Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 186 of 230
Found at i:55842562 original size:13 final size:13
Alignment explanation
Indices: 55842532--55842579 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
55842522 CAAACAAATG
55842532 AAAAATTAGAATGT-
1 AAAAATTA-AAT-TA
55842546 AAAAATTAAATTA
1 AAAAATTAAATTA
*
55842559 AAAATATTAAAATA
1 AAAA-ATTAAATTA
55842573 AAAAATT
1 AAAAATT
55842580 GCTAAATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 1 0.03
13 10 0.32
14 20 0.65
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (13 bp):
AAAAATTAAATTA
Found at i:55844278 original size:17 final size:15
Alignment explanation
Indices: 55844254--55844293 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
55844244 CTAATAGTAG
55844254 AATAATAAGAAACTAA
1 AATAATAAGAAAC-AA
*
55844270 AATTAATAATAAACAA
1 AA-TAATAAGAAACAA
55844286 AATAATAA
1 AATAATAA
55844294 TAAATCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 6 0.27
17 10 0.45
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (15 bp):
AATAATAAGAAACAA
Found at i:55844306 original size:16 final size:15
Alignment explanation
Indices: 55844254--55844334 Score: 69
Period size: 16 Copynumber: 5.3 Consensus size: 15
55844244 CTAATAGTAG
*
55844254 AATAATAAGAAACTAA
1 AATAATAATAAAC-AA
55844270 AATTAATAATAAACAA
1 AA-TAATAATAAACAA
*
55844286 AATAATAATAAATCAT
1 AATAATAATAAA-CAA
* *
55844302 TATAATAATATAA-TA
1 AATAATAATA-AACAA
55844317 AA-AATAATAAA-AA
1 AATAATAATAAACAA
55844330 AATAA
1 AATAA
55844335 ACACAAAAAG
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
13 5 0.09
14 9 0.17
15 11 0.20
16 17 0.31
17 12 0.22
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.26
Consensus pattern (15 bp):
AATAATAATAAACAA
Found at i:55851199 original size:21 final size:21
Alignment explanation
Indices: 55851175--55851218 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
55851165 AGTTTATTGC
55851175 TATAAATTGTATGTA-ATTGAT
1 TATAAATTGTAT-TATATTGAT
* *
55851196 TATAATTTGTGTTATATTGAT
1 TATAAATTGTATTATATTGAT
55851217 TA
1 TA
55851219 GAATCATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (21 bp):
TATAAATTGTATTATATTGAT
Found at i:55855966 original size:107 final size:107
Alignment explanation
Indices: 55855855--55856071 Score: 301
Period size: 107 Copynumber: 2.0 Consensus size: 107
55855845 GAGAAAAAGT
* * ******
55855855 AAAAAAAAAATTCGTGGTGGCCTAGCAATTGCCGGCACCACCTTTTT-AAATTTTTTTTTTACTT
1 AAAAAAAAAATTCGTGGTGGCCTAGCAATGGCCGACACCACCTTTTTAAAAACAAAATTTTAC-T
55855919 TTTTCGTGTCAAATAAGATATCAGTATACGAAAAAAGTAAAAA
65 TTTTCGTGTCAAATAAGATATCAGTATACGAAAAAAGTAAAAA
** * *
55855962 AAAAAAAATTTTGGTGGTGGCCTGGCAATGGCCGACACCACCTTTTTAAAAACAAAATTTTACTT
1 AAAAAAAAAATTCGTGGTGGCCTAGCAATGGCCGACACCACCTTTTTAAAAACAAAATTTTACTT
*
55856027 TTTCGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAAAA
66 TTTCGTGTCAAATAAGATATCAGTATACGAAAAAAGTAAAAA
55856069 AAA
1 AAA
55856072 TTGTGGTGCA
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
107 87 0.91
108 9 0.09
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (107 bp):
AAAAAAAAAATTCGTGGTGGCCTAGCAATGGCCGACACCACCTTTTTAAAAACAAAATTTTACTT
TTTCGTGTCAAATAAGATATCAGTATACGAAAAAAGTAAAAA
Found at i:55857566 original size:27 final size:29
Alignment explanation
Indices: 55857522--55857576 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
55857512 GTTCATCGTG
55857522 ACCTTGAGGCTATGTC-GTCGCAACATGA
1 ACCTTGAGGCTATGTCGGTCGCAACATGA
*
55857550 ACCTTGA-GCTATTTCGTGTCGCAACAT
1 ACCTTGAGGCTATGTCG-GTCGCAACAT
55857577 CGAGGGTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 7 0.29
28 7 0.29
29 10 0.42
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (29 bp):
ACCTTGAGGCTATGTCGGTCGCAACATGA
Found at i:55861858 original size:22 final size:24
Alignment explanation
Indices: 55861833--55861882 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
55861823 ATTGTTGTAG
55861833 ATTTAATTTTTTTAATT-TTA-CA
1 ATTTAATTTTTTTAATTCTTATCA
* *
55861855 ATTTACTTTTTTTATTTCTTATCA
1 ATTTAATTTTTTTAATTCTTATCA
55861879 ATTT
1 ATTT
55861883 TAGTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 15 0.62
23 3 0.12
24 6 0.25
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (24 bp):
ATTTAATTTTTTTAATTCTTATCA
Found at i:55864770 original size:6 final size:6
Alignment explanation
Indices: 55864761--55864794 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
55864751 TCGCCCTCGC
55864761 CCTCAT CCTCAT CCTCAT CCTCAT CCTCAT CCTC
1 CCTCAT CCTCAT CCTCAT CCTCAT CCTCAT CCTC
55864795 TACTCAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.53, G:0.00, T:0.32
Consensus pattern (6 bp):
CCTCAT
Found at i:55868873 original size:21 final size:21
Alignment explanation
Indices: 55868849--55868891 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
55868839 CAACATATCC
55868849 ATCAAATAACATATATATATA
1 ATCAAATAACATATATATATA
55868870 ATCAAATAACATATATATATA
1 ATCAAATAACATATATATATA
55868891 A
1 A
55868892 ACACCATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (21 bp):
ATCAAATAACATATATATATA
Found at i:55873968 original size:18 final size:17
Alignment explanation
Indices: 55873935--55873973 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
55873925 TTGTATAAAT
55873935 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
55873953 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
55873970 TGTG
1 TGTG
55873974 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:55874226 original size:23 final size:23
Alignment explanation
Indices: 55874200--55874273 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
55874190 GTGTTATTGA
55874200 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
55874223 TCAGTGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
55874245 CCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
55874268 TCAGTG
1 TCAGTG
55874274 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
22 20 0.44
23 25 0.56
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:55874252 original size:22 final size:22
Alignment explanation
Indices: 55874201--55874266 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
55874191 TGTTATTGAT
*
55874201 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACA-TC
*
55874224 CAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATC
55874246 CAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACAT
55874267 ATCAGTGTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 21 0.52
23 19 0.47
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (22 bp):
CAGTGGTAGCTTCGGCTACATC
Found at i:55880746 original size:18 final size:17
Alignment explanation
Indices: 55880713--55880751 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
55880703 TTGTATAAAT
55880713 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
55880731 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
55880748 TGTG
1 TGTG
55880752 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:55881004 original size:23 final size:23
Alignment explanation
Indices: 55880977--55881074 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
55880967 AGTGTTATTG
55880977 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
55881000 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
55881023 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55881045 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55881068 ATCAGTG
1 ATCAGTG
55881075 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:55881043 original size:45 final size:45
Alignment explanation
Indices: 55880979--55881067 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
55880969 TGTTATTGAT
* *
55880979 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
55881024 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
55881068 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:55884123 original size:125 final size:127
Alignment explanation
Indices: 55883901--55884168 Score: 380
Period size: 125 Copynumber: 2.1 Consensus size: 127
55883891 GGTCAAGCAG
* * * * *
55883901 GAACTACTGTAGAAAAAGAGCGTTCATGTGGGAGCTTTGTTCAGTAATTTTGCTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTGTTCAGTAATTTTGCTGACAATGCATC
* * * *
55883966 TTGCTTGAAGCGTTTTTTACACTATTTTTTCAGAACCTTCTTATCAAAATT-ATTTTT-TAA
66 CTGCTTGAAGCGTTTTTGACACTATCTTTTCAGAACCATCTTATCAAAATTAATTTTTCTAA
* *
55884026 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTTAGTAATTTTGCTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTGTTCAGTAATTTTGCTGACAATGCATC
* * *
55884091 CTGCTTGAAGCGTTTTTGACATTATCTTTTCAGAACCATCTTCTCAAAATTAATTTTTCTTA
66 CTGCTTGAAGCGTTTTTGACACTATCTTTTCAGAACCATCTTATCAAAATTAATTTTTCTAA
*
55884153 -AACTACTATAGAAAAA
1 GAACTACTGTAGAAAAA
55884169 TAATCCTTTT
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
125 103 0.82
126 21 0.17
127 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (127 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTGTTCAGTAATTTTGCTGACAATGCATC
CTGCTTGAAGCGTTTTTGACACTATCTTTTCAGAACCATCTTATCAAAATTAATTTTTCTAA
Found at i:55884311 original size:34 final size:33
Alignment explanation
Indices: 55884263--55884367 Score: 124
Period size: 34 Copynumber: 3.2 Consensus size: 33
55884253 TTTAAAAAAA
55884263 TAAACCCTAATTTAATTAATTTTCTTAAAAACTC
1 TAAACCCTAATTTAATTAATTTT-TTAAAAACTC
* * *
55884297 TAAACCCTATTTTAATTAATTTATTTAAAACCCC
1 TAAACCCTAATTTAATTAATTT-TTTAAAAACTC
* * *
55884331 TAAAACATAATTTAATTAA--TTTAAAAAACTC
1 TAAACCCTAATTTAATTAATTTTTTAAAAACTC
55884362 TAAACC
1 TAAACC
55884368 TTGATTTATT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
31 13 0.22
32 1 0.02
34 45 0.75
35 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (33 bp):
TAAACCCTAATTTAATTAATTTTTTAAAAACTC
Found at i:55889699 original size:21 final size:24
Alignment explanation
Indices: 55889675--55889719 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 24
55889665 ATAACTAAAA
55889675 GAAAGA-CGAA-AGAGAG-GAAAG
1 GAAAGATCGAACAGAGAGCGAAAG
*
55889696 GAAAGATCTAACAGAGAGCGAAAG
1 GAAAGATCGAACAGAGAGCGAAAG
55889720 CGAGAGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 3 0.15
23 6 0.30
24 5 0.25
ACGTcount: A:0.53, C:0.09, G:0.33, T:0.04
Consensus pattern (24 bp):
GAAAGATCGAACAGAGAGCGAAAG
Found at i:55891764 original size:126 final size:126
Alignment explanation
Indices: 55891448--55892095 Score: 877
Period size: 126 Copynumber: 5.2 Consensus size: 126
55891438 GGTTTTGTGT
* * * * * * *
55891448 TTTTTCTACACTAGTTTCAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
* * * * * *
55891513 ACGCTTCAAGCAGGATACAGTGTCAGCAAAATTACTAAAAAAAGCCCCCACGTGGATGCTT
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
* *
55891574 TTTTTCTATAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAGTGTAAAA
1 TTTTTCTACAGTAGTTCCTG-AAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAA
* *
55891639 AATGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGATGCTC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
* * * *
55891701 TTTTTCTATAATAATTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTATAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
** * * * * * *
55891766 ACACTTCAAGAAAGATGTACTATTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
