Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002357.1 Hibiscus syriacus cultivar Beakdansim tig00004811_pilon, whole genome shotgun sequence
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: 161968
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:1137 original size:20 final size:20
Alignment explanation
Indices: 1100--1138 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1090 TTCTAAATCA
***
1100 TTTTTCAAAATTTCATTTTT
1 TTTTTCAAAATCAAATTTTT
1120 TTTTTCAAAATCAAATTTT
1 TTTTTCAAAATCAAATTTT
1139 GCTTTCAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTCAAAATCAAATTTTT
Found at i:3064 original size:20 final size:21
Alignment explanation
Indices: 3034--3073 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
3024 AGCCGTTGGG
3034 GCCTGATGGTATCGATAATAT
1 GCCTGATGGTATCGATAATAT
3055 GCCT-ATGGTATCGATAATA
1 GCCTGATGGTATCGATAATA
3074 CTATGCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (21 bp):
GCCTGATGGTATCGATAATAT
Found at i:3746 original size:34 final size:34
Alignment explanation
Indices: 3703--3768 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
3693 CTAATCACAC
* *
3703 CATTTAATACTTTGAACTAAATAAAACCTCAAAA
1 CATTTAATACTTTAAACTAAATAAAACATCAAAA
3737 CATTTAATACTTTAAACTAAATAAAACATCAA
1 CATTTAATACTTTAAACTAAATAAAACATCAA
3769 TATGGTAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.30
Consensus pattern (34 bp):
CATTTAATACTTTAAACTAAATAAAACATCAAAA
Found at i:12276 original size:31 final size:31
Alignment explanation
Indices: 12241--12301 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
12231 GAGAGTGATG
12241 ATTTTGTTACAAATAGATAATATTAGTGACC
1 ATTTTGTTACAAATAGATAATATTAGTGACC
*
12272 ATTTTGTTATAAATAGATAATATTAGTGAC
1 ATTTTGTTACAAATAGATAATATTAGTGAC
12302 TAATTTGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (31 bp):
ATTTTGTTACAAATAGATAATATTAGTGACC
Found at i:12309 original size:31 final size:31
Alignment explanation
Indices: 12243--12309 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
12233 GAGTGATGAT
*
12243 TTTGTTACAAATAGATAATATTAGTGACCAT
1 TTTGTTACAAATAGATAATATTAGTGACCAA
* *
12274 TTTGTTATAAATAGATAATATTAGTGACTAA
1 TTTGTTACAAATAGATAATATTAGTGACCAA
12305 TTTGT
1 TTTGT
12310 AACTTTTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.43
Consensus pattern (31 bp):
TTTGTTACAAATAGATAATATTAGTGACCAA
Found at i:13682 original size:12 final size:13
Alignment explanation
Indices: 13665--13693 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13655 ACATTGATTG
13665 TAAAATA-TTAAA
1 TAAAATATTTAAA
13677 TAAAATATTTAAA
1 TAAAATATTTAAA
13690 TAAA
1 TAAA
13694 GAATTGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAATATTTAAA
Found at i:23392 original size:653 final size:652
Alignment explanation
Indices: 22090--24689 Score: 4483
Period size: 653 Copynumber: 4.0 Consensus size: 652
22080 TATGTAGATA
*
22090 CTGACTTAGCCGGAAATGTTGACATCAGAAGGAGCACTACA-GG---G----TA-TCTAGGAGGA
1 CTGACTTAGCCGGAAATATTGACATCAGAAGGAGCACTACAGGGTATGTCTATACTCTAGGAGGA
* *
22146 ACCGCAGTGAGTTAGGTTTCTCAACTACGGAAGATAGTTGCTCTCTCCACAACTGAAGAAGAATA
66 ACCGCAGTGAGTTGGGTTTCTCAACTACAGAAGATAGTTGCTCTCTCCACAACTGAAGAAGAATA
* * * *
22211 TGTCGCTGTTACGGAAGCCAACAATGAGATGGTTTGGCTCCAAAGTTTCTTGGAAGAGTTAAGCA
131 TGTCGCTGTTACGGAAGCCAACAAGGAGATAGTTTGGCTCCAAAGTTTCTTGGAATAGTTAGGCA
*
22276 AGAAACAAGAAAACAATGTCTTATATTATGACGGTCAAAGTGTTATACATCTAGCGAAGAATCCG
196 AGAAACAAGAAAACAATGTCTTATATTATGACAGTCAAAGTGTTATACATCTAGCGAAGAATCCG
22341 TCTTTT-ATTCCAGAACGAAGCACATACAATTAAGATATCATTTTATCTGGTCTCTTCTGGAAGA
261 TCTTTTCATTCCAGAACGAAGCACATACAATTAAGATATCATTTTATCTGGTCTCTTCTGGAAGA
* * * *
22405 TGTGATTTTGAAACTTGAAAAGATTAGTGGAGCTCAAAATCTGGTAGACATGTTAACAAAGACGG
326 TGGGATTTTGAAACTTGAAAAGATTAGTGGAACTCAAAATCCGGCAGACATGTTAACAAAGACGG
22470 TGACTAC-AGACAAACTGAAGTTGTGTTCAGCTTCAGTTGGCATGCTAGATTAACAATACCATAA
391 TGACTACGA-ACAAACTGAAGTTGTGTTCAGCTTCAGTTGGCATGCTAGATTAACAATACCATAA
*
22534 ATGATGTTGCATTGATCGAGGTGTGAAGACAGATTAAAATCAGTCTTCAATTGGGAGATTGTTGG
455 ATGATGTTGCATTGATCGAGGTGTGAAGACAGATTAAAATCAGT-TTCAAGTGGGAGATTGTTGG
* * *
22599 TCAAAAATAGATGCTAGCAGCAGGCGGCTGCTTAAAATTCAGAGGTGGGCTGCCTAATTTTGTTG
519 TCAAAAATAGATGCTAGCAGCCGGTGGCTGCTTAAAATTCAAAGGTGGGCTGCCTAATTTTGTTG
*
22664 AAAAATAGCTTGGGAATATTGCACTTTAGTCCCTATATTTTAGGGTATTTTCAAAGATTAGTCCT
584 AAAAATAGCTTGGGAATATTGCACTTTAGTCCCTACATTTTAGGGTATTTTCAAAGATTAGTCCT
*
22729 TAAT
649 TAAG
* *
22733 CTGACTTAGCCGGAAATATTGATATCAGAATGAGCACTACAGGGTATGTCTATACTCTAGGAGGA
1 CTGACTTAGCCGGAAATATTGACATCAGAAGGAGCACTACAGGGTATGTCTATACTCTAGGAGGA
*
22798 ACCGCAGTGAGTTGGGTTTCTCAACTACAGAAGATAGTTACTCTCTCCACAACTGAAGAAGAATA
66 ACCGCAGTGAGTTGGGTTTCTCAACTACAGAAGATAGTTGCTCTCTCCACAACTGAAGAAGAATA
22863 TGTCGCTGTTACGGAAGCCAACAAGGAGATAGTTTGGCTCCAAAGTTTCTTGGAATAGTTAGGCA
131 TGTCGCTGTTACGGAAGCCAACAAGGAGATAGTTTGGCTCCAAAGTTTCTTGGAATAGTTAGGCA
* * * *
22928 AGAAACAAGAAAACAATGTCTTATATTATGTCAGTCAAAGTGTTATATATCTAGCGAACAATCCA
196 AGAAACAAGAAAACAATGTCTTATATTATGACAGTCAAAGTGTTATACATCTAGCGAAGAATCCG
*
22993 TCTTTTCATTCCAGAACGAAGCACATACAATTAAGATATCATTTTATCTGGTCTCTTCTGGAAGT
261 TCTTTTCATTCCAGAACGAAGCACATACAATTAAGATATCATTTTATCTGGTCTCTTCTGGAAGA
* **
23058 TGGGATTTTGAAACTTCAAAAGATTAGTGGAACTCAAAATCCGGCAGACATGTTAACAAAGATAG
326 TGGGATTTTGAAACTTGAAAAGATTAGTGGAACTCAAAATCCGGCAGACATGTTAACAAAGACGG
*
23123 TGACTACGAACAAACTAAAGTTGTGTTCAGCTTCAGTTGGCATGCTAGATTAACAATACCATAAA
391 TGACTACGAACAAACTGAAGTTGTGTTCAGCTTCAGTTGGCATGCTAGATTAACAATACCATAAA
*
23188 TGATGTTGCATTGATCGAGGTGTGAAAACAGATTAAAATCAGTCTTCAAGTGGGAGATTGTTGGT
456 TGATGTTGCATTGATCGAGGTGTGAAGACAGATTAAAATCAGT-TTCAAGTGGGAGATTGTTGGT
**
23253 CAAAAATAGATGCTAGCAGCCGGCT-GCTGCTTAAAATTCTGAGGTGGGCTGCCTAATTTTGTTG
520 CAAAAATAGATGCTAGCAGCCGG-TGGCTGCTTAAAATTCAAAGGTGGGCTGCCTAATTTTGTTG
* * *
23317 AAAAATAGCTTGGGAATATTACACTTTAGTCCCTGCATTTTAGGGTATTTTCAAAGATTAGTACT
584 AAAAATAGCTTGGGAATATTGCACTTTAGTCCCTACATTTTAGGGTATTTTCAAAGATTAGTCCT
23382 TAAG
649 TAAG
* *
23386 CTGACTTAGCCGAAAATGTTGACATCAGAAGGAGCACTACAGGGTATGTCTATACTCTAGGAGGA
1 CTGACTTAGCCGGAAATATTGACATCAGAAGGAGCACTACAGGGTATGTCTATACTCTAGGAGGA
*
23451 ACCGCAGTGAGTTGAGTTTCTCAACTACAGAAGATAGTTGCTCTCTCCACAACTGAAGAAGAATA
66 ACCGCAGTGAGTTGGGTTTCTCAACTACAGAAGATAGTTGCTCTCTCCACAACTGAAGAAGAATA
*
23516 --T-ACTGTTACGGAAGCCAACAAGGAGATAGTTTGGCTCCAAAGTTTCTTGGAATAGTTAGGCA
131 TGTCGCTGTTACGGAAGCCAACAAGGAGATAGTTTGGCTCCAAAGTTTCTTGGAATAGTTAGGCA
* *
23578 AGAAACAAGAAAATAATGTCTTATATTGTGACAGTCAAAGTGTTATACATCTAGCGAAGAATCCG
196 AGAAACAAGAAAACAATGTCTTATATTATGACAGTCAAAGTGTTATACATCTAGCGAAGAATCCG
23643 TCTTTTCATTCCAGAACGAAGCACATACAATTAAGATATCATTTTATCTGGTCTCTTCTGGAAGA
261 TCTTTTCATTCCAGAACGAAGCACATACAATTAAGATATCATTTTATCTGGTCTCTTCTGGAAGA
* * *
23708 TGGGATTTTGAAACTTGAAAAGATTAGTGGAGCTCAAAATCCGACAGACATGTTAACAAAGACGA
326 TGGGATTTTGAAACTTGAAAAGATTAGTGGAACTCAAAATCCGGCAGACATGTTAACAAAGACGG
* *
23773 TGACTACGGACAAACTGAAGTTGTGTTTAGCTTCAGTTGGCATGCTAGATTAACAATACCATAAA
391 TGACTACGAACAAACTGAAGTTGTGTTCAGCTTCAGTTGGCATGCTAGATTAACAATACCATAAA
*
23838 TGATGTTGTATTGATCGAGGTGTGAAGACAGATTAAAATCAGTTTCAAGTGGGAGATTGTTGGTC
456 TGATGTTGCATTGATCGAGGTGTGAAGACAGATTAAAATCAGTTTCAAGTGGGAGATTGTTGGTC
* *
23903 AAAAATAGATGCTAGCAGCTGGTGGCTGCTTAAAATTCAAAGGTGGGTTGCCTAATTTTGTTGAA
521 AAAAATAGATGCTAGCAGCCGGTGGCTGCTTAAAATTCAAAGGTGGGCTGCCTAATTTTGTTGAA
* *
23968 AAATAGCTTGGGAATATTGCACTTTAGTCCCTATATTTTAGGATATTTTCAAAGATTAGTCCTTA
586 AAATAGCTTGGGAATATTGCACTTTAGTCCCTACATTTTAGGGTATTTTCAAAGATTAGTCCTTA
24033 AG
651 AG
* *
24035 CTGACTTAGCCGGAAATATTGACATCAGAAGGAGAACTACAAGGTATGTCTATACTCTAGGAGGA
1 CTGACTTAGCCGGAAATATTGACATCAGAAGGAGCACTACAGGGTATGTCTATACTCTAGGAGGA
*
24100 ACCGCAGTGAGCTGGGTTTCTCAACTACAGAAGATAGTTGCTCTCTCCACAACTGAAGAAGAATA
66 ACCGCAGTGAGTTGGGTTTCTCAACTACAGAAGATAGTTGCTCTCTCCACAACTGAAGAAGAATA
24165 TGTCGCTGTTACGGAAGCCAACAAGGAGATAGTTTGGCTCCAAAGTTTCTTGGAATAGTTAGGCA
131 TGTCGCTGTTACGGAAGCCAACAAGGAGATAGTTTGGCTCCAAAGTTTCTTGGAATAGTTAGGCA
* * * *
24230 AGAAACAAAAAAAATAATGTTTTATATTGTGACAGTCAAAGTGTTATACATCTAGCGAAGAATCC
196 AGAAAC-AAGAAAACAATGTCTTATATTATGACAGTCAAAGTGTTATACATCTAGCGAAGAATCC
24295 GTCTTTTCATTCCAGAACGAAGCACATACAATTAAGATATCATTTTATCTGGTCTCTTCTGGAAG
260 GTCTTTTCATTCCAGAACGAAGCACATACAATTAAGATATCATTTTATCTGGTCTCTTCTGGAAG
* *
