Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 92 of 205
Found at i:26824685 original size:25 final size:24
Alignment explanation
Indices: 26824650--26824857 Score: 127
Period size: 25 Copynumber: 8.8 Consensus size: 24
26824640 GGTTTTCAAT
*
26824650 TTTTATCACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAA-TTCTA
26824675 TTTTATTACATCAAATAAATTTCTA
1 TTTTATTACATCAAATAAA-TTCTA
26824700 TTTTATTACATCAAAT-AATATC-A
1 TTTTATTACATCAAATAAAT-TCTA
** * *
26824723 --AAATAAC-TCAAAAAAATT-TAAA
1 TTTTATTACATCAAATAAATTCT--A
26824745 TTTTTATTACATC-AATAAAACTTCTA
1 -TTTTATTACATCAAAT-AAA-TTCTA
*
26824771 TTTTATTACATAAAAT-AATATC-A
1 TTTTATTACATCAAATAAAT-TCTA
** * **
26824794 --AAATAAC-TCAAA-AAATTAAA
1 TTTTATTACATCAAATAAATTCTA
26824814 TTTTTATTACATCAAATAAATTTCTA
1 -TTTTATTACATCAAATAAA-TTCTA
26824840 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
26824858 TATCAAAATA
Statistics
Matches: 140, Mismatches: 21, Indels: 44
0.68 0.10 0.21
Matches are distributed among these distances:
19 1 0.01
20 14 0.10
21 11 0.08
22 1 0.01
23 8 0.06
24 13 0.09
25 77 0.55
26 12 0.09
27 2 0.01
28 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTTATTACATCAAATAAATTCTA
Found at i:26824845 original size:69 final size:71
Alignment explanation
Indices: 26824675--26824925 Score: 429
Period size: 71 Copynumber: 3.6 Consensus size: 71
26824665 TAAACTTCTA
*
26824675 TTTTATTACATCAA-ATAAATTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAA
1 TTTTATTACATCAATA-AAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAA
26824739 TTTAAAT
65 TTTAAAT
*
26824746 TTTTATTACATCAATAAAACTTCTATTTTATTACATAAAATAATATCAAAATAACTC-AAAAAA-
1 TTTTATTACATCAATAAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAAT
26824809 TTAAAT
66 TTAAAT
*
26824815 TTTTATTACATCAA-ATAAATTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAA
1 TTTTATTACATCAATA-AAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAA
26824879 TTTAAAT
65 TTTAAAT
26824886 TTTTATTACATCAATAAAACTTCTATTTTATTACATCAAA
1 TTTTATTACATCAATAAAACTTCTATTTTATTACATCAAA
26824926 CAAACTTCAA
Statistics
Matches: 170, Mismatches: 5, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
68 1 0.01
69 59 0.35
70 12 0.07
71 96 0.56
72 2 0.01
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (71 bp):
TTTTATTACATCAATAAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAAT
TTAAAT
Found at i:26824914 original size:25 final size:25
Alignment explanation
Indices: 26824886--26824933 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
26824876 AAATTTAAAT
26824886 TTTTATTACATCAATA-AAACTTCTA
1 TTTTATTACATCAA-ACAAACTTCTA
26824911 TTTTATTACATCAAACAAACTTC
1 TTTTATTACATCAAACAAACTTC
26824934 AAAATATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTTATTACATCAAACAAACTTCTA
Found at i:26826051 original size:7 final size:7
Alignment explanation
Indices: 26826041--26826072 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
26826031 TTATATACAT
26826041 AATACTA
1 AATACTA
26826048 AATACTA
1 AATACTA
26826055 AATACTA
1 AATACTA
26826062 AATACTA
1 AATACTA
26826069 AATA
1 AATA
26826073 TCTATTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:26829218 original size:51 final size:51
Alignment explanation
Indices: 26829156--26829281 Score: 182
Period size: 51 Copynumber: 2.5 Consensus size: 51
26829146 TATTTTAAAA
* *
26829156 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGCTTTGA-GAGATTTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTT-ATGAGAATTTTGG
* * * *
26829207 AATGATATTGAGAGGAAATTAAAATTAAATATGGATTTATGAGAATTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
26829258 AAGGAAATTGAGAGAAAATTGAAA
1 AAGGAAATTGAGAGAAAATTGAAA
26829282 GGAAATTGAG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.02
51 63 0.98
ACGTcount: A:0.45, C:0.01, G:0.24, T:0.30
Consensus pattern (51 bp):
AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
Found at i:26829278 original size:11 final size:11
Alignment explanation
Indices: 26829259--26829298 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
26829249 GAATTTTGGA
26829259 AGGAAATTGAG
1 AGGAAATTGAG
* *
26829270 AGAAAATTGAA
1 AGGAAATTGAG
26829281 AGGAAATTGAG
1 AGGAAATTGAG
26829292 AGGAAAT
1 AGGAAAT
26829299 ATAAGAGAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:26831082 original size:17 final size:17
Alignment explanation
Indices: 26831030--26831082 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
26831020 TATGGAAACA
* *
26831030 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
*