** *
55891827 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATAGTTTTGAAAAAA-AGTGT-AAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
* * * * *
55891890 ATGCTTCAAGTAGGATGCAGTGTCAGCAAAATTGCTGAAAAAAGCTCCCACGTGGACGCTT
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
* ** *
55891951 TTTTTCTACAGTAGTTCCTGAACAAATAATTTTGAGAAGACAATTCTGAAAAAATAGTGTAGAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
* *
55892016 ATGCTTCGAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGATGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
*
55892077 TTTTTCTACAATAGTTCCT
1 TTTTTCTACAGTAGTTCCT
55892096 ACTTGGCCTT
Statistics
Matches: 458, Mismatches: 61, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
124 105 0.23
125 9 0.02
126 233 0.51
127 111 0.24
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
Found at i:55892000 original size:250 final size:252
Alignment explanation
Indices: 55891447--55892095 Score: 881
Period size: 250 Copynumber: 2.6 Consensus size: 252
55891437 AGGTTTTGTG
* * * * * *
55891447 TTTTTTCTACACTAGTTTCAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAA
1 TTTTTTCTACAATAGTTCCTGAAAAA-TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAA
* * * * *
55891512 AACGCTTCAAGCAGGATACAGTGTCAGCAAAATTACTAAAAAAAGCCCCCACGTGGATGCTTTTT
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTT
* *
55891577 TTCTATAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAGTGTAAAAAAT
130 TTCTACAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACAGTTCTGAAAAAATAGTGTAAAAAAT
* *
55891642 GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGATGCT
195 GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCT
* * * *
55891700 CTTTTTCTATAATAATTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTATAAAA
1 TTTTTTCTACAATAGTTCCTG-AAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAA
* * * * * * *
55891765 AACACTTCAAGAAAGATGTACTATTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTT
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTT
* * *
55891830 TTCTACAGTAGTTCCTG-AAAAAATAATTTTGAGAAGATAGTTTTGAAAAAA-AGTGT-AAAAAT
130 TTCTACAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACAGTTCTGAAAAAATAGTGTAAAAAAT
* * * *
55891892 GCTTCAAGTAGGATGCAGTGTCAGCAAAATTGCTGAAAAAAGCTCCCACGTGGACGCT
195 GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCT
* ** *
55891950 TTTTTTCTACAGTAGTTCCTGAACAAATAATTTTGAGAAGACAATTCTGAAAAAATAGTGTAGAA
1 TTTTTTCTACAATAGTTCCTGAA-AAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAA
* * *
55892015 AATGCTTCGAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGATGCTCTTT
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTT
*
55892080 TTCTACAATAGTTCCT
130 TTCTACAGTAGTTCCT
55892096 ACTTGGCCTT
Statistics
Matches: 342, Mismatches: 52, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
249 2 0.01
250 182 0.53
251 5 0.01
252 30 0.09
253 118 0.35
254 5 0.01
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (252 bp):
TTTTTTCTACAATAGTTCCTGAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTTT
TCTACAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACAGTTCTGAAAAAATAGTGTAAAAAATG
CTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCT
Found at i:55895636 original size:18 final size:18
Alignment explanation
Indices: 55895610--55895649 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
55895600 GACTGGGAAA
*
55895610 AGGAAACATATAAGGGTT
1 AGGAAACATATAAGGGCT
*
55895628 AGGACACATATAAGGGCT
1 AGGAAACATATAAGGGCT
55895646 AGGA
1 AGGA
55895650 TACGCACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.10, G:0.30, T:0.17
Consensus pattern (18 bp):
AGGAAACATATAAGGGCT
Found at i:55907707 original size:28 final size:27
Alignment explanation
Indices: 55907676--55907730 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
55907666 AAAAATAATT
*
55907676 AAAATTCAA-TATGTTAATAATTTAAGTG
1 AAAATT-AATTAT-TTAATAATTAAAGTG
*
55907704 AAAATTAATTATTTTATAATTAAAGTG
1 AAAATTAATTATTTAATAATTAAAGTG
55907731 TGAATTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (27 bp):
AAAATTAATTATTTAATAATTAAAGTG
Found at i:55914322 original size:45 final size:45
Alignment explanation
Indices: 55914266--55914468 Score: 257
Period size: 45 Copynumber: 4.5 Consensus size: 45
55914256 CAAATAAAAA
* *
55914266 CATAGTTGAAAGACACTATGGCAATAT-ATCAGAAATGAATAAGAC
1 CATAGTTGAAAGACACTATGGCAACATGA-CAAAAATGAATAAGAC
* * *
55914311 CATAGTTGAAAGAAATTATGGCATCATGTA-AAAAATGAATAAGAC
1 CATAGTTGAAAGACACTATGGCAACATG-ACAAAAATGAATAAGAC
* * *
55914356 TAAAGTTGAAAGACACTATGGAAACATGACAAAAATGAATAAGAC
1 CATAGTTGAAAGACACTATGGCAACATGACAAAAATGAATAAGAC
**
55914401 CATAGTTGAAAGACACTATGGCAACATGACGGAAATGAATAAGAC
1 CATAGTTGAAAGACACTATGGCAACATGACAAAAATGAATAAGAC
* * *
55914446 CGTAGCTGAAAAACACTATGGCA
1 CATAGTTGAAAGACACTATGGCA
55914469 TCCTTGAACA
Statistics
Matches: 136, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.01
45 134 0.99
47 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.20
Consensus pattern (45 bp):
CATAGTTGAAAGACACTATGGCAACATGACAAAAATGAATAAGAC
Found at i:55917455 original size:16 final size:16
Alignment explanation
Indices: 55917433--55917469 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
55917423 TGATTCAATA
55917433 ATGGTTATGGATATTT
1 ATGGTTATGGATATTT
*
55917449 GTGGTTATGGATATTT
1 ATGGTTATGGATATTT
55917465 ATGGT
1 ATGGT
55917470 GATATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (16 bp):
ATGGTTATGGATATTT
Found at i:55936817 original size:40 final size:40
Alignment explanation
Indices: 55936773--55936905 Score: 230
Period size: 40 Copynumber: 3.3 Consensus size: 40
55936763 AGGTTTTGTT
*
55936773 TCTAGTAGGCTTATTGTCAGTGAAATTTTCAGACTTAATG
1 TCTAGCAGGCTTATTGTCAGTGAAATTTTCAGACTTAATG
*
55936813 TCTAGCAGGCTTATTGCCAGTGAAATTTTCAGACTTAATG
1 TCTAGCAGGCTTATTGTCAGTGAAATTTTCAGACTTAATG
*
55936853 TCTAGCAGGCTTATTGTTAGTGAAATTTTCAGACTTAATG
1 TCTAGCAGGCTTATTGTCAGTGAAATTTTCAGACTTAATG
*
55936893 TCTAACAGGCTTA
1 TCTAGCAGGCTTA
55936906 ATGCCGGTGT
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (40 bp):
TCTAGCAGGCTTATTGTCAGTGAAATTTTCAGACTTAATG
Found at i:55940455 original size:273 final size:271
Alignment explanation
Indices: 55939970--55940515 Score: 961
Period size: 273 Copynumber: 2.0 Consensus size: 271
55939960 TGTCGTTACG
*
55939970 TATTTTATTAAGAATTTACAACAAAAAATCTTGTTGTTAAAATTAATAAGAAGAAAAATAAATTA
1 TATTTTATTAAGAATTGACAACAAAAAATCTTGTTGTTAAAATTAATAAGAAGAAAAATAAATTA
55940035 CGTAACAACATTTTAGCCATAGCTAATATTATAAGATTTAACAACAATTTATTTTATCATTATGT
66 CGTAACAACATTTTAGCCATAGCTAATATTATAAGATTTAACAACAATTTATTTTATCATTATGT
55940100 ATAAAATAAAAAATTCACAATCACTAACCTTGTTGTTAGGATTAGTATTTTAAAAAATTAAATTT
131 ATAAAATAAAAAATTCACAATCACTAACCTTGTTGTTAGGATTAGTATTTTAAAAAATTAAATTT
*
55940165 AATAGCGGCATCTAAAATTGAAAATACTTCAATTTCCACAATAACATTTAATGAAATTAATTATT
196 AATAGCGGCATCTAAAATTGAAAATACTTCAATTTCCACAATAACATTTAATGAAATTAATTATA
55940230 ACATCACAACA
261 ACATCACAACA
*
55940241 TATTTTATTAAGAATTGACAACAACAAATCTTGTTGTTAAAATTAATAAGAAGAAAAATAAATTA
1 TATTTTATTAAGAATTGACAACAAAAAATCTTGTTGTTAAAATTAATAAGAAGAAAAATAAATTA
* * *
55940306 CGTAACAACATTTTAAAGTCATAGCTAATATTATAATATTTAACAACAATTTATTTTATCGTTAT
66 CGTAACAACATTTT--AGCCATAGCTAATATTATAAGATTTAACAACAATTTATTTTATCATTAT
*
55940371 GTATAAAATAAAAAATTTCACAATCGCTAACC-TGTTGTT-GGTATTAGTATTTTAAAAAATTAA
129 GTATAAAATAAAAAA-TTCACAATCACTAACCTTGTTGTTAGG-ATTAGTATTTTAAAAAATTAA
* *
55940434 ATTTAATAGCGGCATCTAAAATTGCAAATACTTCAATTTCCACAATAACATTTAATGAAGTTAAT
192 ATTTAATAGCGGCATCTAAAATTGAAAATACTTCAATTTCCACAATAACATTTAATGAAATTAAT
55940499 TATAACATCACAACA
257 TATAACATCACAACA
55940514 TA
1 TA
55940516 AAATCTCCAG
Statistics
Matches: 262, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
271 77 0.29
272 2 0.01
273 168 0.64
274 15 0.06
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.36
Consensus pattern (271 bp):
TATTTTATTAAGAATTGACAACAAAAAATCTTGTTGTTAAAATTAATAAGAAGAAAAATAAATTA
CGTAACAACATTTTAGCCATAGCTAATATTATAAGATTTAACAACAATTTATTTTATCATTATGT
ATAAAATAAAAAATTCACAATCACTAACCTTGTTGTTAGGATTAGTATTTTAAAAAATTAAATTT
AATAGCGGCATCTAAAATTGAAAATACTTCAATTTCCACAATAACATTTAATGAAATTAATTATA
ACATCACAACA
Found at i:55941971 original size:13 final size:13
Alignment explanation
Indices: 55941955--55941980 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55941945 ATATTTTAAT
55941955 TTTATTTTGTGTG
1 TTTATTTTGTGTG
55941968 TTTATTTTGTGTG
1 TTTATTTTGTGTG
55941981 CATTTGATTG
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:0.08, C:0.00, G:0.23, T:0.69
Consensus pattern (13 bp):
TTTATTTTGTGTG
Found at i:55943300 original size:114 final size:114
Alignment explanation
Indices: 55942953--55943281 Score: 631
Period size: 114 Copynumber: 2.9 Consensus size: 114
55942943 TATATATGTG
55942953 TGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGTTAAGTAT
1 TGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGTTAAGTAT
55943018 GAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATATATA
66 GAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATATATA
55943067 TGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGTTAAGTAT
1 TGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGTTAAGTAT
55943132 GAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATATATA
66 GAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATATATA
* * *
55943181 TGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGTTAAGTAT
1 TGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGTTAAGTAT
55943246 GAATGTTATATATATGCATAAATGAAGTTCGAATAT
66 GAATGTTATATATATGCATAAATGAAGTTCGAATAT
55943282 GTATATATGA
Statistics
Matches: 212, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 212 1.00
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.40
Consensus pattern (114 bp):
TGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGTTAAGTAT
GAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATATATA
Found at i:55943817 original size:41 final size:41
Alignment explanation
Indices: 55943766--55943994 Score: 336
Period size: 41 Copynumber: 5.6 Consensus size: 41
55943756 CGGACTTTAT
* *
55943766 GTCTAGCAGGCTAAGTGCCGGTGATCTGAAACATGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
*
55943807 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
**
55943848 ACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
* *
55943889 GTCTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTAT-A
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
* *
55943929 GACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGACTATAA
1 G-TCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
*
55943971 G-CTTAGCAGGTTAAGTGCCGGTGA
1 GTC-TAGCAGGCTAAGTGCCGGTGA
55943995 ATATGTTAAA
Statistics
Matches: 170, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
40 3 0.02
41 165 0.97
42 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
Found at i:55943868 original size:82 final size:81
Alignment explanation
Indices: 55943768--55943994 Score: 375
Period size: 82 Copynumber: 2.8 Consensus size: 81
55943758 GACTTTATGT
*
55943768 CTAGCAGGCTAAGTGCCGGTGATCTGAAACATGCTATAAGTCTAGCAGGCTAAGTGCCGGTGATC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCA-GCTATAAGTCTAGCAGGCTAAGTGCCGGTGATC
