Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 287 of 344
Found at i:96243631 original size:5 final size:5
Alignment explanation
Indices: 96243621--96243649 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
96243611 CCAATTTGGA
96243621 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
96243650 ACACAGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:96244406 original size:24 final size:25
Alignment explanation
Indices: 96244368--96244419 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
96244358 ACACATTAGC
96244368 AAACAAAAATATATAAATAT-AAAT
1 AAACAAAAATATATAAATATAAAAT
* * *
96244392 AAACAAATATTTATATATATAAAAT
1 AAACAAAAATATATAAATATAAAAT
96244417 AAA
1 AAA
96244420 TTGAATTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (25 bp):
AAACAAAAATATATAAATATAAAAT
Found at i:96245814 original size:10 final size:10
Alignment explanation
Indices: 96245801--96245844 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
96245791 AGAAATATTT
96245801 AAAATTCATA
1 AAAATTCATA
96245811 AAAATT-ATA
1 AAAATTCATA
*
96245820 AAAATTTAATA
1 AAAA-TTCATA
*
96245831 AAAATTCACA
1 AAAATTCATA
96245841 AAAA
1 AAAA
96245845 ATAGCTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 7 0.23
10 16 0.53
11 7 0.23
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATTCATA
Found at i:96245815 original size:19 final size:20
Alignment explanation
Indices: 96245773--96245815 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
96245763 TCATGTCAAC
*
96245773 AAATAATTTAAAATATATAG
1 AAATAATTTAAAATATATAA
96245793 AAAT-ATTTAAAAT-TCATAA
1 AAATAATTTAAAATAT-ATAA
96245812 AAAT
1 AAAT
96245816 TATAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 16 0.76
20 4 0.19
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
AAATAATTTAAAATATATAA
Found at i:96247903 original size:20 final size:19
Alignment explanation
Indices: 96247878--96247915 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
96247868 AATTGATGAG
*
96247878 TATTAATTTATCATATTAAT
1 TATTAAATTATCAT-TTAAT
96247898 TATTAAATTATCATTTAA
1 TATTAAATTATCATTTAA
96247916 AGCTCATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTAAATTATCATTTAAT
Found at i:96248213 original size:48 final size:42
Alignment explanation
Indices: 96248122--96248202 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
96248112 CAAATTGACG
96248122 GAGTTAACTAAACTGAGCTAAAACTAAAAGTAAGAACTATCC
1 GAGTTAACTAAACTGAGCTAAAACTAAAAGTAAGAACTATCC
* *
96248164 GAGTTAACTAAACTGTGCTAAAACTAAAAGTACGAACTA
1 GAGTTAACTAAACTGAGCTAAAACTAAAAGTAAGAACTA
96248203 CCCAATTCCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (42 bp):
GAGTTAACTAAACTGAGCTAAAACTAAAAGTAAGAACTATCC
Found at i:96249182 original size:23 final size:22
Alignment explanation
Indices: 96249163--96249222 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
96249153 TATATGTTGA
96249163 TGAACATATTCGTTTAATGTTTG
1 TGAAC-TATTCGTTTAATGTTTG
96249186 TGAAC---TCGTTTAATGTTTG
1 TGAACTATTCGTTTAATGTTTG
*
96249205 TGAACGTATTCATTTAAT
1 TGAAC-TATTCGTTTAAT
96249223 TTAAATGAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 19 0.59
23 13 0.41
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (22 bp):
TGAACTATTCGTTTAATGTTTG
Found at i:96249196 original size:19 final size:19
Alignment explanation
Indices: 96249172--96249209 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
96249162 ATGAACATAT
96249172 TCGTTTAATGTTTGTGAAC
1 TCGTTTAATGTTTGTGAAC
96249191 TCGTTTAATGTTTGTGAAC
1 TCGTTTAATGTTTGTGAAC
96249210 GTATTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.47
Consensus pattern (19 bp):
TCGTTTAATGTTTGTGAAC
Found at i:96253141 original size:20 final size:20
Alignment explanation
Indices: 96253116--96253162 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
96253106 ACATATATAA
*
96253116 ATACATATATACA-GACATGC
1 ATACATAAATACATG-CATGC
96253136 ATACATAAATACATGCATGC
1 ATACATAAATACATGCATGC
*
96253156 ATGCATA
1 ATACATA
96253163 CAAAGAACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (20 bp):
ATACATAAATACATGCATGC
Found at i:96259109 original size:22 final size:22
Alignment explanation
Indices: 96259084--96259125 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
96259074 AAACAAAAAC
*
96259084 TGTTAAAAAAACTGATGTGACT
1 TGTTAAAAAAACTAATGTGACT
96259106 TGTTAAAAAAACTAATGTGA
1 TGTTAAAAAAACTAATGTGA
96259126 GAGAAACTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.31
Consensus pattern (22 bp):
TGTTAAAAAAACTAATGTGACT
Found at i:96259210 original size:27 final size:27
Alignment explanation
Indices: 96259170--96259237 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
96259160 TGGAGGGCAC
* *
96259170 GCCAGAGGCTGCACTG-GTGAAGCCTGT
1 GCCAGAGGCGGCAC-GAGTGAAGCCTAT
* *
96259197 GGCAGAGGCGGCACGAGTGAAGCTTAT
1 GCCAGAGGCGGCACGAGTGAAGCCTAT
*
96259224 GCCATAGGCGGCAC
1 GCCAGAGGCGGCAC
96259238 CCACTCCCCC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (27 bp):
GCCAGAGGCGGCACGAGTGAAGCCTAT
Found at i:96259756 original size:17 final size:17
Alignment explanation
Indices: 96259736--96259784 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
96259726 ATTGAGAAAA
96259736 TTTTTTAGTATTTTATT
1 TTTTTTAGTATTTTATT
*
96259753 TTTTTTGGTATTTTATT
1 TTTTTTAGTATTTTATT
* *
96259770 TTTTATAATATTTTA
1 TTTTTTAGTATTTTA
96259785 ATAAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTTTAGTATTTTATT
Found at i:96259936 original size:27 final size:27
Alignment explanation
Indices: 96259906--96259974 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
96259896 TGGGAGAGTG
* * * *
96259906 GGTGCCGCCTATGGCATAGGTTTCACT
1 GGTGCCGCCTCTGGCACAGGCTTCACC
* *
96259933 GGTGCTGCCTCTGCCACAGGCTTCACC
1 GGTGCCGCCTCTGGCACAGGCTTCACC
*
96259960 AGTGCCGCCTCTGGC
1 GGTGCCGCCTCTGGC
96259975 GTGCCCTCCA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.25
Consensus pattern (27 bp):
GGTGCCGCCTCTGGCACAGGCTTCACC
Found at i:96260040 original size:26 final size:27
Alignment explanation
Indices: 96259988--96260040 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
96259978 CCCTCCATCC
*
96259988 CTGTCACATCAATTTTTTTAACTGTTT
1 CTGTCACATCAATTTTTTTAACAGTTT
96260015 CTGTCACATCAA-TTTTTTAACAGTTT
1 CTGTCACATCAATTTTTTTAACAGTTT
96260041 TTTTTAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.49
Consensus pattern (27 bp):
CTGTCACATCAATTTTTTTAACAGTTT
Found at i:96260045 original size:13 final size:14
Alignment explanation
Indices: 96260027--96260061 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
96260017 GTCACATCAA
*
96260027 TTTTTTAAC-AGTT
1 TTTTTTAACTAATT
96260040 TTTTTTAACTAATT
1 TTTTTTAACTAATT
96260054 TTTTTTAA
1 TTTTTTAA
96260062 ACAGAGGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.66
Consensus pattern (14 bp):
TTTTTTAACTAATT
Found at i:96261593 original size:53 final size:53
Alignment explanation
Indices: 96261498--96261601 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
96261488 GACCGAAAAG
* * * *
96261498 ATGTGATAATGTGATTCCGTATAAGACTATAGCTGGGCTATGG-TATCGGTACA
1 ATGTGATAATGTGATTCCGTACAAGACCATAGCTAGGATATGGCT-TCGGTACA
96261551 ATGTGATAATGTGATTCCGTACAAGACCAT-GACTAGGATATGGCTTCGGTA
1 ATGTGATAATGTGATTCCGTACAAGACCATAG-CTAGGATATGGCTTCGGTA
96261602 TGATATGTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
52 1 0.02
53 43 0.96
54 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (53 bp):
ATGTGATAATGTGATTCCGTACAAGACCATAGCTAGGATATGGCTTCGGTACA
Found at i:96262421 original size:20 final size:20
Alignment explanation
Indices: 96262396--96262464 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
96262386 TGCACATGGG
*
96262396 CAGGCCACAAGGGCATGTTC
1 CAGGCCACATGGGCATGTTC
96262416 CAGGCCACATGGGCATGTTC
1 CAGGCCACATGGGCATGTTC
*
96262436 CAAGCCACATGGGCATGTTC
1 CAGGCCACATGGGCATGTTC
*
96262456 TAGGCCACA
1 CAGGCCACA
96262465 CAGGCGTGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (20 bp):
CAGGCCACATGGGCATGTTC
Found at i:96270809 original size:58 final size:57
Alignment explanation
Indices: 96270745--96270856 Score: 172
Period size: 58 Copynumber: 1.9 Consensus size: 57
96270735 ATAATTTTAA
* *
96270745 ATTTTAATA-AAATTATTATTAAATATAATTTAATAATAATAATAAATAATTTAATCAT
1 ATTTTAACATAAA-TATTATTAAATAAAATTTAATAA-AATAATAAATAATTTAATCAT
*
96270803 ATTTTAACATAAATATTATTAAATAAAATTTAATAAAATAATATATAATTTAAT
1 ATTTTAACATAAATATTATTAAATAAAATTTAATAAAATAATAAATAATTTAAT
96270857 AACATTCTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
57 17 0.34
58 30 0.60
59 3 0.06
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (57 bp):
ATTTTAACATAAATATTATTAAATAAAATTTAATAAAATAATAAATAATTTAATCAT
Found at i:96270908 original size:24 final size:23
Alignment explanation
Indices: 96270881--96270930 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
96270871 TATTACTAAA
*
96270881 ATATGAAT-TAATAAAAATCATAAT
1 ATAT-AATATAATAAAAATAAT-AT
*
96270905 ATATAATATTATAAAAATAATAT
1 ATATAATATAATAAAAATAATAT
96270928 ATA
1 ATA
96270931 ACTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAATATAATAAAAATAATAT
Found at i:96272830 original size:267 final size:267
Alignment explanation
Indices: 96272355--96272891 Score: 1065
Period size: 267 Copynumber: 2.0 Consensus size: 267
96272345 CGAATCTAGC
96272355 TAATGCTAGACACTAAGTAGCCTTGAAGTTTTAAAGAACATTTTCAGCTATTAAATTGAAACCGA
1 TAATGCTAGACACTAAGTAGCCTTGAAGTTTTAAAGAACATTTTCAGCTATTAAATTGAAACCGA
96272420 AACATCAATGCTAATTTAATATATATATATTAAGCATGAAAATAACAAAATGAGTTTAAAGAAAA
66 AACATCAATGCTAATTTAATATATATATATTAAGCATGAAAATAACAAAATGAGTTTAAAGAAAA
96272485 CTCACCATTAGCAACACTCAATTTGTACTTCTAAAATAACAAGTCATTCGGCAAATAAAACGCAA
131 CTCACCATTAGCAACACTCAATTTGTACTTCTAAAATAACAAGTCATTCGGCAAATAAAACGCAA
