Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 31 of 310
Found at i:8386062 original size:53 final size:53
Alignment explanation
Indices: 8385967--8386070 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
8385957 GACCGAAAAG
* * * *
8385967 ATGTGATAATGTGATTCCGTATAAGACTATAGCTGGGCTATGG-TATCGGTACA
1 ATGTGATAATGTGATTCCGTACAAGACCATAGCTAGGATATGGCT-TCGGTACA
8386020 ATGTGATAATGTGATTCCGTACAAGACCAT-GACTAGGATATGGCTTCGGTA
1 ATGTGATAATGTGATTCCGTACAAGACCATAG-CTAGGATATGGCTTCGGTA
8386071 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:8386890 original size:20 final size:20
Alignment explanation
Indices: 8386865--8386933 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
8386855 TGCACATGGG
*
8386865 CAGGCCACAAGGGCATGTTC
1 CAGGCCACATGGGCATGTTC
8386885 CAGGCCACATGGGCATGTTC
1 CAGGCCACATGGGCATGTTC
*
8386905 CAAGCCACATGGGCATGTTC
1 CAGGCCACATGGGCATGTTC
*
8386925 TAGGCCACA
1 CAGGCCACA
8386934 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:8395278 original size:58 final size:57
Alignment explanation
Indices: 8395214--8395325 Score: 172
Period size: 58 Copynumber: 1.9 Consensus size: 57
8395204 ATAATTTTAA
* *
8395214 ATTTTAATA-AAATTATTATTAAATATAATTTAATAATAATAATAAATAATTTAATCAT
1 ATTTTAACATAAA-TATTATTAAATAAAATTTAATAA-AATAATAAATAATTTAATCAT
*
8395272 ATTTTAACATAAATATTATTAAATAAAATTTAATAAAATAATATATAATTTAAT
1 ATTTTAACATAAATATTATTAAATAAAATTTAATAAAATAATAAATAATTTAAT
8395326 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:8395377 original size:24 final size:23
Alignment explanation
Indices: 8395350--8395399 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
8395340 TATTACTAAA
*
8395350 ATATGAAT-TAATAAAAATCATAAT
1 ATAT-AATATAATAAAAATAAT-AT
*
8395374 ATATAATATTATAAAAATAATAT
1 ATATAATATAATAAAAATAATAT
8395397 ATA
1 ATA
8395400 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:8397299 original size:267 final size:267
Alignment explanation
Indices: 8396824--8397360 Score: 1065
Period size: 267 Copynumber: 2.0 Consensus size: 267
8396814 CGAATCTAGC
8396824 TAATGCTAGACACTAAGTAGCCTTGAAGTTTTAAAGAACATTTTCAGCTATTAAATTGAAACCGA
1 TAATGCTAGACACTAAGTAGCCTTGAAGTTTTAAAGAACATTTTCAGCTATTAAATTGAAACCGA
8396889 AACATCAATGCTAATTTAATATATATATATTAAGCATGAAAATAACAAAATGAGTTTAAAGAAAA
66 AACATCAATGCTAATTTAATATATATATATTAAGCATGAAAATAACAAAATGAGTTTAAAGAAAA
8396954 CTCACCATTAGCAACACTCAATTTGTACTTCTAAAATAACAAGTCATTCGGCAAATAAAACGCAA
131 CTCACCATTAGCAACACTCAATTTGTACTTCTAAAATAACAAGTCATTCGGCAAATAAAACGCAA
8397019 TTTTCTCATTAACGACACATCATCAATAACAGTCCCAGAGTTATACATTTTAACCACGGCACCAA
196 TTTTCTCATTAACGACACATCATCAATAACAGTCCCAGAGTTATACATTTTAACCACGGCACCAA
8397084 AGCACTA
261 AGCACTA
8397091 TAATGCTAGACACTAAGTAGCCTTGAAGTTTTAAAGAACATTTTCAGCTATTAAATTGAAACCGA
1 TAATGCTAGACACTAAGTAGCCTTGAAGTTTTAAAGAACATTTTCAGCTATTAAATTGAAACCGA
8397156 AACATCAATGCTAATTTAATATATATATATTAAGCATGAAAATAACAAAATGAGTTTAAAGAAAA
66 AACATCAATGCTAATTTAATATATATATATTAAGCATGAAAATAACAAAATGAGTTTAAAGAAAA
8397221 CTCACCATTAGCAACACTCAATTTGTACTTCTAAAATAACAAGTCATTCGGCAAATAAAACGCAA
131 CTCACCATTAGCAACACTCAATTTGTACTTCTAAAATAACAAGTCATTCGGCAAATAAAACGCAA
8397286 TTTTCTCATTAACGACACATCATCAATAACAGTCCCAGAGTTATACATTTTAACCACGGCACCAA
196 TTTTCTCATTAACGACACATCATCAATAACAGTCCCAGAGTTATACATTTTAACCACGGCACCAA
*
8397351 TGCACTA
261 AGCACTA
8397358 TAA
1 TAA
8397361 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:8398927 original size:6 final size:6
Alignment explanation
Indices: 8398916--8398946 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
8398906 GTCATGTGCA
8398916 TTAGTG TTAGTG TTAGTG TTAGTG TTAGTG T
1 TTAGTG TTAGTG TTAGTG TTAGTG TTAGTG T
8398947 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:8401735 original size:40 final size:40
Alignment explanation
Indices: 8401681--8401798 Score: 173
Period size: 40 Copynumber: 3.0 Consensus size: 40
8401671 CGGATGTAAC
* * *
8401681 AACCAGCACAAATGCCTTCAGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
8401721 AACCCGCATGAATGCCTTTGGGACTTAACTCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
8401761 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
8401799 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:8403968 original size:47 final size:49
Alignment explanation
Indices: 8403846--8404024 Score: 214
Period size: 47 Copynumber: 3.8 Consensus size: 49
8403836 TGTAACCCGC
* * *
8403846 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GC-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
8403892 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-C-AGTTCACAT
* *
8403942 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
8403986 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
8404025 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:8404014 original size:94 final size:93
Alignment explanation
Indices: 8403854--8404024 Score: 297
Period size: 94 Copynumber: 1.8 Consensus size: 93
8403844 GCCCATAAGT
* *
8403854 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
8403919 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
8403947 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
8404012 ACGAGTTCGGATG
65 ACGAGTTCGGATG
8404025 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:8404478 original size:30 final size:30
Alignment explanation
Indices: 8404444--8404503 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
8404434 CCTTAATACG
8404444 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
8404474 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
8404504 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:8411963 original size:30 final size:30
Alignment explanation
Indices: 8411929--8411988 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
8411919 CCTTAATACG
8411929 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
8411959 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
8411989 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:8415391 original size:22 final size:22
Alignment explanation
Indices: 8415349--8415393 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
8415339 ATAACAAAGC
* *
8415349 TGATTTATTGTTTATATTTTTT
1 TGATTTATTGTTTACAATTTTT
8415371 TGATTTATT-TATTACAATTTTT
1 TGATTTATTGT-TTACAATTTTT
8415393 T
1 T
8415394 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:8415441 original size:14 final size:14
Alignment explanation
Indices: 8415422--8415461 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
8415412 TTGATTGGCA
8415422 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
8415436 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
8415450 GGAAAATGTTTT
1 GTAAAATGTTTT
8415462 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:8415470 original size:20 final size:20
Alignment explanation
Indices: 8415445--8415484 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8415435 CGTAAAATGA
*
8415445 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
8415465 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
8415485 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:8415474 original size:34 final size:35
Alignment explanation
Indices: 8415430--8415496 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
8415420 CAGTAAAATG
*
8415430 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
8415464 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
8415497 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:8415608 original size:20 final size:20
Alignment explanation
Indices: 8415583--8415621 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8415573 GTTTTTACAT
8415583 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
8415603 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
8415622 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:8415681 original size:15 final size:15
Alignment explanation
Indices: 8415652--8415704 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 15
8415642 TATTGCAATG