55943833 TGAATCAGGTTATAAAC
65 TGAATCAGGTTATAAAC
*
55943850 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGTCTAGCAGGCTAAGTGCCGATGATC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCA-GCTATAAGTCTAGCAGGCTAAGTGCCGGTGATC
*
55943915 TGAATCAGGTTATAGAC
65 TGAATCAGGTTATAAAC
*
55943932 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGACTATAAG-CTTAGCAGGTTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAG-CTATAAGTC-TAGCAGGCTAAGTGCCGGTGA
55943995 ATATGTTAAA
Statistics
Matches: 137, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
81 2 0.01
82 135 0.99
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (81 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGCTATAAGTCTAGCAGGCTAAGTGCCGGTGATCT
GAATCAGGTTATAAAC
Found at i:55950781 original size:113 final size:113
Alignment explanation
Indices: 55950596--55950922 Score: 611
Period size: 113 Copynumber: 2.9 Consensus size: 113
55950586 TATATATGTG
55950596 TGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGTTAAGTAT
1 TGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGTTAAGTAT
55950661 GAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATATATA
66 GAATGTTATATATATGCATAAATGAAGTTCGAATATATGT-AATATATA
55950710 TGTATATCTATTGTATATTTGATGAGCTATAATT-AAAATATATGAATTGAAATTAGTTAAGTAT
1 TGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGTTAAGTAT
55950774 GAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAATATATA
66 GAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAATATATA
* * *
55950822 TGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGTTAAGTAT
1 TGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGTTAAGTAT
55950887 GAATGTTATATATATGCATAAATGAAGTTCGAATAT
66 GAATGTTATATATATGCATAAATGAAGTTCGAATAT
55950923 GTATATATGA
Statistics
Matches: 210, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
112 42 0.20
113 134 0.64
114 34 0.16
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.41
Consensus pattern (113 bp):
TGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGTTAAGTAT
GAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAATATATA
Found at i:55951454 original size:41 final size:41
Alignment explanation
Indices: 55951409--55951594 Score: 248
Period size: 41 Copynumber: 4.5 Consensus size: 41
55951399 GACTTTACGT
* * *
55951409 CTAGCAAGCTAAGTGCCGGTGATCTGAAACATGCTATAAGT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAAACAGGCTATAAGC
* * *
55951450 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAAACAGGCTATAAGC
* * *
55951491 CTAGCAGGCTAAGTGCCGGTGATCAGAATA-AGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAA-ACAGGCTATAAGC
*
55951532 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAAACAGGCTATAAGC
* *
55951573 TTAGCAGGTTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
55951595 ATATGTTAAA
Statistics
Matches: 129, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
41 129 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAAACAGGCTATAAGC
Found at i:55954199 original size:40 final size:40
Alignment explanation
Indices: 55954137--55954388 Score: 303
Period size: 40 Copynumber: 6.3 Consensus size: 40
55954127 GATTTGAATG
*
55954137 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * *
55954177 TTATCCGGGTTAAGACCAGAAGGCATTTATGCTTGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
55954217 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
55954257 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
55954297 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * * *
55954337 ATACCCGGGTTAGGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
55954377 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55954389 ATTCCGAAGA
Statistics
Matches: 187, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 6 0.03
40 178 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:55962641 original size:40 final size:40
Alignment explanation
Indices: 55962582--55962833 Score: 330
Period size: 40 Copynumber: 6.3 Consensus size: 40
55962572 CATTTGAATG
*
55962582 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
55962622 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
55962662 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
55962702 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
55962742 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
55962782 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
55962822 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55962834 ATTCCGAAGA
Statistics
Matches: 193, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
39 7 0.04
40 183 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:55966650 original size:3 final size:3
Alignment explanation
Indices: 55966642--55966706 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
55966632 TATAACGATA
55966642 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
55966690 AAA AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AA
55966707 ATAGACACAC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:55982781 original size:39 final size:39
Alignment explanation
Indices: 55982727--55982804 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
55982717 TTACATGCTT
55982727 AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
1 AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
55982766 AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
1 AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
55982805 GACAAGATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (39 bp):
AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
Found at i:55984139 original size:55 final size:55
Alignment explanation
Indices: 55984055--55984186 Score: 194
Period size: 55 Copynumber: 2.4 Consensus size: 55
55984045 TTTAATGAAG
* * *
55984055 CCAAGTCAGTGAGTTACATGGGCTAGTCACAC-GAGCGTGTGGTTAGTCGTGTGAC
1 CCAAGTCAGTGAGTTACACGGGCTAGTCACACAG-GCATGTGGTTAGCCGTGTGAC
* * *
55984110 CCAAGTGAGTCAGTTACACGGGCTAGTCACACAGGCATGTGGTTGGCCGTGTGAC
1 CCAAGTCAGTGAGTTACACGGGCTAGTCACACAGGCATGTGGTTAGCCGTGTGAC
55984165 CCAAGTCAGTGAGTTACACGGG
1 CCAAGTCAGTGAGTTACACGGG
55984187 GTTGAACACG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 67 0.99
56 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.33, T:0.23
Consensus pattern (55 bp):
CCAAGTCAGTGAGTTACACGGGCTAGTCACACAGGCATGTGGTTAGCCGTGTGAC
Found at i:55996238 original size:26 final size:26
Alignment explanation
Indices: 55996209--55996260 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
55996199 GAAAAGTAGT
55996209 TTTCAGCATATCACAATCTTTAACTA
1 TTTCAGCATATCACAATCTTTAACTA
55996235 TTTCAGCATATCACAATCTTTAACTA
1 TTTCAGCATATCACAATCTTTAACTA
55996261 GCAACTGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (26 bp):
TTTCAGCATATCACAATCTTTAACTA
Found at i:55998571 original size:6 final size:6
Alignment explanation
Indices: 55998560--55998594 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
55998550 AAAACCACCG
55998560 CTTTCT CTTTCT CTTTCT CTTTCT CTTTCTT CTTT
1 CTTTCT CTTTCT CTTTCT CTTTCT CTTTC-T CTTT
55998595 TTATAGGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
CTTTCT
Found at i:56002495 original size:22 final size:22
Alignment explanation
Indices: 56002460--56002601 Score: 162
Period size: 22 Copynumber: 6.3 Consensus size: 22
56002450 CAAAAATATT
*
56002460 GATACTTAACCAAAAAGGTATC
1 GATACTTGACCAAAAAGGTATC
* *
56002482 GACACATGACCAAAAAGGTATC
1 GATACTTGACCAAAAAGGTATC
*
56002504 AATACTTGACCAAAAAGGTATC
1 GATACTTGACCAAAAAGGTATC
*
56002526 GATACTTAGCTAAATCAAAAA--TATC
1 GATACTT-G----ACCAAAAAGGTATC
*
56002551 GATACTTAACCAAAAAGGTATC
1 GATACTTGACCAAAAAGGTATC
*
56002573 GATACTTGACCAAAAAGGTATT
1 GATACTTGACCAAAAAGGTATC
56002595 GATACTT
1 GATACTT
56002602 TTGACCTGGA
Statistics
Matches: 101, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
20 7 0.07
22 75 0.74
23 1 0.01
25 11 0.11
27 7 0.07
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (22 bp):
GATACTTGACCAAAAAGGTATC
Found at i:56002568 original size:47 final size:44
Alignment explanation
Indices: 56002449--56002579 Score: 149
Period size: 47 Copynumber: 2.9 Consensus size: 44
56002439 AATTGATATT
* * *
56002449 TCAAAAATATTGATACTTAACCAAAAAGGTATCGACAC--ATGA
1 TCAAAAATATCGATACTTAACCAAAAAGGTATCGATACTTATAA
* * *
56002491 CCAAAAAGGTATCAATACTTGACCAAAAAGGTATCGATACTTAGCTAAA
1 TCAAAAA--TATCGATACTTAACCAAAAAGGTATCGATACTTA--T-AA
56002540 TCAAAAATATCGATACTTAACCAAAAAGGTATCGATACTT
1 TCAAAAATATCGATACTTAACCAAAAAGGTATCGATACTT
56002580 GACCAAAAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
42 6 0.08
44 27 0.37
46 1 0.01
47 31 0.42
48 1 0.01
49 7 0.10
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (44 bp):
TCAAAAATATCGATACTTAACCAAAAAGGTATCGATACTTATAA
Found at i:56002983 original size:19 final size:20
Alignment explanation
Indices: 56002958--56002996 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56002948 GGCCTAAATA
*
56002958 AAAAATTGACATACATTTTC
1 AAAATTTGACATACATTTTC
*
56002978 AAAATTTGACATTCATTTT
1 AAAATTTGACATACATTTT
56002997 TACTTTGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAATTTGACATACATTTTC
Found at i:56008050 original size:12 final size:12
Alignment explanation
Indices: 56008033--56008059 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56008023 TTTCCTCTCA
56008033 TCTATTGTAAGC
1 TCTATTGTAAGC
56008045 TCTATTGTAAGC
1 TCTATTGTAAGC
56008057 TCT
1 TCT
56008060 TTTAGAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (12 bp):
TCTATTGTAAGC
Found at i:56011004 original size:22 final size:22
Alignment explanation
Indices: 56010979--56011021 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
56010969 CGATGAGATC
56010979 ATTGACTTGTATAAACAACATT
1 ATTGACTTGTATAAACAACATT
* *
56011001 ATTGGCTTGTATGAACAACAT
1 ATTGACTTGTATAAACAACAT
56011022 CATTCTAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (22 bp):
ATTGACTTGTATAAACAACATT
Found at i:56023798 original size:18 final size:18
Alignment explanation
Indices: 56023756--56023801 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
56023746 ATGAAGTTGA
*
56023756 TGTTGCAGAAGCAGAAGT
1 TGTTGCTGAAGCAGAAGT
56023774 TGTTGCTGAAG-AGGAAGT
1 TGTTGCTGAAGCA-GAAGT
56023792 TGTTGCTGAA
1 TGTTGCTGAA
56023802 AATGAGAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.28, C:0.09, G:0.35, T:0.28
Consensus pattern (18 bp):
TGTTGCTGAAGCAGAAGT
Found at i:56028000 original size:19 final size:19
Alignment explanation
Indices: 56027953--56027988 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
56027943 GAACACAACT
56027953 TCTTTGTTTCTTCATTTTA
1 TCTTTGTTTCTTCATTTTA
56027972 TCTTTGTTTCTTC-TTTT
1 TCTTTGTTTCTTCATTTT
56027989 TCATTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.72
Consensus pattern (19 bp):
TCTTTGTTTCTTCATTTTA
Found at i:56028469 original size:10 final size:10
Alignment explanation
Indices: 56028456--56028540 Score: 61
Period size: 10 Copynumber: 8.9 Consensus size: 10
56028446 TACATTTATT
56028456 ATTTTTAATA
1 ATTTTTAATA
56028466 ATTTTTAATA
1 ATTTTTAATA
56028476 ATTTTT-ATA
1 ATTTTTAATA
* ** *
56028485 CTACTT-AGA
1 ATTTTTAATA
*
56028494 ATTATTAAT-
1 ATTTTTAATA
*
56028503 ATTTTT-ATC
1 ATTTTTAATA
