * * *
99077750 TTTGAGAACATTTGAGAGT-ATATCTGCAATGTCCTCGATTTGTCCCTTGTAAGCACAATGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
* *
99077814 CAAACCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATTTTGAGAACGTC
66 CAAACCATCTTAGATCTGCTTC------AACATCTGAAGGTTAGATCTGCTACTTTGAGAACGAC
*
99077879 TGAGAATCAAATCTGCTATGTCCTCGATTTGTTCTTGTAACACAAGATGCCAAATCATCTTGGAT
125 TGAGAATCAAATCTGCTATGTCCTCGATTTGTTCTTGTAACACAAGATACCAAATCATCTTGGAT
99077944 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCGCC
190 CTGCTTC------AACATCTGAAGGTTAGATCTGCCGCC
99077983 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
* * *
99078048 CAAATCATCTTGGATCTGCTTC-A-ATCTGAA-GTCTAGATCTGCTGCCTTTGAGAACGACTGAG
66 CAAACCATCTTAGATCTGCTTCAACATCTGAAGGT-TAGATCTGCT-ACTTTGAGAACGACTGAG
*
99078110 AGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATC
129 AATCAAATCTGCTATGTCCTCGATTTGTT-CTTGTAA-CACAA-GATACCAAATCATCTTGGATC
*
99078175 TGCTTC-A-ATCTGAA-GTCTAGATCTGCTGCC
191 TGCTTCAACATCTGAAGGT-TAGATCTGCCGCC
*
99078205 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTG
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTG
99078255 AATACCAAAT
Statistics
Matches: 250, Mismatches: 15, Indels: 25
0.86 0.05 0.09
Matches are distributed among these distances:
221 2 0.01
222 68 0.27
223 1 0.00
225 2 0.01
226 17 0.07
227 44 0.18
228 7 0.03
229 5 0.02
230 26 0.10
233 17 0.07
234 61 0.24
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (222 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
CAAACCATCTTAGATCTGCTTCAACATCTGAAGGTTAGATCTGCTACTTTGAGAACGACTGAGAA
TCAAATCTGCTATGTCCTCGATTTGTTCTTGTAACACAAGATACCAAATCATCTTGGATCTGCTT
CAACATCTGAAGGTTAGATCTGCCGCC
Found at i:99079593 original size:20 final size:20
Alignment explanation
Indices: 99079568--99079607 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
99079558 AATTCGGAGA
99079568 GAAGGTATTTCTACTTCAAT
1 GAAGGTATTTCTACTTCAAT
99079588 GAAGGTATTTCTACTTCAAT
1 GAAGGTATTTCTACTTCAAT
99079608 AGGTAAAACT
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:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
GAAGGTATTTCTACTTCAAT
Found at i:99090336 original size:19 final size:20
Alignment explanation
Indices: 99090303--99090355 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
99090293 AAATAACATG
99090303 TAAATATAT-ATATAT-TAA
1 TAAATATATAATATATGTAA
*
99090321 TAAATATATAATATATGTGA
1 TAAATATATAATATATGTAA
*
99090341 -AAATAAATAATATAT
1 TAAATATATAATATAT
99090356 AAAAATAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 9 0.29
19 20 0.65
20 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
TAAATATATAATATATGTAA
Done.