26831047 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
26831066 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
26831083 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:26831082 original size:22 final size:23
Alignment explanation
Indices: 26831054--26831098 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
26831044 ATGCAATCTT
26831054 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
26831076 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
26831099 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:26831108 original size:22 final size:23
Alignment explanation
Indices: 26831064--26831108 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
26831054 AGATATGATA
*
26831064 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
26831087 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
26831109 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:26833295 original size:241 final size:240
Alignment explanation
Indices: 26832873--26833354 Score: 919
Period size: 241 Copynumber: 2.0 Consensus size: 240
26832863 TTAATTAACT
26832873 AGGTACCAATTTTTGGGCGTTACGAGGGTGCTAATCCTTCCTCGAACGTAACTGACTCCCGGATC
1 AGGTACCAATTTTTGGGCGTTACGAGGGTGCTAATCCTTCCTCGAACGTAACTGACTCCCGGATC
*
26832938 CGTTTTTCTAAAACTCGTAGACCAAAGCCGTTTTTTTAGGTGATCCAATCACACCTTAATAAAAG
66 CGTTTTTCTAAAACTCGTAGACCAAAGCCCTTTTTTTAGGTGATCCAATCACACCTTAATAAAAG
26833003 ATTGGTGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAATTTTTTGTTTTTCAAAAA
131 ATTGGTGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAATTTTTTGTTTTTCAAAAA
26833068 AATAGTTTCGACAGCTTGGCGATTCCACTGGGGACTTTAAAAAAA
196 AATAGTTTCGACAGCTTGGCGATTCCACTGGGGACTTTAAAAAAA
* *
26833113 AGGTACCAATTTTTGGGCGTTACGAGGGTGCTAATCCTTCCTCGAATGTAACTGAGTCCCGGATC
1 AGGTACCAATTTTTGGGCGTTACGAGGGTGCTAATCCTTCCTCGAACGTAACTGACTCCCGGATC
*
26833178 CATTTTTTCTAAAACTCGTAGACCAAAGCCCTTTTTTTAGGTGATCCAATCACACCTTAATAAAA
66 C-GTTTTTCTAAAACTCGTAGACCAAAGCCCTTTTTTTAGGTGATCCAATCACACCTTAATAAAA
26833243 GATTGGTGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAATTTTTTGTTTTTCAAAA
130 GATTGGTGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAATTTTTTGTTTTTCAAAA
26833308 AAATAGTTTCGACAGCTTGGCGATTCCACTGGGGACTTTAAAAAAA
195 AAATAGTTTCGACAGCTTGGCGATTCCACTGGGGACTTTAAAAAAA
26833354 A
1 A
26833355 AAGAGTCGAG
Statistics
Matches: 237, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
240 64 0.27
241 173 0.73
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (240 bp):
AGGTACCAATTTTTGGGCGTTACGAGGGTGCTAATCCTTCCTCGAACGTAACTGACTCCCGGATC
CGTTTTTCTAAAACTCGTAGACCAAAGCCCTTTTTTTAGGTGATCCAATCACACCTTAATAAAAG
ATTGGTGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAATTTTTTGTTTTTCAAAAA
AATAGTTTCGACAGCTTGGCGATTCCACTGGGGACTTTAAAAAAA
Found at i:26837339 original size:18 final size:17
Alignment explanation
Indices: 26837318--26837351 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26837308 TTAACATGGG
26837318 AAATTATAAAATTTTGAT
1 AAATT-TAAAATTTTGAT
*
26837336 AAATTTAGAATTTTGA
1 AAATTTAAAATTTTGA
26837352 GTTTAAAGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
AAATTTAAAATTTTGAT
Found at i:26842989 original size:2 final size:2
Alignment explanation
Indices: 26842982--26843009 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26842972 ATGGTAAAGC
26842982 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
26843010 TGAAAAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:26845592 original size:24 final size:23
Alignment explanation
Indices: 26845545--26845593 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
26845535 AAAAAGAAAC
***
26845545 ATATTTATACTAATAAATGTTAA
1 ATATTTATACTAATAAAAACTAA
26845568 ATATATTATACTAATAAAAACTAA
1 ATAT-TTATACTAATAAAAACTAA
26845592 AT
1 AT
26845594 CTTCTAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATTTATACTAATAAAAACTAA
Found at i:26850706 original size:13 final size:13
Alignment explanation
Indices: 26850688--26850713 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26850678 TGTTCAATTT
26850688 TTTACTAGAAAAC
1 TTTACTAGAAAAC
26850701 TTTACTAGAAAAC
1 TTTACTAGAAAAC
26850714 AAATCTCTTT
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:26855331 original size:3 final size:3
Alignment explanation
Indices: 26855325--26855352 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
26855315 CCACCACCAC
26855325 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
26855353 GTCAAGGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:26855753 original size:20 final size:19
Alignment explanation