*
8415652 ATTTATTTATAAATAA
1 ATTT-TTTATTAATAA
8415668 ATTTTTTATTAATAAA
1 ATTTTTTATTAAT-AA
8415684 AGTTTTTTATCTAATTAA
1 A-TTTTTTAT-TAA-TAA
8415702 ATT
1 ATT
8415705 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:8419166 original size:18 final size:18
Alignment explanation
Indices: 8419143--8419180 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
8419133 TTTGCAATCC
8419143 AAGGGGAAGGGAAAAGGG
1 AAGGGGAAGGGAAAAGGG
*
8419161 AAGGGGAAGGGAAAGGGG
1 AAGGGGAAGGGAAAAGGG
8419179 AA
1 AA
8419181 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:8419193 original size:24 final size:24
Alignment explanation
Indices: 8419143--8419194 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
8419133 TTTGCAATCC
* **
8419143 AAGGGGAAGGGAAAAGGGAAGGGG
1 AAGGGAAAGGGAAAAGGGAAGAAG
* *
8419167 AAGGGAAAGGGGAAAGGGTAGAAG
1 AAGGGAAAGGGAAAAGGGAAGAAG
8419191 AAGG
1 AAGG
8419195 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:8422493 original size:11 final size:12
Alignment explanation
Indices: 8422469--8422497 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
8422459 TGGTTAATTT
8422469 AATTTAAGTTAA
1 AATTTAAGTTAA
8422481 AATTTAA-TTAA
1 AATTTAAGTTAA
8422492 AATTTA
1 AATTTA
8422498 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:8428505 original size:48 final size:48
Alignment explanation
Indices: 8428435--8428593 Score: 230
Period size: 48 Copynumber: 3.3 Consensus size: 48
8428425 AAGGTATATT
* * * * * *
8428435 TGTCTTTCACTATTTGCGCTCTTAGAGTTGGTAC-TTTATTATATGGCA
1 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTA-TGTATGGCA
8428483 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
1 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
* *
8428531 TGTTATTCATTATTTTCACTCTTAGATTTTGTACTTTTATGTATGGCA
1 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
8428579 TGTCATTCATTATTT
1 TGTCATTCATTATTT
8428594 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:8432787 original size:1 final size:1
Alignment explanation
Indices: 8432781--8432831 Score: 93
Period size: 1 Copynumber: 51.0 Consensus size: 1
8432771 AGTCTTCTTC
*
8432781 TTTTTTTTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8432832 ATCATGTGGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.00, G:0.02, T:0.98
Consensus pattern (1 bp):
T
Found at i:8434175 original size:12 final size:12
Alignment explanation
Indices: 8434158--8434182 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8434148 TATTTTCCAG
8434158 AAACTTGAGCAA
1 AAACTTGAGCAA
8434170 AAACTTGAGCAA
1 AAACTTGAGCAA
8434182 A
1 A
8434183 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:8437804 original size:3 final size:3
Alignment explanation
Indices: 8437796--8437841 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
8437786 GGTGACCCTG
*
8437796 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
8437842 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:8439772 original size:14 final size:14
Alignment explanation
Indices: 8439753--8439787 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
8439743 TAAAGGTCTT
8439753 TCTTTATTTTAATA
1 TCTTTATTTTAATA
8439767 TCTTTATTTTAATA
1 TCTTTATTTTAATA
8439781 TCATTTA
1 TC-TTTA
8439788 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:8448615 original size:48 final size:47
Alignment explanation
Indices: 8448559--8448653 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 47
8448549 AACCTAATAT
8448559 TATTATTCAAATATTTCTAATTTTAGAATGAATAACCCAACTCGTAAA
1 TATTATTCAAATATTTCTAATTTTAGAATGAATAA-CCAACTCGTAAA
8448607 TATTATTCAAATATTTCTAATTTTAGAATGAATAACCAACTCGTAAA
1 TATTATTCAAATATTTCTAATTTTAGAATGAATAACCAACTCGTAAA
8448654 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:8455298 original size:18 final size:18
Alignment explanation
Indices: 8455275--8455317 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8455265 GAATAGATTT
8455275 TTAATTAAATAAAATT-AA
1 TTAATTAAA-AAAATTAAA
*
8455293 TTAATTAAAAAATTTAAA
1 TTAATTAAAAAAATTAAA
8455311 TTAATTA
1 TTAATTA
8455318 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:8456934 original size:126 final size:125
Alignment explanation
Indices: 8456695--8457134 Score: 467
Period size: 126 Copynumber: 3.5 Consensus size: 125
8456685 GTAGAAGGTC
*
8456695 GCTATGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATGGTGAAATGCTTGATGAAAAT
1 GCTACGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGA---T---ATGCTTGATGAAAAT
** * * * * * *
8456760 AGATCTACTGGCTCTCATAGTGAGGAGCAAGATCAGCACTTATTGGTAGAAGGGCGACGTAATGG
60 AGATCTACTGATTCTCATAGCGAGGAGCACGGTGAGAACTTATCGGTAGAAGGGC-ACGTAATGG
*
8456825 TT
124 TA
* * * *
8456827 GCTATGAGAAGGAACAAAATGCATCCAGAGATAGTGATGGTGATATGCTCGATGAAAATAGATCT
1 GCTACGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATATGCTTGATGAAAATAGATCT
* * *
8456892 ACTGATTCTCGTAGCAAGGAGCACGGTGAGAAGC-TATCGGTAGAAGGCCAACGTAATGG-A
66 ACTGATTCTCATAGCGAGGAGCACGGTGAGAA-CTTATCGGTAGAAGGGC-ACGTAATGGTA
* * * * * *
8456952 CGCTACGAGAAAGATCAAAATACTTCCAGAGATGGTGATGGTGATATGGTTGATGAAAGTAGGTC
1 -GCTACGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATATGCTTGATGAAAATAGATC
* *
8457017 TATTGATTCTCATAGCGAGGAGCACGGTGAGAACTTATCGGTAGAA-GGC-CATAATGGTA
65 TACTGATTCTCATAGCGAGGAGCACGGTGAGAACTTATCGGTAGAAGGGCACGTAATGGTA
* * * * * *
8457076 GCTACGAGGCA-GATCAAATTGCGTCCAGAGATGGTGATGGTGATATGGTTGATGAAAAT
1 GCTACGA-GAAGGATCAAAATACATCCAGAGATAGTGATGGTGATATGCTTGATGAAAAT
8457135 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:8464372 original size:25 final size:27
Alignment explanation
Indices: 8464335--8464388 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
8464325 TCAAACATGC
8464335 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
8464361 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
8464387 AT
1 AT
8464389 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:8464396 original size:26 final size:27
Alignment explanation
Indices: 8464352--8464427 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
8464342 TCAATTTAAC
* * *
8464352 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
8464378 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
8464406 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
8464428 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:8465900 original size:26 final size:26
Alignment explanation
Indices: 8465869--8465976 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
8465859 TGAAATGCCC
*
8465869 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
8465895 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
8465921 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
8465947 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8465973 ATCA
1 ATCA
8465977 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:8468532 original size:24 final size:24
Alignment explanation
Indices: 8468505--8468551 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8468495 ATTGAAATGG
8468505 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
8468529 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
8468552 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:8469095 original size:12 final size:12
Alignment explanation
Indices: 8469078--8469108 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
8469068 TATAATGAAA
8469078 TGTGAAATAAAT
1 TGTGAAATAAAT
8469090 TGTGAAATAAAT
1 TGTGAAATAAAT
8469102 TGTGAAA
1 TGTGAAA
8469109 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:8470757 original size:41 final size:41
Alignment explanation
Indices: 8470706--8471039 Score: 465
Period size: 41 Copynumber: 8.2 Consensus size: 41
8470696 GTTTAGAATA
* *
8470706 AAACGCCACTAAAAACTGAGCAATAGCAGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
*
8470747 AAACGCCACTAAAAATCGAGCAATAGCGGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * *
8470788 AAATGCCACTAAAAACCGAGCAATAGCGACGTTTCATGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * ** *