96272550 TTTTCTCATTAACGACACATCATCAATAACAGTCCCAGAGTTATACATTTTAACCACGGCACCAA
196 TTTTCTCATTAACGACACATCATCAATAACAGTCCCAGAGTTATACATTTTAACCACGGCACCAA
96272615 AGCACTA
261 AGCACTA
96272622 TAATGCTAGACACTAAGTAGCCTTGAAGTTTTAAAGAACATTTTCAGCTATTAAATTGAAACCGA
1 TAATGCTAGACACTAAGTAGCCTTGAAGTTTTAAAGAACATTTTCAGCTATTAAATTGAAACCGA
96272687 AACATCAATGCTAATTTAATATATATATATTAAGCATGAAAATAACAAAATGAGTTTAAAGAAAA
66 AACATCAATGCTAATTTAATATATATATATTAAGCATGAAAATAACAAAATGAGTTTAAAGAAAA
96272752 CTCACCATTAGCAACACTCAATTTGTACTTCTAAAATAACAAGTCATTCGGCAAATAAAACGCAA
131 CTCACCATTAGCAACACTCAATTTGTACTTCTAAAATAACAAGTCATTCGGCAAATAAAACGCAA
96272817 TTTTCTCATTAACGACACATCATCAATAACAGTCCCAGAGTTATACATTTTAACCACGGCACCAA
196 TTTTCTCATTAACGACACATCATCAATAACAGTCCCAGAGTTATACATTTTAACCACGGCACCAA
*
96272882 TGCACTA
261 AGCACTA
96272889 TAA
1 TAA
96272892 ATCACAGCTA
Statistics
Matches: 269, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
267 269 1.00
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (267 bp):
TAATGCTAGACACTAAGTAGCCTTGAAGTTTTAAAGAACATTTTCAGCTATTAAATTGAAACCGA
AACATCAATGCTAATTTAATATATATATATTAAGCATGAAAATAACAAAATGAGTTTAAAGAAAA
CTCACCATTAGCAACACTCAATTTGTACTTCTAAAATAACAAGTCATTCGGCAAATAAAACGCAA
TTTTCTCATTAACGACACATCATCAATAACAGTCCCAGAGTTATACATTTTAACCACGGCACCAA
AGCACTA
Found at i:96274458 original size:6 final size:6
Alignment explanation
Indices: 96274447--96274477 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
96274437 GTCATGTGCA
96274447 TTAGTG TTAGTG TTAGTG TTAGTG TTAGTG T
1 TTAGTG TTAGTG TTAGTG TTAGTG TTAGTG T
96274478 GCATGAGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (6 bp):
TTAGTG
Found at i:96277266 original size:40 final size:40
Alignment explanation
Indices: 96277212--96277329 Score: 173
Period size: 40 Copynumber: 3.0 Consensus size: 40
96277202 CGGATGTAAC
* * *
96277212 AACCAGCACAAATGCCTTCAGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
96277252 AACCCGCATGAATGCCTTTGGGACTTAACTCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
96277292 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
96277330 TTTTTTTTTC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:96279499 original size:47 final size:49
Alignment explanation
Indices: 96279377--96279555 Score: 214
Period size: 47 Copynumber: 3.8 Consensus size: 49
96279367 TGTAACCCGC
* * *
96279377 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GC-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
96279423 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-C-AGTTCACAT
* *
96279473 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
96279517 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
96279556 TTCAACCATC
Statistics
Matches: 115, Mismatches: 7, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
43 3 0.03
44 5 0.04
45 1 0.01
46 37 0.32
47 58 0.50
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
Found at i:96279545 original size:94 final size:93
Alignment explanation
Indices: 96279385--96279555 Score: 297
Period size: 94 Copynumber: 1.8 Consensus size: 93
96279375 GCCCATAAGT
* *
96279385 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
96279450 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
96279478 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
96279543 ACGAGTTCGGATG
65 ACGAGTTCGGATG
96279556 TTCAACCATC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 28 0.38
94 45 0.62
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:96280009 original size:30 final size:30
Alignment explanation
Indices: 96279975--96280034 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
96279965 CCTTAATACG
96279975 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
96280005 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
96280035 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:96287092 original size:47 final size:49
Alignment explanation
Indices: 96286983--96287114 Score: 159
Period size: 47 Copynumber: 2.8 Consensus size: 49
96286973 CTTGGGTTCG
*
96286983 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA
1 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GATGACTAGTTA
* * * *
96287033 CAT-C-TCA-CGAACTCGGGCTCAACTCAACGAGTTC-A-GAC-ATTTCA
1 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGATGACTAGTT-A
96287077 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
96287115 GATGTTCAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
43 3 0.04
44 6 0.09
45 2 0.03
46 2 0.03
47 50 0.72
48 2 0.03
49 1 0.01
50 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (49 bp):
CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGATGACTAGTTA
Found at i:96288923 original size:41 final size:42
Alignment explanation
Indices: 96288849--96288928 Score: 119
Period size: 41 Copynumber: 1.9 Consensus size: 42
96288839 ATTTTGAGTC
*
96288849 CACACGGCTTGTCACACGGGCGTGTGATCAGACCATGTGAGA
1 CACACGGCTTGTCACACGGGCATGTGATCAGACCATGTGAGA
*
96288891 CACACGGCTTG-CACACGGGCATGTTGAT-AGACCGTGTG
1 CACACGGCTTGTCACACGGGCATG-TGATCAGACCATGTG
96288929 TCCCCTGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 20 0.57
42 15 0.43
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.20
Consensus pattern (42 bp):
CACACGGCTTGTCACACGGGCATGTGATCAGACCATGTGAGA
Found at i:96302284 original size:6 final size:6
Alignment explanation
Indices: 96302273--96302303 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
96302263 GTCATGTGCA
96302273 TTAGTG TTAGTG TTAGTG TTAGTG TTAGTG T
1 TTAGTG TTAGTG TTAGTG TTAGTG TTAGTG T
96302304 GCATGAGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (6 bp):
TTAGTG
Found at i:96305069 original size:40 final size:40
Alignment explanation
Indices: 96305015--96305132 Score: 173
Period size: 40 Copynumber: 3.0 Consensus size: 40
96305005 CGGATGTAAC
* * *
96305015 AACCAGCACAAATGCCTTCAGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
96305055 AACCCGCATGAATGCCTTTGGGACTTAACTCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
96305095 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
96305133 TTTTTTTTTC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:96307172 original size:46 final size:47
Alignment explanation
Indices: 96307105--96307279 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 47
96307095 TGTAACCCGC
* *
96307105 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCAGTTCACAT
96307151 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-AGTTCACAT
* * * *
96307201 -C-TCA-CGAACTC-GACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCAGTTCACAT
96307244 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
96307280 ATGTTCAACC
Statistics
Matches: 111, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 2 0.02
46 62 0.56
47 27 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCAGTTCACAT
Found at i:96307272 original size:93 final size:93
Alignment explanation
Indices: 96307113--96307282 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
96307103 GCCCATAAGT
* *
96307113 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
96307178 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
96307206 GAACTC-GACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
96307270 ACGAGTTCGGATG
65 ACGAGTTCGGATG
96307283 TTCAACCATC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 21 0.29
93 51 0.71
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:96314745 original size:47 final size:50
Alignment explanation
Indices: 96314668--96314800 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 50
96314658 TGTAACCCGG
* *
96314668 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGAC-AGTTCACAT
* *
96314718 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC--A-GACATTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGACAGTTCACAT
*
96314762 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
96314801 TTCAACCATC
Statistics
Matches: 70, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
43 3 0.04
44 6 0.09
45 2 0.03
46 2 0.03
47 52 0.74
48 2 0.03
49 2 0.03
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (50 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGACAGTTCACAT
Found at i:96315254 original size:30 final size:30
Alignment explanation
Indices: 96315220--96315279 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
96315210 CCTTAATACG
96315220 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
96315250 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
96315280 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:96318682 original size:22 final size:22
Alignment explanation
Indices: 96318640--96318684 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
96318630 ATAACAAAGC
* *
96318640 TGATTTATTGTTTATATTTTTT
1 TGATTTATTGTTTACAATTTTT
96318662 TGATTTATT-TATTACAATTTTT
1 TGATTTATTGT-TTACAATTTTT
96318684 T
1 T
96318685 TCATATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (22 bp):
TGATTTATTGTTTACAATTTTT
Found at i:96318732 original size:14 final size:14
Alignment explanation
Indices: 96318713--96318752 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
96318703 TTGATTGGCA
96318713 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
96318727 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
96318741 GGAAAATGTTTT
1 GTAAAATGTTTT
96318753 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:96318761 original size:20 final size:20
Alignment explanation
Indices: 96318736--96318775 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
96318726 CGTAAAATGA
*
96318736 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
96318756 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