Indices: 26855726--26855779 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
26855716 ATATATTTTT
26855726 TATTTTTTTAATTTTAAAA
1 TATTTTTTTAATTTTAAAA
*
26855745 TATTTTTTTTATTTTTAAAA
1 TA-TTTTTTTAATTTTAAAA
**
26855765 TAAATTTTTAATTTT
1 TATTTTTTTAATTTT
26855780 TATTAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTTTTAATTTTAAAA
Found at i:26857158 original size:31 final size:32
Alignment explanation
Indices: 26857120--26857194 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 32
26857110 TATAATTTGA
* *
26857120 TCACTAAACTATTTGAAAGT-TTTCATTTAAG
1 TCACTAAACTATTTAAAAATATTTCATTTAAG
*
26857151 TCACTAAACTA-TTAAAAATATTTTATTTAAG
1 TCACTAAACTATTTAAAAATATTTCATTTAAG
*
26857182 TCACTAGACTATT
1 TCACTAAACTATT
26857195 AAGTTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 6 0.16
31 31 0.82
32 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (32 bp):
TCACTAAACTATTTAAAAATATTTCATTTAAG
Found at i:26863667 original size:15 final size:15
Alignment explanation
Indices: 26863647--26863676 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26863637 ACCAATTTGG
26863647 TTAATTTGATTAATT
1 TTAATTTGATTAATT
*
26863662 TTAATTTGGTTAATT
1 TTAATTTGATTAATT
26863677 CGGTTAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
TTAATTTGATTAATT
Found at i:26874587 original size:18 final size:18
Alignment explanation
Indices: 26874561--26874607 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
26874551 CGTGTCGTTC
26874561 ATTTCCAAAACCTTATT-A
1 ATTT-CAAAACCTTATTCA
* *
26874579 ATTTACAAATCGTTATTCA
1 ATTT-CAAAACCTTATTCA
26874598 ATTTCAAAAC
1 ATTTCAAAAC
26874608 ATTTCCTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (18 bp):
ATTTCAAAACCTTATTCA
Found at i:26881090 original size:21 final size:22
Alignment explanation
Indices: 26881053--26881095 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
26881043 CCAATTAACC
26881053 TAGCCCAAACACTAAACCCAAT
1 TAGCCCAAACACTAAACCCAAT
*
26881075 TAGCCTAAAC-CTAAACCCAAT
1 TAGCCCAAACACTAAACCCAAT
26881096 ACCCTGGCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.44, C:0.35, G:0.05, T:0.16
Consensus pattern (22 bp):
TAGCCCAAACACTAAACCCAAT
Found at i:26882729 original size:10 final size:10
Alignment explanation
Indices: 26882685--26882732 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
26882675 TCACATTTTT
26882685 AATTTATTTC
1 AATTTATTTC
*
26882695 AACTTATTTC
1 AATTTATTTC
26882705 AATATTA-TT-
1 AAT-TTATTTC
*
26882714 AATTTATTTA
1 AATTTATTTC
26882724 AATTTATTT
1 AATTTATTT
26882733 TAACATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 3 0.09
9 5 0.15
10 22 0.67
11 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTTATTTC
Found at i:26885446 original size:41 final size:41
Alignment explanation
Indices: 26885389--26885474 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
26885379 AAAAAGAGAA
26885389 TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
1 TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
26885430 TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
1 TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
26885471 TGAA
1 TGAA
26885475 CCAGCCAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (41 bp):
TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
Found at i:26886828 original size:31 final size:32
Alignment explanation
Indices: 26886791--26886893 Score: 97
Period size: 31 Copynumber: 3.2 Consensus size: 32
26886781 AATCTTACCT
*
26886791 AAAAAAATCAATCAAAATTAAAATCAAAA-TCA
1 AAAAAAATCAATCAAAATCAAAATCAAAAGT-A
** *
26886823 AAAAAAA--AAGGAAAAATCAAAGTCAAAAGTA
1 AAAAAAATCAA-TCAAAATCAAAATCAAAAGTA
*
26886854 AAAAAAATCAATCAAAGTCAAAAT-AAAAGTA
1 AAAAAAATCAATCAAAATCAAAATCAAAAGTA
*
26886885 TGAAAAAAT
1 -AAAAAAAT
26886894 AAAAGAAAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
30 2 0.04
31 29 0.51
32 24 0.42
33 2 0.04
ACGTcount: A:0.69, C:0.09, G:0.07, T:0.16
Consensus pattern (32 bp):
AAAAAAATCAATCAAAATCAAAATCAAAAGTA
Found at i:26887739 original size:9 final size:9
Alignment explanation
Indices: 26887725--26887767 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
26887715 TTGATTCCAA
26887725 AAAAAAAAG
1 AAAAAAAAG
*
26887734 AAAAAAAATA
1 AAAAAAAA-G
26887744 AAAAAAAAG
1 AAAAAAAAG
*
26887753 AGAAAAAAG
1 AAAAAAAAG
26887762 AAAAAA
1 AAAAAA
26887768 GATGAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:26887748 original size:19 final size:19
Alignment explanation
Indices: 26887724--26887767 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
26887714 CTTGATTCCA
*
26887724 AAAAAAAAAGAAAAAAAAT
1 AAAAAAAAAGAAAAAAAAG