24360 ATGGGATTTTGAAACTTGAAAAGATTAGTGGAACTCAAAATTCGGCAGATATGTTAACAAAGACG
325 ATGGGATTTTGAAACTTGAAAAGATTAGTGGAACTCAAAATCCGGCAGACATGTTAACAAAGACG
*
24425 GTGACTACGGACAAACTGAAGTTGTGTTCAGCTTCAGTTGGCATGCTAGATTAACAATACCATAA
390 GTGACTACGAACAAACTGAAGTTGTGTTCAGCTTCAGTTGGCATGCTAGATTAACAATACCATAA
24490 ATGATGTTGCATTGATCGAGGTGTGAAGACAGATTAAAATCAGTTTCAAGTGGGAGATTGTTGGT
455 ATGATGTTGCATTGATCGAGGTGTGAAGACAGATTAAAATCAGTTTCAAGTGGGAGATTGTTGGT
*
24555 CAAAAATAGATGCTAGTAGCCGGTGGCTGCTTAAAATTCAAAGGTGGGCTGCCTAATTTTGTTGA
520 CAAAAATAGATGCTAGCAGCCGGTGGCTGCTTAAAATTCAAAGGTGGGCTGCCTAATTTTGTTGA
24620 AAAATAGCTTGGGAATATTGCACTTTAGTCCCTACATTTTAGGGTATTTTCAAAGATTAGTCCTT
585 AAAATAGCTTGGGAATATTGCACTTTAGTCCCTACATTTTAGGGTATTTTCAAAGATTAGTCCTT
24685 AAG
650 AAG
24688 CT
1 CT
24690 TCAACTATAA
Statistics
Matches: 1851, Mismatches: 89, Indels: 24
0.94 0.05 0.01
Matches are distributed among these distances:
643 38 0.02
644 2 0.00
647 1 0.00
648 1 0.00
649 267 0.14
650 345 0.19
651 4 0.00
652 265 0.14
653 927 0.50
654 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (652 bp):
CTGACTTAGCCGGAAATATTGACATCAGAAGGAGCACTACAGGGTATGTCTATACTCTAGGAGGA
ACCGCAGTGAGTTGGGTTTCTCAACTACAGAAGATAGTTGCTCTCTCCACAACTGAAGAAGAATA
TGTCGCTGTTACGGAAGCCAACAAGGAGATAGTTTGGCTCCAAAGTTTCTTGGAATAGTTAGGCA
AGAAACAAGAAAACAATGTCTTATATTATGACAGTCAAAGTGTTATACATCTAGCGAAGAATCCG
TCTTTTCATTCCAGAACGAAGCACATACAATTAAGATATCATTTTATCTGGTCTCTTCTGGAAGA
TGGGATTTTGAAACTTGAAAAGATTAGTGGAACTCAAAATCCGGCAGACATGTTAACAAAGACGG
TGACTACGAACAAACTGAAGTTGTGTTCAGCTTCAGTTGGCATGCTAGATTAACAATACCATAAA
TGATGTTGCATTGATCGAGGTGTGAAGACAGATTAAAATCAGTTTCAAGTGGGAGATTGTTGGTC
AAAAATAGATGCTAGCAGCCGGTGGCTGCTTAAAATTCAAAGGTGGGCTGCCTAATTTTGTTGAA
AAATAGCTTGGGAATATTGCACTTTAGTCCCTACATTTTAGGGTATTTTCAAAGATTAGTCCTTA
AG
Found at i:26007 original size:182 final size:182
Alignment explanation
Indices: 25692--26161 Score: 699
Period size: 182 Copynumber: 2.6 Consensus size: 182
25682 CTTGTCGGTT
* * * * * * *
25692 TGTATCGATCCATATCAATATAACAGGTAAAAATATCGATAAAACCGGTCA-CGAAAAGACAATA
1 TGTATCGATCCACAACGATATAACAAGTAAAAATAT-GATAAAACCGGT-ATCGAAATGATAAAA
* *
25756 CCGGTAAAGCCCTACCGGATATATTGAACGTGTCGATACTTTAATATAAGGATCGACACTTTATG
64 CCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTTATG
*
25821 AATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACTTTATAAAAA
129 AATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCAATACTTTATAAAAA
* * *
25875 TTTATCGATCCACAACGATATAACAAGTAAAAATATGATAAAATCGGTATCGAATTGATAAAACC
1 TGTATCGATCCACAACGATATAACAAGTAAAAATATGATAAAACCGGTATCGAAATGATAAAACC
* * * * * *
25940 GGTAAAGCGCTACTGAATATATTTAAAGTGTCGGTACTTTAATATAAGTATCGACACTTTGTGAA
66 GGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTTATGAA
*
26005 TTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCAATACTTTATAAAAA
131 TTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCAATACTTTATAAAAA
* * *
26057 TGTATCGATCCACAACGATATAATAAGTAAAAATATGATAAAACCAGTATCAAAATGATAAAACC
1 TGTATCGATCCACAACGATATAACAAGTAAAAATATGATAAAACCGGTATCGAAATGATAAAACC
*
26122 GGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACTTT
66 GGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTT
26162 CATAAGTACA
Statistics
Matches: 255, Mismatches: 31, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
181 1 0.00
182 223 0.87
183 31 0.12
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (182 bp):
TGTATCGATCCACAACGATATAACAAGTAAAAATATGATAAAACCGGTATCGAAATGATAAAACC
GGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTTATGAA
TTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCAATACTTTATAAAAA
Found at i:26105 original size:20 final size:19
Alignment explanation
Indices: 26082--26127 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
26072 CGATATAATA
26082 AGTAAAAATATGATAAAACC
1 AGTAAAAA-ATGATAAAACC
*
26102 AGTATCAAAATGATAAAACC
1 AGTA-AAAAATGATAAAACC
*
26122 GGTAAA
1 AGTAAA
26128 GAGCTACCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.57, C:0.11, G:0.13, T:0.20
Consensus pattern (19 bp):
AGTAAAAAATGATAAAACC
Found at i:28460 original size:33 final size:33
Alignment explanation
Indices: 28423--28488 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
28413 AAATAGATGG
*
28423 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
*
28456 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
28489 CCTTAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:31003 original size:201 final size:202
Alignment explanation
Indices: 30570--31092 Score: 931
Period size: 201 Copynumber: 2.6 Consensus size: 202
30560 AGGTAAAATT
* * *
30570 TATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTTAATGTAGCAAG
1 TATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACAGG
*
30635 TATAAATATATCGGTTTTATGAGAGAATATGTCTACAACATGTATCGACACTTTTTTTAATTTTG
66 TATAAATATATCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTTAATTTTG
* *
30700 TGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAATCATAAAGTGTCTATACATTTA
131 TGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTGTCAATACATTTA
30765 TAAAAAG
196 TAAAAAG
*
30772 TATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
1 TATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACAGG
*
30837 TATAAATATATCGGTTTTATGAGAGAATAGGTCTAGAACATGTATCGACACTTTTTTT-ATTTTG
66 TATAAATATATCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTTAATTTTG
*
30901 TGTCGATACTTTTGGTCTAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTGTCAATACATTTA
131 TGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTGTCAATACATTTA
30966 TAAAAAG
196 TAAAAAG
* *
30973 TATCGATCCCAGAAACATCGAAACCCATAAGTATAATATAATAGGTAAATTTTCAATGTAACAGA
1 TATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACAGG
*
31038 TATAAATATAGCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTT
66 TATAAATATATCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTT
31093 GAATTTTCTA
Statistics
Matches: 307, Mismatches: 14, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
201 190 0.62
202 117 0.38
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (202 bp):
TATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACAGG
TATAAATATATCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTTAATTTTG
TGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTGTCAATACATTTA
TAAAAAG
Found at i:34386 original size:200 final size:199
Alignment explanation
Indices: 34126--34676 Score: 755
Period size: 200 Copynumber: 2.7 Consensus size: 199
34116 CTGTAGATCC
* *
34126 AAAAGGGTTGCACGCATAAAGTTTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAA
1 AAAAGGG-TGAACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGAT-CCAAAAACATCGAAA
** * *
34191 CCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATACATATACCAGTTTTATGAG
64 CCCATAATTATAATGTAATAGGTAATTTTACAATATAACCGGTATAAATATACCGGTTTTATGAG
*
34256 AGAATAGGTCTATAATATGTAACAACAATTCTT-AATATTGTGTCGATAATTTTTGTCCAGAATG
129 AGAATAGGTCTATAACATGTAACAACAATTCTTAAAT-TTGTGTCGATAATTTTTGTCCAGAATG
34320 GATGCCA
193 GATGCCA
* *
34327 AAAAGGGTGAACGCATAAAGTGTCGATATATTT-TCAAAAAGTGTCGATCTCAAAAACATCGAAA
1 AAAAGGGTGAACGCATAAAGTGTCGATACATTTAT-TAAAAGTGTCGATC-CAAAAACATCGAAA
* * *
34391 CCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACGGGTTTTATGAG
64 CCCATAATTATAATGTAATAGGTAATTTTACAATATAACCGGTATAAATATACCGGTTTTATGAG
* * * * * * * *
34456 AGAATAGGTCTATAACATGTAGCGACACTTGTTAAATTTGTGTCGATACTTTTTTTCCAGTATGT
129 AGAATAGGTCTATAACATGTAACAACAATTCTTAAATTTGTGTCGATAATTTTTGTCCAGAATGG
34521 ATGCCA
194 ATGCCA
* * * * *
34527 AAAAGGATTAACGCACAATGTGTCGATACATTTATTAAAAGTGTCGATACCGAAAACATCGAAAC
1 AAAAGGGTGAACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGAT-CCAAAAACATCGAAAC
* * * * *
34592 CCATAATTTTAATGTAATAGGTAATTTTACAATATAATCAGTATAAATATATCGGTTTTATAAGA
65 CCATAATTATAATGTAATAGGTAATTTTACAATATAACCGGTATAAATATACCGGTTTTATGAGA
*
34657 GAATAGGTCTACAACATGTA
130 GAATAGGTCTATAACATGTA
34677 TCGACACTTT
Statistics
Matches: 309, Mismatches: 36, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
199 2 0.01
200 295 0.95
201 12 0.04
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (199 bp):
AAAAGGGTGAACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATCCAAAAACATCGAAACC
CATAATTATAATGTAATAGGTAATTTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAG
AATAGGTCTATAACATGTAACAACAATTCTTAAATTTGTGTCGATAATTTTTGTCCAGAATGGAT
GCCA
Found at i:37752 original size:201 final size:198
Alignment explanation
Indices: 37415--38097 Score: 819
Period size: 201 Copynumber: 3.4 Consensus size: 198
37405 ATTTTCTACA
* * *
37415 AGTATCGA-CCCAAAAAACATCAAAATCAATAATTATAATGTAATAGGTAAATTAATAATGTAAC
1 AGTATCGATCCC-AAAAACATCGAAATCAATAATTATAATGTAATAGGTAAATTTACAATGTAAC
* * **
37479 TGGTATAAATATACCAGTTTTATGAGAAAATAGGTCAGCATCATGTATCGACACTTGTGGAATTT
65 CGGTATAAATATACCA-TTTTATGAGAAAATAGGTCAGCATCAAGTATCGACACTTGTTAAATTT
*
37544 GTGTCGATAC-TTATTGTCCAGAATGAATGCCCAAACGAGGTGCATGCATAAAGTGTCGATACAT
129 GTGTCGATACATT-TTGTCCAGAATGAATGCCC-AACGAGGTGCAAGCATAAAGTGTCGATACAT
37608 TTATTAAA-
192 TTA--AAAT
* *
37616 AGTATCGATCCCAAAAACATCGAAATCGATAATTATAATGTAATAGGTAAATTTATAATGTAACC
1 AGTATCGATCCCAAAAACATCGAAATCAATAATTATAATGTAATAGGTAAATTTACAATGTAACC
* * * *
37681 GATATAAATATACCATTTTCATAAGAAAATAAGTCAGCATCAAGTATCGACACTTGTTAAATTTT
66 GGTATAAATATACCATTTT-ATGAGAAAATAGGTCAGCATCAAGTATCGACACTTGTTAAATTTG
* * * *
37746 TGTCGATACATTTTGTCCATAATGAATGCCTAACGAGGTGCAAGAATAAAGTGTCGATACATGTA
130 TGTCGATACATTTTGTCCAGAATGAATGCCCAACGAGGTGCAAGCATAAAGTGTCGATACATTTA
37811 AAAT
195 AAAT
** * *
37815 TTTATCGATCCCAAAAACATCGAAA-CGAA-AATTACAATGTGATAGGTAAATTTACAATGT-AC
1 AGTATCGATCCCAAAAACATCGAAATC-AATAATTATAATGTAATAGGTAAATTTACAATGTAAC
* * * *
37877 ACGGTATAAATATACCGGTTTTATGAGAAAATAGGCCTA-AAT-AATGTATCAACACTT-TTATA
65 -CGGTATAAATATACC-ATTTTATGAGAAAATAGGTC-AGCATCAA-GTATCGACACTTGTTA-A
*
37939 GTTTGTGTCGATACATTTT-TCCAGAATGAAATAGGAATGCCCAACGAGGTGCAAGCATAAAGTG
125 ATTTGTGTCGATACATTTTGTCC---A-G-AAT--GAATGCCCAACGAGGTGCAAGCATAAAGTG
*
38003 TTGATACATTTAAAAT
183 TCGATACATTTAAAAT
** * * *
38019 TCTATCGATCCAAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTTACC
1 AGTATCGATCCCAAAAACATCGAAATCAATAATTATAATGTAATAGGTAAATTTACAATGTAACC
38084 GGTATAAATATACC
66 GGTATAAATATACC
38098 GGTTTACTTC
Statistics
Matches: 422, Mismatches: 40, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
197 10 0.02
198 89 0.21
199 29 0.07
200 36 0.09
201 136 0.32
202 8 0.02
204 67 0.16
205 45 0.11
206 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (198 bp):
AGTATCGATCCCAAAAACATCGAAATCAATAATTATAATGTAATAGGTAAATTTACAATGTAACC
GGTATAAATATACCATTTTATGAGAAAATAGGTCAGCATCAAGTATCGACACTTGTTAAATTTGT
GTCGATACATTTTGTCCAGAATGAATGCCCAACGAGGTGCAAGCATAAAGTGTCGATACATTTAA
AAT
Found at i:38219 original size:89 final size:87
Alignment explanation
Indices: 38120--38282 Score: 254
Period size: 89 Copynumber: 1.9 Consensus size: 87
38110 AAATAGGTCA
**
38120 ATATAAGCGCTACCTATTACATTATATAAGAGCTGTCTAATATATGTTATTGTACTTGATAATAT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATA--TTATTGTACTTGATAATAT
*
38185 TTCCTGTTAAATGTCTATTTTATT
64 TTCCGGTTAAATGTCTATTTTATT
* * *
38209 ATATAAGCGCTACCTATTTCATTATATAAGCGTTACCTAATATATTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATATTATTGTACTTGATAATATTT
38274 CCGGTTAAA
66 CCGGTTAAA
38283 GGATATAACA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
87 29 0.43
89 39 0.57
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATATTATTGTACTTGATAATATTT
CCGGTTAAATGTCTATTTTATT
Found at i:38225 original size:23 final size:23
Alignment explanation
Indices: 38199--38256 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
38189 TGTTAAATGT
38199 CTATTTTATTATATAAGCGCTAC
1 CTATTTTATTATATAAGCGCTAC
* *
38222 CTATTTCATTATATAAGCGTTAC
1 CTATTTTATTATATAAGCGCTAC
* *
38245 CTAATATATTAT
1 CTATTTTATTAT
38257 TGTACTTGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.45
Consensus pattern (23 bp):
CTATTTTATTATATAAGCGCTAC
Found at i:39185 original size:7 final size:7
Alignment explanation
Indices: 39175--39218 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
39165 TAGTTGAAGG
39175 CTTTCTT
1 CTTTCTT
39182 CTTTCTT
1 CTTTCTT
39189 CTTTCTT
1 CTTTCTT
39196 CTTTCTT
1 CTTTCTT
39203 CTTTCTT
1 CTTTCTT
39210 CTTTCTT
1 CTTTCTT
39217 CT
1 CT
39219 AATGCATGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (7 bp):
CTTTCTT
Found at i:43799 original size:5 final size:5
Alignment explanation
Indices: 43789--43846 Score: 100
Period size: 5 Copynumber: 11.8 Consensus size: 5
43779 ACACACACAT
*
43789 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATA
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
43839 AT-TC ATAT
1 ATATC ATAT
43847 AACAATATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
4 3 0.06
5 47 0.94
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:44894 original size:24 final size:20
Alignment explanation
Indices: 44840--44897 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
44830 TTCCCCTTGA
44840 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
*
44860 AATGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
44883 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
44898 CTACCCATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 3 0.09
24 12 0.38
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:47091 original size:100 final size:98
Alignment explanation
Indices: 46974--47161 Score: 308
Period size: 100 Copynumber: 1.9 Consensus size: 98
46964 CCTTCGGGAC
*
46974 ATGTATTCTTGGAACATGTGTAAAGTCTGGTGAGACA-ATACTTGATCCTTGGCATATGTATATG
1 ATGTATTCTTGGAACATGTGTAAAGTCTGG-GAGACACATACTTGATCATTGGC--ATGTATATG
47038 ATTCTTAAGG-ATGATATGTGGTCCTCGGGACATAT
63 ATTCTTAAGGAATGATATGTGGTCCTCGGGACATAT
*
47073 ATGTATTCTTTGGAACATGTGTGAAGTCTGGGAGACACATACTTGATCATTGGCATGTATATGAT
1 ATGTATTC-TTGGAACATGTGTAAAGTCTGGGAGACACATACTTGATCATTGGCATGTATATGAT
47138 TCTTAAGGAATGATATGTGGTCCT
65 TCTTAAGGAATGATATGTGGTCCT
47162 TATGGACATT
Statistics
Matches: 84, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
98 19 0.23
99 29 0.35
100 36 0.43
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (98 bp):
ATGTATTCTTGGAACATGTGTAAAGTCTGGGAGACACATACTTGATCATTGGCATGTATATGATT
CTTAAGGAATGATATGTGGTCCTCGGGACATAT
Found at i:47226 original size:23 final size:23
Alignment explanation
Indices: 47175--47237 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
47165 GGACATTATA
47175 TGGCACTACGGTTGCAACACTACG
1 TGGCACTACGG-TGCAACACTACG
* ** *
47199 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAACACTACG
*
47222 TGGCACTTCGGGTGCA
1 TGGCACTAC-GGTGCA
47238 TTTATATGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 16 0.50
24 16 0.50
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.24
Consensus pattern (23 bp):
TGGCACTACGGTGCAACACTACG
Found at i:47245 original size:24 final size:23
Alignment explanation
Indices: 47200--47245 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
47190 AACACTACGC
*
47200 GGCACTACGGTGCAATTCTATGT
1 GGCACTACGGTGCAATTATATGT
* *
47223 GGCACTTCGGGTGCATTTATATG
1 GGCACTAC-GGTGCAATTATATG
47246 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATATGT
Found at i:50922 original size:21 final size:20
Alignment explanation
Indices: 50896--50939 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
50886 GATTTCTGGG
* *
50896 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCC-TT
50917 CAAGGGGAACCGATACCCTT
1 CAAGGGGAACCGATACCCTT
50937 CAA
1 CAA
50940 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (20 bp):
CAAGGGGAACCGATACCCTT
Found at i:63238 original size:30 final size:31
Alignment explanation
Indices: 63204--63270 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
63194 TTATCCATTT
*
63204 GATTTTGATTATCGAT-TAAAAATGATTTTC
1 GATTTTGATTATCGATAAAAAAATGATTTTC
63234 GATTTTGATTATCGATAAAAAAATGATTTTC
1 GATTTTGATTATCGATAAAAAAATGATTTTC
63265 GATTTT
1 GATTTT
63271 TACGTAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 16 0.46
31 19 0.54
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.46
Consensus pattern (31 bp):
GATTTTGATTATCGATAAAAAAATGATTTTC
Found at i:68965 original size:45 final size:45
Alignment explanation
Indices: 68841--68980 Score: 138
Period size: 45 Copynumber: 3.1 Consensus size: 45
68831 ATGTGAACAA
* * * * * *
68841 GATATAAGATATGTGATATTGACCTATGTGATTACATGAGAATAT
1 GATATAAGCTACGTGATATAGACCTATGTGATTATATGAAAATGT