56028512 ATTTTTAATA
1 ATTTTTAATA
* *
56028522 ATTATTACTA
1 ATTTTTAATA
*
56028532 ATTATTAAT
1 ATTTTTAAT
56028541 TATATATGCT
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
8 2 0.03
9 22 0.37
10 35 0.59
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:56034231 original size:33 final size:33
Alignment explanation
Indices: 56034179--56034288 Score: 130
Period size: 33 Copynumber: 3.3 Consensus size: 33
56034169 CATTAGGATG
* * * *
56034179 GTAAACACATAATAGAGATAGTCCGATGGGACA
1 GTAAACACATAACAAAGATAGTCCGCTAGGACA
* *
56034212 GTAAACACAAAACAAAGATAGTCTGCTAGGACA
1 GTAAACACATAACAAAGATAGTCCGCTAGGACA
* *
56034245 GTAAACACATAACATAGAGAAAGTACGCTAGGACA
1 GTAAACACATAACA-A-AGATAGTCCGCTAGGACA
56034280 GTAAACACA
1 GTAAACACA
56034289 GATAGAGTTC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 40 0.62
34 1 0.02
35 24 0.37
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (33 bp):
GTAAACACATAACAAAGATAGTCCGCTAGGACA
Found at i:56036729 original size:12 final size:11
Alignment explanation
Indices: 56036694--56036729 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
56036684 AAATAAACTA
*
56036694 TTTTTTCCTTT
1 TTTTTTTCTTT
56036705 TTTTTTTCTTT
1 TTTTTTTCTTT
*
56036716 TTTTTTTCTAT
1 TTTTTTTCTTT
56036727 TTT
1 TTT
56036730 AGGTTTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:56038507 original size:14 final size:13
Alignment explanation
Indices: 56038487--56038525 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
56038477 ATTTTAAAAA
*
56038487 ATAAAATTATTTC
1 ATAAAATAATTTC
*
56038500 ATTAAAATAATGTC
1 A-TAAAATAATTTC
56038514 ATAAAATAATTT
1 ATAAAATAATTT
56038526 TTTTATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (13 bp):
ATAAAATAATTTC
Found at i:56050579 original size:5 final size:5
Alignment explanation
Indices: 56050569--56050593 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56050559 TTTGAGAGTC
56050569 GAGGA GAGGA GAGGA GAGGA GAGGA
1 GAGGA GAGGA GAGGA GAGGA GAGGA
56050594 ATGGATTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (5 bp):
GAGGA
Found at i:56050842 original size:6 final size:6
Alignment explanation
Indices: 56050831--56050866 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
56050821 AGAATAGAAC
56050831 CTATTT CTATTT CTATTT CTATTT CTATTT CTATTT
1 CTATTT CTATTT CTATTT CTATTT CTATTT CTATTT
56050867 GGTTGGTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
CTATTT
Found at i:56051196 original size:18 final size:18
Alignment explanation
Indices: 56051173--56051215 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
56051163 GAATAGATTT
56051173 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
56051191 TTAATTAAAAACTTTAAA
1 TTAATTAAAAAATTTAAA
56051209 TTAATTA
1 TTAATTA
56051216 CACCTAAAAA
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:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:56055373 original size:26 final size:26
Alignment explanation
Indices: 56055301--56055369 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
56055291 TTCTCATCCT
*
56055301 AATTTTACTCC-AGTAAAATTTTAAC
1 AATTTTACCCCGAGTAAAATTTTAAC
* *
56055326 AATTTTACCCCTAGTAAAATTTTGAC
1 AATTTTACCCCGAGTAAAATTTTAAC
*
56055352 GATTTTACCCCGA-TAAAA
1 AATTTTACCCCGAGTAAAA
56055370 ATTTGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 15 0.38
26 24 0.62
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (26 bp):
AATTTTACCCCGAGTAAAATTTTAAC
Found at i:56064405 original size:405 final size:404
Alignment explanation
Indices: 56063581--56064793 Score: 2131
Period size: 405 Copynumber: 3.0 Consensus size: 404
56063571 TTGTGTGATA
*
56063581 ATTTCTTTTTTTCATAGAGAGGGACTTGACTTTAAGCTTGTTTGTTTTTTAGTGAAAGGCTAGAT
1 ATTTCTTTTTTTCATAGAGA-GGACTTGACTTTAAG-TT-TTT-TTTTTTAGTGAAAGGCTGGAT
* * * * *
56063646 TATATTAAGGAAATATGCAATAACCTATTTTCAATGGTTTTGAACACTATGGTTACTTCACCACA
62 TATATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACA
* *
56063711 ATTCCGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAATTTGTTGGAGTGTAGTAT
127 ATTCCGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTAT
* *
56063776 TAAAATTTGGTCTGTAACTTTAAAGTTTGAATAGTTAATTAAGTAAAAAGGACTAAATCGTAAAA
192 TAAAATTTGGTCTGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAAGGACTAAATCGTAAAA
56063841 GCTACAAAAGTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGT
257 GCTACAAAAGTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGT
56063906 TTTAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATT
322 TTTAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATT
56063971 TTAGTTAATATTGTTATG
387 TTAGTTAATATTGTTATG
*
56063989 ATTTCTTTTTTTCATAGAGAGAGACTTGACTTTAAGTTTGTTTTTTTAGTGAAAGGCTGGATTAT
1 ATTTCTTTTTTTCATAGAGAG-GACTTGACTTTAAGTTTTTTTTTTTAGTGAAAGGCTGGATTAT
56064054 ATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAATT
65 ATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAATT
* *
56064119 CTGACCAATGAGTTAGAAAATTTAATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTATTAA
130 CCGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTATTAA
*
56064184 AATTTGGTCTAGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAATGACTAAATCGTAAAAGC
195 AATTTGGTCT-GTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAAGGACTAAATCGTAAAAGC
* * *
56064249 TCCAAAATTTAATCACTATTATTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGTTT
259 TACAAAAGTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGTTT
56064314 TAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATTTT
324 TAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATTTT
56064379 AGTTAATATTGTTATG
389 AGTTAATATTGTTATG
56064395 ATTT-TTTTTTTCATAGAGACGGACTTGACTTTAAGTTTTTTTTTTTAGTGAAAGGCTGGATTAT
1 ATTTCTTTTTTTCATAGAGA-GGACTTGACTTTAAGTTTTTTTTTTTAGTGAAAGGCTGGATTAT
56064459 ATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAATT
65 ATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAATT
* *
56064524 CCGACCAATAAGTTAGAAAATTTTATTTATTTGATATTTATAAAGTTGTTGAAGTGTAGTATTAA
130 CCGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTATTAA
56064589 AATTTGGTCTGGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAAGGACTAAATCGTAAAAGC
195 AATTTGGTCT-GTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAAGGACTAAATCGTAAAAGC
* *
56064654 TACAAAAGTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTGTAAACATGAAATGATGGTTT
259 TACAAAAGTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGTTT
* * *
56064719 TAAAAGTTAATTAGACCTTATTACTTTATAGTGGACGGTTAAGATGTAGTTATTTATGAAATTTT
324 TAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATTTT
56064784 AGTTAATATT
389 AGTTAATATT
56064794 AAATGGAAAA
Statistics
Matches: 770, Mismatches: 32, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
405 532 0.69
406 201 0.26
407 3 0.00
408 34 0.04
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (404 bp):
ATTTCTTTTTTTCATAGAGAGGACTTGACTTTAAGTTTTTTTTTTTAGTGAAAGGCTGGATTATA
TTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAATTC
CGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTATTAAA
ATTTGGTCTGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAAGGACTAAATCGTAAAAGCTA
CAAAAGTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGTTTTA
AAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATTTTAG
TTAATATTGTTATG
Found at i:56065862 original size:28 final size:28
Alignment explanation
Indices: 56065830--56065919 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
56065820 GCACTTTGTG
56065830 CCGGTGATATATTTCTAGGTACTATGTA
1 CCGGTGATATATTTCTAGGTACTATGTA
* * * ** * * *
56065858 TCGGT-ATTATAGTTCCAGACACTCTATG
1 CCGGTGA-TATATTTCTAGGTACTATGTA
56065886 CCGGTGATATATTT-TCAGGTACTATGTA
1 CCGGTGATATATTTCT-AGGTACTATGTA
56065914 CCGGTG
1 CCGGTG
56065920 GTGGATACCA
Statistics
Matches: 43, Mismatches: 16, Indels: 6
0.66 0.25 0.09
Matches are distributed among these distances:
27 1 0.02
28 41 0.95
29 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (28 bp):
CCGGTGATATATTTCTAGGTACTATGTA
Found at i:56067661 original size:81 final size:81
Alignment explanation
Indices: 56067567--56067735 Score: 266
Period size: 81 Copynumber: 2.1 Consensus size: 81
56067557 TTAATAAATT
* * * *
56067567 GATATTTGCTTATGATATGGACTAAATCATAAAGAAACGATAAATTCATTTATAAATTGAATATG
1 GATATTTGATTATGACATGGAATAAATCATAAAGAAACGATAAAATCATTTATAAATTGAATATG
*
56067632 ATAACTTATAATTTGA
66 ATAAATTATAATTTGA
* *
56067648 GATATTTGATTATGGCATGGAATAAATCATAAAGAAACGATAAAATGATTTATAAATTGAATATG
1 GATATTTGATTATGACATGGAATAAATCATAAAGAAACGATAAAATCATTTATAAATTGAATATG
56067713 ATAAATTATAATTTGA
66 ATAAATTATAATTTGA
*
56067729 TATATTT
1 GATATTT
56067736 AATGAATTGG
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.37
Consensus pattern (81 bp):
GATATTTGATTATGACATGGAATAAATCATAAAGAAACGATAAAATCATTTATAAATTGAATATG
ATAAATTATAATTTGA
Found at i:56068713 original size:91 final size:91
Alignment explanation
Indices: 56068435--56068736 Score: 322
Period size: 91 Copynumber: 3.3 Consensus size: 91
56068425 CAATGTGTTG
* * * *
56068435 CTTAAATGTGATTTAAGTGATGTTCGAAAGTGGTTAAATTACAATTTTAATTGCTGAAAATTATG
1 CTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTATG
*
56068500 GTGTTTGATTGTATGCTTTAATGATA
66 GTGTTTGATTGTATGCTTTGATGATA
* * * * *** * * *
56068526 CTCAAA-GATGATTTAAATGATG-TCTAAAAGATGTTAACTGGTCATTTTAATTGCCGTAAGTTA
1 CTTAAATG-TGATTTAAATGATGTTC-GAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTA
* *
56068589 TGGTGTTTGAATGTATG-TGTTGATGATG
64 TGGTGTTTGATTGTATGCT-TTGATGATA
*
56068617 CTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTATA
1 CTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTATG
* *
56068682 GTGTCTGATTGTAGGCTTTGATGATA
66 GTGTTTGATTGTATGCTTTGATGATA
* * * * * *
56068708 TTTAAAGGCGCTTAAAATGATGTTTGAAA
1 CTTAAATGTGATTTAAATGATGTTCGAAA
56068737 ATGGTAAACT
Statistics
Matches: 168, Mismatches: 37, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
90 4 0.02
91 160 0.95
92 4 0.02
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (91 bp):
CTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTATG
GTGTTTGATTGTATGCTTTGATGATA
Found at i:56068759 original size:182 final size:182
Alignment explanation
Indices: 56068433--56068761 Score: 464
Period size: 182 Copynumber: 1.8 Consensus size: 182
56068423 CGCAATGTGT
* * *
56068433 TGCTTAAATGTGATTTAAGTGATGTTCGAAAGTGGTTAAATTACAATTTTAATTGCTGAAAATTA
1 TGCTTAAATGTGATTTAAATGATGTTCGAAAGTGGTTAAATGAAAATTTTAATTGCTGAAAATTA
* * * * * *
56068498 TGGTGTTTGATTGTATGCTTTAATGATACTCAAAGATGATTTAAATGATGTCTAAAAGATGTTAA
66 TAGTGTCTGATTGTAGGCTTTAATGATACTCAAAGACGATTAAAATGATGTCTAAAAGATGTAAA
*
56068563 CTGGTCATTTTAATTGCCGTAAGTTATGGTGTTTGAATGTATGTGTTGATGA
131 CTGGTCACTTTAATTGCCGTAAGTTATGGTGTTTGAATGTATGTGTTGATGA
*
56068615 TGCTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTA
1 TGCTTAAATGTGATTTAAATGATGTTCGAAAGTGGTTAAATGAAAATTTTAATTGCTGAAAATTA
* * * * * * *
56068680 TAGTGTCTGATTGTAGGCTTTGATGATATTTAAAGGCGCTTAAAATGATGTTTGAAA-ATGGTAA
66 TAGTGTCTGATTGTAGGCTTTAATGATACTCAAAGACGATTAAAATGATGTCTAAAAGAT-GTAA
56068744 ACTGG-CAGCTTTAATTGC
130 ACTGGTCA-CTTTAATTGC
56068762 TATGAATTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
181 4 0.03
182 123 0.97
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (182 bp):