*
26887743 AAAAAAAAAGAGAAAAAAG
1 AAAAAAAAAGAAAAAAAAG
26887762 AAAAAA
1 AAAAAA
26887768 GATGAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAAAG
Found at i:26887776 original size:17 final size:16
Alignment explanation
Indices: 26887727--26887782 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 16
26887717 GATTCCAAAA
26887727 AAAAAAG-AAAAA-A-
1 AAAAAAGAAAAAAGAG
*
26887740 AATAAA-AAAAAAGAG
1 AAAAAAGAAAAAAGAG
26887755 AAAAAAGAAAAAAGATG
1 AAAAAAGAAAAAAGA-G
*
26887772 AAAAATGAAAA
1 AAAAAAGAAAA
26887783 TGAAAAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 10 0.29
14 1 0.03
15 5 0.14
16 8 0.23
17 11 0.31
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (16 bp):
AAAAAAGAAAAAAGAG
Found at i:26889507 original size:44 final size:44
Alignment explanation
Indices: 26889455--26889673 Score: 172
Period size: 44 Copynumber: 4.8 Consensus size: 44
26889445 TTTCAGATCT
26889455 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGAAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGAAATCC
* * * *
26889499 TATCTCCCTGAGATTACAGTGGAGCGGATTAAA-ATA-AAGGATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGAA--ATCC
* * * * * * **
26889543 TATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATTT
1 TATCTCCCTG-AG--AT--T--A-CAG--CGGAGCAGATTAAAGCTAGAAATCC
* * *
26889597 TATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGAAATCC
*
26889641 TATCTCCCTGAGATTACAGTGGAGCAGATTAAA
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAA
26889674 ATAAAGGATA
Statistics
Matches: 135, Mismatches: 26, Indels: 28
0.71 0.14 0.15
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 91 0.67
45 2 0.01
46 2 0.01
47 3 0.02
49 2 0.01
51 3 0.02
52 2 0.01
53 2 0.01
54 21 0.16
55 1 0.01
56 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGAAATCC
Found at i:26889710 original size:142 final size:142
Alignment explanation
Indices: 26889451--26889806 Score: 615
Period size: 142 Copynumber: 2.5 Consensus size: 142
26889441 AGAATTTCAG
* * *
26889451 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGAAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* * *
26889516 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGA
66 AGTGGAGCAGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
26889581 TTGAAGCCAGAA
131 TTGAAGCCAGAA
* *
26889593 ATTTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
26889658 AGTGGAGCAGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
66 AGTGGAGCAGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
26889723 TTGAAGCCAGAA
131 TTGAAGCCAGAA
*
26889735 ATCTTATCTCCCTGAGATTACAGCAGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGATG-TTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGA-GATTA
26889799 CAGTGGAG
65 CAGTGGAG
26889807 TGGATCGAAG
Statistics
Matches: 203, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
142 202 1.00
143 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCAGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
TTGAAGCCAGAA
Found at i:26891764 original size:10 final size:10
Alignment explanation
Indices: 26891720--26891767 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
26891710 TCACATTTTT
26891720 AATTTATTTC
1 AATTTATTTC
*
26891730 AACTTATTTC
1 AATTTATTTC
26891740 AATATTA-TT-
1 AAT-TTATTTC
*
26891749 AATTTATTTA
1 AATTTATTTC
26891759 AATTTATTT
1 AATTTATTT
26891768 TAACATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 3 0.09
9 5 0.15
10 22 0.67
11 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTTATTTC
Found at i:26892949 original size:25 final size:25
Alignment explanation
Indices: 26892907--26892969 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
26892897 TTAAATGTTT
* *
26892907 TCAGTATAGT-CTATCTATAGTAGTC
1 TCAGTATA-TACTACCTATAGCAGTC
*
26892932 TCAGTATATACTACCTATAGCAGTT
1 TCAGTATATACTACCTATAGCAGTC
*
26892957 TCAGGATATACTA
1 TCAGTATATACTA
26892970 TCAAAGACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (25 bp):
TCAGTATATACTACCTATAGCAGTC
Found at i:26893321 original size:18 final size:17
Alignment explanation
Indices: 26893298--26893350 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
26893288 AATCGTGTTG
26893298 TTCATTTCCAAAACATTA
1 TTCATTT-CAAAACATTA
* *
26893316 TTCATTTACAAATCGTTA
1 TTCATTT-CAAAACATTA
26893334 TTCAATTTCAAAACATT
1 TTC-ATTTCAAAACATT
26893351 TTCTTATTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.42
Consensus pattern (17 bp):
TTCATTTCAAAACATTA
Found at i:26898719 original size:18 final size:19
Alignment explanation