96318776 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:96318765 original size:34 final size:35
Alignment explanation
Indices: 96318721--96318787 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
96318711 CAGTAAAATG
*
96318721 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
96318755 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
96318788 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:96318899 original size:20 final size:20
Alignment explanation
Indices: 96318874--96318912 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
96318864 GTTTTTACAT
96318874 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
96318894 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
96318913 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:96318972 original size:15 final size:15
Alignment explanation
Indices: 96318943--96318995 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 15
96318933 TATTGCAATG
*
96318943 ATTTATTTATAAATAA
1 ATTT-TTTATTAATAA
96318959 ATTTTTTATTAATAAA
1 ATTTTTTATTAAT-AA
96318975 AGTTTTTTATCTAATTAA
1 A-TTTTTTAT-TAA-TAA
96318993 ATT
1 ATT
96318996 CCAAATGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.25
16 7 0.22
17 10 0.31
18 6 0.19
19 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTTTTATTAATAA
Found at i:96322456 original size:18 final size:18
Alignment explanation
Indices: 96322433--96322470 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
96322423 TTTGCAATCC
96322433 AAGGGGAAGGGAAAAGGG
1 AAGGGGAAGGGAAAAGGG
*
96322451 AAGGGGAAGGGAAAGGGG
1 AAGGGGAAGGGAAAAGGG
96322469 AA
1 AA
96322471 AGGGTAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGAAAAGGG
Found at i:96322483 original size:24 final size:24
Alignment explanation
Indices: 96322433--96322484 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
96322423 TTTGCAATCC
* **
96322433 AAGGGGAAGGGAAAAGGGAAGGGG
1 AAGGGAAAGGGAAAAGGGAAGAAG
* *
96322457 AAGGGAAAGGGGAAAGGGTAGAAG
1 AAGGGAAAGGGAAAAGGGAAGAAG
96322481 AAGG
1 AAGG
96322485 CATCATTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.54, T:0.02
Consensus pattern (24 bp):
AAGGGAAAGGGAAAAGGGAAGAAG
Found at i:96325783 original size:11 final size:12
Alignment explanation
Indices: 96325759--96325787 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
96325749 TGGTTAATTT
96325759 AATTTAAGTTAA
1 AATTTAAGTTAA
96325771 AATTTAA-TTAA
1 AATTTAAGTTAA
96325782 AATTTA
1 AATTTA
96325788 CATTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
AATTTAAGTTAA
Found at i:96331660 original size:630 final size:630
Alignment explanation
Indices: 96330181--96331781 Score: 2942
Period size: 630 Copynumber: 2.5 Consensus size: 630
96330171 CCCTTGATCG
*
96330181 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCTTGGATAGTTTGG
1 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
**
96330246 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATACATTTGAGAA
66 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
*
96330311 CCTGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
131 CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
* * *
96330376 CTGTTTCATCCCCCCCCCCCCCAAAAAAAAAAAGAAAAATAATAGTAATAATAAAAGGATAAAGG
196 CTGTTTCAT---CCCCCCCCCC-----AAAAAA-AAAAATAATAATAATAATAAAAGAAAAAAGG
*
96330441 AGCATTCCTCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAATCCCATAT
252 AGCATTCCTCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATAT
96330506 CAGCTATCAAACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAACAACA
317 CAGCTATCAAACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAACAACA
96330571 GTAAGAAAAACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCTGGAG
382 GTAAGAAAAACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCTGGAG
96330636 CATAGAGAAACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATCTTCA
447 CATAGAGAAACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATCTTCA
96330701 TCTGTTGTCATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTTGGAACTCGCAAACCCAA
512 TCTGTTGTCATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTTGGAACTCGCAAACCCAA
96330766 AGACATGATGTATCTGTGAAATGGGATCTGTATACCTCAAATCTATTGGCACAT
577 AGACATGATGTATCTGTGAAATGGGATCTGTATACCTCAAATCTATTGGCACAT
*
96330820 ATGCACATTGTTGCATACATTATGATAAATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
1 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
96330885 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
66 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
*
96330950 CCAGTGTAGTTCTTTGGCCAAATCACTTTGGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
131 CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
96331015 CTGTTTCATCCCCCCCCCCAAAAAAAAAAATAATAATAATAATAAAAGAAAAAAGGAGCATTCCT
196 CTGTTTCATCCCCCCCCCCAAAAAAAAAAATAATAATAATAATAAAAGAAAAAAGGAGCATTCCT
* *
96331080 CACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCTCACATCAGCTATCA
261 CACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATATCAGCTATCA
96331145 AACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAACAACAGTAAGAAAA
326 AACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAACAACAGTAAGAAAA
96331210 ACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCTGGAGCATAGAGAA
391 ACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCTGGAGCATAGAGAA
*
96331275 ACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATCTTTATCTGTTGTC
456 ACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATCTTCATCTGTTGTC
*
96331340 ATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTT-GAACTCGCAAACCCAAAGACGTGAT
521 ATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTTGGAACTCGCAAACCCAAAGACATGAT
*
96331404 GTATCTGTGAATTGGGATCTGTATACCTCAAATCTATTGGCACAT
586 GTATCTGTGAAATGGGATCTGTATACCTCAAATCTATTGGCACAT
96331449 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
1 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
96331514 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
66 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
96331579 CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
131 CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
*
96331644 CTGTTTCAT--CCCCCCCC--AAAAAAAAATAATAATAATAATAAAAGAAAAAAGGAGCATTTCT
196 CTGTTTCATCCCCCCCCCCAAAAAAAAAAATAATAATAATAATAAAAGAAAAAAGGAGCATTCCT
96331705 CACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATATCAGCTATCA
261 CACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATATCAGCTATCA
96331770 AACAATGAACAC
326 AACAATGAACAC
96331782 TTTGCTTTTT
Statistics
Matches: 942, Mismatches: 20, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
625 118 0.13
627 8 0.01
629 270 0.29
630 332 0.35
631 6 0.01
636 10 0.01
639 198 0.21
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.34
Consensus pattern (630 bp):
ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
CTGTTTCATCCCCCCCCCCAAAAAAAAAAATAATAATAATAATAAAAGAAAAAAGGAGCATTCCT
CACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATATCAGCTATCA
AACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAACAACAGTAAGAAAA
ACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCTGGAGCATAGAGAA
ACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATCTTCATCTGTTGTC
ATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTTGGAACTCGCAAACCCAAAGACATGAT
GTATCTGTGAAATGGGATCTGTATACCTCAAATCTATTGGCACAT
Found at i:96332437 original size:48 final size:48
Alignment explanation
Indices: 96332367--96332525 Score: 230
Period size: 48 Copynumber: 3.3 Consensus size: 48
96332357 AAGGTATATT
* * * * * *
96332367 TGTCTTTCACTATTTGCGCTCTTAGAGTTGGTAC-TTTATTATATGGCA
1 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTA-TGTATGGCA
96332415 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
1 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
* *
96332463 TGTTATTCATTATTTTCACTCTTAGATTTTGTACTTTTATGTATGGCA
1 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
96332511 TGTCATTCATTATTT
1 TGTCATTCATTATTT
96332526 ATATTGATAA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
48 97 0.96
49 4 0.04
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.51
Consensus pattern (48 bp):
TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
Found at i:96338021 original size:12 final size:12
Alignment explanation
Indices: 96338004--96338028 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96337994 TATTTTCCAG
96338004 AAACTTGAGCAA
1 AAACTTGAGCAA
96338016 AAACTTGAGCAA
1 AAACTTGAGCAA
96338028 A
1 A
96338029 GAAGCCAAAA
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AAACTTGAGCAA
Found at i:96341650 original size:3 final size:3
Alignment explanation
Indices: 96341642--96341687 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
96341632 GGTGACCCTG
*
96341642 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
96341688 ACTTTTGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:96343618 original size:14 final size:14
Alignment explanation
Indices: 96343599--96343633 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
96343589 TAAAGGTCTT
96343599 TCTTTATTTTAATA
1 TCTTTATTTTAATA
96343613 TCTTTATTTTAATA
1 TCTTTATTTTAATA
96343627 TCATTTA
1 TC-TTTA
96343634 GAAAATAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (14 bp):
TCTTTATTTTAATA
Found at i:96352461 original size:48 final size:47
Alignment explanation
Indices: 96352405--96352499 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 47
96352395 AACCTAATAT
96352405 TATTATTCAAATATTTCTAATTTTAGAATGAATAACCCAACTCGTAAA
1 TATTATTCAAATATTTCTAATTTTAGAATGAATAA-CCAACTCGTAAA
96352453 TATTATTCAAATATTTCTAATTTTAGAATGAATAACCAACTCGTAAA