TGCTTAAATGTGATTTAAATGATGTTCGAAAGTGGTTAAATGAAAATTTTAATTGCTGAAAATTA
TAGTGTCTGATTGTAGGCTTTAATGATACTCAAAGACGATTAAAATGATGTCTAAAAGATGTAAA
CTGGTCACTTTAATTGCCGTAAGTTATGGTGTTTGAATGTATGTGTTGATGA
Found at i:56069754 original size:17 final size:18
Alignment explanation
Indices: 56069729--56069762 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56069719 ATCGTACAAC
*
56069729 AAAATAAAAATA-AAAAT
1 AAAACAAAAATAGAAAAT
56069746 AAAACAAAAATAGAAAA
1 AAAACAAAAATAGAAAA
56069763 ATGAAACAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (18 bp):
AAAACAAAAATAGAAAAT
Found at i:56074430 original size:4 final size:4
Alignment explanation
Indices: 56074421--56074481 Score: 50
Period size: 4 Copynumber: 14.2 Consensus size: 4
56074411 AGGAATAAAG
* * *
56074421 ATAA ATAA ATAA CATAA ATAA ATAA ATAA TGAGAA ATAA AGAA ACGAA
1 ATAA ATAA ATAA -ATAA ATAA ATAA ATAA --ATAA ATAA ATAA A-TAA
*
56074469 CTAA ATAA ATAA A
1 ATAA ATAA ATAA A
56074482 CCAATAAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 37 0.79
5 7 0.15
6 3 0.06
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.20
Consensus pattern (4 bp):
ATAA
Found at i:56074439 original size:13 final size:12
Alignment explanation
Indices: 56074421--56074481 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
56074411 AGGAATAAAG
56074421 ATAAATAAATAA
1 ATAAATAAATAA
56074433 CATAAATAAATAA
1 -ATAAATAAATAA
*
56074446 ATAATGAGAAATAA
1 ATAA--ATAAATAA
* * *
56074460 AGAAACGAACTAA
1 ATAAA-TAAATAA
56074473 ATAAATAAA
1 ATAAATAAA
56074482 CCAATAAGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
12 7 0.18
13 22 0.56
14 10 0.26
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.20
Consensus pattern (12 bp):
ATAAATAAATAA
Found at i:56074443 original size:17 final size:17
Alignment explanation
Indices: 56074421--56074481 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
56074411 AGGAATAAAG
56074421 ATAAATAAATAACATAA
1 ATAAATAAATAACATAA
* *
56074438 ATAAATAAATAATGAGAA
1 ATAAATAAATAA-CATAA
* *
56074456 ATAAAGAAACGAAC-TAA
1 ATAAATAAA-TAACATAA
56074473 ATAAATAAA
1 ATAAATAAA
56074482 CCAATAAGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
17 22 0.63
18 11 0.31
19 2 0.06
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.20
Consensus pattern (17 bp):
ATAAATAAATAACATAA
Found at i:56088712 original size:20 final size:21
Alignment explanation
Indices: 56088687--56088729 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
56088677 AGGCGAAAGG
56088687 TTTCCATTATTAACAT-TTTT
1 TTTCCATTATTAACATGTTTT
56088707 TTTCCATTATTAACATGTTTT
1 TTTCCATTATTAACATGTTTT
56088728 TT
1 TT
56088730 AGACTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.23, C:0.14, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTCCATTATTAACATGTTTT
Found at i:56091118 original size:21 final size:20
Alignment explanation
Indices: 56091089--56091134 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
56091079 ATTTTTTAAG
*
56091089 TAATAATTTTAAAATAAATTA
1 TAATTATTTTAAAATAAA-TA
* *
56091110 TAATTATTTTTAAATATATA
1 TAATTATTTTAAAATAAATA
56091130 TAATT
1 TAATT
56091135 CTAACTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTATTTTAAAATAAATA
Found at i:56093401 original size:3 final size:3
Alignment explanation
Indices: 56093393--56093476 Score: 64
Period size: 3 Copynumber: 27.3 Consensus size: 3
56093383 TAGCAATTTT
* *
56093393 TTA TTA TTA TTTA GTTA TTA TTA TTA TTA TCA TTA TTA TCT- TTA CTA
1 TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * *
56093440 TTA TTA TTA -TA TTTA TTA ATA CTA TTG TTA GTA TTA T
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T
56093477 GTTTTCTTAT
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
2 3 0.05
3 52 0.81
4 9 0.14
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:56097829 original size:16 final size:16
Alignment explanation
Indices: 56097808--56097842 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
56097798 GCACTTTGAC
56097808 TAAAATTAATAGGCTG
1 TAAAATTAATAGGCTG
56097824 TAAAATTAATAGGCTG
1 TAAAATTAATAGGCTG
56097840 TAA
1 TAA
56097843 GACTTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (16 bp):
TAAAATTAATAGGCTG
Found at i:56103277 original size:17 final size:18
Alignment explanation
Indices: 56103243--56103288 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
56103233 CCGTTATGTC
56103243 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
56103258 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
56103275 CGCGACCGCGACCG
1 CGCGACCGCGACCG
56103289 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:56106392 original size:25 final size:26
Alignment explanation
Indices: 56106358--56106409 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
56106348 ATAAAAATAT
*
56106358 TTATTATATTTAT-TTGTGTTTTTTA
1 TTATTATATTTATGTAGTGTTTTTTA
56106383 TTATTATATTTATGGTAGTGTTTTTTA
1 TTATTATATTTAT-GTAGTGTTTTTTA
56106410 AATATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 13 0.54
27 11 0.46
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (26 bp):
TTATTATATTTATGTAGTGTTTTTTA
Found at i:56111919 original size:18 final size:18
Alignment explanation
Indices: 56111896--56111940 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
56111886 TTCTAAAAAC
56111896 CACAAGAAAGAAATCTTG
1 CACAAGAAAGAAATCTTG
56111914 CACAAGAAAGAAATCTTG
1 CACAAGAAAGAAATCTTG
56111932 CACAAGAAA
1 CACAAGAAA
56111941 CAAACTCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.53, C:0.18, G:0.16, T:0.13
Consensus pattern (18 bp):
CACAAGAAAGAAATCTTG
Found at i:56127081 original size:5 final size:5
Alignment explanation
Indices: 56127071--56127142 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
56127061 TGTTAAAAAA
* *
56127071 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
56127117 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
56127143 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:56127124 original size:19 final size:19
Alignment explanation
Indices: 56127100--56127142 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
56127090 ATTATGTTTT
56127100 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
56127119 TATATTATATTATATTATA
1 TATATTATATTATATTATA
56127138 TATAT
1 TATAT
56127143 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:56127175 original size:20 final size:20
Alignment explanation
Indices: 56127147--56127188 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
56127137 ATATATACAT
* *
56127147 AAAACAAAAGAAAGAATAGA
1 AAAAAAAAAGAAAGAAAAGA
56127167 AAAAAAAAAGAAAGAAAAGA
1 AAAAAAAAAGAAAGAAAAGA
56127187 AA
1 AA
56127189 CAGAATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGAAAGAAAAGA
Found at i:56127182 original size:15 final size:16
Alignment explanation
Indices: 56127152--56127198 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
56127142 TACATAAAAC
*
56127152 AAAAGAAAGAATAGAA
1 AAAAAAAAGAATAGAA
56127168 AAAAAAAAGAA-AGAA
1 AAAAAAAAGAATAGAA
* *
56127183 AAGAAACAGAATAGAA
1 AAAAAAAAGAATAGAA
56127199 GAGACGAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (16 bp):
AAAAAAAAGAATAGAA
Found at i:56127198 original size:20 final size:20
Alignment explanation
Indices: 56127152--56127219 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
56127142 TACATAAAAC
* * *
56127152 AAAAGAAAGAATAGAAAAAA
1 AAAAGAAAGAAAAGAAACAG
56127172 AAAAGAAAGAAAAGAAACAG
1 AAAAGAAAGAAAAGAAACAG
* * *
56127192 AATAG-AAGAGACGAAACAG
1 AAAAGAAAGAAAAGAAACAG
56127211 AGAAAGAAA
1 A-AAAGAAA
56127220 CAGAGAGCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 13 0.33
20 24 0.62
21 2 0.05
ACGTcount: A:0.72, C:0.04, G:0.21, T:0.03
Consensus pattern (20 bp):
AAAAGAAAGAAAAGAAACAG
Found at i:56128176 original size:46 final size:44
Alignment explanation
Indices: 56128117--56128231 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
56128107 ACAGGACAGA
* *
56128117 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
56128163 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
56128207 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
56128232 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:56128212 original size:44 final size:45
Alignment explanation
Indices: 56128117--56128250 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
56128107 ACAGGACAGA
* *
56128117 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
56128163 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
56128207 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
56128251 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:56135785 original size:131 final size:130
Alignment explanation
Indices: 56135482--56135897 Score: 579
Period size: 131 Copynumber: 3.2 Consensus size: 130
56135472 TGGATTGAAG
*
56135482 AAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCATAATTAAACCACCAGTCCTATCTCC
1 AAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCA-GATTAAACCACCAGTCCTATCTCC
* * *
56135547 CTGAGCAGTAGTGGAGTAGGTTGAAGAGTGTAGATCCCGTCTCCCTAAGCAATAGTGGAGCAAAT
65 CTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGA-CCCGTCTCCCTAAGCAATAGTGGAGCAGAT
56135612 CA
129 CA
* *
56135614 AATG-CGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTCAAACCACCAGTTCTATCTC
1 AA-GACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATT-AAACCACCAGTCCTATCTC
* * *
56135678 CTTGAGCAGCAGTGGAGTTGGTTGAAGAATGTAGACCCGTCTCCCTAAGTAATAGTGGAGCAGAT
64 CCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGACCCGTCTCCCTAAGCAATAGTGGAGCAGAT
56135743 CA
129 CA
* * *
56135745 AAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAACCATCAGTCCTATCTCCC
1 AAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTAAACCACCAGTCCTATCTCCC
* * * * *
56135810 TGAGCAGCAATAGAGTAGGTTGAAGAATGTAGA-TCGTTTCTCCCTGAGCAGTAGTGGAGCAGAT
66 TGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGACCCG--TCTCCCTAAGCAATAGTGGAGCAGAT
56135874 CGA
129 C-A
*
56135877 AA-ACAGTGAATTTTA-CTTCCC
1 AAGACAGTGAATCTTATCTTCCC
56135898 TGGTGTTGCG
Statistics
Matches: 256, Mismatches: 22, Indels: 14
0.88 0.08 0.05
Matches are distributed among these distances:
129 2 0.01
130 54 0.21
131 110 0.43
132 89 0.35
133 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (130 bp):
AAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTAAACCACCAGTCCTATCTCCC
TGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGACCCGTCTCCCTAAGCAATAGTGGAGCAGATCA
Found at i:56135938 original size:21 final size:21
Alignment explanation
Indices: 56135908--56135949 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
56135898 TGGTGTTGCG
56135908 GTGGAATGGATTAAAGCTGAA
1 GTGGAATGGATTAAAGCTGAA
*
56135929 GTGGAGTGGATTAAAGCTGAA
1 GTGGAATGGATTAAAGCTGAA
56135950 TACAGCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.24
Consensus pattern (21 bp):
GTGGAATGGATTAAAGCTGAA
Found at i:56137689 original size:12 final size:12
Alignment explanation
Indices: 56137674--56137702 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
56137664 TTACTGTTTT
56137674 ATTTAATATTTC
1 ATTTAATATTTC
56137686 ATTTAATATTTC
1 ATTTAATATTTC
56137698 ATTTA
1 ATTTA
56137703 TTTATTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTAATATTTC
Found at i:56137718 original size:21 final size:22