Indices: 26898696--26898736 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
26898686 TTTGATTCAG
26898696 TTATTAC-TAATTTAATTT
1 TTATTACTTAATTTAATTT
*
26898714 TTATTACTTAATTTATTTT
1 TTATTACTTAATTTAATTT
26898733 TTAT
1 TTAT
26898737 AATTAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTACTTAATTTAATTT
Found at i:26898742 original size:18 final size:19
Alignment explanation
Indices: 26898703--26898742 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
26898693 CAGTTATTAC
*
26898703 TAATTTAATTTTTATTACT
1 TAATTTAATTTTTATTAAT
*
26898722 TAATTTATTTTTTA-TAAT
1 TAATTTAATTTTTATTAAT
26898740 TAA
1 TAA
26898743 AATGATGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TAATTTAATTTTTATTAAT
Found at i:26913291 original size:20 final size:21
Alignment explanation
Indices: 26913263--26913301 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
26913253 TAGGGACTAA
*
26913263 TTTGAACAGTTTTC-AAAAGT
1 TTTGAACAGATTTCTAAAAGT
*
26913283 TTTGGACAGATTTCTAAAA
1 TTTGAACAGATTTCTAAAA
26913302 TAAGGGCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (21 bp):
TTTGAACAGATTTCTAAAAGT
Found at i:26914227 original size:22 final size:22
Alignment explanation
Indices: 26914173--26914228 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
26914163 CAATTTTGTT
*
26914173 TCATATTACATATCAAAGCATA
1 TCATATAACATATCAAAGCATA
* * * *
26914195 TCTTGTAACATATCAGAGCTTA
1 TCATATAACATATCAAAGCATA
*
26914217 TCATATCACATA
1 TCATATAACATA
26914229 ATTTTAGAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (22 bp):
TCATATAACATATCAAAGCATA
Found at i:26917086 original size:28 final size:26
Alignment explanation
Indices: 26917035--26917087 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
26917025 TAAGTTGAAA
*
26917035 TTTTTAAAAATAAATAAAACAAATTT
1 TTTTTAAAAATAAATAAAAAAAATTT
26917061 TTTTTAAAGAAATACAA-AAAAAAAATT
1 TTTTT-AA-AAATA-AATAAAAAAAATT
26917088 GTAATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 2 0.09
28 14 0.61
29 2 0.09
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (26 bp):
TTTTTAAAAATAAATAAAAAAAATTT
Found at i:26917937 original size:14 final size:14
Alignment explanation
Indices: 26917918--26917955 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
26917908 GTTGATAAAT
26917918 GACGATAATAATGC
1 GACGATAATAATGC
26917932 GACGATAATAATGC
1 GACGATAATAATGC
* *
26917946 AACTATAATA
1 GACGATAATA
26917956 GTAATAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (14 bp):
GACGATAATAATGC
Found at i:26919645 original size:44 final size:44
Alignment explanation
Indices: 26919591--26919965 Score: 189
Period size: 44 Copynumber: 8.2 Consensus size: 44
26919581 GTATAGGAAA
* * *
26919591 TGTAGTTTCAATCTACTCTACTACAACTTCAGTGAGATAAGACT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
** * *
26919635 TGTAGCTTCAATCTGTTCCACTATAACTTCAGGGAGATAAGATT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
* * * *
26919679 TGTAACTTGTTACTTTAATCTATTCCACTACAACTTTAGGGAAATAAGACTCGAT
1 TGT-A---G---CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGA--C--T
* * * * * * *
26919734 GTGGTGGATTTAATCTGAC-CCACTACAATTTCAGAGG-TATAGGATT
1 -T-GTAGCTTCAATCT-ACTCCACTACAACTTCAG-GGAGATAAGACT
* * * * ** * *
26919780 TTTCGCTTCAATTTGCTCCACTGTAACTTCAGAGAGATAAGATT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
* * * * * *
26919824 TGTACCTTCAATCTGCTCCACTGCAACTTCAGAGAGATTAGATT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
* * *
26919868 TGTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
* * * * * * ** *
26919912 TGCAACTTTAATTCGA-TCCACTACAATTTCAGGGATATGGGATT
1 TGTAGCTTCAA-TCTACTCCACTACAACTTCAGGGAGATAAGACT
26919956 TGTAGCTTCA
1 TGTAGCTTCA
26919966 TCTTTCTCTA
Statistics
Matches: 258, Mismatches: 55, Indels: 36
0.74 0.16 0.10
Matches are distributed among these distances:
43 2 0.01
44 184 0.71
45 4 0.02
46 1 0.00
48 1 0.00
50 26 0.10
51 35 0.14
53 1 0.00
55 1 0.00
56 1 0.00
57 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
Found at i:26919857 original size:88 final size:88
Alignment explanation
Indices: 26919745--26919965 Score: 216
Period size: 88 Copynumber: 2.5 Consensus size: 88
26919735 TGGTGGATTT
* * * * **
26919745 AATCTGACCCACTACAATTTCAGAG-G-TATAGGATTTTTCGCTTCAATTTGCTCCACTGTAACT
1 AATCTGACCCACTACAACTTCAGAGAGAT-TA-GATTTGTAGCTTCAATCTGCTCCACTACAACT
26919808 TCAGAGAGATAAGATTTGTACCTTC
64 TCAGAGAGATAAGATTTGTACCTTC
* *
26919833 AATCTG-CTCCACTGCAACTTCAGAGAGATTAGATTTGTAGCTTTAATCTGCTCCACTACAACTT
1 AATCTGAC-CCACTACAACTTCAGAGAGATTAGATTTGTAGCTTCAATCTGCTCCACTACAACTT
* * * *
26919897 CAGGGAGATAAGATTTGCAACTTT