* * * * *
68886 GATATAAGCTATGTGTTATTGACCTAAGCGATTATATGAAAATGT
1 GATATAAGCTACGTGATATAGACCTATGTGATTATATGAAAATGT
* * *
68931 GATATAAGGTACGTGATA-AGAACCTATGTGATTATATGTATATGT
1 GATATAAGCTACGTGATATAG-ACCTATGTGATTATATGAAAATGT
68976 GATAT
1 GATAT
68981 TGAACTACGT
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
44 1 0.01
45 78 0.99
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (45 bp):
GATATAAGCTACGTGATATAGACCTATGTGATTATATGAAAATGT
Found at i:69986 original size:18 final size:18
Alignment explanation
Indices: 69963--70003 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
69953 CATTTTATTA
*
69963 CAAATATATGTTTAAATT
1 CAAATATAAGTTTAAATT
69981 CAAATATAAGTTTAAATT
1 CAAATATAAGTTTAAATT
69999 CAAAT
1 CAAAT
70004 TCAACTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (18 bp):
CAAATATAAGTTTAAATT
Found at i:77208 original size:11 final size:11
Alignment explanation
Indices: 77189--77245 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
77179 ATATACAAAT
*
77189 TTTTGAAAACG
1 TTTTAAAAACG
*
77200 TTTTAAAAATG
1 TTTTAAAAACG
77211 TTTTTAAAAACG
1 -TTTTAAAAACG
* *
77223 TGTTTCAAAATG
1 T-TTTAAAAACG
77235 TTTTCAAAAAC
1 TTTT-AAAAAC
77246 TATATATTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
11 13 0.36
12 23 0.64
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (11 bp):
TTTTAAAAACG
Found at i:77215 original size:12 final size:12
Alignment explanation
Indices: 77200--77244 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
77190 TTTGAAAACG
77200 TTTTAAAAATGT
1 TTTTAAAAATGT
*
77212 TTTTAAAAACGT
1 TTTTAAAAATGT
* *
77224 GTTTCAAAATGT
1 TTTTAAAAATGT
*
77236 TTTCAAAAA
1 TTTTAAAAA
77245 CTATATATTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (12 bp):
TTTTAAAAATGT
Found at i:77232 original size:24 final size:23
Alignment explanation
Indices: 77188--77245 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 23
77178 CATATACAAA
*
77188 TTTTTGAAAACGTTTTAAAAATG
1 TTTTTAAAAACGTTTTAAAAATG
*
77211 TTTTTAAAAACGTGTTTCAAAATG
1 TTTTTAAAAACGT-TTTAAAAATG
*
77235 TTTTCAAAAAC
1 TTTTTAAAAAC
77246 TATATATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (23 bp):
TTTTTAAAAACGTTTTAAAAATG
Found at i:77315 original size:36 final size:36
Alignment explanation
Indices: 77225--77480 Score: 282
Period size: 36 Copynumber: 6.9 Consensus size: 36
77215 TAAAAACGTG
*
77225 TTTCAAAATGTTTTCAAAAACTATATATTATATATGTGT
1 TTTCAAAATGTTTTC-AAAACTATATATTATATA--TAT
* * * *
77264 TTTCAAAATGCTTTCAAAACCATATATTATACACAT
1 TTTCAAAATGTTTTCAAAACTATATATTATATATAT
77300 TTTCAAAATGTTTTCAAAACTATATAATATATATATAT
1 TTTCAAAATGTTTTCAAAACTATAT-AT-TATATATAT
* * * *
77338 TCTAAAAATGTTTTCAAAAATTATATATCATATATA-
1 TTTCAAAATGTTTTC-AAAACTATATATTATATATAT
*
77374 TTTCAAAATGTTTTCAAAACCATATGA-TATATATAT
1 TTTCAAAATGTTTTCAAAACTATAT-ATTATATATAT
* * *
77410 TTTCGAAATGTTTTCAAAACTATATAATATATATTT
1 TTTCAAAATGTTTTCAAAACTATATATTATATATAT
*
77446 TTTCCAAAAATATTTTCAAAAACTATATATTATAT
1 TTT-C-AAAATGTTTTC-AAAACTATATATTATAT
77481 TTTCAAAAAT
Statistics
Matches: 184, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
35 16 0.09
36 72 0.39
37 10 0.05
38 47 0.26
39 39 0.21
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (36 bp):
TTTCAAAATGTTTTCAAAACTATATATTATATATAT
Found at i:77347 original size:74 final size:73
Alignment explanation
Indices: 77225--77480 Score: 284
Period size: 74 Copynumber: 3.5 Consensus size: 73
77215 TAAAAACGTG
* * * *
77225 TTTCAAAATGTTTTCAAAAACTATATATTATATATGTGTTTTCAAAATGCTTTCAAAACCATATA
1 TTTCAAAATGTTTTCAAAAACTATATA--ATATATATATTTTCAAAATGTTTTCAAAACTATATA
* *
77290 TTATACACAT
64 TTATATATAT
* *
77300 TTTCAAAATGTTTTC-AAAACTATATAATATATATATATTCTAAAAATGTTTTCAAAAATTATAT
1 TTTCAAAATGTTTTCAAAAACTATATAATATATATAT-TT-TCAAAATGTTTTC-AAAACTATAT
*
77364 ATCATATATA-
63 ATTATATATAT
* * * *
77374 TTTCAAAATGTTTTC-AAAACCATATGATATATATATTTTCGAAATGTTTTCAAAACTATATAAT
1 TTTCAAAATGTTTTCAAAAACTATATAATATATATATTTTCAAAATGTTTTCAAAACTATATATT
*
77438 ATATATTT
66 ATATATAT
* *
77446 TTTCCAAAAATATTTTCAAAAACTATATATTATAT
1 TTT-C-AAAATGTTTTCAAAAACTATATAATATAT
77481 TTTCAAAAAT
Statistics
Matches: 153, Mismatches: 21, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
71 16 0.10
72 22 0.14
73 5 0.03
74 66 0.43
75 44 0.29
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (73 bp):
TTTCAAAATGTTTTCAAAAACTATATAATATATATATTTTCAAAATGTTTTCAAAACTATATATT
ATATATAT
Found at i:77398 original size:110 final size:108
Alignment explanation
Indices: 77229--77488 Score: 353
Period size: 110 Copynumber: 2.4 Consensus size: 108
77219 AACGTGTTTC
77229 AAAATGTTTTCAAAAACTATATATTATATATGTGTTTTCAAAATGCTTTCAAAACCATAT-ATTA
1 AAAATGTTTTCAAAAACTATATA-TATATA----TTTTCAAAATGCTTTCAAAACCATATGA-TA
*
77293 TACACATTTTCAAAATGTTTTCAAAACTATATAATATATATATATTCTA
60 TACACATTTTCAAAATGTTTTCAAAACTATATAATATATATATATTCCA
* * *
77342 AAAATGTTTTCAAAAATTATATATCATATATATTTCAAAATGTTTTCAAAACCATATGATATATA
1 AAAATGTTTTCAAAAACTATATAT-ATATAT-TTTCAAAATGCTTTCAAAACCATATGATATACA
* * * *
77407 TATTTTCGAAATGTTTTCAAAACTATATAATATATATTTTTTCCA
64 CATTTTCAAAATGTTTTCAAAACTATATAATATATATATATTCCA
*
77452 AAAATATTTTCAAAAACTATATAT-TATATTTTCAAAA
1 AAAATGTTTTCAAAAACTATATATATATATTTTCAAAA
77489 ATCGATTTTT
Statistics
Matches: 134, Mismatches: 10, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
107 8 0.06
108 5 0.04
109 1 0.01
110 91 0.68
111 1 0.01
112 1 0.01
113 27 0.20
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.42
Consensus pattern (108 bp):
AAAATGTTTTCAAAAACTATATATATATATTTTCAAAATGCTTTCAAAACCATATGATATACACA
TTTTCAAAATGTTTTCAAAACTATATAATATATATATATTCCA
Found at i:77508 original size:2 final size:2
Alignment explanation
Indices: 77503--77532 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
77493 ATTTTTTTAA
77503 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
77533 TATGCTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78427 original size:83 final size:85
Alignment explanation
Indices: 78109--78592 Score: 642
Period size: 83 Copynumber: 5.8 Consensus size: 85
78099 CGTTGTCATC
* * *
78109 GAGCTGAATAGG-ATCAAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCATTGAGCTATG
1 GAGCTGAAT-GGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
78173 CTGTAAATTTGATATGCCCTT
65 CTGTAAATTTGATATGCCCTT
* * * *
78194 GAGCTAAATAGAATTGAACTCGAAGGTTTTTGTTTACAGATAGCCCTTCTCGCCTTGA-CGTATG
1 GAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGC-TATG
* *
78258 CT-AAAAATT-ATATGCCCTT
65 CTGTAAATTTGATATGCCCTT
* ** * *
78277 GAGCTGAATGAAATCGAACTTAAAGGTTTTTTGTTGACAGGTAGCCCTTTTCGCCTTGAGCTATG
1 GAGCTGAATGGAATCGAACTCGAAGG-TTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
78342 CTGT-AA-TTGATATGCCCTT
65 CTGTAAATTTGATATGCCCTT
* * * * *
78361 GAGCTAAATGCAATCTAACTCGAAGGTTTTTATTGACAGATAGCTCTTCTCGCCTTGAGCTATGC
1 GAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
78426 TGTAAATTTGATATGCCCTT
66 TGTAAATTTGATATGCCCTT
* *
78446 GAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTC-ACTTGAGCTATGC
1 GAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
** *
78510 TGTAAATTTG-GCTGCCTTT
66 TGTAAATTTGATATGCCCTT
* * *
78529 GAGCTGAATGGAATCAAACTCGAAGGTTTTTGTTGACATATAGCCCTTCTCGCATTGAGCTATG
1 GAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
78593 TTACGAGTTG
Statistics
Matches: 347, Mismatches: 43, Indels: 19
0.85 0.11 0.05
Matches are distributed among these distances:
83 124 0.36
84 109 0.31
85 114 0.33
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (85 bp):
GAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATATGCCCTT
Found at i:79946 original size:14 final size:14
Alignment explanation
Indices: 79923--79962 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
79913 TTCAGCCCCA
79923 AATT-TATTTATTT
1 AATTATATTTATTT
* *
79936 TATTATATTTATAT
1 AATTATATTTATTT
79950 AATTATATTTATT
1 AATTATATTTATT
79963 ATTTAATATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
AATTATATTTATTT
Found at i:85967 original size:36 final size:36
Alignment explanation
Indices: 85911--86142 Score: 242
Period size: 36 Copynumber: 6.4 Consensus size: 36
85901 TTCAAAATAT
*
85911 TATATATTTTCAAAAAGTTTTCAAAATTATATTATA
1 TATATATTTTCAAAATGTTTTCAAAATTATATTATA