Alignment explanation
Indices: 56137680--56137723 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
56137670 TTTTATTTAA
56137680 TATTTCATTTAATATTTC-ATT
1 TATTTCATTTAATATTTCGATT
*
56137701 TATTT-ATTTACTACTTTCGATT
1 TATTTCATTTAATA-TTTCGATT
56137723 T
1 T
56137724 TAAATCTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 9 0.45
22 4 0.20
ACGTcount: A:0.25, C:0.11, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTTCATTTAATATTTCGATT
Found at i:56142178 original size:15 final size:16
Alignment explanation
Indices: 56142144--56142178 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
56142134 AGAGGAAATT
56142144 GGAAAGAAAGGAAAAA
1 GGAAAGAAAGGAAAAA
56142160 -GAAAGAAA-GAAAAA
1 GGAAAGAAAGGAAAAA
56142174 GGAAA
1 GGAAA
56142179 AAATAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
GGAAAGAAAGGAAAAA
Found at i:56150727 original size:17 final size:17
Alignment explanation
Indices: 56150705--56150754 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
56150695 TCTTCAACAG
56150705 ACAGATGCAAAATCCAA
1 ACAGATGCAAAATCCAA
*
56150722 ACAGAT--TAAA--CAA
1 ACAGATGCAAAATCCAA
56150735 ACAGATGCAAAATCCAA
1 ACAGATGCAAAATCCAA
56150752 ACA
1 ACA
56150755 AATTCTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 9 0.33
15 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.22, G:0.10, T:0.12
Consensus pattern (17 bp):
ACAGATGCAAAATCCAA
Found at i:56152822 original size:23 final size:23
Alignment explanation
Indices: 56152796--56152840 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
56152786 TACAATCAAC
56152796 ATTAGGCAT-ATAAACAAGCCATA
1 ATTAGGCATCA-AAACAAGCCATA
56152819 ATTAGGCATCCAAAACAAGCCA
1 ATTAGGCAT-CAAAACAAGCCA
56152841 AAATCAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 9 0.45
24 10 0.50
25 1 0.05
ACGTcount: A:0.47, C:0.22, G:0.13, T:0.18
Consensus pattern (23 bp):
ATTAGGCATCAAAACAAGCCATA
Found at i:56153955 original size:25 final size:24
Alignment explanation
Indices: 56153927--56153979 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
56153917 TTGAATAACA
*
56153927 GTAAGCTCATACGAGCTGAGTATTG
1 GTAAGCTCATACGAGCTGA-AATTG
*
56153952 GTAAGCTCATACGTGCTGAAATTG
1 GTAAGCTCATACGAGCTGAAATTG
56153976 GTAA
1 GTAA
56153980 CCCTAATGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (24 bp):
GTAAGCTCATACGAGCTGAAATTG
Found at i:56154433 original size:13 final size:13
Alignment explanation
Indices: 56154415--56154440 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56154405 GTCCATATAT
56154415 TTCACAAATTTAC
1 TTCACAAATTTAC
56154428 TTCACAAATTTAC
1 TTCACAAATTTAC
56154441 AAATTTCACC
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:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
TTCACAAATTTAC
Found at i:56161765 original size:43 final size:42
Alignment explanation
Indices: 56161664--56161791 Score: 105
Period size: 43 Copynumber: 3.0 Consensus size: 42
56161654 TTACTGAGAG
* * * * *
56161664 GTGATAACATGTAAAACCATGTTTGGAACATTGGCATCGTTAT
1 GTGATAACATGTAAGACCATGTCTGGGACAATGGCATTG-TAT
* ** * * *
56161707 ATGATTTCGTATAAGACCCTGTCTGGGACAATGGCATTGATAT
1 GTGATAACATGTAAGACCATGTCTGGGACAATGGCATTG-TAT
* * *
56161750 GTGATAACATGTAAGACCGTATCTGGGA-TATGGCATTGTAT
1 GTGATAACATGTAAGACCATGTCTGGGACAATGGCATTGTAT
56161791 G
1 G
56161792 AGCTATTATG
Statistics
Matches: 65, Mismatches: 20, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
41 4 0.06
42 9 0.14
43 52 0.80
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
GTGATAACATGTAAGACCATGTCTGGGACAATGGCATTGTAT
Found at i:56168940 original size:14 final size:14
Alignment explanation
Indices: 56168921--56168960 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
56168911 TTAAAAACCA
*
56168921 TTTATAATTAAATG
1 TTTATAATTAAAAG
*
56168935 TTTATATTTAAAAG
1 TTTATAATTAAAAG
*
56168949 TTTTTAATTAAA
1 TTTATAATTAAA
56168961 CTCACAACAT
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:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (14 bp):
TTTATAATTAAAAG
Found at i:56179190 original size:41 final size:41
Alignment explanation
Indices: 56179109--56179383 Score: 433
Period size: 41 Copynumber: 6.7 Consensus size: 41
56179099 TTAATTTAAA
* * *
56179109 CAGATTCACTGGCACTTAGCCCTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAG-CCTGCTAGGCTTATAGCCTGATT
* *
56179152 CAGATCACCGACACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
56179193 TAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
56179234 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
** *
56179275 CAGATCACTAGCACTTAGCCTGCTAGGCTTATAGCCTTATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
56179316 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
56179357 CAGTTCACCGGCACTTAGCCTGCTAGG
1 CAGATCACCGGCACTTAGCCTGCTAGG
56179384 TTTTAAAACC
Statistics
Matches: 214, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 198 0.93
42 12 0.06
43 4 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:56198360 original size:26 final size:26
Alignment explanation
Indices: 56198332--56198382 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
56198322 TTCATCTTTT
*
56198332 TTTTTTTCA-ATTTTTTTCCGGTTTG
1 TTTTATTCATATTTTTTTCCGGTTTG
*
56198357 TTTTATTCATATTTTTTTTCGGTTTG
1 TTTTATTCATATTTTTTTCCGGTTTG
56198383 AATTAGGTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.10, C:0.10, G:0.12, T:0.69
Consensus pattern (26 bp):
TTTTATTCATATTTTTTTCCGGTTTG
Found at i:56216201 original size:18 final size:18
Alignment explanation
Indices: 56216178--56216215 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
56216168 GTATTTAAAG
56216178 AAAAACCCCACCACCAAC
1 AAAAACCCCACCACCAAC
56216196 AAAAACCCCACCACCAAC
1 AAAAACCCCACCACCAAC
56216214 AA
1 AA
56216216 CGACAAACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAACCCCACCACCAAC
Found at i:56216657 original size:40 final size:42
Alignment explanation
Indices: 56216613--56216703 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
56216603 GCGCCATTAA
*
56216613 GGACGCGATGTGCTGCCACGT-CAGC-AAC-TCGCACTGACGT
1 GGACGCGATGTCCTGCCACGTGCA-CTAACATCGCACTGACGT
* * *
56216653 GGACGCGATGTCCTGGCGCGTGCACTGACATCGCACTGACGT
1 GGACGCGATGTCCTGCCACGTGCACTAACATCGCACTGACGT
56216695 GGACGCGAT
1 GGACGCGAT
56216704 TTTGCGATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 19 0.43
41 4 0.09
42 21 0.48
ACGTcount: A:0.19, C:0.31, G:0.33, T:0.18
Consensus pattern (42 bp):
GGACGCGATGTCCTGCCACGTGCACTAACATCGCACTGACGT
Found at i:56217130 original size:123 final size:123
Alignment explanation
Indices: 56216798--56217144 Score: 515
Period size: 122 Copynumber: 2.8 Consensus size: 123
56216788 TAATTTTGAG
** *
56216798 TTGACGTTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
56216863 AAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTAGGTCACGGAAGAAATAATTATTTT
66 AAATCGCG-CCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAA-TATTTT
* *
56216923 TTGACGTTTCTAAGCAAATAGTATAAAA---CTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * *
56216985 AAATTGCGGCCTCGT-CAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAA-ATTTT
66 AAATCGC-GCCTCGTGGA-CGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATATTTT
*
56217043 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
56217108 AAATCGCGCCTTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCGCC-TCGTGGACGCGCTTTTGCTACAGTAG
56217145 CATGTTTGGG
Statistics
Matches: 200, Mismatches: 15, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
120 31 0.16
121 1 0.00
122 80 0.40
123 63 0.31
124 1 0.00
125 24 0.12
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATATTTT
Found at i:56220384 original size:116 final size:116
Alignment explanation
Indices: 56220175--56220392 Score: 391
Period size: 116 Copynumber: 1.9 Consensus size: 116
56220165 TGATAAATTG
* *
56220175 TATTTAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
56220240 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* *
56220291 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
56220356 TAGTACGAGTCAAAACATTTTTCCAAATCTAACATTA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
56220393 CGTTAAGGTT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 97 1.00
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:56220537 original size:49 final size:51
Alignment explanation
Indices: 56220468--56220571 Score: 167
Period size: 50 Copynumber: 2.1 Consensus size: 51
56220458 AATTAAATTA
* *
56220468 GGTTAGGATTTTTAAGTTAAGGGTTTAGA-TTTTTAATTGAATTAGGTTAG
1 GGTTAGGATTTTTAAGTTAAGGGTTTAGAGTTTTTAATTAAATTAGGCTAG
*
56220518 GGTTAGGGTTTTTAA-TTAAGGGTTTAGAGTTTTTAATTAAATTAGGCTAG
1 GGTTAGGATTTTTAAGTTAAGGGTTTAGAGTTTTTAATTAAATTAGGCTAG
56220568 GGTT
1 GGTT
56220572 TTTAATTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
49 13 0.26
50 37 0.74
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (51 bp):
GGTTAGGATTTTTAAGTTAAGGGTTTAGAGTTTTTAATTAAATTAGGCTAG
Found at i:56220549 original size:21 final size:20
Alignment explanation
Indices: 56220516--56220557 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
56220506 GAATTAGGTT
*
56220516 AGGGTTAGGGTTTTTAATTA
1 AGGGTTAGAGTTTTTAATTA
56220536 AGGGTTTAGAGTTTTTAATTA
1 AGGG-TTAGAGTTTTTAATTA
56220557 A
1 A
56220558 ATTAGGCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (20 bp):
AGGGTTAGAGTTTTTAATTA
Found at i:56220550 original size:117 final size:118
Alignment explanation
Indices: 56220389--56220603 Score: 346
Period size: 117 Copynumber: 1.8 Consensus size: 118
56220379 CAAATCTAAC
*
56220389 ATTACGTTAAGGTTAGGGTTTTTAAAGTTAAGGGTTTAGGGTTTTTAAGTT-AATTAGGCTAGGG
1 ATTACGTTAAGGTTAGGGTTTTTAAAGTTAAGGGTTTAGAGTTTTTAA-TTAAATTAGGCTAGGG
*
56220453 TTTTTAATTAAATTAGGTTAGGATTTTTAAGTTAAGGGTTTAGATTTTTAATTGA
65 TTTTTAATTAAATTAGGCTAGGATTTTTAA-TTAAGGGTTTAGATTTTTAATTGA
* *
56220508 ATTAGGTTAGGGTTAGGGTTTTT-AA-TTAAGGGTTTAGAGTTTTTAATTAAATTAGGCTAGGGT
1 ATTACGTTAAGGTTAGGGTTTTTAAAGTTAAGGGTTTAGAGTTTTTAATTAAATTAGGCTAGGGT
*
56220571 TTTTAATTAAATTAGGCTAGGGTTTTTAATTAA
66 TTTTAATTAAATTAGGCTAGGATTTTTAATTAA
56220604 ATTAGGTTGG
Statistics
Matches: 90, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
116 6 0.07
117 61 0.68
118 2 0.02
119 21 0.23
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (118 bp):
ATTACGTTAAGGTTAGGGTTTTTAAAGTTAAGGGTTTAGAGTTTTTAATTAAATTAGGCTAGGGT
TTTTAATTAAATTAGGCTAGGATTTTTAATTAAGGGTTTAGATTTTTAATTGA
Found at i:56220576 original size:23 final size:23
Alignment explanation
Indices: 56220424--56221285 Score: 653
Period size: 23 Copynumber: 36.5 Consensus size: 23
56220414 AGTTAAGGGT
56220424 TTAGGGTTTTTAAGTT-AATTAGG
1 TTAGGGTTTTTAA-TTAAATTAGG
*
56220447 CTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
* *
56220470 TTAGGATTTTTAAGTT-AA--GGG
1 TTAGGGTTTTTAA-TTAAATTAGG
*
56220491 TTTA-GATTTTTAATTGAATTAGGTTAGGG
1 -TTAGGGTTTTTAATT-AA--A--TTA-GG
*
56220520 TTAGGGTTTTTAATT-AA--GGG
1 TTAGGGTTTTTAATTAAATTAGG
*
56220540 TTTAGAGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
*
56220564 CTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
56220587 CTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
56220610 TT-GGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