1 TATTATTCAAATATTTCTAATTTTAGAATGAATAACCAACTCGTAAA
96352500 CAAGTATACA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 12 0.26
48 35 0.74
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (47 bp):
TATTATTCAAATATTTCTAATTTTAGAATGAATAACCAACTCGTAAA
Found at i:96359142 original size:18 final size:18
Alignment explanation
Indices: 96359119--96359161 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
96359109 GAATAGATTT
96359119 TTAATTAAATAAAATT-AA
1 TTAATTAAA-AAAATTAAA
*
96359137 TTAATTAAAAAATTTAAA
1 TTAATTAAAAAAATTAAA
96359155 TTAATTA
1 TTAATTA
96359162 CACTTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAATTAAAAAAATTAAA
Found at i:96360778 original size:126 final size:125
Alignment explanation
Indices: 96360539--96360978 Score: 467
Period size: 126 Copynumber: 3.5 Consensus size: 125
96360529 GTAGAAGGTC
*
96360539 GCTATGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATGGTGAAATGCTTGATGAAAAT
1 GCTACGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGA---T---ATGCTTGATGAAAAT
** * * * * * *
96360604 AGATCTACTGGCTCTCATAGTGAGGAGCAAGATCAGCACTTATTGGTAGAAGGGCGACGTAATGG
60 AGATCTACTGATTCTCATAGCGAGGAGCACGGTGAGAACTTATCGGTAGAAGGGC-ACGTAATGG
*
96360669 TT
124 TA
* * * *
96360671 GCTATGAGAAGGAACAAAATGCATCCAGAGATAGTGATGGTGATATGCTCGATGAAAATAGATCT
1 GCTACGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATATGCTTGATGAAAATAGATCT
* * *
96360736 ACTGATTCTCGTAGCAAGGAGCACGGTGAGAAGC-TATCGGTAGAAGGCCAACGTAATGG-A
66 ACTGATTCTCATAGCGAGGAGCACGGTGAGAA-CTTATCGGTAGAAGGGC-ACGTAATGGTA
* * * * * *
96360796 CGCTACGAGAAAGATCAAAATACTTCCAGAGATGGTGATGGTGATATGGTTGATGAAAGTAGGTC
1 -GCTACGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATATGCTTGATGAAAATAGATC
* *
96360861 TATTGATTCTCATAGCGAGGAGCACGGTGAGAACTTATCGGTAGAA-GGC-CATAATGGTA
65 TACTGATTCTCATAGCGAGGAGCACGGTGAGAACTTATCGGTAGAAGGGCACGTAATGGTA
* * * * * *
96360920 GCTACGAGGCA-GATCAAATTGCGTCCAGAGATGGTGATGGTGATATGGTTGATGAAAAT
1 GCTACGA-GAAGGATCAAAATACATCCAGAGATAGTGATGGTGATATGCTTGATGAAAAT
96360979 GGACCAAATG
Statistics
Matches: 267, Mismatches: 36, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
123 58 0.22
124 3 0.01
125 3 0.01
126 160 0.60
127 1 0.00
129 1 0.00
132 41 0.15
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (125 bp):
GCTACGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATATGCTTGATGAAAATAGATCT
ACTGATTCTCATAGCGAGGAGCACGGTGAGAACTTATCGGTAGAAGGGCACGTAATGGTA
Found at i:96368216 original size:25 final size:27
Alignment explanation
Indices: 96368179--96368232 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
96368169 TCAAACATGC
96368179 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
96368205 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
96368231 AT
1 AT
96368233 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:96368240 original size:26 final size:27
Alignment explanation
Indices: 96368196--96368271 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
96368186 TCAATTTAAC
* * *
96368196 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
96368222 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
96368250 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
96368272 ATCTATTCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:96369743 original size:26 final size:26
Alignment explanation
Indices: 96369712--96369819 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
96369702 TGAAATGCCC
*
96369712 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
96369738 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
96369764 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
96369790 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
96369816 ATCA
1 ATCA
96369820 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:96372375 original size:24 final size:24
Alignment explanation
Indices: 96372348--96372394 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
96372338 ATTGAAATGG
96372348 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
96372372 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
96372395 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:96372938 original size:12 final size:12
Alignment explanation
Indices: 96372921--96372951 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
96372911 TATAATGAAA
96372921 TGTGAAATAAAT
1 TGTGAAATAAAT
96372933 TGTGAAATAAAT
1 TGTGAAATAAAT
96372945 TGTGAAA
1 TGTGAAA
96372952 AGCTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.32
Consensus pattern (12 bp):
TGTGAAATAAAT
Found at i:96374600 original size:41 final size:41
Alignment explanation
Indices: 96374549--96374882 Score: 465
Period size: 41 Copynumber: 8.2 Consensus size: 41
96374539 GTTTAGAATA
* *
96374549 AAACGCCACTAAAAACTGAGCAATAGCAGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
*
96374590 AAACGCCACTAAAAATCGAGCAATAGCGGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * *
96374631 AAATGCCACTAAAAACCGAGCAATAGCGACGTTTCATGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * ** *
96374672 AAACGCCACTAAAAACTGAGCAATAGTGATGTTTCAGTTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* *
96374713 AAACGCCACTAAAAATCGAGCAATAGTGGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* *
96374754 -AACGCCACTAAAAACCAAGCAATAGCGGCGTTTCAAGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * *
96374794 AAACGCCACTAAAAACCGAGCAATAGTGGCGTTTCTGGTCA
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* *
96374835 AAACGCCACTAAAAACCGAGCAATAGCAGCGTTTCTA-GTCA
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTC-AGGTCC
96374876 AAACGCC
1 AAACGCC
96374883 GCAAAATTTT
Statistics
Matches: 261, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
40 36 0.14
41 225 0.86
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.18
Consensus pattern (41 bp):
AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
Found at i:96374820 original size:122 final size:123
Alignment explanation
Indices: 96374549--96374882 Score: 494
Period size: 122 Copynumber: 2.7 Consensus size: 123
96374539 GTTTAGAATA
*
96374549 AAACGCCACTAAAAACTGAGCAATAG-CAGCGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAA
1 AAACGCCACTAAAAACTGAGCAATAGTGA-CGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAA
* * *
96374613 TAGCGGCGTTTCAGGTCCAAATGCCACTAAAAACCGAGCAATAGCGACGTTTCATGTCC
65 TAGCGGCGTTTCAGGTCCAAACGCCACTAAAAACCAAGCAATAGCGACGTTTCAAGTCC
* *
96374672 AAACGCCACTAAAAACTGAGCAATAGTGATGTTTCAGTTCCAAACGCCACTAAAAATCGAGCAAT
1 AAACGCCACTAAAAACTGAGCAATAGTGACGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAAT
* *
96374737 AGTGGCGTTTCAGGTCC-AACGCCACTAAAAACCAAGCAATAGCGGCGTTTCAAGTCC
66 AGCGGCGTTTCAGGTCCAAACGCCACTAAAAACCAAGCAATAGCGACGTTTCAAGTCC
* * * * *
96374794 AAACGCCACTAAAAACCGAGCAATAGTGGCGTTTCTGGTCAAAACGCCACTAAAAACCGAGCAAT
1 AAACGCCACTAAAAACTGAGCAATAGTGACGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAAT
* *
96374859 AGCAGCGTTTCTA-GTCAAAACGCC
66 AGCGGCGTTTC-AGGTCCAAACGCC
96374883 GCAAAATTTT
Statistics
Matches: 190, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
122 106 0.56
123 83 0.44
124 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.18
Consensus pattern (123 bp):
AAACGCCACTAAAAACTGAGCAATAGTGACGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAAT
AGCGGCGTTTCAGGTCCAAACGCCACTAAAAACCAAGCAATAGCGACGTTTCAAGTCC
Found at i:96375043 original size:18 final size:17
Alignment explanation
Indices: 96375011--96375045 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
96375001 ATTTTCTTAT
*
96375011 TTTTGTTTTGAATTTGA
1 TTTTATTTTGAATTTGA
96375028 TTTTATTTTGATATTTGA
1 TTTTATTTTGA-ATTTGA
96375046 AACTAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (17 bp):
TTTTATTTTGAATTTGA
Found at i:96375820 original size:20 final size:21
Alignment explanation
Indices: 96375769--96375821 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
96375759 TTAAGTTTAT
96375769 GGTTTAAGGTTTGTTATTTTG
1 GGTTTAAGGTTTGTTATTTTG
* **
96375790 GGCTTGGGGTTTG-TATTTTG
1 GGTTTAAGGTTTGTTATTTTG
96375810 GGTTTAAGGTTT
1 GGTTTAAGGTTT
96375822 AGGGTATATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.11, C:0.02, G:0.34, T:0.53
Consensus pattern (21 bp):
GGTTTAAGGTTTGTTATTTTG
Found at i:96376280 original size:32 final size:31
Alignment explanation
Indices: 96376163--96376573 Score: 146
Period size: 32 Copynumber: 13.8 Consensus size: 31
96376153 TTCGTCCACA
96376163 ATTTATAAAATTATACAAATTAATTTTATTTT
1 ATTTA-AAAATTATACAAATTAATTTTATTTT
**
96376195 A-TTAAAAAGTT-T---AA-TAATTTTATTAAA
1 ATTTAAAAA-TTATACAAATTAATTTTATT-TT
96376222 ATTTTATAAAATTATACAAATTAATTTTATTTT
1 A-TTTA-AAAATTATACAAATTAATTTTATTTT
*
96376255 ATTTAAAAGATTAATA-AAATTAA-TTTA--CT
1 ATTTAAAA-ATT-ATACAAATTAATTTTATTTT
* ** **
96376284 -TTTAAATAGAATA-AAATT-A-TTTA--AA
1 ATTTAAAAATTATACAAATTAATTTTATTTT
96376309 AGTTTAAATAATTATACAAATTAATTTTATTTT
1 A-TTTAAA-AATTATACAAATTAATTTTATTTT
* **
96376342 ATTTAAAAGTT-T---AA-TAATTTTATTAAA
1 ATTTAAAAATTATACAAATTAATTTTATT-TT
96376369 ATTTTATAAAATTATACAAATTAA-TTTATTTT
1 A-TTTA-AAAATTATACAAATTAATTTTATTTT
* ** *
96376401 ATATAAACTTTTAATA-AAATT-ATTTAACTTTT
1 ATTTAAA-AATT-ATACAAATTAATTTTA-TTTT
**
96376433 A---AATAAA--ATA-AAATT-A-TTTA--AA
1 ATTTAA-AAATTATACAAATTAATTTTATTTT
*
96376455 AGTTTATATAATTATACAAATTAATTTTATTTT
1 A-TTTA-AAAATTATACAAATTAATTTTATTTT
* **
96376488 ATTT-AAAAGT-T-C-AA-TAATTTTATTAAA
1 ATTTAAAAATTATACAAATTAATTTTATT-TT
96376515 AGTTTATAAAATTATACAAATTAATTTTATTTT
1 A-TTTA-AAAATTATACAAATTAATTTTATTTT
96376548 ATTTAAAAGATTAATA-AAATTAATTT
1 ATTTAAAA-ATT-ATACAAATTAATTT
96376574 ACTTTTAAAT
Statistics
Matches: 284, Mismatches: 40, Indels: 110