8470829 AAACGCCACTAAAAACTGAGCAATAGTGATGTTTCAGTTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* *
8470870 AAACGCCACTAAAAATCGAGCAATAGTGGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* *
8470911 -AACGCCACTAAAAACCAAGCAATAGCGGCGTTTCAAGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * *
8470951 AAACGCCACTAAAAACCGAGCAATAGTGGCGTTTCTGGTCA
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* *
8470992 AAACGCCACTAAAAACCGAGCAATAGCAGCGTTTCTA-GTCA
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTC-AGGTCC
8471033 AAACGCC
1 AAACGCC
8471040 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:8470977 original size:122 final size:123
Alignment explanation
Indices: 8470706--8471039 Score: 494
Period size: 122 Copynumber: 2.7 Consensus size: 123
8470696 GTTTAGAATA
*
8470706 AAACGCCACTAAAAACTGAGCAATAG-CAGCGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAA
1 AAACGCCACTAAAAACTGAGCAATAGTGA-CGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAA
* * *
8470770 TAGCGGCGTTTCAGGTCCAAATGCCACTAAAAACCGAGCAATAGCGACGTTTCATGTCC
65 TAGCGGCGTTTCAGGTCCAAACGCCACTAAAAACCAAGCAATAGCGACGTTTCAAGTCC
* *
8470829 AAACGCCACTAAAAACTGAGCAATAGTGATGTTTCAGTTCCAAACGCCACTAAAAATCGAGCAAT
1 AAACGCCACTAAAAACTGAGCAATAGTGACGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAAT
* *
8470894 AGTGGCGTTTCAGGTCC-AACGCCACTAAAAACCAAGCAATAGCGGCGTTTCAAGTCC
66 AGCGGCGTTTCAGGTCCAAACGCCACTAAAAACCAAGCAATAGCGACGTTTCAAGTCC
* * * * *
8470951 AAACGCCACTAAAAACCGAGCAATAGTGGCGTTTCTGGTCAAAACGCCACTAAAAACCGAGCAAT
1 AAACGCCACTAAAAACTGAGCAATAGTGACGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAAT
* *
8471016 AGCAGCGTTTCTA-GTCAAAACGCC
66 AGCGGCGTTTC-AGGTCCAAACGCC
8471040 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:8471200 original size:18 final size:17
Alignment explanation
Indices: 8471168--8471202 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8471158 ATTTTCTTAT
*
8471168 TTTTGTTTTGAATTTGA
1 TTTTATTTTGAATTTGA
8471185 TTTTATTTTGATATTTGA
1 TTTTATTTTGA-ATTTGA
8471203 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:8471977 original size:20 final size:21
Alignment explanation
Indices: 8471926--8471978 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
8471916 TTAAGTTTAT
8471926 GGTTTAAGGTTTGTTATTTTG
1 GGTTTAAGGTTTGTTATTTTG
* **
8471947 GGCTTGGGGTTTG-TATTTTG
1 GGTTTAAGGTTTGTTATTTTG
8471967 GGTTTAAGGTTT
1 GGTTTAAGGTTT
8471979 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:8472392 original size:26 final size:26
Alignment explanation
Indices: 8472363--8472490 Score: 73
Period size: 26 Copynumber: 4.6 Consensus size: 26
8472353 TTAAAATTTT
8472363 AATAAAATTAATTTAATTTTAAATAA
1 AATAAAATTAATTTAATTTTAAATAA
* *
8472389 AATAAAAAT-ATTTAAAAGTTTATAAA-AT
1 AATAAAATTAATTT--AA-TTT-TAAATAA
* * *
8472417 TATACAAATTAATTTTATTTTATTTAAAAGA
1 AATA-AAATTAATTTAATTTTA---AATA-A
* *
8472448 TTAATAAAATTAATTTACTTTTAAATAG
1 --AATAAAATTAATTTAATTTTAAATAA
8472476 AATAAAATT-ATTTAA
1 AATAAAATTAATTTAA
8472491 AAGTTTAAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 27
0.66 0.10 0.23
Matches are distributed among these distances:
25 9 0.12
26 19 0.25
27 5 0.06
28 8 0.10
29 13 0.17
30 5 0.06
32 15 0.19
33 3 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
AATAAAATTAATTTAATTTTAAATAA
Found at i:8472552 original size:87 final size:87
Alignment explanation
Indices: 8472321--8472555 Score: 391
Period size: 87 Copynumber: 2.7 Consensus size: 87
8472311 TCGTCCACAA
* *
8472321 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAATTTTAATAAAATTAATTTAATTTTAAA
1 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAAAATTAATTTACTTTTAAA
8472386 TAAAATAAAAATATTTAAAAGT
66 TAAAATAAAAATATTTAAAAGT
*
8472408 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAA
1 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAAAATTAATTTACTTTTAAA
* *
8472473 TAGAATAAAATTATTTAAAAGT
66 TAAAATAAAAATATTTAAAAGT
* *
8472495 TTA-AATAATTATACAAATTGATTTTATTTTATTTAAAAGTTTAATAAAATTATTTTACTTT
1 TTATAA-AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAAAATTAATTTACTTT
8472556 AGGCTAAACA
Statistics
Matches: 139, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
86 2 0.01
87 137 0.99
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (87 bp):
TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAAAATTAATTTACTTTTAAA
TAAAATAAAAATATTTAAAAGT
Found at i:8472826 original size:22 final size:22
Alignment explanation
Indices: 8472785--8472826 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8472775 CCCAATTCAA
* **
8472785 AATCCCCAAATCTATTTCCCAT
1 AATCCCCAAATCGAAATCCCAT
8472807 AATCCCCAAATCGAAATCCC
1 AATCCCCAAATCGAAATCCC
8472827 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:8473734 original size:16 final size:16
Alignment explanation
Indices: 8473692--8473749 Score: 82
Period size: 17 Copynumber: 3.6 Consensus size: 16
8473682 ATTTGCCCGG
8473692 CCCAAAACCCAACTAT
1 CCCAAAACCCAACTAT
*
8473708 CCCTTAAACCCAACTAT
1 CCC-AAAACCCAACTAT
*
8473725 CCCAAAACCCAAC-AA
1 CCCAAAACCCAACTAT
8473740 CCCAAAACCC
1 CCCAAAACCC
8473750 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:8474845 original size:21 final size:21
Alignment explanation
Indices: 8474834--8474895 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 21
8474824 ATCATTAAAT
8474834 TAATTATTTTTAATATTAATA
1 TAATTATTTTTAATATTAATA
* *
8474855 TAATTATTATATCATATTTAATA
1 TAATTATT-TTTAATA-TTAATA
* * *
8474878 TTATTATTATTATTATTA
1 TAATTATTTTTAATATTA
8474896 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:8475082 original size:9 final size:9
Alignment explanation
Indices: 8475059--8475123 Score: 68
Period size: 8 Copynumber: 7.8 Consensus size: 9
8475049 TTATATTAAC
8475059 TATTA-TAT
1 TATTATTAT
*
8475067 T-TTATTAA
1 TATTATTAT
8475075 TATTATTAT
1 TATTATTAT
8475084 TATTATTAT
1 TATTATTAT
*
8475093 TATTA-CAT
1 TATTATTAT
8475101 TATTATTA-
1 TATTATTAT
*
8475109 CATTATT-T
1 TATTATTAT
8475117 TATTATT
1 TATTATT
8475124 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:8475083 original size:3 final size:3
Alignment explanation
Indices: 8475059--8475123 Score: 68
Period size: 3 Copynumber: 23.3 Consensus size: 3
8475049 TTATATTAAC
* *
8475059 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
*
8475104 TAT TA- CAT TAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
8475124 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:8475114 original size:11 final size:11
Alignment explanation
Indices: 8475076--8475115 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
8475066 TTTTATTAAT
*
8475076 ATTATTATTATT
1 ATTATTATTA-C
8475088 ATTATTATTAC
1 ATTATTATTAC
8475099 ATTATTATTAC
1 ATTATTATTAC
8475110 ATTATT
1 ATTATT
8475116 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:8475169 original size:193 final size:193
Alignment explanation
Indices: 8474942--8475508 Score: 873
Period size: 187 Copynumber: 3.0 Consensus size: 193
8474932 AATATTATTA
8474942 TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
1 TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
8475007 TATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
66 TATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
*
8475072 TAATATTATTATTATTATTATTATTACATTATTATTACATTATTTTATTATTTTCCTTTTTTAT
131 T-ATATTATTATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
* *
8475136 TGTTACTTATTATTTGCTA-TTTTTTAGTATTATTAATATAGTCTATTTATTTTTTGTACTGCAT
1 TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
* * *
8475200 TATAATTTTCATTATCATATTATATTTAGTATTGCTTTAACATTATGTTAACTATTATA---T-T
66 TATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
* *
8475261 T-CATTA--CTT-TTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
131 TATATTATTATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
* *
8475320 TGTTACTTACTATTTGCTACTTTTTTTTAATATTATTAATATATTCTATTTATTTCTTGTACTGC