56220632 CTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
* *
56220655 CTATGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
56220678 TTAGGGTTTTTAAGTT--A-TGGG
1 TTAGGGTTTTTAA-TTAAATTAGG
56220699 TTTAGGGTTTTTAATTGAATTAGGTTAGGG
1 -TTAGGGTTTTTAATT-AA--A--TTA-GG
*
56220729 TTAGGGTTTTTAATT-AA--GGG
1 TTAGGGTTTTTAATTAAATTAGG
56220749 TTTAGGGTTTTTAATTAATTTAGGTTAGG
1 -TTAGGGTTTTTAATTAA---A--TTAGG
*
56220778 CTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
* *
56220801 TTAGGGTTTTTAAGTT-AAGT-GT
1 TTAGGGTTTTTAA-TTAAATTAGG
* *
56220823 TTAGAGTTTTTAATTAAATTAGA
1 TTAGGGTTTTTAATTAAATTAGG
56220846 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
56220869 TTAGGGTTTTTAAGTTAAGGTT---
1 TTAGGGTTTTTAA-TTAA-ATTAGG
56220891 TTAGGGTTTTTAATTGAATTAGGTTAGGG
1 TTAGGGTTTTTAATT-AA--A--TTA-GG
*
56220920 TTAGGGTTTTTAATT-AA--GGG
1 TTAGGGTTTTTAATTAAATTAGG
56220940 TTTAGGGTTTTTAATTAAATTAGGTTAGG
1 -TTAGGGTTTTTAATT-AA--A--TTAGG
56220969 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
56220992 TTAGGGTTTTTAAGTT-AA--AGG
1 TTAGGGTTTTTAA-TTAAATTAGG
*
56221013 TTTAGGGTTTTTAATT-AA--GGG
1 -TTAGGGTTTTTAATTAAATTAGG
56221034 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
* *
56221058 CTAGGGTTTTTAATTAAATTAGA
1 TTAGGGTTTTTAATTAAATTAGG
*
56221081 TTAGGGTTTTTAAGTT-AA--GGG
1 TTAGGGTTTTTAA-TTAAATTAGG
56221102 TTTAGGGTTTTTAAGTTAATTAGGTTAGGG
1 -TTAGGGTTTTTAA-TTAA--A--TTA-GG
*
56221132 TTAGGGTTTTTAATT-AA--GGG
1 TTAGGGTTTTTAATTAAATTAGG
56221152 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
56221176 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
56221199 CTAGGG-TTTTAATTAAATTAGCTCATGG
1 TTAGGGTTTTTAATTAAA-T---T-A-GG
* **
56221227 TTTTGGGTTTTTAATTATTTTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
****
56221251 TTAGGGTTTAGGGTTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
56221274 TTAGGGTTTTTA
1 TTAGGGTTTTTA
56221286 TTACATCAAA
Statistics
Matches: 693, Mismatches: 59, Indels: 174
0.75 0.06 0.19
Matches are distributed among these distances:
20 10 0.01
21 105 0.15
22 119 0.17
23 296 0.43
24 23 0.03
25 14 0.02
26 3 0.00
27 7 0.01
28 38 0.05
29 65 0.09
30 13 0.02
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.47
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATTAGG
Found at i:56220618 original size:45 final size:46
Alignment explanation
Indices: 56220424--56221285 Score: 653
Period size: 45 Copynumber: 18.3 Consensus size: 46
56220414 AGTTAAGGGT
*
56220424 TTAGGGTTTTTAAGTT-AATTAGGCTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
* * *
56220470 TTAGGATTTTTAAGTT-AA--GGGTTTA-GATTTTTAATTGAATTAGGTTAGGG
1 TTAGGGTTTTTAA-TTAAATTAGG-TTAGGGTTTTTAATT-AA--A--TTA-GG
* *
56220520 TTAGGGTTTTTAATT-AA--GGGTTTAGAGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG-TTAGGGTTTTTAATTAAATTAGG
* *
56220564 CTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
*
56220610 TT-GGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
* * *
56220655 CTATGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT--A-TGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTAAATTAGG
*
56220699 TTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATT-AA--GGG
1 -TTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAATTAAATTAGG
*
56220749 TTTAGGGTTTTTAATTAATTTAGGTTAGGCTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAA---A--TTAGGTTAGGGTTTTTAATTAAATTAGG
* * * *
56220801 TTAGGGTTTTTAAGTT-AAGT-GTTTAGAGTTTTTAATTAAATTAGA
1 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
*
56220846 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGTT---
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTAA-ATTAGG
*
56220891 TTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATT-AA--GGG
1 TTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAATTAAATTAGG
56220940 TTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATT-AA--A--TTAGGTTAGGGTTTTTAATTAAATTAGG
*
56220992 TTAGGGTTTTTAAGTT-AA--AGGTTTAGGGTTTTTAATT-AA--GGG
1 TTAGGGTTTTTAA-TTAAATTAGG-TTAGGGTTTTTAATTAAATTAGG
* *
56221034 TTTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGA
1 -TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
*
56221081 TTAGGGTTTTTAAGTT-AA--GGGTTTAGGGTTTTTAAGTTAATTAGGTTAGGG
1 TTAGGGTTTTTAA-TTAAATTAGG-TTAGGGTTTTTAA-TTAA--A--TTA-GG
*
56221132 TTAGGGTTTTTAATT-AA--GGGTTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG-TTAGGGTTTTTAATTAAATTAGG
*
56221176 TTAGGGTTTTTAATTAAATTAGGCTAGGG-TTTTAATTAAATTAGCTCATGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAA-T---T-A-GG
* ** ****
56221227 TTTTGGGTTTTTAATTATTTTAGGTTAGGGTTTAGGGTTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
56221274 TTAGGGTTTTTA
1 TTAGGGTTTTTA
56221286 TTACATCAAA
Statistics
Matches: 695, Mismatches: 50, Indels: 142
0.78 0.06 0.16
Matches are distributed among these distances:
42 4 0.01
43 15 0.02
44 71 0.10
45 167 0.24
46 124 0.18
47 18 0.03
48 8 0.01
49 58 0.08
50 115 0.17
51 74 0.11
52 34 0.05
53 7 0.01
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.47
Consensus pattern (46 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
Found at i:56220784 original size:28 final size:28
Alignment explanation
Indices: 56220751--56220805 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
56220741 ATTAAGGGTT
*
56220751 TAGGGTTTTTAATTAATTTAGGTTAGGC
1 TAGGGTTTTTAATTAAATTAGGTTAGGC
56220779 TAGGGTTTTTAATTAAATTAGGTTAGG
1 TAGGGTTTTTAATTAAATTAGGTTAGG
56220806 GTTTTTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.45
Consensus pattern (28 bp):
TAGGGTTTTTAATTAAATTAGGTTAGGC
Found at i:56220834 original size:191 final size:192
Alignment explanation
Indices: 56220582--56221074 Score: 795
Period size: 191 Copynumber: 2.6 Consensus size: 192
56220572 TTTAATTAAA
* **
56220582 TTAGGCTAGGGTTTTTAATTAAATTAGGTT-GGGTTTTTAA-TTAAATTAGGCTAGGGTTTTTAA
1 TTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAAGT-GTTTAGGGTTTTTAA
* * *
56220645 TTAAATTAGGCTATGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTATGGGTTTAGGGTTTT
65 TTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTT
*
56220710 TAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAATTTAGG
130 TAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGG
*
56220773 TTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT-AAGTGTTTAGAGTTTTTAAT
1 TTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAAGTGTTTAGGGTTTTTAAT
* *
56220837 TAAATTAGATTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGTTTTAGGGTTTTT
66 TAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
56220902 AATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGG
131 AATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGG
*
56220964 TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAAG-GTTTAGGGTTTTTAAT
1 TTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAAGTGTTTAGGGTTTTTAAT
* *
56221028 T-AA--GGGTTTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAA-TTAA
66 TAAATTAGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAA
56221075 ATTAGATTAG
Statistics
Matches: 283, Mismatches: 15, Indels: 11
0.92 0.05 0.04
Matches are distributed among these distances:
188 5 0.02
189 35 0.12
190 2 0.01
191 223 0.79
192 16 0.06
193 2 0.01
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.47
Consensus pattern (192 bp):
TTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAAGTGTTTAGGGTTTTTAAT
TAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
AATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGG
Found at i:56221138 original size:191 final size:185
Alignment explanation
Indices: 56220565--56221193 Score: 704
Period size: 191 Copynumber: 3.4 Consensus size: 185
56220555 TAAATTAGGC
56220565 TAGGGTTTTTAATTAAA--TTAGGCTAGGGTTTTTAATTAAATTAGGTT-GGGTTTTTAATTAAA
1 TAGGGTTTTTAATTAAAGGTTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATT-AA
* * *
56220627 TTAGG-CTAGGGTTTTTAATTAAATTAGGCTATGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
65 --AGGTTTAGGGTTTTTAATTAAA-TAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
* * *
56220691 GTT--ATGGGTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTT
127 GTTAAAT-TG-TTAGGGTTTTTAATTGAA-TAGGTTAGGGTTAGAGTTATTAATTAAGGGTT
56220751 TAGGGTTTTTAATTAATTTAGGTTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGT
1 TAGGGTTTTTAATTAA---AGGTTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-T
* *
56220816 T-AAGTGTTTAGAGTTTTTAATTAAATTAGATTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTT
62 TAAAG-GTTTAGGGTTTTTAATTAAA-TAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTT
* * *
56220880 AAGTTAAGGTT-TTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTT
125 AAGTTAA-ATTGTTAGGGTTTTTAATTGAA-TAGGTTAGGGTTAGAGTTATTAATTAAGGGTT
*
56220942 TAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGT
1 TAGGGTTTTTAATT-AA--AGGTTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-T
* *
56221007 TAAAGGTTTAGGGTTTTTAATT-AA-GGGTTTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTA
62 TAAAGGTTTAGGGTTTTTAATTAAATAGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTA
* *
56221070 A-TTAAATTAGATTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTA-AGTTAATTAGGTT-AG
126 AGTTAAATT-G-TTAGGGTTTTTAA-TTGAATAGG-TTAGGG---TTAGAGTT-ATTA-ATTAAG
56221130 GG-T
182 GGTT
*
56221133 TAGGGTTTTTAATTAAGGGTT----TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAA
1 TAGGGTTTTTAATTAAAGGTTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAA
56221194 TTAGGCTAGG
Statistics
Matches: 400, Mismatches: 18, Indels: 53
0.85 0.04 0.11
Matches are distributed among these distances:
183 5 0.01
184 35 0.09
186 16 0.04
187 2 0.00
188 11 0.03
189 44 0.11
190 20 0.05
191 237 0.59
192 25 0.06
193 4 0.01
194 1 0.00
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.47
Consensus pattern (185 bp):
TAGGGTTTTTAATTAAAGGTTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAA
GGTTTAGGGTTTTTAATTAAATAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTA
AATTGTTAGGGTTTTTAATTGAATAGGTTAGGGTTAGAGTTATTAATTAAGGGTT
Found at i:56221149 original size:50 final size:51
Alignment explanation
Indices: 56221059--56221183 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
56221049 TAAATTAGGC
56221059 TAGGGTTTTTAATTAAATTA-G--A---TTAGGGTTTTTAAGTTAAGGGTT
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
56221104 TAGGGTTTTTAAGTT-AATTAGGTTAGGGTTAGGGTTTTTAA-TTAAGGGTT
1 TAGGGTTTTTAA-TTAAATTAGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
56221154 TAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTT
56221184 TTTAATTAAA
Statistics
Matches: 72, Mismatches: 0, Indels: 11
0.87 0.00 0.13
Matches are distributed among these distances:
45 17 0.24
46 3 0.04
48 1 0.01
49 2 0.03
50 36 0.50
51 13 0.18
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.46
Consensus pattern (51 bp):
TAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
Found at i:56221209 original size:95 final size:96
Alignment explanation
Indices: 56221059--56221243 Score: 236
Period size: 95 Copynumber: 1.9 Consensus size: 96
56221049 TAAATTAGGC
* *
56221059 TAGGGTTTTTAATTAAATTAGATTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTT-AATT