65 CAGAGAGATAAGATTTGTACCTTC
* * * * **
26919921 AAT-TCGATCCACTACAATTTCAGGGATATGGGATTTGTAGCTTCA
1 AATCT-GACCCACTACAACTTCAGAGAGATTAGATTTGTAGCTTCA
26919966 TCTTTCTCTA
Statistics
Matches: 108, Mismatches: 20, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
87 2 0.02
88 102 0.94
89 3 0.03
90 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (88 bp):
AATCTGACCCACTACAACTTCAGAGAGATTAGATTTGTAGCTTCAATCTGCTCCACTACAACTTC
AGAGAGATAAGATTTGTACCTTC
Found at i:26931645 original size:5 final size:5
Alignment explanation
Indices: 26931635--26931664 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
26931625 AAATAAAAAG
26931635 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
26931665 GAACATGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:26931655 original size:15 final size:14
Alignment explanation
Indices: 26931625--26931664 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
26931615 TTAGGGTAAT
*
26931625 AAATAAA-AAGATA
1 AAATAAATAAAATA
26931638 AAATAAAATAAAATA
1 AAAT-AAATAAAATA
26931653 AAATAAATAAAA
1 AAATAAATAAAA
26931665 GAACATGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 11 0.46
15 9 0.38
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (14 bp):
AAATAAATAAAATA
Found at i:26934023 original size:42 final size:43
Alignment explanation
Indices: 26933973--26934073 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 43
26933963 TTTTAGAAAA
* *
26933973 AAACGCCGCTAAAGATCAAGACCTTTAACGGTAC-TTTTCCAC
1 AAACGCCGCTAAAGATCAAGACCTTTAACAGCACTTTTTCCAC
* * * *
26934015 AATCGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTTCCAC
1 AAACGCCGCTAAAGATCAAGACCTTTAACAGCACTTTTTCCAC
*
26934058 AAAAGCCGCTAAAGAT
1 AAACGCCGCTAAAGAT
26934074 TTTTTCCACA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 28 0.57
43 21 0.43
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCAAGACCTTTAACAGCACTTTTTCCAC
Found at i:26934137 original size:67 final size:68
Alignment explanation
Indices: 26934007--26934137 Score: 151
Period size: 67 Copynumber: 1.9 Consensus size: 68
26933997 TTAACGGTAC
* * ** *
26934007 TTTTCCACAATCGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTTCCACAAAAGCCGCTAAAG
1 TTTTCCACAAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTCTAACACAAAAGCCACTAAAG
26934072 ATT
66 ATT
* * *
26934075 TTTTCCACAAACGCTGCTATAGATCAA-ACCTTTAGC-GACGCTTCTAACA-AAAACGCCACTAA
1 TTTTCCACAAACGCCGCTAAAGACCAAGACCTTTAGCAG-CGCTTCTAACACAAAA-GCCACTAA
26934137 A
64 A
26934138 AACATAACCT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
66 5 0.09
67 25 0.47
68 23 0.43
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (68 bp):
TTTTCCACAAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTCTAACACAAAAGCCACTAAAG
ATT
Found at i:26939357 original size:8 final size:8
Alignment explanation
Indices: 26939346--26939374 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
26939336 AAATATAACT
26939346 CTAAACCC
1 CTAAACCC
26939354 CTAAACCC
1 CTAAACCC
26939362 CT-AACCC
1 CTAAACCC
26939369 CTAAAC
1 CTAAAC
26939375 TTTAAATCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (8 bp):
CTAAACCC
Found at i:26939394 original size:21 final size:22
Alignment explanation
Indices: 26939355--26939395 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
26939345 TCTAAACCCC
26939355 TAAACCCCTAACCCCTAAACTT
1 TAAACCCCTAACCCCTAAACTT
* *
26939377 TAAATCCC-AACCCTTAAAC
1 TAAACCCCTAACCCCTAAAC
26939396 AATAAACCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACTT
Found at i:26939626 original size:16 final size:17
Alignment explanation
Indices: 26939593--26939631 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
26939583 AAGAACACTA
26939593 TATTTAATATATTAAAT
1 TATTTAATATATTAAAT
26939610 TATTTAATATA-TAAAT
1 TATTTAATATATTAAAT
26939626 TATTTA
1 TATTTA
26939632 TAAAGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTAATATATTAAAT
Found at i:26939773 original size:21 final size:21
Alignment explanation
Indices: 26939739--26939802 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
26939729 ACTAATTAAT
* *
26939739 CTAAACCCTAAATCCTAAACCC
1 CTAAA-CCTTAATCCTCAACCC
26939761 CT-AACTCTTAATCCTCAACCC
1 CTAAAC-CTTAATCCTCAACCC
*
26939782 CTAAACCTTAAACCTCAACCC
1 CTAAACCTTAATCCTCAACCC
26939803 TTAATCTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.03
21 31 0.84
22 5 0.14
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (21 bp):
CTAAACCTTAATCCTCAACCC
Found at i:26939829 original size:14 final size:14
Alignment explanation
Indices: 26939783--26939963 Score: 54