*
85947 TATTTATTTTCAAAATGTTTTCAAAAACTATATATTATA
1 TATATATTTTCAAAATGTTTTC-AAAA-T-TATATTATA
* * **
85986 TATGTGTTTTCAAAATGTTTTCAAAACCATA-TAT-
1 TATATATTTTCAAAATGTTTTCAAAATTATATTATA
* *
86020 TATATATATTTCAAAATGTTTTCAAAACTATATAATA
1 TATATAT-TTTCAAAATGTTTTCAAAATTATATTATA
** * *
86057 TATATATTTTTGAAATGTTTTCAAAACTATATAATA
1 TATATATTTTCAAAATGTTTTCAAAATTATATTATA
*
86093 TATATATATTCCAAAAATGTTTTCAAAA--ATGA-TATA
1 TATATAT-TTTC-AAAATGTTTTCAAAATTAT-ATTATA
86129 T-TATATTTTCAAAA
1 TATATATTTTCAAAA
86143 ACCGATTTTT
Statistics
Matches: 170, Mismatches: 17, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
33 4 0.02
34 8 0.05
35 31 0.18
36 65 0.38
37 14 0.08
38 19 0.11
39 29 0.17
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (36 bp):
TATATATTTTCAAAATGTTTTCAAAATTATATTATA
Found at i:86043 original size:110 final size:109
Alignment explanation
Indices: 85907--86143 Score: 311
Period size: 110 Copynumber: 2.2 Consensus size: 109
85897 CATTTTCAAA
* * *
85907 ATATTATATATTTTCAAAAAGTTTTCAAAATTATATTATATATTTATTTTCAAAATGTTTTCAAA
1 ATATTATATATTTTCAAAAAGTTTTCAAAACTATATAATATATATATTTTCAAAATGTTTTC-AA
* * * *
85972 AACTATATATTATATATGTGTTTTC-AAAATGTTTTC-AAAACCAT
65 AACTATATAATATATATAT-ATTCCAAAAATGTTTTCAAAAACCAT
* **
86016 ATATTATATATATTTCAAAATGTTTTCAAAACTATATAATATATATATTTTTGAAATGTTTTCAA
1 ATATTATATAT-TTTCAAAAAGTTTTCAAAACTATATAATATATATATTTTCAAAATGTTTTCAA
**
86081 AACTATATAATATATATATATTCCAAAAATGTTTTCAAAAATGAT
65 AACTATATAATATATATATATTCCAAAAATGTTTTCAAAAACCAT
86126 ATA-T-TATATTTTCAAAAA
1 ATATTATATATTTTCAAAAA
86144 CCGATTTTTT
Statistics
Matches: 112, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
107 8 0.07
108 8 0.07
109 42 0.38
110 54 0.48
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (109 bp):
ATATTATATATTTTCAAAAAGTTTTCAAAACTATATAATATATATATTTTCAAAATGTTTTCAAA
ACTATATAATATATATATATTCCAAAAATGTTTTCAAAAACCAT
Found at i:86163 original size:110 final size:108
Alignment explanation
Indices: 85907--86177 Score: 268
Period size: 110 Copynumber: 2.5 Consensus size: 108
85897 CATTTTCAAA
* ** * *
85907 ATATTATATAT-TTTCAAAAAGTTTTCAAAATTATATTATATATTTATTTTCAAAATGTTTTCAA
1 ATATTATATATATTTCAAAACGTTTTCAAAACAATA-TATATATATATTTTTAAAATGTTTTCAA
* * * *
85971 AAACTATATATTATATATGTGTTTTCAAAATGTTTTCAAAACCAT
65 AAACTATATAATATATATATGATTCCAAAATGTTTTCAAAA-CAT
* * *
86016 ATATTATATATATTTCAAAATGTTTTCAAAACTATATAATATATATATTTTTGAAATGTTTTC-A
1 ATATTATATATATTTCAAAACGTTTTCAAAACAATAT-ATATATATATTTTTAAAATGTTTTCAA
86080 AAACTATATAATATATATAT-ATTCCAAAAATGTTTTCAAAA-AT
65 AAACTATATAATATATATATGATTCC-AAAATGTTTTCAAAACAT
* *
86123 GATA-TAT-TATATTTTCAAAAACCGATTTTTTAAAA-AATATATATTATATGTTTTT
1 -ATATTATATATA-TTTC-AAAA-CG--TTTTCAAAACAATATATA-TATATATTTTT
86178 CAAACCGTTT
Statistics
Matches: 139, Mismatches: 13, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
106 4 0.03
107 9 0.06
108 10 0.07
109 50 0.36
110 58 0.42
111 8 0.06
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.46
Consensus pattern (108 bp):
ATATTATATATATTTCAAAACGTTTTCAAAACAATATATATATATATTTTTAAAATGTTTTCAAA
AACTATATAATATATATATGATTCCAAAATGTTTTCAAAACAT
Found at i:91281 original size:20 final size:20
Alignment explanation
Indices: 91252--91291 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
91242 TATTAGATAG
* *
91252 AAAAACAAATAAATAAAAAT
1 AAAAAAAAATAAAGAAAAAT
*
91272 AAAAAAAAATGAAGAAAAAT
1 AAAAAAAAATAAAGAAAAAT
91292 TAAATAAACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.80, C:0.03, G:0.05, T:0.12
Consensus pattern (20 bp):
AAAAAAAAATAAAGAAAAAT
Found at i:92514 original size:3 final size:3
Alignment explanation
Indices: 92508--92548 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
92498 AAAAATGAAA
92508 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A
92549 TATATATACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:92548 original size:28 final size:28
Alignment explanation
Indices: 92507--92564 Score: 95
Period size: 25 Copynumber: 2.2 Consensus size: 28
92497 AAAAAATGAA
92507 AAATAATAATAATAATA-ATA-ATA-AT
1 AAATAATAATAATAATATATATATACAT
92532 AAATAATAATAATAATATATATATACAT
1 AAATAATAATAATAATATATATATACAT
92560 AAATA
1 AAATA
92565 TTTTCAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 17 0.57
26 3 0.10
27 3 0.10
28 7 0.23
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
AAATAATAATAATAATATATATATACAT
Found at i:92762 original size:71 final size:70
Alignment explanation
Indices: 92612--92869 Score: 334
Period size: 71 Copynumber: 3.7 Consensus size: 70
92602 TTTTTTTCTT
** *
92612 AAACTATATAATATACCAATGTTTTCAACATGTTTTC-AAAATAT-TATAAGTTTTCAAAAACGT
1 AAACTATATAATATATAAATGTTTTCAAAATGTTTTCAAAAATATATATAAGTTTTCAAAAACGT
92675 TTTAA
66 TTTAA
*
92680 AAACTATATAATATATAAATGTTTTCAACATGTTTTCAAAAATATTATATAAGTTTTCAAAAACG
1 AAACTATATAATATATAAATGTTTTCAAAATGTTTTCAAAAATA-TATATAAGTTTTCAAAAACG
92745 TTTTAA
65 TTTTAA
**
92751 AAACTATATAATATATAAATGTTTTCAAAATGTTTTCAAAACTATAATATATGTGTTTTCAAAAA
1 AAACTATATAATATATAAATGTTTTCAAAATGTTTTCAAAA--AT-ATATATAAGTTTTCAAAAA
*
92816 TGTTTTCAA
63 CGTTTT-AA
92825 AAA-T-TAT-ATATAT-AAT-TTTTCAAAATGATTTT-AAAAATTATATAT
1 AAACTATATAATATATAAATGTTTTCAAAATG-TTTTCAAAAA-TATATAT
92870 TATATATATT
Statistics
Matches: 175, Mismatches: 6, Indels: 19
0.88 0.03 0.09
Matches are distributed among these distances:
67 7 0.04
68 36 0.21
69 21 0.12
70 8 0.05
71 70 0.40
72 3 0.02
73 24 0.14
74 6 0.03
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (70 bp):
AAACTATATAATATATAAATGTTTTCAAAATGTTTTCAAAAATATATATAAGTTTTCAAAAACGT
TTTAA
Found at i:92783 original size:11 final size:11
Alignment explanation
Indices: 92767--92791 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
92757 TATAATATAT
92767 AAATGTTTTCA
1 AAATGTTTTCA
92778 AAATGTTTTCA
1 AAATGTTTTCA
92789 AAA
1 AAA
92792 CTATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:92821 original size:12 final size:12
Alignment explanation
Indices: 92804--92828 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92794 ATAATATATG
92804 TGTTTTCAAAAA
1 TGTTTTCAAAAA
92816 TGTTTTCAAAAA
1 TGTTTTCAAAAA
92828 T
1 T
92829 TATATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TGTTTTCAAAAA
Found at i:92863 original size:34 final size:35
Alignment explanation
Indices: 92629--92869 Score: 204
Period size: 34 Copynumber: 6.9 Consensus size: 35
92619 ATAATATACC
* *
92629 AATGTTTTC-AACATGTTTT-CAAA--ATAT-TAT
1 AATGTTTTCAAAAATGTTTTAAAAATTATATATAT
*
92659 AA-GTTTTCAAAAACGTTTTAAAAACTATATAATATAT
1 AATGTTTTCAAAAATGTTTTAAAAA-T-TAT-ATATAT
*
92696 AAATGTTTTC-AACATGTTTTCAAAAA-TAT-TATAT
1 -AATGTTTTCAAAAATGTTTT-AAAAATTATATATAT
*
92730 AA-GTTTTCAAAAACGTTTTAAAAACTATATAATATAT
1 AATGTTTTCAAAAATGTTTTAAAAA-T-TAT-ATATAT
* *
92767 AAATGTTTTC-AAAATGTTTTCAAAACTATA-ATAT
1 -AATGTTTTCAAAAATGTTTTAAAAATTATATATAT
*
92801 ATGTGTTTTCAAAAATGTTTTCAAAAATTATATATAT
1 A-ATGTTTTCAAAAATGTTTT-AAAAATTATATATAT
92838 AAT-TTTTC-AAAATGATTTTAAAAATTATATAT
1 AATGTTTTCAAAAATG-TTTTAAAAATTATATAT
92870 TATATATATT
Statistics
Matches: 173, Mismatches: 14, Indels: 44
0.75 0.06 0.19
Matches are distributed among these distances:
29 6 0.03
30 10 0.06
31 3 0.02
32 11 0.06
33 11 0.06
34 35 0.20
35 25 0.14
36 17 0.10
37 13 0.08
38 25 0.14
39 17 0.10
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (35 bp):
AATGTTTTCAAAAATGTTTTAAAAATTATATATAT
Found at i:92967 original size:18 final size:18
Alignment explanation
Indices: 92944--92990 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
92934 AAAACAATAT
*
92944 TATGTATGTAGT-TTTAAA
1 TATGTATGTA-TATATAAA
*
92962 TATGTATATATATATAAA
1 TATGTATGTATATATAAA
92980 TATGTATGTAT
1 TATGTATGTAT
92991 GTACATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (18 bp):
TATGTATGTATATATAAA
Found at i:93885 original size:166 final size:166
Alignment explanation
Indices: 93500--94317 Score: 1362
Period size: 166 Copynumber: 5.0 Consensus size: 166
93490 CTTGCCATGA
* * * * * *
93500 TAAATGATATGACTTCGAAGTTGAGTGTAATCGAACTCGGGAGTCTTTGGCAGATAGCCCTTCTT
1 TAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTC
* * * *
93565 GACTTAAGTTATACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
66 GACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTGG
* * *
93630 TTGG---CAGATAACCCTTCTTGACTTAAGTTATGCTG
130 -TGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTG
* * *
93665 CAAATGGTGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAACCCTTCTC
1 TAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTC
93730 GACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGGT
66 GACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGGT
93795 GGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTG
131 GGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTG
93831 TAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTC
1 TAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTC
93896 GACTTAAGCTATTCTGTC-AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGG
66 GACTTAAGCTATTCTG-CAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGG
*
93960 TGGTCACAGATAACCCTTCTAGCCTTGAGCTATGCTG
130 TGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTG
*
93997 TAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGTGGGTCTTTGGCAGATAGCCCTTCTC
1 TAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTC
94062 GACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGGT
66 GACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGGT
*
94127 GGTCACAGATAACCCTTCTAGCCTTGAGTTATGTTG
131 GGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTG
94163 TAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTC
1 TAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTC
*
94228 GACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGT
66 GACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGGT
* *
94293 GG---CAGATAGCCCTTCTGGCCTTGAG
131 GGTCACAGATAACCCTTCTAGCCTTGAG
94318 CTAAGCTGCA
Statistics
Matches: 621, Mismatches: 27, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
163 24 0.04
164 4 0.01
165 113 0.18
166 479 0.77
167 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (166 bp):
TAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTC
GACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGGT
GGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTG
Found at i:97554 original size:19 final size:19
Alignment explanation
Indices: 97530--97575 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
97520 AGTTAATGTG
* *
97530 AATGCAGAGAAAATAATAA
1 AATGCAAAGAAAATAAAAA
97549 AATGCAAAGAAAATAAAAA
1 AATGCAAAGAAAATAAAAA
97568 AATGCAAA
1 AATGCAAA
97576 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.67, C:0.07, G:0.13, T:0.13
Consensus pattern (19 bp):
AATGCAAAGAAAATAAAAA
Found at i:99303 original size:20 final size:20
Alignment explanation
Indices: 99274--99313 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
99264 TATTAGATAG
* *
99274 AAAAACAAATAAATAAAAAT
1 AAAAAAAAATAAAGAAAAAT
*
99294 AAAAAAAAATGAAGAAAAAT
1 AAAAAAAAATAAAGAAAAAT
99314 TAAATAAACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.80, C:0.03, G:0.05, T:0.12
Consensus pattern (20 bp):
AAAAAAAAATAAAGAAAAAT
Found at i:100536 original size:3 final size:3
Alignment explanation
Indices: 100530--100572 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
100520 AAAAATGAAA
100530 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
100573 TATATACATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:100726 original size:71 final size:71
Alignment explanation
Indices: 100634--100887 Score: 358
Period size: 71 Copynumber: 3.6 Consensus size: 71
100624 TTTTTTTCTT
** *
100634 AAACTATATAATATACCAATGTTTTCAACATGTTTTCAAAAATATTATATAAGTTTTCAAAAACG
1 AAACTATATAATATATAAATGTTTTCAAAATGTTTTCAAAAATATTATATAAGTTTTCAAAAACG
100699 TTTTAA
66 TTTTAA
*
100705 AAACTATATAATATATAAATGTTTTCAACATGTTTTCAAAAATATTATATAAGTTTTCAAAAACG
1 AAACTATATAATATATAAATGTTTTCAAAATGTTTTCAAAAATATTATATAAGTTTTCAAAAACG
100770 TTTTAA
66 TTTTAA
* **
100776 AAACTATATAATATATAAATGTTTTCAAAATGTTTTCAAAACTATAATATATGTGTTTTCAAAAA
1 AAACTATATAATATATAAATGTTTTCAAAATGTTTTCAAAA--ATATTATATAAGTTTTCAAAAA
*
100841 TGTTTTCAA
64 CGTTTT-AA
100850 AAA-T-TAT-ATATAT-AAT-TTTTCAAAATGATTTT-AAAAAT
1 AAACTATATAATATATAAATGTTTTCAAAATG-TTTTCAAAAAT
100888 TATATATTAT
Statistics
Matches: 172, Mismatches: 7, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
67 2 0.01
69 15 0.09
70 7 0.04
71 115 0.67
72 3 0.02
73 25 0.15
74 5 0.03
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (71 bp):
AAACTATATAATATATAAATGTTTTCAAAATGTTTTCAAAAATATTATATAAGTTTTCAAAAACG
TTTTAA
Found at i:100808 original size:11 final size:11
Alignment explanation
Indices: 100792--100816 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
100782 TATAATATAT
100792 AAATGTTTTCA
1 AAATGTTTTCA
100803 AAATGTTTTCA
1 AAATGTTTTCA
100814 AAA
1 AAA
100817 CTATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:100846 original size:12 final size:12
Alignment explanation
Indices: 100829--100853 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100819 ATAATATATG
100829 TGTTTTCAAAAA
1 TGTTTTCAAAAA
100841 TGTTTTCAAAAA
1 TGTTTTCAAAAA
100853 T
1 T
100854 TATATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TGTTTTCAAAAA
Found at i:100882 original size:108 final size:107
Alignment explanation
Indices: 100679--100918 Score: 285
Period size: 108 Copynumber: 2.2 Consensus size: 107
100669 TCAAAAATAT
*
100679 TATAT-AA-GTTTTCAAAAACGTTTTAAAAACTATATAATATATAAATGTTTTCAACATGTTTTC
1 TATATAAATGTTTTC-AAAACGTTTTAAAAAC-ATATAATATAT-AATGTTTTCAAAATGTTTTC
100742 AAAAATATTATATAAGTTTTCAAAAACGTTTTAAAAACTATATAA
63 AAAAATATTATATAAGTTTTCAAAAACGTTTTAAAAACTATATAA
* * *
100787 TATATAAATGTTTTCAAAATGTTTTCAAAAC-TATAATATAT-GTGTTTTCAAAAATGTTTTCAA
1 TATATAAATGTTTTCAAAACGTTTTAAAAACATATAATATATAATGTTTTC-AAAATGTTTTCAA
* * * *
100850 AAATTATATATATAATTTTTC-AAAATGATTTTAAAAATTATATAT
65 AAA-TAT-TATATAAGTTTTCAAAAACG-TTTTAAAAACTATATAA
* *
100895 TATATATAT-TTTTTAAAACGTTTT
1 TATATAAATGTTTTCAAAACGTTTT
100919 TTTTTTTAAA
Statistics
Matches: 115, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
105 7 0.06
106 15 0.13
107 31 0.27
108 40 0.35
109 16 0.14
110 6 0.05
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (107 bp):
TATATAAATGTTTTCAAAACGTTTTAAAAACATATAATATATAATGTTTTCAAAATGTTTTCAAA
AATATTATATAAGTTTTCAAAAACGTTTTAAAAACTATATAA
Found at i:101012 original size:22 final size:22
Alignment explanation
Indices: 100987--101033 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
100977 TGTAGTTTTA
*
100987 AAATATGTATATATATATATAT
1 AAATATGTATATATATACATAT
* *
101009 AAATATGTATGTATGTACATAT
1 AAATATGTATATATATACATAT
101031 AAA
1 AAA
101034 GGAAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (22 bp):
AAATATGTATATATATACATAT
Found at i:101515 original size:23 final size:23
Alignment explanation
Indices: 101487--101544 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
101477 ATCAAGCACA
* * **
101487 ATAATATATTAGGTAGTGTTTAT
1 ATAATATAATAGGTAATACTTAT
101510 ATAATATAATAGGTAATACTTAT
1 ATAATATAATAGGTAATACTTAT
*
101533 ATAATAAAATAG
1 ATAATATAATAG
101545 ACATTTAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAATACTTAT
Found at i:101889 original size:20 final size:20
Alignment explanation
Indices: 101864--101918 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
101854 GGTAGCGCTT
101864 TACCGGTTTTGTCATTTCGA
1 TACCGGTTTTGTCATTTCGA
101884 TACCGGTTTTGTCATTTCGA
1 TACCGGTTTTGTCATTTCGA
*
101904 TATCGGTTTTGTCAT
1 TACCGGTTTTGTCAT
101919 ATTTTTACCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.18, G:0.20, T:0.47
Consensus pattern (20 bp):
TACCGGTTTTGTCATTTCGA
Found at i:102202 original size:182 final size:181
Alignment explanation
Indices: 101884--102502 Score: 793
Period size: 182 Copynumber: 3.4 Consensus size: 181
101874 GTCATTTCGA
* * * *
101884 TACCGGTTTTGTCATTTCGATATCGGTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGA
1 TACCGGTTTTATCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCGA
*
101949 TACATTTTCATAAAGTATCGACACTTTT-TAGGCGCTATAACTTCTTCTCTTTTAAATT-ACGAA
66 TACATTTT-ATAAAGTATCGACA-TTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCA-AAA
*
102012 AGTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGATAGCTTTT
128 AGTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGATAGCTCTT
* * * *