1 TAGGGTTTTTAATTAAATTAGATTAGGGTTTTTAAGTTAAAGGTCTAGGGTTTTTAA-TTAAATT
* *
56221123 AGGTTA-GGGTTAGGGTTTTTAATTAAGGGTT
65 AGCTCATGGGTTAGGGTTTTTAATTAAGGGTT
*
56221154 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTAAATTAGG-CTAGGG-TTTTAATTAAA
1 TAGGGTTTTTAATTAAATTAGATTAGGGTTTTTAAGTT-AA--AGGTCTAGGGTTTTTAATTAAA
* *
56221216 TTAGCTCATGGTTTTGGGTTTTTAATTA
63 TTAGCTCATGGGTTAGGGTTTTTAATTA
56221244 TTTTAGGTTA
Statistics
Matches: 78, Mismatches: 7, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
94 4 0.05
95 50 0.64
96 22 0.28
97 2 0.03
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (96 bp):
TAGGGTTTTTAATTAAATTAGATTAGGGTTTTTAAGTTAAAGGTCTAGGGTTTTTAATTAAATTA
GCTCATGGGTTAGGGTTTTTAATTAAGGGTT
Found at i:56221256 original size:75 final size:75
Alignment explanation
Indices: 56221150--56221288 Score: 197
Period size: 75 Copynumber: 1.9 Consensus size: 75
56221140 TTTAATTAAG
**
56221150 GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTAATTAA
1 GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGAATTAAATTAGGCTAGGGTTTTAATTAA
56221215 ATTAGCTCAT
66 ATTAGCTCAT
* ** ** * *
56221225 GGTTTTGGGTTTTTAATTATTTTAGGTTAGGGTTTAGGGTTAAATTAGGTTAGGGTTTTTATTA
1 GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGAATTAAATTAGGCTAGGGTTTTAATTA
56221289 CATCAAATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 55 1.00
ACGTcount: A:0.25, C:0.02, G:0.24, T:0.48
Consensus pattern (75 bp):
GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGAATTAAATTAGGCTAGGGTTTTAATTAA
ATTAGCTCAT
Found at i:56221365 original size:43 final size:45
Alignment explanation
Indices: 56221291--56221376 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 45
56221281 TTTTATTACA
*
56221291 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
*
56221336 TCAAA-AAATTTCTATTTT-TTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATA
56221377 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 22 0.56
44 12 0.31
45 5 0.13
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:56221822 original size:18 final size:18
Alignment explanation
Indices: 56221799--56221833 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56221789 CGGAAAAGGA
*
56221799 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
56221817 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
56221834 AAATGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:56222495 original size:7 final size:7
Alignment explanation
Indices: 56222485--56222509 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56222475 ATACATACAT
56222485 AATACTA
1 AATACTA
56222492 AATACTA
1 AATACTA
56222499 AATACTA
1 AATACTA
56222506 AATA
1 AATA
56222510 TCAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:56223765 original size:22 final size:22
Alignment explanation
Indices: 56223740--56223790 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
56223730 AAATATAGAT
*
56223740 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAAGAAA
56223762 TTGAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTTGGAAAGAAA
56223784 TTGAGAG
1 TTGAGAG
56223791 GAAATATGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAAGAAA
Found at i:56223768 original size:51 final size:51
Alignment explanation
Indices: 56223653--56223768 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
56223643 ATTTAAAAAA
* * *
56223653 AAGGAAATTGAGAAGAAATTGAAATTAAATATGGATTTGAGAGAATTTTTG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
56223704 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
56223755 AAGGAAATTGAGAG
1 AAGGAAATTGAGAG
56223769 AATTTTGGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (51 bp):
AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
Found at i:56224182 original size:17 final size:16
Alignment explanation
Indices: 56224149--56224187 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
56224139 TTTAGCATAA
*
56224149 AAAATTGATTAATTAT
1 AAAATTGATTAAGTAT
*
56224165 AAAATTGATTCAGGTAT
1 AAAATTGATT-AAGTAT
56224182 AAAATT
1 AAAATT
56224188 TTGTTTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (16 bp):
AAAATTGATTAAGTAT
Found at i:56231719 original size:23 final size:22
Alignment explanation
Indices: 56231680--56231724 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
56231670 AATTATTTTG
*
56231680 GATGTTCATGACTTTGGTATAAT
1 GATGTTAATGACTTTGG-ATAAT
56231703 GATGTTAATGA-TGTTGGATAAT
1 GATGTTAATGACT-TTGGATAAT
56231725 TTGGTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.42
Consensus pattern (22 bp):
GATGTTAATGACTTTGGATAAT
Found at i:56239390 original size:27 final size:27
Alignment explanation
Indices: 56239352--56239700 Score: 414
Period size: 27 Copynumber: 13.0 Consensus size: 27
56239342 ATAGGGTGAT
*
56239352 CGTAATGCCCCTATAGGGTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* * *
56239379 CGTAATGCCCCTATAGGATAAAATGAT
1 CGTAATGCCCCTGTAGGGTAAAATGAC
*
56239406 CGTAATACCCCTGTAGGGT-AAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* *
56239432 CGTAATGACCCTATAGGGT-AAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* * * * *
56239458 CGTAATGTCGCTATAAGGTAAAATCAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* * * *
56239485 TGTAATGCCCTTGTATGGTAAAATGAT
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* *
56239512 CGTAATGCCCCTATAGGGTAAAATGAT
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* *
56239539 CGTAATGCCCTTGTAGGTTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
*
56239566 CGTAACGCCCCTGTAGGGTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* *
56239593 CGTAACGCCGCTGTAGGGTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
** *
56239620 TTTAATGCCCCTGTAGGGTAAAATAAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* * * *
56239647 CTTAATGCCCCCGTAAGGTAAAATGAT
1 CGTAATGCCCCTGTAGGGTAAAATGAC
56239674 CGTAATGCCCCTGTAGGGTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
56239701 TATTTTACCC
Statistics
Matches: 274, Mismatches: 47, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
26 45 0.16
27 229 0.84
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
CGTAATGCCCCTGTAGGGTAAAATGAC
Found at i:56239851 original size:24 final size:24
Alignment explanation
Indices: 56239718--56239839 Score: 109
Period size: 24 Copynumber: 5.1 Consensus size: 24
56239708 CCCTTTAGGG
* ** *
56239718 TTAAATGATTGATTTACCTATGAT
1 TTAAATGACTGATTTGTCTGTGAT
* * **
56239742 GTAAATGAATGATTTGTCTAAGAT
1 TTAAATGACTGATTTGTCTGTGAT
* * *
56239766 GTAAAAGACTGATTTGTCAGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
* * *
56239790 TTAAATGACTAATTTTTCTGTCAT
1 TTAAATGACTGATTTGTCTGTGAT
*
56239814 TTAAATGATTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
56239838 TT
1 TT
56239840 GTATGAGTGA
Statistics
Matches: 78, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 78 1.00
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.44
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTGAT
Found at i:56240044 original size:32 final size:32
Alignment explanation
Indices: 56239999--56240183 Score: 226
Period size: 32 Copynumber: 5.8 Consensus size: 32
56239989 GTGATGCTAT
* *
56239999 TGATGGCTTTGTGCCAATCATATTACCATTAT
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
* * * *
56240031 TGATGGGTGTGTGCCGATCATATTACCATTAC
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
* * *
56240063 TGATGGCTATGTGCCGATCATATTACTACTAC
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
* * *
56240095 TAATGGCTTTGTGTCAATCATACTACTATTAC
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
* * * *
56240127 TGATGGCTGTGTACCGATCATATTACTACTAC
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
56240159 TGATGGCTTTGTGCCAATCATATTA
1 TGATGGCTTTGTGCCAATCATATTA
56240184 TTGTACTTAT
Statistics
Matches: 129, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 129 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (32 bp):
TGATGGCTTTGTGCCAATCATATTACTATTAC
Found at i:56240165 original size:96 final size:96
Alignment explanation
Indices: 56240001--56240183 Score: 276
Period size: 96 Copynumber: 1.9 Consensus size: 96
56239991 GATGCTATTG
* * * * *
56240001 ATGGCTTTGTGCCAATCATATTACCATTATTGATGGGTGTGTGCCGATCATATTACCATTACTGA
1 ATGGCTTTGTGCCAATCATACTACCATTACTGATGGCTGTGTACCGATCATATTACCACTACTGA
*
56240066 TGGCTATGTGCCGATCATATTACTACTACTA
66 TGGCTATGTGCCAATCATATTACTACTACTA
* * *
56240097 ATGGCTTTGTGTCAATCATACTACTATTACTGATGGCTGTGTACCGATCATATTACTACTACTGA
1 ATGGCTTTGTGCCAATCATACTACCATTACTGATGGCTGTGTACCGATCATATTACCACTACTGA
*
56240162 TGGCTTTGTGCCAATCATATTA
66 TGGCTATGTGCCAATCATATTA
56240184 TTGTACTTAT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (96 bp):
ATGGCTTTGTGCCAATCATACTACCATTACTGATGGCTGTGTACCGATCATATTACCACTACTGA
TGGCTATGTGCCAATCATATTACTACTACTA
Found at i:56240220 original size:22 final size:22
Alignment explanation
Indices: 56240190--56240235 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
56240180 ATTATTGTAC
* * *
56240190 TTATGGCTTGTAGCCATTCTGT
1 TTATAGCTTATAGCCATCCTGT
*
56240212 TTATAGCTTATAGCTATCCTGT
1 TTATAGCTTATAGCCATCCTGT
56240234 TT
1 TT
56240236 TCGGCTCTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTGT
Found at i:56242318 original size:34 final size:36
Alignment explanation
Indices: 56242239--56242361 Score: 144
Period size: 36 Copynumber: 3.5 Consensus size: 36
56242229 TGATATTCTT
* ** * *
56242239 ATTCGCATGTTAAGCATGCTATTA-AGCTGACTTTG
1 ATTCGCATGTTAAGCATGCCATTATTTCTTATTTTG
* *
56242274 ACTCGCATGTTAAGCATGCC-TT-TTTTTTATTTTG
1 ATTCGCATGTTAAGCATGCCATTATTTCTTATTTTG
* *
56242308 ATTCGTATGTTAAGCATGCCATTATTTCTTATTATG
1 ATTCGCATGTTAAGCATGCCATTATTTCTTATTTTG
56242344 ATTCGCATGTTAAGCATG
1 ATTCGCATGTTAAGCATG
56242362 TCACTCTGTT
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
34 26 0.36
35 20 0.27
36 27 0.37
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (36 bp):
ATTCGCATGTTAAGCATGCCATTATTTCTTATTTTG
Found at i:56249540 original size:21 final size:19
Alignment explanation
Indices: 56249475--56249568 Score: 134
Period size: 19 Copynumber: 4.8 Consensus size: 19
56249465 AATTTTTGAG
*
56249475 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
*
56249494 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
56249513 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
56249532 GATATATGCAATCTTATATAT
1 G--ATATGCAATCTTAGATAT
*
56249553 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
56249569 AGATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 49 0.73
21 18 0.27
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:56249553 original size:40 final size:38
Alignment explanation
Indices: 56249475--56249575 Score: 134
Period size: 40 Copynumber: 2.7 Consensus size: 38
56249465 AATTTTTGAG
*
56249475 GATATGCAATCTTAGATGTGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
* *
56249513 GATATGCAATCTTAGATATGATATATGCAATCTTATATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCCTAGATAT
*
56249553 GATATGTAATCTTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
56249576 ATTTTGTTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
36 5 0.09
38 20 0.35
39 1 0.02
40 31 0.54
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
Done.