Period size: 14 Copynumber: 12.9 Consensus size: 14
26939773 CCTCAACCCC
26939783 TAAACCTTAAACC-
1 TAAACCTTAAACCA
* * *
26939796 TCAACCCTTAATCTA
1 T-AAACCTTAAACCA
26939811 T-AACCTTAAACCA
1 TAAACCTTAAACCA
**
26939824 TAAACC-GCAA-CA
1 TAAACCTTAAACCA
* * *
26939836 TTTAAACCCTAAATCT
1 --TAAACCTTAAACCA
* *
26939852 TAAACCATAAACTA
1 TAAACCTTAAACCA
* * *
26939866 TAAACCATAACCCC
1 TAAACCTTAAACCA
* *
26939880 TAAACTCATAATCCA
1 TAAAC-CTTAAACCA
26939895 TAAACCTTAAA--A
1 TAAACCTTAAACCA
*
26939907 TAGTAACTCTTAAACCT
1 TA--AAC-CTTAAACCA
*
26939924 TAAA-CTCTAAATCA
1 TAAACCT-TAAACCA
*
26939938 TATA-CTCTAAACCA
1 TAAACCT-TAAACCA
*
26939952 AAAACCTTAAAC
1 TAAACCTTAAAC
26939964 TATAGAGATA
Statistics
Matches: 124, Mismatches: 29, Indels: 29
0.68 0.16 0.16
Matches are distributed among these distances:
12 5 0.04
13 15 0.12
14 76 0.61
15 25 0.20
16 1 0.01
17 2 0.02
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:26940245 original size:19 final size:20
Alignment explanation
Indices: 26940219--26940264 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
26940209 ATAGAATTTT
26940219 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
26940237 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
26940257 AATAAAAT
1 AATTAAAT
26940265 GTTTTTGCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:26940335 original size:41 final size:41
Alignment explanation
Indices: 26940271--26940380 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 41
26940261 AAATGTTTTT
** *
26940271 GCGGCGCTTTTTTAGAAATGCCGCTAAAGACCGGAGAATTA
1 GCGGCGCTTTTCCAGAAACGCCGCTAAAGACCGGAGAATTA
* ** *
26940312 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACTTGAGCATTA
1 GCGGCGCTTTTCCAGAAACGCCGCTAAAGACCGGAGAATTA
* *
26940353 GCGGCGC-TTCCCAGAAACGCCACTAAAG
1 GCGGCGCTTTTCCAGAAACGCCGCTAAAG
26940381 CCTAATTTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
40 18 0.31
41 41 0.69
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTTCCAGAAACGCCGCTAAAGACCGGAGAATTA
Found at i:26940603 original size:19 final size:20
Alignment explanation
Indices: 26940577--26940622 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
26940567 ATAGAATTTT
26940577 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
26940595 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
26940615 AATAAAAT
1 AATTAAAT
26940623 GTTTTTGCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:26940686 original size:41 final size:41
Alignment explanation
Indices: 26940629--26940739 Score: 195
Period size: 41 Copynumber: 2.7 Consensus size: 41
26940619 AAATGTTTTT
26940629 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
*
26940670 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
**
26940711 GCGGCGCTTTTATAAAAACGCCGCTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
26940740 CCCCGAAAGG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.32, C:0.29, G:0.23, T:0.17
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:26940686 original size:358 final size:358
Alignment explanation
Indices: 26940027--26940719 Score: 1296
Period size: 358 Copynumber: 1.9 Consensus size: 358
26940017 ATAAGAAATT
*
26940027 ATTTAATATGTAAATAAAAAACACTCAGTAATGTACCCAAAAAACTTTAAAATTATTTTAAAATA
1 ATTTAATATGTAAATAAAAAACACTCAGTAATGTACCCAAAAAACTTTAAAATTAATTTAAAATA
26940092 ATAGTATTTTAAATTTTCCATTTTTAATAAATATTTTTCTTTTTTTTATTTCAAATTATTTCTAA
66 ATAGTATTTTAAATTTTCCATTTTTAATAAATATTTTTCTTTTTTTTATTTCAAATTATTTCTAA
26940157 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTCAATTAAAAATAAATAGAATTTTAAT
131 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTCAATTAAAAATAAATAGAATTTTAAT
** *
26940222 TAATATAAATAAACAAATTAAATAGTAATTAGACAAATAAAATGTTTTTGCGGCGCTTTTTTAGA
196 TAATATAAATAAACAAATTAAATAGTAATTAGACAAATAAAATGTTTTTGCGGCGCTTTTCCAAA
* * * **
26940287 AATGCCGCTAAAGACCGGAGAATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACTTGAGCATT
261 AACGCCGCTAAAGACCAGAGAATTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATT
26940352 AGCGGCGCTTCCCAGAAACGCCACTAAAGCCTA
326 AGCGGCGCTTCCCAGAAACGCCACTAAAGCCTA
26940385 ATTTAATATGTAAATAAAAAACACTCAGTAATGTACCCAAAAAACTTTAAAATTAATTTAAAATA
1 ATTTAATATGTAAATAAAAAACACTCAGTAATGTACCCAAAAAACTTTAAAATTAATTTAAAATA
26940450 ATAGTATTTTAAATTTTCCATTTTTAATAAATATTTTTCTTTTTTTTATTTCAAATTATTTCTAA
66 ATAGTATTTTAAATTTTCCATTTTTAATAAATATTTTTCTTTTTTTTATTTCAAATTATTTCTAA
26940515 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTCAATTAAAAATAAATAGAATTTTAAT
131 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTCAATTAAAAATAAATAGAATTTTAAT