1 TGTTACTTATTATTTGCTAC--TTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGC
*
8475385 ATTATAATTATTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTA-T-TA---T
64 ATTATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTT
*
8475445 A-T-T-TTATTACTATTATTATTATTACATTATTAGTACATTATTTTATTATTTT-CTTTTTTAT
129 ATTATATTATTATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
8475506 TGT
1 TGT
8475509 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:8475452 original size:17 final size:16
Alignment explanation
Indices: 8475385--8475466 Score: 58
Period size: 17 Copynumber: 4.6 Consensus size: 16
8475375 CTTGTACTGC
8475385 ATTATAATTATTATTATCAT
1 ATTAT-ATTA-TATTA-C-T
*
8475405 ATTATATTTAGTATTGCT
1 ATTATA-TTA-TATTACT
8475423 -TTAATATTATATTAACT
1 ATT-ATATTATATT-ACT
*
8475440 ATTATATTTTATTACT
1 ATTATATTATATTACT
8475456 ATTATTATTAT
1 ATTA-TATTAT
8475467 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:8475473 original size:14 final size:15
Alignment explanation
Indices: 8475427--8475476 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
8475417 ATTGCTTTAA
8475427 TATTA-TATTAACTAT
1 TATTATTATT-ACTAT
*
8475442 TATATTTTATTACTAT
1 TAT-TATTATTACTAT
8475458 TATTATTATTAC-AT
1 TATTATTATTACTAT
8475472 TATTA
1 TATTA
8475477 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:8475549 original size:13 final size:13
Alignment explanation
Indices: 8475531--8475556 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8475521 TCTTATTCTA
8475531 ATATTTTAATATT
1 ATATTTTAATATT
8475544 ATATTTTAATATT
1 ATATTTTAATATT
8475557 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:8478977 original size:39 final size:39
Alignment explanation
Indices: 8478933--8479170 Score: 413
Period size: 39 Copynumber: 6.1 Consensus size: 39
8478923 AATTATATTA
* *
8478933 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
8478972 CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
8479011 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
8479050 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
8479089 CCAGCACGAAGCTTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
8479128 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
8479167 CCAG
1 CCAG
8479171 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:8480208 original size:9 final size:9
Alignment explanation
Indices: 8480194--8480250 Score: 66
Period size: 9 Copynumber: 6.7 Consensus size: 9
8480184 CAAATGAAAA
8480194 TTAATGTTT
1 TTAATGTTT
*
8480203 TTAATG--A
1 TTAATGTTT
*
8480210 TTAATTTTT
1 TTAATGTTT
*
8480219 TTAATG-AT
1 TTAATGTTT
8480227 TTAATGTTT
1 TTAATGTTT
8480236 TTAATGTTT
1 TTAATGTTT
8480245 TTAATG
1 TTAATG
8480251 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:8480214 original size:16 final size:16
Alignment explanation
Indices: 8480193--8480241 Score: 80
Period size: 16 Copynumber: 3.0 Consensus size: 16
8480183 TCAAATGAAA
8480193 ATTAATGTTTTTAATG
1 ATTAATGTTTTTAATG
*
8480209 ATTAATTTTTTTAATG
1 ATTAATGTTTTTAATG
8480225 ATTTAATGTTTTTAATG
1 A-TTAATGTTTTTAATG
8480242 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:8483459 original size:103 final size:102
Alignment explanation
Indices: 8483281--8483573 Score: 431
Period size: 103 Copynumber: 2.9 Consensus size: 102
8483271 CATAGTTTTA
* *
8483281 TTTTGAATATGTTATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTA--C---TTTTATTT
1 TTTTAAATATTTTA-TTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTT
*
8483341 TTAAATTACCTAATTAAATTAAATTGCATTTAAAGTTT
65 TTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTT
*
8483379 TTTTAAATATTTTATTGCATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTT
1 TTTTAAATATTTTATT-TATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTT
*
8483444 TTAAATTACCTAATTAAATTAAATTATATTTAAAGTTT
65 TTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTT
* * *
8483482 TTTTAAAT-TTTT-TTTATTTTATTTTAATCACAAAAAATATTTTGTTTACTTTTATTTT-TTGT
1 TTTTAAATATTTTATTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTTT
*
8483544 TAAATAACCTAATTAAATTAAATTGTATTT
66 TAAATTACCTAATTAAATTAAATTGTATTT
8483574 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:8483856 original size:9 final size:9
Alignment explanation
Indices: 8483840--8483893 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
8483830 ATATCATATC
8483840 TTACATAAT
1 TTACATAAT
*
8483849 TTACATAAG
1 TTACATAAT
* * * *
8483858 ATAAACAAC
1 TTACATAAT
8483867 TTACATAAT
1 TTACATAAT
*
8483876 TTACATAAC
1 TTACATAAT
8483885 TTACATAAT
1 TTACATAAT
8483894 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:8483885 original size:18 final size:18
Alignment explanation
Indices: 8483840--8483930 Score: 71
Period size: 18 Copynumber: 5.2 Consensus size: 18
8483830 ATATCATATC
* *
8483840 TTACATAATTTACATAAG
1 TTACATAACTTACATAAT
* * *
8483858 ATAAACAACTTACATAAT
1 TTACATAACTTACATAAT
8483876 TTACATAACTTACATAA-
1 TTACATAACTTACATAAT
* * *
8483893 -TACATAAATATATATCAT
1 TTACATAACT-TACATAAT
*
8483911 AT-CATAACTTACATAAT
1 TTACATAACTTACATAAT
8483928 TTA
1 TTA
8483931 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:8488994 original size:13 final size:14
Alignment explanation
Indices: 8488978--8489006 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8488968 TTATAAATAT
8488978 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
8488991 TTATAATGGTTTAA
1 TTATAATGGTTTAA
8489005 TT
1 TT
8489007 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:8489014 original size:15 final size:15
Alignment explanation
Indices: 8488976--8489015 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
8488966 TATTATAAAT
8488976 ATTTATAAT-GTTTA
1 ATTTATAATGGTTTA
8488990 A-TTATAATGGTTTA
1 ATTTATAATGGTTTA
*
8489004 ATTTGTAATGGT
1 ATTTATAATGGT
8489016 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:8492412 original size:21 final size:21
Alignment explanation
Indices: 8492383--8492436 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
8492373 ACAACTTAGA
8492383 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGGGAG
* *
8492404 GCAGCGGCAGCAGCGAGGGAG
1 GCAGAGGCAGCAGAGAGGGAG
*
8492425 GCAGAGACAGCA
1 GCAGAGGCAGCA
8492437 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:8492710 original size:33 final size:33
Alignment explanation
Indices: 8492673--8492753 Score: 112
Period size: 31 Copynumber: 2.5 Consensus size: 33
8492663 TTAGATTTAA
* * *
8492673 TGTTTTTGGTTGTATTTTTTATGTTACATTTGC
1 TGTTTTTGGTTGGATTTTTCATGCTACATTTGC
*
8492706 TGTTTTTGGTTGGA--TTTCATGCTATATTTGC
1 TGTTTTTGGTTGGATTTTTCATGCTACATTTGC
8492737 TGTTTTTGGTTGGATTT
1 TGTTTTTGGTTGGATTT
8492754 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:8495247 original size:103 final size:101
Alignment explanation
Indices: 8495060--8495255 Score: 241
Period size: 103 Copynumber: 1.9 Consensus size: 101
8495050 AATTGATGGA
* * * * * *
8495060 TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACTATAGCTGAGCTATGGCATTTTAG
1 TAAGACCATGGTTGGACCATGACAATATATAAATGTAAGACCATAGCTGAGCTATGACATCTGAG
* *
8495125 CGAAAAGACCATAAGTGGGTTATGGCACCTTGGACG
66 AGAAAAGACCATAACTGGGTTATGGCACCTTGGACG
* * * *
8495161 TAAGGCCATGGTTGGACCATGATAGTATATATATGTATAAGACCATAGCTGAGCTATGACATCCT
1 TAAGACCATGGTTGGACCATGACAATATATAAATG--TAAGACCATAGCTGAGCTATGACAT-CT
*
8495226 GA-AGATAAGACCATAACTGGGTTATGGCAC
63 GAGAGAAAAGACCATAACTGGGTTATGGCAC
8495256 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:8497283 original size:51 final size:51
Alignment explanation
Indices: 8497198--8497314 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
8497188 ATTTCTGATC
*
8497198 AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAATGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAATGAAA
* * *
8497249 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGAAA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAATGAAA
8497300 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