0.65 0.09 0.25
Matches are distributed among these distances:
22 1 0.00
25 8 0.03
26 50 0.18
27 17 0.06
28 21 0.07
29 24 0.08
30 27 0.10
31 40 0.14
32 51 0.18
33 22 0.08
34 23 0.08
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (31 bp):
ATTTAAAAATTATACAAATTAATTTTATTTT
Found at i:96376287 original size:60 final size:60
Alignment explanation
Indices: 96376164--96376580 Score: 247
Period size: 60 Copynumber: 7.1 Consensus size: 60
96376154 TCGTCCACAA
* * * * *
96376164 TTTATAAAATTATACAAATTAATTTTATTTTATTAAAAAGTTTAAT-AATTTTATTAAAAT
1 TTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATT-TAAT
*
96376224 TTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACT
1 TTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTAAT
* ** ** *
96376284 TTTA-AATAGAATA-AAATT-A-TTTA--AAAGTTTAAATA-ATT-ATACAAATTAATTTTAT
1 TTTATAAAATTATACAAATTAATTTTATTTTA-TTTAAA-AGATTAATA-AAATTAATTTAAT
**
96376339 TTTATTTAAAAGTT-T---AA-TAATTTTATTAAAATTTTATAAA-ATT-ATACAAATTAATTT-
1 TTTA--TAAAA-TTATACAAATTAATTTTATT-TTA-TTTA-AAAGATTAATA-AAATTAATTTA
96376396 AT
59 AT
* * * * *
96376398 TTTATATAAACTTTTA-ATAA--AA--TTATTTAACTTTTAAATA-AAATAAAATT-ATTTAAAA
1 TTTATA-AAA-TTATACA-AATTAATTTTATTTTA-TTTAAAAGATTAATAAAATTAATTT--AA
*
96376456 G
60 T
* * * * *
96376457 TTTATATAATTATACAAATTAATTTTATTTTATTTAAAAG-TTCAAT-AATTTTATTAAAAG
1 TTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATT-AATAAAATTAATT-TAAT
*
96376517 TTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACT
1 TTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTAAT
96376577 TTTA
1 TTTA
96376581 AATAAAATAA
Statistics
Matches: 285, Mismatches: 37, Indels: 70
0.73 0.09 0.18
Matches are distributed among these distances:
54 4 0.01
55 25 0.09
56 12 0.04
57 21 0.07
58 26 0.09
59 27 0.09
60 135 0.47
61 33 0.12
62 2 0.01
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (60 bp):
TTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTAAT
Found at i:96376381 original size:21 final size:21
Alignment explanation
Indices: 96376337--96376381 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
96376327 AATTAATTTT
*
96376337 ATTTTATTTAAAAGTTTAATA
1 ATTTTATTTAAAAGTTTAAAA
*
96376358 ATTTTA-TTAAAATTTTATAAA
1 ATTTTATTTAAAAGTTTA-AAA
96376379 ATT
1 ATT
96376382 ATACAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTTTATTTAAAAGTTTAAAA
Found at i:96376423 original size:21 final size:21
Alignment explanation
Indices: 96376399--96376441 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
96376389 TTAATTTATT
96376399 TTATATAAACTTTT-AATAAAA
1 TTAT-TAAACTTTTAAATAAAA
*
96376420 TTATTTAACTTTTAAATAAAA
1 TTATTAAACTTTTAAATAAAA
96376441 T
1 T
96376442 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
TTATTAAACTTTTAAATAAAA
Found at i:96376433 original size:59 final size:60
Alignment explanation
Indices: 96376293--96376438 Score: 188
Period size: 59 Copynumber: 2.4 Consensus size: 60
96376283 TTTTAAATAG
* *
96376293 AATAAAATTATTTAAAAGTTTAAATAATTATACAAATTAATTTTATTTTATTTAAAAGTTT
1 AATAAAATTATTT-AAATTTTAAATAATTATACAAATTAATTTTATTTTATATAAAAGTTT
** * **
96376354 AATAATTTTATTAAAATTTTATAA-AATTATACAAATTAA-TTTATTTTATATAAACTTTT
1 AATAAAATTATTTAAATTTTA-AATAATTATACAAATTAATTTTATTTTATATAAAAGTTT
*
96376413 AATAAAATTATTTAACTTTTAAATAA
1 AATAAAATTATTTAAATTTTAAATAA
96376439 AATAAAATTA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
58 2 0.03
59 36 0.50
60 22 0.31
61 12 0.17
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (60 bp):
AATAAAATTATTTAAATTTTAAATAATTATACAAATTAATTTTATTTTATATAAAAGTTT
Found at i:96376469 original size:20 final size:20
Alignment explanation
Indices: 96376444--96376529 Score: 61
Period size: 20 Copynumber: 4.3 Consensus size: 20
96376434 AATAAAATAA
96376444 AATTATTTAAAAGTTTATAT
1 AATTATTTAAAAGTTTATAT
** *
96376464 AATTATACAAATTAATTT-TAT
1 AATTATTTAAA--AGTTTATAT
* *
96376485 -TTTATTTAAAAGTTCA-AT
1 AATTATTTAAAAGTTTATAT
* *
96376503 AATTTTATTAAAAGTTTATAA
1 AATTAT-TTAAAAGTTTATAT
96376524 AATTAT
1 AATTAT
96376530 ACAAATTAAT
Statistics
Matches: 47, Mismatches: 13, Indels: 11
0.66 0.18 0.15
Matches are distributed among these distances:
18 5 0.11
19 3 0.06
20 26 0.55
21 9 0.19
22 4 0.09
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (20 bp):
AATTATTTAAAAGTTTATAT
Found at i:96376483 original size:146 final size:147
Alignment explanation
Indices: 96376171--96376650 Score: 838
Period size: 147 Copynumber: 3.3 Consensus size: 147
96376161 CAATTTATAA
*
96376171 AATTATACAAATTAATTTTATTTTATTAAAAAGTTTAATAATTTTATTAAAATTTTATAAAATTA
1 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTATAAAATTA
*
96376236 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAGAATAAAAT
66 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
96376301 TATTTAAAAGTTTAAAT
131 TATTTAAAAGTTTAAAT
96376318 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTATAAAATTA
1 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTATAAAATTA
* ***
96376383 TACAAATTAA-TTTATTTTATATAAACTTTTAATAAAATT-ATTTAACTTTTAAATAAAATAAAA
66 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTT-ACTTTTAAATAAAATAAAA
*
96376446 TTATTTAAAAGTTTATAT
130 TTATTTAAAAGTTTAAAT
* *
96376464 AATTATACAAATTAATTTTATTTTATTTAAAAGTTCAATAATTTTATTAAAAGTTTATAAAATTA
1 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTATAAAATTA
96376529 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
66 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
96376594 TATTTAAAAGTTTAAAT
131 TATTTAAAAGTTTAAAT
**
96376611 AATTATATGAATTAATTTTATTTTATTTAAAAGTTTAATA
1 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATA
96376651 CAAATTATTT
Statistics
Matches: 313, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
145 4 0.01
146 133 0.42
147 172 0.55
148 4 0.01
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (147 bp):
AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTATAAAATTA
TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
TATTTAAAAGTTTAAAT
Found at i:96376527 original size:21 final size:21
Alignment explanation
Indices: 96376483--96376527 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
96376473 AATTAATTTT
*
96376483 ATTTTATTTAAAAGTTCAATA
1 ATTTTATTTAAAAGTTCAAAA
*
96376504 ATTTTA-TTAAAAGTTTATAAA
1 ATTTTATTTAAAAGTTCA-AAA
96376525 ATT
1 ATT
96376528 ATACAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (21 bp):
ATTTTATTTAAAAGTTCAAAA
Found at i:96376980 original size:22 final size:22
Alignment explanation
Indices: 96376939--96376980 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
96376929 CCCAATTCAA
* **
96376939 AATCCCCAAATCTATTTCCCAT
1 AATCCCCAAATCGAAATCCCAT
96376961 AATCCCCAAATCGAAATCCC
1 AATCCCCAAATCGAAATCCC
96376981 TTTTACTTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.38, G:0.02, T:0.24
Consensus pattern (22 bp):
AATCCCCAAATCGAAATCCCAT
Found at i:96377888 original size:16 final size:16
Alignment explanation
Indices: 96377846--96377903 Score: 82
Period size: 17 Copynumber: 3.6 Consensus size: 16
96377836 ATTTGCCCGG
96377846 CCCAAAACCCAACTAT
1 CCCAAAACCCAACTAT
*
96377862 CCCTTAAACCCAACTAT
1 CCC-AAAACCCAACTAT
*
96377879 CCCAAAACCCAAC-AA
1 CCCAAAACCCAACTAT
96377894 CCCAAAACCC
1 CCCAAAACCC
96377904 TTTTAACCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.29
16 12 0.32
17 15 0.39
ACGTcount: A:0.43, C:0.47, G:0.00, T:0.10
Consensus pattern (16 bp):
CCCAAAACCCAACTAT
Found at i:96378999 original size:21 final size:21
Alignment explanation
Indices: 96378988--96379049 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 21
96378978 ATCATTAAAT
96378988 TAATTATTTTTAATATTAATA
1 TAATTATTTTTAATATTAATA
* *
96379009 TAATTATTATATCATATTTAATA
1 TAATTATT-TTTAATA-TTAATA
* * *
96379032 TTATTATTATTATTATTA
1 TAATTATTTTTAATATTA
96379050 TTAGGTTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 11 0.34
22 8 0.25
23 13 0.41
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TAATTATTTTTAATATTAATA
Found at i:96379236 original size:9 final size:9
Alignment explanation
Indices: 96379213--96379277 Score: 68
Period size: 8 Copynumber: 7.8 Consensus size: 9
96379203 TTATATTAAC
96379213 TATTA-TAT
1 TATTATTAT
*
96379221 T-TTATTAA
1 TATTATTAT
96379229 TATTATTAT
1 TATTATTAT
96379238 TATTATTAT
1 TATTATTAT
*
96379247 TATTA-CAT
1 TATTATTAT
96379255 TATTATTA-
1 TATTATTAT
*
96379263 CATTATT-T
1 TATTATTAT
96379271 TATTATT
1 TATTATT
96379278 TTCCTTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
7 3 0.06
8 23 0.49
9 21 0.45
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTATTAT
Found at i:96379237 original size:3 final size:3
Alignment explanation
Indices: 96379213--96379277 Score: 68
Period size: 3 Copynumber: 23.3 Consensus size: 3
96379203 TTATATTAAC
* *
96379213 TAT TA- TAT T-T TAT TAA TAT TAT TAT TAT TAT TAT TAT TA- CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
96379258 TAT TA- CAT TAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
96379278 TTCCTTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 8 0.16
3 43 0.84
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:96379268 original size:11 final size:11
Alignment explanation
Indices: 96379230--96379269 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
96379220 TTTTATTAAT
*
96379230 ATTATTATTATT
1 ATTATTATTA-C
96379242 ATTATTATTAC
1 ATTATTATTAC
96379253 ATTATTATTAC
1 ATTATTATTAC
96379264 ATTATT
1 ATTATT
96379270 TTATTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTATTATTAC
Found at i:96379323 original size:193 final size:193
Alignment explanation
Indices: 96379096--96379662 Score: 873
Period size: 187 Copynumber: 3.0 Consensus size: 193
96379086 AATATTATTA