102066 TACCGATTTTATCATTTCGAGA-CTTGTTTTGTTATATTCTTACCTGTTATATTGCTATGGATCG
1 TACCGGTTTTATCATTTCGAGATC-GGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCG
*
102130 ATACATTTGTATAAAATATCGACATTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAA
65 ATACATTT-TATAAAGTATCGACATTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAA
** *
102195 GTGTCGATACTTATATTAACATATCGACACTTTCAATATATCCGGTAGCTCTT
129 GTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGATAGCTCTT
* * * * *
102248 TACCGGTTTTATCATTTCGTGATCGGTTTTGTCATACTTATACATGTTATATTGTTATGGATCGA
1 TACCGGTTTTATCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCGA
* * *
102313 TACGTTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTTCTTCTCTTTTAAATTCCAAAAA
66 TAC-ATTTTATAAAGTATCGACATTTTATAGGCGCTATAACTTCTTCTCTTTTAAATT-CAAAAA
* * * * * **
102378 -TGTTGATACTTAT-TTAAATCTAATCGATACTTTCGATATATCC-AGTAACGGTT
129 GTGTCGATACTTATATT-AAT-TTATCGACACTTTCAATATATCCGA-TAGCTCTT
* * * *
102431 TACCGGTTTTATCATAAT-GAAATCGGTTTTATCATATTTTTACCTGTTATATTGCTATGGAGCG
1 TACCGGTTTTATCAT-TTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCG
102495 ATACATTT
65 ATACATTT
102503 CTCATTTGTA
Statistics
Matches: 379, Mismatches: 47, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
181 7 0.02
182 278 0.73
183 93 0.25
184 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.43
Consensus pattern (181 bp):
TACCGGTTTTATCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCGA
TACATTTTATAAAGTATCGACATTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGT
GTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGATAGCTCTT
Found at i:103073 original size:21 final size:22
Alignment explanation
Indices: 103038--103085 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
103028 ATTGAAAATA
*
103038 TTATTATTTTTTATCGATTTTG
1 TTATTATTTTCTATCGATTTTG
103060 TTATT-TTTTCTATCGATTTTG
1 TTATTATTTTCTATCGATTTTG
103081 TTATT
1 TTATT
103086 GTTAGACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.17, C:0.06, G:0.08, T:0.69
Consensus pattern (22 bp):
TTATTATTTTCTATCGATTTTG
Found at i:103562 original size:22 final size:22
Alignment explanation
Indices: 103534--103577 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
103524 TTTAAGTTGC
103534 GTCCAACCTAAAATATTATGAT
1 GTCCAACCTAAAATATTATGAT
103556 GTCCAACCTAAAATATTATGAT
1 GTCCAACCTAAAATATTATGAT
103578 ATCACATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (22 bp):
GTCCAACCTAAAATATTATGAT
Found at i:105668 original size:22 final size:22
Alignment explanation
Indices: 105623--105715 Score: 98
Period size: 22 Copynumber: 4.3 Consensus size: 22
105613 ATCAATTCGT
* * * *
105623 CATTTAGACCAAGTCCAATAAG
1 CATTCAGACCAATTCCAGTCAG
* *
105645 CATTCAGACGAATTTCAGTCAG
1 CATTCAGACCAATTCCAGTCAG
*
105667 CATTCATACCAATTCCAGTCAG
1 CATTCAGACCAATTCCAGTCAG
* *
105689 CATTCAGACC-AGTCCAGTTAG
1 CATTCAGACCAATTCCAGTCAG
105710 CATTCA
1 CATTCA
105716 TACTAATCAA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
21 15 0.25
22 44 0.75
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (22 bp):
CATTCAGACCAATTCCAGTCAG
Found at i:106026 original size:17 final size:17
Alignment explanation
Indices: 105985--106027 Score: 65
Period size: 14 Copynumber: 2.7 Consensus size: 17
105975 TACAAAAACA
105985 AAACTAGAATCATTAAT
1 AAACTAGAATCATTAAT
106002 -AA--AGAATCATTAAT
1 AAACTAGAATCATTAAT
106016 AAACTAGAATCA
1 AAACTAGAATCA
106028 CTTCCTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 12 0.52
15 2 0.09
16 2 0.09
17 7 0.30
ACGTcount: A:0.56, C:0.12, G:0.07, T:0.26
Consensus pattern (17 bp):
AAACTAGAATCATTAAT
Found at i:112197 original size:21 final size:22
Alignment explanation
Indices: 112148--112198 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
112138 GATACCCCAT
112148 AAGGGAACCGATTCCCCCTTTG
1 AAGGGAACCGATTCCCCCTTTG
112170 AATGGGAACCGATTCCCTCC-TTG
1 AA-GGGAACCGATTCCC-CCTTTG
112193 -AGGGAA
1 AAGGGAA
112199 TCAATACCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 5 0.19
22 3 0.11
23 17 0.63
24 2 0.07
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.22
Consensus pattern (22 bp):
AAGGGAACCGATTCCCCCTTTG
Found at i:115256 original size:23 final size:23
Alignment explanation
Indices: 115229--115292 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
115219 CAGCTCGTAT
*
115229 AATTGCACCAAAGTGCCACATAG
1 AATTGCACCGAAGTGCCACATAG
* * *
115252 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACATAG
*
115275 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
115293 TATAATAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACATAG
Found at i:115918 original size:19 final size:20
Alignment explanation
Indices: 115891--115930 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
115881 TTTTTTTATG
*
115891 GGGGAATCGGTTCCCC-CTA
1 GGGGAATCGATTCCCCTCTA
*
115910 GGGGTATCGATTCCCCTCTA
1 GGGGAATCGATTCCCCTCTA
115930 G
1 G
115931 TATTCTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.25
Consensus pattern (20 bp):
GGGGAATCGATTCCCCTCTA
Found at i:115977 original size:21 final size:21
Alignment explanation
Indices: 115953--115995 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
115943 TCATATTCGT
* *
115953 TTGAGGGGGGATCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
* *
115974 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
115995 T
1 T
115996 AGCCCAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGGACCGATTCCCC
Found at i:119162 original size:19 final size:20
Alignment explanation
Indices: 119125--119162 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
119115 CTTTTTTTTA
*
119125 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
119145 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
119163 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:121284 original size:22 final size:21
Alignment explanation
Indices: 121224--121288 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
121214 TTAATCATAC
*
121224 ATAACTACATATATACTTATAT
1 ATAACTACAT-CATACTTATAT
* *
121246 A-AAC-ACA-CACACATATAT
1 ATAACTACATCATACTTATAT
121264 ATAACATACATCATACTTATAT
1 ATAAC-TACATCATACTTATAT
121286 ATA
1 ATA
121289 CTTACAACAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
18 9 0.26
19 3 0.09
20 3 0.09
21 6 0.18
22 13 0.38
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAACTACATCATACTTATAT
Found at i:121356 original size:24 final size:24
Alignment explanation
Indices: 121317--121378 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
121307 TTTATACATA
*
121317 ATATATAAAATATAAACTATTTAGT
1 ATATAT-AAATATAAACTATATAGT
121342 ATATATAAATATAAACTATATAGT
1 ATATATAAATATAAACTATATAGT
*
121366 ATATA-AATTATAA
1 ATATATAAATATAA
121379 GCATTTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 7 0.20
24 22 0.63
25 6 0.17
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (24 bp):
ATATATAAATATAAACTATATAGT
Found at i:122873 original size:3 final size:3
Alignment explanation
Indices: 122865--122917 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
122855 TTGTTTTTAA
* *
122865 TAT TAT TAT TAA TA- TAT TAT TAT AAT T-T TATT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT -TAT
122910 TAT TAT TA
1 TAT TAT TA
122918 AATAATTACA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
2 4 0.09
3 33 0.77
4 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:122896 original size:25 final size:27
Alignment explanation
Indices: 122862--122915 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
122852 CATTTGTTTT
122862 TAATATTA-TTATTA-ATATATTATTA
1 TAATATTATTTATTATATATATTATTA
*
122887 TAATTTTATTTATTATTATATATTATTA
1 TAATATTATTTATTA-TATATATTATTA
122915 T
1 T
122916 TAAATAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 7 0.28
26 6 0.24
28 12 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TAATATTATTTATTATATATATTATTA
Found at i:122910 original size:10 final size:10
Alignment explanation
Indices: 122868--122915 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
122858 TTTTTAATAT
122868 TATTATTAATA
1 TATTATT-ATA
122879 TATTATTATA
1 TATTATTATA
*
122889 -ATT-TTATT
1 TATTATTATA
122897 TATTATTATA
1 TATTATTATA
122907 TATTATTAT
1 TATTATTAT