8497315 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:8501874 original size:51 final size:51
Alignment explanation
Indices: 8501788--8501895 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 51
8501778 TATTTCTGAT
*
8501788 AAGTGGCAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
1 AAGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
* * * *
8501839 AAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGAC
1 AAGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
8501890 AAGTGA
1 AAGTGA
8501896 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:8505067 original size:42 final size:43
Alignment explanation
Indices: 8504967--8505077 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 43
8504957 ATCAAGTACA
** * *
8504967 ATGCCAACGTCCCAGACATGGTCTTACATGTAATTTAATATCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAAATCAATATCG
** *
8505010 ATGCCTCTATCCCAGACAGGGTCTTACATG-AAATCAGATA-CG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAAATCA-ATATCG
8505052 ATGCCAATATCCCAGACATGGTCTTA
1 ATGCCAATATCCCAGACATGGTCTTA
8505078 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:8505108 original size:85 final size:85
Alignment explanation
Indices: 8504967--8505122 Score: 190
Period size: 85 Copynumber: 1.8 Consensus size: 85
8504957 ATCAAGTACA
* * * * *
8504967 ATGCCAACGTCCCAGACATGGTCTTACATGTAATTTAATATCGATGCCTCTATCCCAGACAGGGT
1 ATGCCAACATCCCAGACATGGTCTTACATGTAATCTAATATCGAAGCCTCTATCCCAAACACGGT
8505032 CTTACATGAAATCAGATACG
66 CTTACATGAAATCAGATACG
* * * * *
8505052 ATGCCAATATCCCAGACATGGTCTTATACT-TAAATCTCA-ATCGAAGCCTGTGTCCCAAACACG
1 ATGCCAACATCCCAGACATGGTCTTACA-TGT-AATCTAATATCGAAGCCTCTATCCCAAACACG
8505115 GTCTTACA
64 GTCTTACA
8505123 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:8508993 original size:17 final size:17
Alignment explanation
Indices: 8508971--8509004 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8508961 CAAATATAAC
*
8508971 ATTTTTGAATAATACTT
1 ATTTTTGAATAAAACTT
8508988 ATTTTTGAATAAAACTT
1 ATTTTTGAATAAAACTT
8509005 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:8510462 original size:67 final size:66
Alignment explanation
Indices: 8510382--8510528 Score: 158
Period size: 66 Copynumber: 2.2 Consensus size: 66
8510372 CACGGCCGGC
* *
8510382 CACACCCCCGTGTGTCTAGG-C-AGTGCCAAATCT-GTAGGGTATACTGACTTATGCAACACGGC
1 CACACACCCGTGTGTCTAGGCCGAGTGCC-AAT-TAG-AGGGTATACTGACTTATACAACACGGC
8510444 CAAGT
63 CAA-T
* * * * *
8510449 CACACGCCCGTGTG-CTAGGCCGTGTGCCAATTAGGGGGTATACTGACTTGTACCACACGGCCAA
1 CACACACCCGTGTGTCTAGGCCGAGTGCCAATTAGAGGGTATACTGACTTATACAACACGGCCAA
8510513 T
66 T
*
8510514 CACACACCCGCGTGT
1 CACACACCCGTGTGT
8510529 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:8514114 original size:25 final size:24
Alignment explanation
Indices: 8514047--8514129 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 24
8514037 CTGGAGGCCT
* *
8514047 AGCCTCTTTTAATAAATGGGGCA-A
1 AGCC-CTTTTAATAACTAGGGCATA
8514071 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
*
8514095 AGCCCTTTATCATAACTAGGGCATA
1 AGCCCTTT-TAATAACTAGGGCATA
8514120 AGCCCTTTTA
1 AGCCCTTTTA
8514130 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:8514203 original size:20 final size:20
Alignment explanation
Indices: 8514178--8514244 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
8514168 TTATGAATAC
8514178 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
8514198 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
8514218 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
8514238 ACCATGT
1 ATCATGT
8514245 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:8519628 original size:19 final size:20
Alignment explanation
Indices: 8519588--8519631 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
8519578 GTCTCTTTAG
* *
8519588 GCATT-CATTTCATGCATCT
1 GCATTACATTGCATGCATAT
8519607 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
8519626 GCATTA
1 GCATTA
8519632 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:8522236 original size:7 final size:8
Alignment explanation
Indices: 8522215--8522244 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
8522205 TCTCATGAAT
8522215 TCAAAAAA
1 TCAAAAAA
8522223 TCAAAAAA
1 TCAAAAAA
8522231 TCAAAAAAA
1 TC-AAAAAA
8522240 TCAAA
1 TCAAA
8522245 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:8524492 original size:85 final size:87
Alignment explanation
Indices: 8524342--8524664 Score: 517
Period size: 85 Copynumber: 3.7 Consensus size: 87
8524332 AACAGATCAG
* *
8524342 TGAAGACAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAAC-AAGCATTGCCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
8524406 CATTGGTTACAGTGGAGCTGGT
66 CATTGGTTACAGTGGAGCTGGT
* * *
8524428 TAAAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAAC-AAGCTTTGCCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
8524491 CATTGGTTACAGTGGAGCTGGT
66 CATTGGTTACAGTGGAGCTGGT
* *
8524513 TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG-AAAACAAAGCCTTGCCT
* * *
8524578 CCATCGGTTGCAGTGGAGCTGGT
65 TCATTGGTTACAGTGGAGCTGGT
*
8524601 TGAAGATAGCAGATCTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCT
8524665 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:8524624 original size:88 final size:87
Alignment explanation
Indices: 8524342--8524790 Score: 523
Period size: 87 Copynumber: 5.2 Consensus size: 87
8524332 AACAGATCAG
* * *
8524342 TGAAGACAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAAC-AAGCATTGCCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
* *
8524406 CATTGGTTACAGTGGAGCTGGT
66 CATCGGTTGCAGTGGAGCTGGT
* * * *
8524428 TAAAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAAC-AAGCTTTGCCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
* *
8524491 CATTGGTTACAGTGGAGCTGGT
66 CATCGGTTGCAGTGGAGCTGGT
* *
8524513 TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG-AAAACAAAGCCTTGCCT
8524578 CCATCGGTTGCAGTGGAGCTGGT
65 CCATCGGTTGCAGTGGAGCTGGT
*
8524601 TGAAGATAGCAGATCTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
* * ** *
8524666 TC-TCGGGTGTAGAAGAGTTGGT
66 -CATCGGTTGCAGTGGAGCTGGT
* * * * ** * * * * * *
8524688 TGAAGACAACTGATTTTATCTTCCTGCGTTGACAGTGAAGCGGGTCGAAGACAAA-CCTTACCTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
*
8524752 TC-TCGGTTGTAGTGGAGCTGGT
66 -CATCGGTTGCAGTGGAGCTGGT
*
8524774 TGAAGAATTGCAGATCT
1 TGAAG-ATAGCAGATCT
8524791 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:8525654 original size:23 final size:23
Alignment explanation
Indices: 8525627--8525705 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
8525617 AACACGCAAG
8525627 AAATAGTGTAAAACAGTAGGAAA
1 AAATAGTGTAAAACAGTAGGAAA
* * * * *
8525650 AAATAG-ATAAAAAAATAAACACGCAAG
1 AAATAGTGTAAAACAGT----A-GGAAA
8525677 AAATAGTGTAAAACAGTAGGAAA
1 AAATAGTGTAAAACAGTAGGAAA
8525700 AAATAG
1 AAATAG
8525706 ATAAAAAAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
22 7 0.17
23 15 0.38
24 1 0.03
26 1 0.03
27 9 0.22
28 7 0.17
ACGTcount: A:0.61, C:0.06, G:0.18, T:0.15
Consensus pattern (23 bp):
AAATAGTGTAAAACAGTAGGAAA
Found at i:8525691 original size:50 final size:50
Alignment explanation
Indices: 8525616--8525716 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
8525606 CCACTCCTGC
8525616 AAACACGCAAGAAATAGTGTAAAACAGTAGGAAAAAATAGATAAAAAAAT
1 AAACACGCAAGAAATAGTGTAAAACAGTAGGAAAAAATAGATAAAAAAAT
8525666 AAACACGCAAGAAATAGTGTAAAACAGTAGGAAAAAATAGATAAAAAAAT
1 AAACACGCAAGAAATAGTGTAAAACAGTAGGAAAAAATAGATAAAAAAAT
8525716 A
1 A
8525717 CATTGTAGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.62, C:0.08, G:0.16, T:0.14
Consensus pattern (50 bp):
AAACACGCAAGAAATAGTGTAAAACAGTAGGAAAAAATAGATAAAAAAAT
Found at i:8534473 original size:6 final size:6
Alignment explanation
Indices: 8534462--8534488 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8534452 AGAATGCACC
8534462 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