96379096 TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
1 TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
96379161 TATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
66 TATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
*
96379226 TAATATTATTATTATTATTATTATTACATTATTATTACATTATTTTATTATTTTCCTTTTTTAT
131 T-ATATTATTATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
* *
96379290 TGTTACTTATTATTTGCTA-TTTTTTAGTATTATTAATATAGTCTATTTATTTTTTGTACTGCAT
1 TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
* * *
96379354 TATAATTTTCATTATCATATTATATTTAGTATTGCTTTAACATTATGTTAACTATTATA---T-T
66 TATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
* *
96379415 T-CATTA--CTT-TTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
131 TATATTATTATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
* *
96379474 TGTTACTTACTATTTGCTACTTTTTTTTAATATTATTAATATATTCTATTTATTTCTTGTACTGC
1 TGTTACTTATTATTTGCTAC--TTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGC
*
96379539 ATTATAATTATTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTA-T-TA---T
64 ATTATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTT
*
96379599 A-T-T-TTATTACTATTATTATTATTACATTATTAGTACATTATTTTATTATTTT-CTTTTTTAT
129 ATTATATTATTATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
96379660 TGT
1 TGT
96379663 AAATATTATT
Statistics
Matches: 347, Mismatches: 19, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
184 70 0.20
185 6 0.02
186 14 0.04
187 136 0.39
189 2 0.01
190 1 0.00
193 99 0.29
194 19 0.05
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (193 bp):
TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
TATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
TATATTATTATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
Found at i:96379606 original size:17 final size:16
Alignment explanation
Indices: 96379539--96379620 Score: 58
Period size: 17 Copynumber: 4.6 Consensus size: 16
96379529 CTTGTACTGC
96379539 ATTATAATTATTATTATCAT
1 ATTAT-ATTA-TATTA-C-T
*
96379559 ATTATATTTAGTATTGCT
1 ATTATA-TTA-TATTACT
96379577 -TTAATATTATATTAACT
1 ATT-ATATTATATT-ACT
*
96379594 ATTATATTTTATTACT
1 ATTATATTATATTACT
96379610 ATTATTATTAT
1 ATTA-TATTAT
96379621 TACATTATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
16 11 0.21
17 21 0.40
18 6 0.12
19 2 0.04
20 12 0.23
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.57
Consensus pattern (16 bp):
ATTATATTATATTACT
Found at i:96379627 original size:14 final size:15
Alignment explanation
Indices: 96379581--96379630 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
96379571 ATTGCTTTAA
96379581 TATTA-TATTAACTAT
1 TATTATTATT-ACTAT
*
96379596 TATATTTTATTACTAT
1 TAT-TATTATTACTAT
96379612 TATTATTATTAC-AT
1 TATTATTATTACTAT
96379626 TATTA
1 TATTA
96379631 GTACATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 7 0.23
15 11 0.35
16 9 0.29
17 4 0.13
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTATTATTACTAT
Found at i:96379703 original size:13 final size:13
Alignment explanation
Indices: 96379685--96379710 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96379675 TCTTATTCTA
96379685 ATATTTTAATATT
1 ATATTTTAATATT
96379698 ATATTTTAATATT
1 ATATTTTAATATT
96379711 TTTCATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATTTTAATATT
Found at i:96383131 original size:39 final size:39
Alignment explanation
Indices: 96383087--96383324 Score: 413
Period size: 39 Copynumber: 6.1 Consensus size: 39
96383077 AATTATATTA
* *
96383087 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
96383126 CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
96383165 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
96383204 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
96383243 CCAGCACGAAGCTTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
96383282 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
96383321 CCAG
1 CCAG
96383325 TGTCTTGCTT
Statistics
Matches: 190, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 190 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:96384362 original size:9 final size:9
Alignment explanation
Indices: 96384348--96384404 Score: 66
Period size: 9 Copynumber: 6.7 Consensus size: 9
96384338 CAAATGAAAA
96384348 TTAATGTTT
1 TTAATGTTT
*
96384357 TTAATG--A
1 TTAATGTTT
*
96384364 TTAATTTTT
1 TTAATGTTT
*
96384373 TTAATG-AT
1 TTAATGTTT
96384381 TTAATGTTT
1 TTAATGTTT
96384390 TTAATGTTT
1 TTAATGTTT
96384399 TTAATG
1 TTAATG
96384405 ATTTAAACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 5 0.13
8 7 0.18
9 27 0.69
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (9 bp):
TTAATGTTT
Found at i:96384368 original size:16 final size:16
Alignment explanation
Indices: 96384347--96384395 Score: 80
Period size: 16 Copynumber: 3.0 Consensus size: 16
96384337 TCAAATGAAA
96384347 ATTAATGTTTTTAATG
1 ATTAATGTTTTTAATG
*
96384363 ATTAATTTTTTTAATG
1 ATTAATGTTTTTAATG
96384379 ATTTAATGTTTTTAATG
1 A-TTAATGTTTTTAATG
96384396 TTTTTAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (16 bp):
ATTAATGTTTTTAATG
Found at i:96387613 original size:103 final size:102
Alignment explanation
Indices: 96387435--96387727 Score: 431
Period size: 103 Copynumber: 2.9 Consensus size: 102
96387425 CATAGTTTTA
* *
96387435 TTTTGAATATGTTATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTA--C---TTTTATTT
1 TTTTAAATATTTTA-TTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTT
*
96387495 TTAAATTACCTAATTAAATTAAATTGCATTTAAAGTTT
65 TTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTT
*
96387533 TTTTAAATATTTTATTGCATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTT
1 TTTTAAATATTTTATT-TATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTT
*
96387598 TTAAATTACCTAATTAAATTAAATTATATTTAAAGTTT
65 TTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTT
* * *
96387636 TTTTAAAT-TTTT-TTTATTTTATTTTAATCACAAAAAATATTTTGTTTACTTTTATTTT-TTGT
1 TTTTAAATATTTTATTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTTT
*
96387698 TAAATAACCTAATTAAATTAAATTGTATTT
66 TAAATTACCTAATTAAATTAAATTGTATTT
96387728 TTAAATATTG
Statistics
Matches: 178, Mismatches: 11, Indels: 11
0.89 0.05 0.05
Matches are distributed among these distances:
97 2 0.01
98 45 0.25
99 31 0.17
100 42 0.24
101 2 0.01
102 4 0.02
103 52 0.29
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.55
Consensus pattern (102 bp):
TTTTAAATATTTTATTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTTT
TAAATTACCTAATTAAATTAAATTGTATTTAAAGTTT
Found at i:96388010 original size:9 final size:9
Alignment explanation
Indices: 96387994--96388047 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
96387984 ATATCATATC
96387994 TTACATAAT
1 TTACATAAT
*
96388003 TTACATAAG
1 TTACATAAT
* * * *
96388012 ATAAACAAC
1 TTACATAAT
96388021 TTACATAAT
1 TTACATAAT
*
96388030 TTACATAAC
1 TTACATAAT
96388039 TTACATAAT
1 TTACATAAT
96388048 ACATAAATAT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (9 bp):
TTACATAAT
Found at i:96388039 original size:18 final size:18
Alignment explanation
Indices: 96387994--96388084 Score: 71
Period size: 18 Copynumber: 5.2 Consensus size: 18
96387984 ATATCATATC
* *
96387994 TTACATAATTTACATAAG
1 TTACATAACTTACATAAT
* * *
96388012 ATAAACAACTTACATAAT
1 TTACATAACTTACATAAT
96388030 TTACATAACTTACATAA-
1 TTACATAACTTACATAAT
* * *
96388047 -TACATAAATATATATCAT
1 TTACATAACT-TACATAAT
*
96388065 AT-CATAACTTACATAAT
1 TTACATAACTTACATAAT
96388082 TTA
1 TTA
96388085 ATTATACTTA
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
16 8 0.15
17 12 0.22
18 33 0.61
19 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.36
Consensus pattern (18 bp):
TTACATAACTTACATAAT
Found at i:96393148 original size:13 final size:14
Alignment explanation
Indices: 96393132--96393160 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96393122 TTATAAATAT
96393132 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
96393145 TTATAATGGTTTAA
1 TTATAATGGTTTAA
96393159 TT
1 TT
96393161 TGTAATGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:96393168 original size:15 final size:15
Alignment explanation
Indices: 96393130--96393169 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
96393120 TATTATAAAT
96393130 ATTTATAAT-GTTTA
1 ATTTATAATGGTTTA
96393144 A-TTATAATGGTTTA
1 ATTTATAATGGTTTA
*
96393158 ATTTGTAATGGT
1 ATTTATAATGGT
96393170 GTAAATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.30
14 7 0.30
15 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (15 bp):
ATTTATAATGGTTTA
Found at i:96396566 original size:21 final size:21
Alignment explanation
Indices: 96396537--96396590 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
96396527 ACAACTTAGA
96396537 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGGGAG
* *
96396558 GCAGCGGCAGCAGCGAGGGAG
1 GCAGAGGCAGCAGAGAGGGAG
*
96396579 GCAGAGACAGCA
1 GCAGAGGCAGCA
96396591 ACGATGGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.20, G:0.48, T:0.00
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGGGAG
Found at i:96396864 original size:33 final size:33
Alignment explanation
Indices: 96396827--96396907 Score: 112
Period size: 31 Copynumber: 2.5 Consensus size: 33
96396817 TTAGATTTAA
* * *
96396827 TGTTTTTGGTTGTATTTTTTATGTTACATTTGC
1 TGTTTTTGGTTGGATTTTTCATGCTACATTTGC
*
96396860 TGTTTTTGGTTGGA--TTTCATGCTATATTTGC
1 TGTTTTTGGTTGGATTTTTCATGCTACATTTGC
96396891 TGTTTTTGGTTGGATTT
1 TGTTTTTGGTTGGATTT
96396908 AATGCAGGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 28 0.67
33 14 0.33
ACGTcount: A:0.11, C:0.06, G:0.22, T:0.60
Consensus pattern (33 bp):