122916 TAAATAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
8 4 0.12
9 6 0.18
10 16 0.48
11 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTATTATA
Found at i:125933 original size:13 final size:13
Alignment explanation
Indices: 125915--125980 Score: 54
Period size: 13 Copynumber: 5.3 Consensus size: 13
125905 GTTACAACCC
125915 GACCCGACCCGTT
1 GACCCGACCCGTT
125928 GACCCGACCC---
1 GACCCGACCCGTT
125938 GACCCGTTTACCC---
1 GACCCG---ACCCGTT
125951 GACCCGACCCGTT
1 GACCCGACCCGTT
*
125964 GACTCGACCCGTT
1 GACCCGACCCGTT
125977 GACC
1 GACC
125981 GTCGTTGACC
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
10 10 0.22
13 35 0.78
ACGTcount: A:0.17, C:0.47, G:0.21, T:0.15
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:125934 original size:18 final size:18
Alignment explanation
Indices: 125911--125974 Score: 110
Period size: 18 Copynumber: 3.6 Consensus size: 18
125901 ATCGGTTACA
125911 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
125929 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
125947 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
125965 ACTCGACCCG
1 ACCCGACCCG
125975 TTGACCGTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.17, C:0.50, G:0.20, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:128527 original size:24 final size:24
Alignment explanation
Indices: 128500--128587 Score: 104
Period size: 24 Copynumber: 3.7 Consensus size: 24
128490 ATTTCCGACT
* * *
128500 TGAATTCTGTTTTGATAAATGACC
1 TGAATTCTGTTCTGATATATGATC
* *
128524 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATATGATC
* *
128548 TGGATTCTGTTCTGATATATGTTC
1 TGAATTCTGTTCTGATATATGATC
*
128572 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
128588 TTCTGATATC
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATATGATC
Found at i:128543 original size:12 final size:12
Alignment explanation
Indices: 128523--128592 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
128513 GATAAATGAC
*
128523 CTGAATTCTGTT
1 CTGATTTCTGTT
*
128535 CTGATTTCTGAT
1 CTGATTTCTGTT
128547 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
* *
128559 CTGATATATGTT
1 CTGATTTCTGTT
*
128571 CTGAATTCTGTT
1 CTGATTTCTGTT
*
128583 TTGATTTCTG
1 CTGATTTCTG
128593 ATATCTTCGT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.16, C:0.14, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:128557 original size:48 final size:49
Alignment explanation
Indices: 128486--128594 Score: 141
Period size: 48 Copynumber: 2.3 Consensus size: 49
128476 AAATATTTTA
* *
128486 TCTGATTTCCGA-CTTGAATTCTGTTTTGATAAATGACCTGAATTCTGT
1 TCTGATTTCTGATCTTGAATTCTGTTCTGATAAATGACCTGAATTCTGT
* * **
128534 TCTGATTTCTGATC-TGGATTCTGTTCTGATATATGTTCTGAATTCTGT
1 TCTGATTTCTGATCTTGAATTCTGTTCTGATAAATGACCTGAATTCTGT
*
128582 TTTGATTTCTGAT
1 TCTGATTTCTGAT
128595 ATCTTCGTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 52 0.98
49 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (49 bp):
TCTGATTTCTGATCTTGAATTCTGTTCTGATAAATGACCTGAATTCTGT
Found at i:129701 original size:185 final size:184
Alignment explanation
Indices: 129372--129750 Score: 629
Period size: 185 Copynumber: 2.1 Consensus size: 184
129362 ATTAACCGAA
* * **
129372 ATAAAATTTTAAATAATATATATAACATATGGGCTCAGCCCAAACCATTTAAAATTTAATTAATA
1 ATAAAATATTAAATAATATATATAACATATGGGCTCAACCCAAACCATTTAAAATCCAATTAATA
*
129437 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAACATTTATATAAAATT
66 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
*
129502 TTTATTTTATAATTATATATTATTTAAATTAATTGTAAACTG-TTTTTTGAATT
131 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTGAATT
*
129555 A-AAACATATTAAATATATAATATATAACATATGGGCTCAACCCAAATCATTTAAAATCCAATTA
1 ATAAA-ATATTAAATA-AT-ATATATAACATATGGGCTCAACCCAAACCATTTAAAATCCAATTA
*
129619 ATAATTTAAGGTCCAATAACCTTTT-AACCTAAATCAATATTAATTAATTAAAAAATTTATATAA
63 ATAATTTAAGATCCAATAA-CTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAA
129683 AATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTGAATT
127 AATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTGAATT
129741 ATAAAATATT
1 ATAAAATATT
129751 TAATTTTTAT
Statistics
Matches: 182, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
182 3 0.02
183 10 0.05
184 2 0.01
185 142 0.78
186 22 0.12
187 3 0.02
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (184 bp):
ATAAAATATTAAATAATATATATAACATATGGGCTCAACCCAAACCATTTAAAATCCAATTAATA
ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTGAATT
Found at i:131286 original size:27 final size:27
Alignment explanation
Indices: 131248--131307 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
131238 GTTCATGAAC
131248 AAATAAAGGAACATGTTCGCAAATAAT
1 AAATAAAGGAACATGTTCGCAAATAAT
*
131275 AAATAAATGAACATGTTCGCAAATAAT
1 AAATAAAGGAACATGTTCGCAAATAAT
131302 AAATAA
1 AAATAA
131308 CACAAACATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (27 bp):
AAATAAAGGAACATGTTCGCAAATAAT
Found at i:132702 original size:17 final size:17
Alignment explanation
Indices: 132680--132713 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
132670 GATTTGATAT
*
132680 TGAACCAACCTGATACC
1 TGAACCAACATGATACC
132697 TGAACCAACATGATACC
1 TGAACCAACATGATACC
132714 CAAATCGACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.32, G:0.12, T:0.18
Consensus pattern (17 bp):
TGAACCAACATGATACC
Found at i:134657 original size:19 final size:19
Alignment explanation
Indices: 134633--134688 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
134623 GAACACTGAA
134633 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
134652 AACCGGTTTTGAACCGGTTTT
1 AACCGGTTTTG-ACCGG-TTT
*
134673 GACCGG-TTTGACCGGT
1 AACCGGTTTTGACCGGT
134689 CACTACCCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 9 0.26
21 8 0.24
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:134668 original size:11 final size:11
Alignment explanation
Indices: 134633--134681 Score: 70
Period size: 10 Copynumber: 4.8 Consensus size: 11
134623 GAACACTGAA
134633 AACCGGTTTTG
1 AACCGGTTTTG
134644 -ACCGG-TTT-
1 AACCGGTTTTG
134652 AACCGGTTTTG
1 AACCGGTTTTG
134663 AACCGGTTTTG
1 AACCGGTTTTG
134674 -ACCGGTTT
1 AACCGGTTT
134682 GACCGGTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.23
10 16 0.46
11 11 0.31
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:134684 original size:9 final size:10
Alignment explanation
Indices: 134634--134688 Score: 78
Period size: 9 Copynumber: 5.6 Consensus size: 10
134624 AACACTGAAA
134634 ACCGGTTTTG
1 ACCGGTTTTG
*
134644 ACCGG-TTTA
1 ACCGGTTTTG
134653 ACCGGTTTTG
1 ACCGGTTTTG
134663 AACCGGTTTTG
1 -ACCGGTTTTG
134674 ACCGG-TTTG
1 ACCGGTTTTG
134683 ACCGGT
1 ACCGGT
134689 CACTACCCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
9 17 0.43
10 13 0.32
11 10 0.25
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.35
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:134728 original size:18 final size:18
Alignment explanation
Indices: 134705--134752 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
134695 CCGTTTACCT
134705 GACCCGTTGACCCGACCC
1 GACCCGTTGACCCGACCC
134723 GACCCGTTGACCCGACCC
1 GACCCGTTGACCCGACCC
134741 GACCCGTTGACC
1 GACCCGTTGACC
134753 GGTGCTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.17, C:0.48, G:0.23, T:0.12
Consensus pattern (18 bp):
GACCCGTTGACCCGACCC
Found at i:134819 original size:29 final size:29
Alignment explanation
Indices: 134753--134828 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
134743 CCCGTTGACC
* ***
134753 GGTGCTATTCTGGGAATTAATTTGGTTTT
1 GGTGCTATTCTGGGAATTAATTCGAAATT
*
134782 TGTGCTATTCTGGGAATTAATTCGAAATT
1 GGTGCTATTCTGGGAATTAATTCGAAATT
* * *
134811 GGTGATATTTTGGTAATT
1 GGTGCTATTCTGGGAATT
134829 TTTTTAAAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.22, C:0.07, G:0.25, T:0.46
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGAAATT
Found at i:154460 original size:5 final size:5
Alignment explanation
Indices: 154429--154453 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
154419 TTTCAAAATG
154429 TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA
154454 ATATAATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Done.