8534489 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:8535398 original size:19 final size:19
Alignment explanation
Indices: 8535363--8535411 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
8535353 TGTTTCGTCC
* *
8535363 TTCTTTCTTTCCTTTTTCTT
1 TTCTTTATTT-CTTTTTATT
8535383 TAT-TTTATTTCTTTTTATT
1 T-TCTTTATTTCTTTTTATT
8535402 TTCTTTATTT
1 TTCTTTATTT
8535412 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:8536151 original size:28 final size:29
Alignment explanation
Indices: 8536120--8536178 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
8536110 CAAAATACTG
**
8536120 ATAT-CATGGCCTGAAGCCAAATCAGCTT
1 ATATGCATGGCCCAAAGCCAAATCAGCTT
*
8536148 ATATGCATGGCCCAAAGCCAAATCAGTTT
1 ATATGCATGGCCCAAAGCCAAATCAGCTT
8536177 AT
1 AT
8536179 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:8538660 original size:32 final size:33
Alignment explanation
Indices: 8538606--8538670 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
8538596 GTTAGATGTA
8538606 AGAAATGACAAAAAAAAAAGAGGACTTTTAGTT
1 AGAAATGACAAAAAAAAAAGAGGACTTTTAGTT
*
8538639 AGAAATGAC-AAAAAAAGAGAGGACTTTTAGTT
1 AGAAATGACAAAAAAAAAAGAGGACTTTTAGTT
8538671 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:8542671 original size:21 final size:20
Alignment explanation
Indices: 8542647--8542685 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8542637 GAAACTGAGT
*
8542647 CATTAGAGTTGAAATTGAAAC
1 CATTAGA-TTGAAAATGAAAC
*
8542668 CATTATATTGAAAATGAA
1 CATTAGATTGAAAATGAA
8542686 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:8545768 original size:31 final size:31
Alignment explanation
Indices: 8545729--8545812 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
8545719 GGGAATTAGT
* *
8545729 CATTCATATTTGCATATCCATACCCTTTAATA
1 CATTCATATTTGCATATTCATACCCTGTAA-A
8545761 -ATTCATATTTGCATATTCATACCCTGTAAA
1 CATTCATATTTGCATATTCATACCCTGTAAA
*
8545791 CATTCATATTTACATATTCATA
1 CATTCATATTTGCATATTCATA
8545813 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:8552662 original size:15 final size:15
Alignment explanation
Indices: 8552642--8552671 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8552632 CGATCAAGTT
8552642 TAATTTTCCTCACTC
1 TAATTTTCCTCACTC
8552657 TAATTTTCCTCACTC
1 TAATTTTCCTCACTC
8552672 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:8555553 original size:22 final size:22
Alignment explanation
Indices: 8555528--8555572 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8555518 GTATGTTATG
8555528 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
8555550 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
8555572 T
1 T
8555573 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:8570484 original size:35 final size:35
Alignment explanation
Indices: 8570438--8570507 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
8570428 TTAGATTTCA
*
8570438 AGGATCTGGTGTTAACCCGACCCAATATTTTGGAT
1 AGGATCTGGTGTTAACCCGACCCAATATTTCGGAT
*
8570473 AGGATCTGGTGTTAACCCGGCCCAATATTTCGGAT
1 AGGATCTGGTGTTAACCCGACCCAATATTTCGGAT
8570508 CCACCTCGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (35 bp):
AGGATCTGGTGTTAACCCGACCCAATATTTCGGAT
Found at i:8573162 original size:20 final size:20
Alignment explanation
Indices: 8573129--8573179 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
8573119 CCCACACANG
* *
8573129 AAATTATAATATTTTTTAAA
1 AAATTATAAAATTTGTTAAA
*
8573149 AAATTGTAAAATTTGTT-AA
1 AAATTATAAAATTTGTTAAA
8573168 AAATTACTAAAA
1 AAATTA-TAAAA
8573180 ATTATAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (20 bp):
AAATTATAAAATTTGTTAAA
Found at i:8573494 original size:19 final size:18
Alignment explanation
Indices: 8573391--8573494 Score: 72
Period size: 19 Copynumber: 5.6 Consensus size: 18
8573381 ACTATTAATG
8573391 TTTTTATAA-A-TTATAA
1 TTTTTATAATATTTATAA
* *
8573407 TTTTTTGTAATTTTTATATA
1 -TTTTTATAATATTTATA-A
8573427 TTTTT-TACATATTTA-AA
1 TTTTTATA-ATATTTATAA
*
8573444 TTTTTATAATACTTTTTATAC
1 TTTTTATAATA---TTTATAA
*
8573465 TTTCTAGTAATATTTAATAA
1 TTTTTA-TAATATTT-ATAA
8573485 TTTTTATAAT
1 TTTTTATAAT
8573495 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:8573495 original size:9 final size:9
Alignment explanation
Indices: 8573401--8573497 Score: 63
Period size: 9 Copynumber: 10.1 Consensus size: 9
8573391 TTTTTATAAA
8573401 TTATAATTTT
1 TTATAA-TTT
*
8573411 TTGTAATTT
1 TTATAATTT
8573420 TTATATATTT
1 TTATA-ATTT
*
8573430 TT-TACATAT
1 TTATA-ATTT
8573439 TTA-AATTT
1 TTATAATTT
8573447 TTATAATACTTT
1 TTAT-A-A-TTT
*
8573459 TTATACTTT
1 TTATAATTT
*
8573468 CTAGTAATATT
1 TTA-TAAT-TT
*
8573479 TAATAATTT
1 TTATAATTT
8573488 TTATAATTT
1 TTATAATTT
8573497 T
1 T
8573498 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:8575337 original size:63 final size:63
Alignment explanation
Indices: 8575205--8575353 Score: 172
Period size: 63 Copynumber: 2.4 Consensus size: 63
8575195 TGTAGTAGGT
* * * * ** *
8575205 CGTGTAACTCACTGTTATGGAATTAGAGGCACACGAGCTAGGGACACAGGTGTGTGTTCAGGC
1 CGTGTAACTCACTGTTTTGGAATTAGAAGCACACGAGCTAGGGACACAAGAGTGTGCCCAGAC
* * * *
8575268 CATGTAACTCACTGTTTTGGAATTAGAAGCACATGGGTTAGGGACACAAGAGTGTGCCCAGAC
1 CGTGTAACTCACTGTTTTGGAATTAGAAGCACACGAGCTAGGGACACAAGAGTGTGCCCAGAC
* * *
8575331 CGTGTAACCCACTATTTTCGAAT
1 CGTGTAACTCACTGTTTTGGAAT
8575354 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:8577084 original size:13 final size:13
Alignment explanation
Indices: 8577066--8577090 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8577056 GTTTAGTGTT
8577066 TTAGTTCGAAAAG
1 TTAGTTCGAAAAG
8577079 TTAGTTCGAAAA
1 TTAGTTCGAAAA
8577091 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:8580356 original size:17 final size:18
Alignment explanation
Indices: 8580334--8580371 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8580324 TTCCTCTTCA
8580334 TTTTAT-TTTTTTTTATT
1 TTTTATGTTTTTTTTATT
8580351 TTTTATGTTTTTATTT-TT
1 TTTTATGTTTTT-TTTATT
8580369 TTT
1 TTT
8580372 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:8580971 original size:63 final size:63
Alignment explanation
Indices: 8580869--8580989 Score: 147
Period size: 63 Copynumber: 1.9 Consensus size: 63
8580859 TAAACTGGTA
* * * * * *
8580869 TGGAATTAGAGGCACATAGGCTAGGGACATGGGCGTGTGTCCAAG-CTGTGTAACTCACTGTTT
1 TGGAATTAGAGGCACACAGGCCAGAGACACGGGCATGTGT-CAAGACCGTGTAACTCACTGTTT
*
8580932 TGGAATTAGAGAG-ACACAGGCCAGAGACACGGGCATGTGTCTAGACCGTGTAACTCAC
1 TGGAATTAGAG-GCACACAGGCCAGAGACACGGGCATGTGTCAAGACCGTGTAACTCAC
8580990 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:8584271 original size:6 final size:6
Alignment explanation
Indices: 8584260--8584284 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8584250 TTTTTCAGTT
8584260 AAATTA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA A
8584285 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:8587254 original size:17 final size:17
Alignment explanation
Indices: 8587232--8587265 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8587222 CTATCATATA
8587232 GTAAGTCAAATTACTTT
1 GTAAGTCAAATTACTTT
8587249 GTAAGTCAAATTACTTT
1 GTAAGTCAAATTACTTT
8587266 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:8587709 original size:6 final size:6
Alignment explanation
Indices: 8587698--8587730 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
8587688 CATATAGACC
8587698 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA- AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
8587731 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
Found at i:8595391 original size:23 final size:25
Alignment explanation
Indices: 8595365--8595411 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8595355 TATCATTCAT
*
8595365 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
8595388 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
8595412 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:8595732 original size:46 final size:46
Alignment explanation