TGTTTTTGGTTGGATTTTTCATGCTACATTTGC
Found at i:96399401 original size:103 final size:101
Alignment explanation
Indices: 96399214--96399409 Score: 241
Period size: 103 Copynumber: 1.9 Consensus size: 101
96399204 AATTGATGGA
* * * * * *
96399214 TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACTATAGCTGAGCTATGGCATTTTAG
1 TAAGACCATGGTTGGACCATGACAATATATAAATGTAAGACCATAGCTGAGCTATGACATCTGAG
* *
96399279 CGAAAAGACCATAAGTGGGTTATGGCACCTTGGACG
66 AGAAAAGACCATAACTGGGTTATGGCACCTTGGACG
* * * *
96399315 TAAGGCCATGGTTGGACCATGATAGTATATATATGTATAAGACCATAGCTGAGCTATGACATCCT
1 TAAGACCATGGTTGGACCATGACAATATATAAATG--TAAGACCATAGCTGAGCTATGACAT-CT
*
96399380 GA-AGATAAGACCATAACTGGGTTATGGCAC
63 GAGAGAAAAGACCATAACTGGGTTATGGCAC
96399410 TGTAATAGCC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
101 29 0.37
103 48 0.61
104 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAATATATAAATGTAAGACCATAGCTGAGCTATGACATCTGAG
AGAAAAGACCATAACTGGGTTATGGCACCTTGGACG
Found at i:96401437 original size:51 final size:51
Alignment explanation
Indices: 96401352--96401468 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
96401342 ATTTCTGATC
*
96401352 AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAATGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAATGAAA
* * *
96401403 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGAAA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAATGAAA
96401454 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
96401469 ACGTGATCCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAATGAAA
Found at i:96406028 original size:51 final size:51
Alignment explanation
Indices: 96405942--96406049 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 51
96405932 TATTTCTGAT
*
96405942 AAGTGGCAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
1 AAGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
* * * *
96405993 AAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGAC
1 AAGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
96406044 AAGTGA
1 AAGTGA
96406050 TAAATGTGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (51 bp):
AAGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
Found at i:96409221 original size:42 final size:43
Alignment explanation
Indices: 96409121--96409231 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 43
96409111 ATCAAGTACA
** * *
96409121 ATGCCAACGTCCCAGACATGGTCTTACATGTAATTTAATATCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAAATCAATATCG
** *
96409164 ATGCCTCTATCCCAGACAGGGTCTTACATG-AAATCAGATA-CG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAAATCA-ATATCG
96409206 ATGCCAATATCCCAGACATGGTCTTA
1 ATGCCAATATCCCAGACATGGTCTTA
96409232 TACTTAAATC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
42 29 0.51
43 28 0.49
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACATGTAAATCAATATCG
Found at i:96409262 original size:85 final size:85
Alignment explanation
Indices: 96409121--96409276 Score: 190
Period size: 85 Copynumber: 1.8 Consensus size: 85
96409111 ATCAAGTACA
* * * * *
96409121 ATGCCAACGTCCCAGACATGGTCTTACATGTAATTTAATATCGATGCCTCTATCCCAGACAGGGT
1 ATGCCAACATCCCAGACATGGTCTTACATGTAATCTAATATCGAAGCCTCTATCCCAAACACGGT
96409186 CTTACATGAAATCAGATACG
66 CTTACATGAAATCAGATACG
* * * * *
96409206 ATGCCAATATCCCAGACATGGTCTTATACT-TAAATCTCA-ATCGAAGCCTGTGTCCCAAACACG
1 ATGCCAACATCCCAGACATGGTCTTACA-TGT-AATCTAATATCGAAGCCTCTATCCCAAACACG
96409269 GTCTTACA
64 GTCTTACA
96409277 CGATGTCACA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 53 0.90
86 6 0.10
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (85 bp):
ATGCCAACATCCCAGACATGGTCTTACATGTAATCTAATATCGAAGCCTCTATCCCAAACACGGT
CTTACATGAAATCAGATACG
Found at i:96413117 original size:17 final size:17
Alignment explanation
Indices: 96413095--96413128 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
96413085 CAAATATAAC
*
96413095 ATTTTTGAATAATACTT
1 ATTTTTGAATAAAACTT
96413112 ATTTTTGAATAAAACTT
1 ATTTTTGAATAAAACTT
96413129 GATAAATTTC
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:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
ATTTTTGAATAAAACTT
Found at i:96414586 original size:67 final size:66
Alignment explanation
Indices: 96414506--96414652 Score: 158
Period size: 66 Copynumber: 2.2 Consensus size: 66
96414496 CACGGCCGGC
* *
96414506 CACACCCCCGTGTGTCTAGG-C-AGTGCCAAATCT-GTAGGGTATACTGACTTATGCAACACGGC
1 CACACACCCGTGTGTCTAGGCCGAGTGCC-AAT-TAG-AGGGTATACTGACTTATACAACACGGC
96414568 CAAGT
63 CAA-T
* * * * *
96414573 CACACGCCCGTGTG-CTAGGCCGTGTGCCAATTAGGGGGTATACTGACTTGTACCACACGGCCAA
1 CACACACCCGTGTGTCTAGGCCGAGTGCCAATTAGAGGGTATACTGACTTATACAACACGGCCAA
96414637 T
66 T
*
96414638 CACACACCCGCGTGT
1 CACACACCCGTGTGT
96414653 GAGACCTTGT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
65 13 0.19
66 32 0.47
67 18 0.26
68 5 0.07
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (66 bp):
CACACACCCGTGTGTCTAGGCCGAGTGCCAATTAGAGGGTATACTGACTTATACAACACGGCCAA
T
Found at i:96418238 original size:25 final size:24
Alignment explanation
Indices: 96418171--96418253 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 24
96418161 CTGGAGGCCT
* *
96418171 AGCCTCTTTTAATAAATGGGGCA-A
1 AGCC-CTTTTAATAACTAGGGCATA
96418195 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
*
96418219 AGCCCTTTATCATAACTAGGGCATA
1 AGCCCTTT-TAATAACTAGGGCATA
96418244 AGCCCTTTTA
1 AGCCCTTTTA
96418254 CACTTCCTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 16 0.30
24 14 0.26
25 23 0.43
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTAGGGCATA
Found at i:96418327 original size:20 final size:20
Alignment explanation
Indices: 96418302--96418368 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
96418292 TTATGAATAC
96418302 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
96418322 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
96418342 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
96418362 ACCATGT
1 ATCATGT
96418369 TTACTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:96424201 original size:19 final size:20
Alignment explanation
Indices: 96424161--96424204 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
96424151 GTCTCTTTAG
* *
96424161 GCATT-CATTTCATGCATCT
1 GCATTACATTGCATGCATAT
96424180 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
96424199 GCATTA
1 GCATTA
96424205 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:96426809 original size:7 final size:8
Alignment explanation
Indices: 96426788--96426817 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
96426778 TCTCATGAAT
96426788 TCAAAAAA
1 TCAAAAAA
96426796 TCAAAAAA
1 TCAAAAAA
96426804 TCAAAAAAA
1 TC-AAAAAA
96426813 TCAAA
1 TCAAA
96426818 GTCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (8 bp):
TCAAAAAA
Found at i:96429065 original size:85 final size:87
Alignment explanation
Indices: 96428915--96429237 Score: 517
Period size: 85 Copynumber: 3.7 Consensus size: 87
96428905 AACAGATCAG
* *
96428915 TGAAGACAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAAC-AAGCATTGCCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
96428979 CATTGGTTACAGTGGAGCTGGT
66 CATTGGTTACAGTGGAGCTGGT
* * *
96429001 TAAAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAAC-AAGCTTTGCCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
96429064 CATTGGTTACAGTGGAGCTGGT
66 CATTGGTTACAGTGGAGCTGGT
* *
96429086 TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG-AAAACAAAGCCTTGCCT
* * *
96429151 CCATCGGTTGCAGTGGAGCTGGT
65 TCATTGGTTACAGTGGAGCTGGT
*
96429174 TGAAGATAGCAGATCTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCT
96429238 CTCTCGGGTG
Statistics
Matches: 222, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
85 82 0.37
86 44 0.20
87 22 0.10
88 74 0.33
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (87 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
CATTGGTTACAGTGGAGCTGGT
Found at i:96429197 original size:88 final size:87
Alignment explanation
Indices: 96428915--96429363 Score: 523
Period size: 87 Copynumber: 5.2 Consensus size: 87
96428905 AACAGATCAG
* * *
96428915 TGAAGACAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAAC-AAGCATTGCCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
* *
96428979 CATTGGTTACAGTGGAGCTGGT
66 CATCGGTTGCAGTGGAGCTGGT
* * * *
96429001 TAAAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAAC-AAGCTTTGCCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
* *
96429064 CATTGGTTACAGTGGAGCTGGT
66 CATCGGTTGCAGTGGAGCTGGT
* *
96429086 TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG-AAAACAAAGCCTTGCCT
96429151 CCATCGGTTGCAGTGGAGCTGGT
65 CCATCGGTTGCAGTGGAGCTGGT
*
96429174 TGAAGATAGCAGATCTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
* * ** *
96429239 TC-TCGGGTGTAGAAGAGTTGGT
66 -CATCGGTTGCAGTGGAGCTGGT
* * * * ** * * * * * *
96429261 TGAAGACAACTGATTTTATCTTCCTGCGTTGACAGTGAAGCGGGTCGAAGACAAA-CCTTACCTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
*
96429325 TC-TCGGTTGTAGTGGAGCTGGT
66 -CATCGGTTGCAGTGGAGCTGGT
*
96429347 TGAAGAATTGCAGATCT
1 TGAAG-ATAGCAGATCT
96429364 GATCTCCCTG
Statistics
Matches: 319, Mismatches: 39, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
85 82 0.26
86 75 0.24
87 87 0.27
88 75 0.24
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (87 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
CATCGGTTGCAGTGGAGCTGGT
Found at i:96431413 original size:2 final size:2
Alignment explanation
Indices: 96431406--96431438 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
96431396 TCTATGACTC
*