Indices: 8595672--8595936 Score: 323
Period size: 46 Copynumber: 6.0 Consensus size: 46
8595662 TTTGACGTGA
* * * * ** * *
8595672 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** * * *
8595718 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
8595764 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
**
8595809 TGCCATGGTATCTTTCAATAATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
8595855 TGCCATGGTATCTTTCAACCATAGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
8595893 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
8595937 AGAGCATACT
Statistics
Matches: 191, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
38 32 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 42 0.22
46 108 0.57
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:8595824 original size:91 final size:90
Alignment explanation
Indices: 8595672--8595935 Score: 324
Period size: 91 Copynumber: 3.0 Consensus size: 90
8595662 TTTGACGTGA
* * * * * * *
8595672 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA--TTCTATCAGGTTGCCATGGTATCTTTCAAC
** * *
8595737 CATGGTCTTATTCTTTTCATGTCACGT
64 CATGGTCTTACACATTTCATATCACGT
**
8595764 TGCCATGGTATCTTTCAACCATGGTCTTACACATTCATATCAGGTTGCCATGGTATCTTTCAATA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTC-TATCAGGTTGCCATGGTATCTTTCAACC
*
8595829 ATGGTCTTACACATTTCATATCAGGT
65 ATGGTCTTACACATTTCATATCACGT
*
8595855 TGCCATGGTATCTTTCAACCATAGTCTT--ACA--C-A-CAGGTTGCCATGGTATCTTTCAACCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTCTATCAGGTTGCCATGGTATCTTTCAACCA
8595914 TGGTCTTACACATTTCATATCA
66 TGGTCTTACACATTTCATATCA
8595936 GAGAGCATAC
Statistics
Matches: 154, Mismatches: 17, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
84 46 0.30
85 1 0.01
87 1 0.01
89 3 0.02
90 2 0.01
91 72 0.47
92 29 0.19
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (90 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTCTATCAGGTTGCCATGGTATCTTTCAACCA
TGGTCTTACACATTTCATATCACGT
Found at i:8595901 original size:38 final size:38
Alignment explanation
Indices: 8595850--8595925 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
8595840 CATTTCATAT
8595850 CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACA
*
8595888 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACA
8595926 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACA
Found at i:8598152 original size:31 final size:32
Alignment explanation
Indices: 8598076--8598152 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
8598066 CTAATAAAAT
*
8598076 AATAATAAAATATCTTATTAAAGTATTAATAA
1 AATAATAAAATATCTAATTAAAGTATTAATAA
**
8598108 AATAAT-ATTTATCTAATTAAA-TAATT-ATAA
1 AATAATAAAATATCTAATTAAAGT-ATTAATAA
*
8598138 AATATTAAAATATCT
1 AATAATAAAATATCT
8598153 CTAGCATCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
30 10 0.27
31 21 0.57
32 6 0.16
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (32 bp):
AATAATAAAATATCTAATTAAAGTATTAATAA
Found at i:8603147 original size:34 final size:33
Alignment explanation
Indices: 8603091--8603173 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 33
8603081 CCTCTCTCTG
* * * *
8603091 TTTCTTTTCTTTGTTTATTGATCGACTCTTCCATT
1 TTTCTTTTC-TTATTTATTGATCAACGCTT-CATC
*
8603126 TTTCTTTTCTTATTTATTGATCAACGCTTTATC
1 TTTCTTTTCTTATTTATTGATCAACGCTTCATC
*
8603159 TTTGTTTTCTTATTT
1 TTTCTTTTCTTATTT
8603174 GTGATGTAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 16 0.38
34 17 0.40
35 9 0.21
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (33 bp):
TTTCTTTTCTTATTTATTGATCAACGCTTCATC
Found at i:8607902 original size:36 final size:36
Alignment explanation
Indices: 8607857--8607925 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
8607847 TTAGTTTGAG
*
8607857 TGCTCGAGTAATTTGGTTGAGGATTTAGAGTTCTTT
1 TGCTCGAGTAAGTTGGTTGAGGATTTAGAGTTCTTT
* * *
8607893 TGCTTGAGTAAGTTGGTTGAGGCTTTAGGGTTC
1 TGCTCGAGTAAGTTGGTTGAGGATTTAGAGTTC
8607926 CTTCAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.17, C:0.09, G:0.32, T:0.42
Consensus pattern (36 bp):
TGCTCGAGTAAGTTGGTTGAGGATTTAGAGTTCTTT
Found at i:8612402 original size:12 final size:12
Alignment explanation
Indices: 8612384--8612424 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
8612374 ACAAGAATTA
8612384 CAAAAAAAA-AT
1 CAAAAAAAATAT
*
8612395 CAAAAAAATTAT
1 CAAAAAAAATAT
*
8612407 -AAAAAAAATTT
1 CAAAAAAAATAT
8612418 CAAAAAA
1 CAAAAAA
8612425 TTTCAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAAAAATAT
Found at i:8612404 original size:22 final size:22
Alignment explanation
Indices: 8612379--8612433 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
8612369 CTTCAACAAG
8612379 AATTACAAAAAAAA-ATCAAAAA
1 AATTACAAAAAAAATATC-AAAA
* *
8612401 AATTATAAAAAAAATTTCAAAA
1 AATTACAAAAAAAATATCAAAA
*
8612423 AATTTCAAAAA
1 AATTACAAAAA
8612434 TTCTAAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (22 bp):
AATTACAAAAAAAATATCAAAA
Found at i:8612435 original size:9 final size:10
Alignment explanation
Indices: 8612409--8612433 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8612399 AAAATTATAA
8612409 AAAAAATTTC
1 AAAAAATTTC
8612419 AAAAAATTTC
1 AAAAAATTTC
8612429 AAAAA
1 AAAAA
8612434 TTCTAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAAATTTC
Found at i:8616088 original size:26 final size:26
Alignment explanation
Indices: 8616059--8616111 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
8616049 TTTACAGTTT
8616059 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* *
8616085 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
8616111 T
1 T
8616112 GCATATTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:8622601 original size:32 final size:32
Alignment explanation
Indices: 8622565--8622629 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
8622555 TGTATGTATT
8622565 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
8622597 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
8622629 T
1 T
8622630 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:8631796 original size:21 final size:21
Alignment explanation
Indices: 8631772--8631835 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
8631762 GAAGTACAAA
8631772 CAAGGGCACGTATGTGCAATT
1 CAAGGGCACGTATGTGCAATT
* * *
8631793 CAAGGGCAC-TGAAGTACAA-A
1 CAAGGGCACGT-ATGTGCAATT
8631813 C-AGGGCACGTATGTGCAATT
1 CAAGGGCACGTATGTGCAATT
8631833 CAA
1 CAA
8631836 CAATAATCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 13 0.39
20 4 0.12
21 16 0.48
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.19
Consensus pattern (21 bp):
CAAGGGCACGTATGTGCAATT
Found at i:8631829 original size:40 final size:40
Alignment explanation
Indices: 8631704--8631835 Score: 167
Period size: 41 Copynumber: 3.3 Consensus size: 40
8631694 GGGCACAAAA
* * * *
8631704 GTGC-ATTCATGGGTACCGAAGTACAAATAGGGGCACGTGT
1 GTGCAATTCAAGGGTACTGAAGTACAAACA-GGGCACGTAT
* * *
8631744 GTGTAATTCAGGGGTATTGAAGTACAAACAAGGGCACGTAT
1 GTGCAATTCAAGGGTACTGAAGTACAAAC-AGGGCACGTAT
*
8631785 GTGCAATTCAAGGGCACTGAAGTACAAACAGGGCACGTAT
1 GTGCAATTCAAGGGTACTGAAGTACAAACAGGGCACGTAT
8631825 GTGCAATTCAA
1 GTGCAATTCAA
8631836 CAATAATCTT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 25 0.31
41 54 0.68
42 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.22
Consensus pattern (40 bp):
GTGCAATTCAAGGGTACTGAAGTACAAACAGGGCACGTAT
Found at i:8632650 original size:14 final size:14
Alignment explanation
Indices: 8632631--8632659 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8632621 TTTCATGACC
8632631 ATTTAACCCCTTTT
1 ATTTAACCCCTTTT
8632645 ATTTAACCCCTTTT
1 ATTTAACCCCTTTT
8632659 A
1 A
8632660 ACTAACGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTAACCCCTTTT
Found at i:8637781 original size:21 final size:22
Alignment explanation
Indices: 8637755--8637804 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
8637745 CTCTAGCACT
**
8637755 GGCGTGTCCC-AGGGTCACACG