96431406 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96431439 CTTTTTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96431525 original size:61 final size:57
Alignment explanation
Indices: 96431405--96431533 Score: 136
Period size: 61 Copynumber: 2.2 Consensus size: 57
96431395 TTCTATGACT
* **
96431405 CATATATATATATATATATGTATATATATATATACTTTTTATATTTTATGATAGTTA
1 CATACATATATATATATATGTATATATATATATACTTTTTATATTTTAAAATAGTTA
* * *
96431462 CATACGTATATATGTATATGTTTACTTATATATATA-TTTTATAATGATTTTAAAATA-TGTA
1 CATACATATATATATATATGTATA--TATATATATACTTTT-T-AT-ATTTTAAAATAGT-TA
96431523 CATACATATAT
1 CATACATATAT
96431534 TTTTTATATT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
57 20 0.34
58 4 0.07
59 11 0.19
60 3 0.05
61 21 0.36
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (57 bp):
CATACATATATATATATATGTATATATATATATACTTTTTATATTTTAAAATAGTTA
Found at i:96439619 original size:6 final size:6
Alignment explanation
Indices: 96439608--96439634 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
96439598 AGAATGCACC
96439608 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
96439635 GTGGTACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:96440544 original size:19 final size:19
Alignment explanation
Indices: 96440509--96440557 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
96440499 TGTTTCGTCC
* *
96440509 TTCTTTCTTTCCTTTTTCTT
1 TTCTTTATTT-CTTTTTATT
96440529 TAT-TTTATTTCTTTTTATT
1 T-TCTTTATTTCTTTTTATT
96440548 TTCTTTATTT
1 TTCTTTATTT
96440558 ATTTGAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 1 0.04
19 16 0.64
20 7 0.28
21 1 0.04
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (19 bp):
TTCTTTATTTCTTTTTATT
Found at i:96441297 original size:28 final size:29
Alignment explanation
Indices: 96441266--96441324 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
96441256 CAAAATACTG
**
96441266 ATAT-CATGGCCTGAAGCCAAATCAGCTT
1 ATATGCATGGCCCAAAGCCAAATCAGCTT
*
96441294 ATATGCATGGCCCAAAGCCAAATCAGTTT
1 ATATGCATGGCCCAAAGCCAAATCAGCTT
96441323 AT
1 AT
96441325 CTTGCACCCG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (29 bp):
ATATGCATGGCCCAAAGCCAAATCAGCTT
Found at i:96443806 original size:32 final size:33
Alignment explanation
Indices: 96443752--96443816 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
96443742 GTTAGATGTA
96443752 AGAAATGACAAAAAAAAAAGAGGACTTTTAGTT
1 AGAAATGACAAAAAAAAAAGAGGACTTTTAGTT
*
96443785 AGAAATGAC-AAAAAAAGAGAGGACTTTTAGTT
1 AGAAATGACAAAAAAAAAAGAGGACTTTTAGTT
96443817 TTGGGATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 22 0.71
33 9 0.29
ACGTcount: A:0.52, C:0.06, G:0.20, T:0.22
Consensus pattern (33 bp):
AGAAATGACAAAAAAAAAAGAGGACTTTTAGTT
Found at i:96447817 original size:21 final size:20
Alignment explanation
Indices: 96447793--96447831 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
96447783 GAAACTGAGT
*
96447793 CATTAGAGTTGAAATTGAAAC
1 CATTAGA-TTGAAAATGAAAC
*
96447814 CATTATATTGAAAATGAA
1 CATTAGATTGAAAATGAA
96447832 TCTACAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (20 bp):
CATTAGATTGAAAATGAAAC
Found at i:96450914 original size:31 final size:31
Alignment explanation
Indices: 96450875--96450958 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
96450865 GGGAATTAGT
* *
96450875 CATTCATATTTGCATATCCATACCCTTTAATA
1 CATTCATATTTGCATATTCATACCCTGTAA-A
96450907 -ATTCATATTTGCATATTCATACCCTGTAAA
1 CATTCATATTTGCATATTCATACCCTGTAAA
*
96450937 CATTCATATTTACATATTCATA
1 CATTCATATTTGCATATTCATA
96450959 TCTTGTACAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
30 1 0.02
31 47 0.98
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (31 bp):
CATTCATATTTGCATATTCATACCCTGTAAA
Found at i:96457807 original size:15 final size:15
Alignment explanation
Indices: 96457787--96457816 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
96457777 CGATCAAGTT
96457787 TAATTTTCCTCACTC
1 TAATTTTCCTCACTC
96457802 TAATTTTCCTCACTC
1 TAATTTTCCTCACTC
96457817 CCCCTATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTTTCCTCACTC
Found at i:96460698 original size:22 final size:22
Alignment explanation
Indices: 96460673--96460717 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
96460663 GTATGTTATG
96460673 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
96460695 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
96460717 T
1 T
96460718 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:96478970 original size:20 final size:20
Alignment explanation
Indices: 96478945--96478996 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
96478935 AGATGAGTAC
* *
96478945 AAAATTATAATATTTTTTAA
1 AAAATTATAAAATTTGTTAA
*
96478965 AAAATTGTAAAATTTGTT-A
1 AAAATTATAAAATTTGTTAA
96478984 AAAATTACTAAAA
1 AAAATTA-TAAAA
96478997 ATTATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (20 bp):
AAAATTATAAAATTTGTTAA
Found at i:96479311 original size:19 final size:18
Alignment explanation
Indices: 96479208--96479311 Score: 72
Period size: 19 Copynumber: 5.6 Consensus size: 18
96479198 ACTATTAATG
96479208 TTTTTATAA-A-TTATAA
1 TTTTTATAATATTTATAA
* *
96479224 TTTTTTGTAATTTTTATATA
1 -TTTTTATAATATTTATA-A
96479244 TTTTT-TACATATTTA-AA
1 TTTTTATA-ATATTTATAA
*
96479261 TTTTTATAATACTTTTTATAC
1 TTTTTATAATA---TTTATAA
*
96479282 TTTCTAGTAATATTTAATAA
1 TTTTTA-TAATATTT-ATAA
96479302 TTTTTATAAT
1 TTTTTATAAT
96479312 TTTGTATTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
17 17 0.25
18 5 0.07
19 23 0.33
20 13 0.19
21 6 0.09
22 5 0.07
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTTATAATATTTATAA
Found at i:96479312 original size:9 final size:9
Alignment explanation
Indices: 96479218--96479314 Score: 63
Period size: 9 Copynumber: 10.1 Consensus size: 9
96479208 TTTTTATAAA
96479218 TTATAATTTT
1 TTATAA-TTT
*
96479228 TTGTAATTT
1 TTATAATTT
96479237 TTATATATTT
1 TTATA-ATTT
*
96479247 TT-TACATAT
1 TTATA-ATTT
96479256 TTA-AATTT
1 TTATAATTT
96479264 TTATAATACTTT
1 TTAT-A-A-TTT
*
96479276 TTATACTTT
1 TTATAATTT
*
96479285 CTAGTAATATT
1 TTA-TAAT-TT
*
96479296 TAATAATTT
1 TTATAATTT
96479305 TTATAATTT
1 TTATAATTT
96479314 T
1 T
96479315 GTATTCATCT
Statistics
Matches: 68, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
8 6 0.09
9 31 0.46
10 19 0.28
11 5 0.07
12 7 0.10
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (9 bp):
TTATAATTT
Found at i:96481154 original size:63 final size:63
Alignment explanation
Indices: 96481022--96481170 Score: 172
Period size: 63 Copynumber: 2.4 Consensus size: 63
96481012 TGTAGTAGGT
* * * * ** *
96481022 CGTGTAACTCACTGTTATGGAATTAGAGGCACACGAGCTAGGGACACAGGTGTGTGTTCAGGC
1 CGTGTAACTCACTGTTTTGGAATTAGAAGCACACGAGCTAGGGACACAAGAGTGTGCCCAGAC
* * * *
96481085 CATGTAACTCACTGTTTTGGAATTAGAAGCACATGGGTTAGGGACACAAGAGTGTGCCCAGAC
1 CGTGTAACTCACTGTTTTGGAATTAGAAGCACACGAGCTAGGGACACAAGAGTGTGCCCAGAC
* * *
96481148 CGTGTAACCCACTATTTTCGAAT
1 CGTGTAACTCACTGTTTTGGAAT
96481171 CAAGGACATA
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (63 bp):
CGTGTAACTCACTGTTTTGGAATTAGAAGCACACGAGCTAGGGACACAAGAGTGTGCCCAGAC
Found at i:96482901 original size:13 final size:13
Alignment explanation
Indices: 96482883--96482907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96482873 GTTTAGTGTT
96482883 TTAGTTCGAAAAG
1 TTAGTTCGAAAAG
96482896 TTAGTTCGAAAA
1 TTAGTTCGAAAA
96482908 AGGTGTGAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (13 bp):
TTAGTTCGAAAAG
Found at i:96486173 original size:17 final size:18
Alignment explanation
Indices: 96486151--96486188 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
96486141 TTCCTCTTCA
96486151 TTTTAT-TTTTTTTTATT
1 TTTTATGTTTTTTTTATT
96486168 TTTTATGTTTTTATTT-TT
1 TTTTATGTTTTT-TTTATT
96486186 TTT
1 TTT
96486189 CCTTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 10 0.53
19 3 0.16
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.87
Consensus pattern (18 bp):
TTTTATGTTTTTTTTATT
Found at i:96486788 original size:63 final size:63
Alignment explanation
Indices: 96486686--96486806 Score: 147
Period size: 63 Copynumber: 1.9 Consensus size: 63
96486676 TAAACTGGTA
* * * * * *
96486686 TGGAATTAGAGGCACATAGGCTAGGGACATGGGCGTGTGTCCAAG-CTGTGTAACTCACTGTTT
1 TGGAATTAGAGGCACACAGGCCAGAGACACGGGCATGTGT-CAAGACCGTGTAACTCACTGTTT
*
96486749 TGGAATTAGAGAG-ACACAGGCCAGAGACACGGGCATGTGTCTAGACCGTGTAACTCAC
1 TGGAATTAGAG-GCACACAGGCCAGAGACACGGGCATGTGTCAAGACCGTGTAACTCAC
96486807 AATTTTGAGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
62 3 0.06
63 45 0.92
64 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (63 bp):
TGGAATTAGAGGCACACAGGCCAGAGACACGGGCATGTGTCAAGACCGTGTAACTCACTGTTT
Found at i:96490836 original size:6 final size:6
Alignment explanation
Indices: 96490825--96490849 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
96490815 TTTTTCAGTT
96490825 AAATTA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA A
96490850 TTATTTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:96493819 original size:17 final size:17
Alignment explanation
Indices: 96493797--96493830 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
96493787 CTATCATATA
96493797 GTAAGTCAAATTACTTT
1 GTAAGTCAAATTACTTT
96493814 GTAAGTCAAATTACTTT
1 GTAAGTCAAATTACTTT
96493831 TTAACTGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
GTAAGTCAAATTACTTT
Found at i:96494274 original size:6 final size:6
Alignment explanation
Indices: 96494263--96494295 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
96494253 CATATAGACC
96494263 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA- AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
96494296 TGAATCTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Done.