1 GGCGTGTCCCTAGGACCACACG
* *
8637776 GGCGTGCCCCTTGGACCACACG
1 GGCGTGTCCCTAGGACCACACG
8637798 GGCGTGT
1 GGCGTGT
8637805 GAGCCCTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.12, C:0.34, G:0.38, T:0.16
Consensus pattern (22 bp):
GGCGTGTCCCTAGGACCACACG
Found at i:8639805 original size:50 final size:49
Alignment explanation
Indices: 8639732--8639909 Score: 186
Period size: 49 Copynumber: 3.7 Consensus size: 49
8639722 GTATAGAGGT
* *
8639732 GTCAGTGTAAGACCATGTCTGGGACATGACATCGGCAC-GGATATGTGACA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT-TGTGACA
* * *
8639782 G-CTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTGTGACA
* * *
8639831 GTCAGTGTAAGACCCTGTCTGGGACATGGCATCGG-CTTGATCGATG--A
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTG-TGACA
* * *
8639878 GCCAGTGTAAGACCAAGTCTAGGACATGGCAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCAT
8639910 TGGCATTATT
Statistics
Matches: 110, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
47 29 0.26
48 5 0.05
49 40 0.36
50 36 0.33
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTGTGACA
Found at i:8639857 original size:49 final size:50
Alignment explanation
Indices: 8639684--8639866 Score: 180
Period size: 49 Copynumber: 3.7 Consensus size: 50
8639674 TACAAGATGT
* *** * **
8639684 GTCAGTGTAAGACCATGTCTGGGACACGGCATCAATA-CG-TAT-AGAGGT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGA-CA
* *
8639732 GTCAGTGTAAGACCATGTCTGGGACATGACATCGGCACGGATATGTGACA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGACA
* * *
8639782 G-CTAGTGTAAGACCATGTCTGGGACATGGCGTCGGC-CTCGAT-TTTGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATATGTGACA
*
8639831 GTCAGTGTAAGACCCTGTCTGGGACATGGCATCGGC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
8639867 TTGATCGATG
Statistics
Matches: 113, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
48 32 0.28
49 40 0.35
50 39 0.35
51 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGACA
Found at i:8645603 original size:37 final size:37
Alignment explanation
Indices: 8645490--8645604 Score: 160
Period size: 37 Copynumber: 3.1 Consensus size: 37
8645480 CAAAACATGT
* * *
8645490 CAAACGCTCATAAGAGCTAATCCAGCCGATAACACAC
1 CAAATGCTCATAAGAGCTAATCCAACCGATAACACGC
* *
8645527 CAAATTCTTATAAGA-CTTAATCCAACCGATAACACGC
1 CAAATGCTCATAAGAGC-TAATCCAACCGATAACACGC
*
8645564 CAAATGCTCATAAGAGCTAATCCAACCGATAACATGC
1 CAAATGCTCATAAGAGCTAATCCAACCGATAACACGC
8645601 CAAA
1 CAAA
8645605 ACAAGATAGT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
36 1 0.01
37 66 0.97
38 1 0.01
ACGTcount: A:0.42, C:0.29, G:0.11, T:0.18
Consensus pattern (37 bp):
CAAATGCTCATAAGAGCTAATCCAACCGATAACACGC
Found at i:8647874 original size:20 final size:20
Alignment explanation
Indices: 8647849--8647893 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8647839 CGGTACTAAA
* *
8647849 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
8647869 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
8647889 ATGAA
1 ATGAA
8647894 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:8653734 original size:34 final size:34
Alignment explanation
Indices: 8653689--8653756 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
8653679 CATGATCATG
*
8653689 TAATGAGCATCAAGATCTAAAGATAAAATAAAAC
1 TAATGAACATCAAGATCTAAAGATAAAATAAAAC
8653723 TAATGAACATCAAGATCTAAAGATAAAATAAAAC
1 TAATGAACATCAAGATCTAAAGATAAAATAAAAC
8653757 GCATACATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.21
Consensus pattern (34 bp):
TAATGAACATCAAGATCTAAAGATAAAATAAAAC
Found at i:8665025 original size:42 final size:42
Alignment explanation
Indices: 8664978--8665094 Score: 144
Period size: 42 Copynumber: 2.8 Consensus size: 42
8664968 TGAGTTTTCT
* * *
8664978 TTTAACCCTAATGAGTTTCTGTTTAGCTCTTTTGAGCTATAG
1 TTTAACCCTAATGGGTTTCTGTTTAGCTCTTATAAGCTATAG
* * *
8665020 TTTAACCCTCATGGGTTTCTGTTTAGCTCTTATAAGCTTTTG
1 TTTAACCCTAATGGGTTTCTGTTTAGCTCTTATAAGCTATAG
* * * *
8665062 TTCAACCCTTATGGGTTTCAGTTTAGCACTTAT
1 TTTAACCCTAATGGGTTTCTGTTTAGCTCTTAT
8665095 GTGCTTCCGT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (42 bp):
TTTAACCCTAATGGGTTTCTGTTTAGCTCTTATAAGCTATAG
Found at i:8673636 original size:42 final size:42
Alignment explanation
Indices: 8673566--8673755 Score: 157
Period size: 42 Copynumber: 4.4 Consensus size: 42
8673556 CAATGTTATG
* * ** * *
8673566 TCCCAGACATGGTCTTACATGGGATCTCACATCGATGCCATA
1 TCCCAGATATGGTCTTACACGAAATCTCATATCGACGCCATA
* * * * *
8673608 TCCCAAATATGGTCTTATACGAATTCTCATTTCGACGCCATG
1 TCCCAGATATGGTCTTACACGAAATCTCATATCGACGCCATA
* * *
8673650 TCCCAGATATGGTCTTACATGAAATATCATATCAACGCCATA
1 TCCCAGATATGGTCTTACACGAAATCTCATATCGACGCCATA
* * * *
8673692 TCTCAGATATGGTCTTACATGATAA-CTCATACTAATGTTATGCCATA
1 TCCCAGATATGGTCTTACACGA-AATCTCATA-T--CG--ACGCCATA
8673739 TCCCAGATATGGTCTTA
1 TCCCAGATATGGTCTTA
8673756 TATGAGATCC
Statistics
Matches: 117, Mismatches: 25, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
42 91 0.78
43 3 0.03
47 23 0.20
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
TCCCAGATATGGTCTTACACGAAATCTCATATCGACGCCATA
Found at i:8682047 original size:46 final size:44
Alignment explanation
Indices: 8681943--8682050 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
8681933 TGTCTTTGAC
** * * *
8681943 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
8681987 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
8682033 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
8682051 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:8684505 original size:20 final size:20
Alignment explanation
Indices: 8684405--8684505 Score: 87
Period size: 20 Copynumber: 5.0 Consensus size: 20
8684395 ATAGATGCGT
8684405 AACAGAGGCACCAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
* *
8684425 GACAGAGGCA-CAAATGTGCT
1 AACAGAGGCACCAAA-GTGCA
* *** **
8684445 ATCAGAGGCACTGTAGTGTG
1 AACAGAGGCACCAAAGTGCA
* *
8684465 AATAGAGACACCAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
*
8684485 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCA
8684505 A
1 A
8684506 TCCGTAGCAC
Statistics
Matches: 59, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
19 4 0.07
20 54 0.92
21 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.28, T:0.12
Consensus pattern (20 bp):
AACAGAGGCACCAAAGTGCA
Found at i:8690323 original size:45 final size:45
Alignment explanation
Indices: 8690272--8690375 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
8690262 ATAAACCACC
* ** *
8690272 ATGTAGGTTGTGGACAAAACTAACAATATTTGC-AGACAAGCTGCA
1 ATGTAGGTTGTGGACAAAACCAACAATATTCACAAG-CAAGCTACA
* * *
8690317 ATGTAGGTTGTGGACAAAGCCACCAATATTCACAAGCAAGCTACC
1 ATGTAGGTTGTGGACAAAACCAACAATATTCACAAGCAAGCTACA
8690362 ATGTAGGTTGTGGA
1 ATGTAGGTTGTGGA
8690376 TAAACCACCA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 49 0.96
46 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (45 bp):
ATGTAGGTTGTGGACAAAACCAACAATATTCACAAGCAAGCTACA
Found at i:8690438 original size:113 final size:113
Alignment explanation
Indices: 8690240--8690452 Score: 329
Period size: 113 Copynumber: 1.9 Consensus size: 113
8690230 CCAACACAGA
* *
8690240 CAAGCTGCCATATAGGTTGTGGATAAACCACCATGTAGGTTGTGGACAAAACTAACAATATTTGC
1 CAAGCTACCATATAGGTTGTGGATAAACCACCATGTAGGTTGTGGACAAAACGAACAATATTTGC
8690305 AGACAAGCTGCAATGTAGGTTGTGGACAAAGCCACCAATATTCACAAG
66 AGACAAGCTGCAATGTAGGTTGTGGACAAAGCCACCAATATTCACAAG
* * * *
8690353 CAAGCTACCATGTAGGTTGTGGATAAACCACCATG-ATGGTTGTGGACGAAGCGACCAATATTTG
1 CAAGCTACCATATAGGTTGTGGATAAACCACCATGTA-GGTTGTGGACAAAACGAACAATATTTG
* * *
8690417 CAGATAAGCTGCTATGTAGGTTGTGGACGAAGCCAC
65 CAGACAAGCTGCAATGTAGGTTGTGGACAAAGCCAC
8690453 AAATTCTTCC
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
112 1 0.01
113 89 0.99
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (113 bp):
CAAGCTACCATATAGGTTGTGGATAAACCACCATGTAGGTTGTGGACAAAACGAACAATATTTGC
AGACAAGCTGCAATGTAGGTTGTGGACAAAGCCACCAATATTCACAAG
Done.