26940580 TAATATAAATAAACAAATTAAATAGTAATTAGACAAATAAAATGTTTTTGCGGCGCTTTTCCAAA
196 TAATATAAATAAACAAATTAAATAGTAATTAGACAAATAAAATGTTTTTGCGGCGCTTTTCCAAA
*
26940645 AACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATT
261 AACGCCGCTAAAGACCAGAGAATTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATT
26940710 AGCGGCGCTT
326 AGCGGCGCTT
26940720 TTATAAAAAC
Statistics
Matches: 325, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
358 325 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (358 bp):
ATTTAATATGTAAATAAAAAACACTCAGTAATGTACCCAAAAAACTTTAAAATTAATTTAAAATA
ATAGTATTTTAAATTTTCCATTTTTAATAAATATTTTTCTTTTTTTTATTTCAAATTATTTCTAA
GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTCAATTAAAAATAAATAGAATTTTAAT
TAATATAAATAAACAAATTAAATAGTAATTAGACAAATAAAATGTTTTTGCGGCGCTTTTCCAAA
AACGCCGCTAAAGACCAGAGAATTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATT
AGCGGCGCTTCCCAGAAACGCCACTAAAGCCTA
Found at i:26943403 original size:14 final size:14
Alignment explanation
Indices: 26943381--26943423 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
26943371 TACGTTAGCG
*
26943381 AATAAAAATATATA
1 AATATAAATATATA
*
26943395 AATATAAATAAATA
1 AATATAAATATATA
**
26943409 AATATTTATATATA
1 AATATAAATATATA
26943423 A
1 A
26943424 TAAAATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATATAAATATATA
Found at i:26943421 original size:22 final size:22
Alignment explanation
Indices: 26943386--26943433 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
26943376 TAGCGAATAA
26943386 AAATATATAAATATAA-ATAAAT
1 AAATATATAAATATAATA-AAAT
* *
26943408 AAATATTTATATATAATAAAAT
1 AAATATATAAATATAATAAAAT
26943430 AAAT
1 AAAT
26943434 TTAATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATATATAAATATAATAAAAT
Found at i:26943498 original size:7 final size:7
Alignment explanation
Indices: 26943486--26943540 Score: 110
Period size: 7 Copynumber: 7.9 Consensus size: 7
26943476 CCTAACATAA
26943486 CAAAAAT
1 CAAAAAT
26943493 CAAAAAT
1 CAAAAAT
26943500 CAAAAAT
1 CAAAAAT
26943507 CAAAAAT
1 CAAAAAT
26943514 CAAAAAT
1 CAAAAAT
26943521 CAAAAAT
1 CAAAAAT
26943528 CAAAAAT
1 CAAAAAT
26943535 CAAAAA
1 CAAAAA
26943541 AAGAAGAAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.13
Consensus pattern (7 bp):
CAAAAAT
Found at i:26944918 original size:24 final size:25
Alignment explanation
Indices: 26944881--26944930 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
26944871 CACGCTAGCG
26944881 AACAAAAATATATAAATATAA-ATA
1 AACAAAAATATATAAATATAATATA
* * *
26944905 AACAAATATTTATATATATAATATA
1 AACAAAAATATATAAATATAATATA
26944930 A
1 A
26944931 TAAATTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
AACAAAAATATATAAATATAATATA
Found at i:26945000 original size:7 final size:7
Alignment explanation
Indices: 26944988--26945021 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
26944978 CATAACATAA
26944988 CAAAAAT
1 CAAAAAT
26944995 CAAAAAT
1 CAAAAAT
*
26945002 TAAAAAT
1 CAAAAAT
26945009 CAAAAAT
1 CAAAAAT
*
26945016 TAAAAA
1 CAAAAA
26945022 AATAAGAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.18
Consensus pattern (7 bp):
CAAAAAT
Found at i:26945008 original size:14 final size:14
Alignment explanation
Indices: 26944989--26945021 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
26944979 ATAACATAAC
26944989 AAAAATCAAAAATT
1 AAAAATCAAAAATT
26945003 AAAAATCAAAAATT
1 AAAAATCAAAAATT
26945017 AAAAA
1 AAAAA
26945022 AATAAGAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAAATCAAAAATT
Found at i:26946418 original size:20 final size:20
Alignment explanation
Indices: 26946395--26946434 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
26946385 TATAAATATA
*
26946395 AATAAAA-ATATTTATATAAT
1 AATAAAATAAATTTA-ATAAT
26946415 AATAAAATAAATTTAATAAT
1 AATAAAATAAATTTAATAAT
26946435 TTATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAAAATAAATTTAATAAT
Found at i:26947891 original size:18 final size:20
Alignment explanation
Indices: 26947843--26947889 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
26947833 ACACGTTAGC
26947843 AAATAAAAATATATAAATAT
1 AAATAAAAATATATAAATAT
* *
26947863 AAATAAAAATATTTATATAT
1 AAATAAAAATATATAAATAT
26947883 -AATAAAA
1 AAATAAAA
26947890 TAAATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATAAAAATATATAAATAT
Found at i:26947896 original size:20 final size:18
Alignment explanation
Indices: 26947859--26947901 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
26947849 AAATATATAA
*
26947859 ATATAAATAAAAATATTT
1 ATATAAATAAAAAAATTT
26947877 ATATATAATAAAATAAATTT
1 ATATA-AATAAAA-AAATTT
26947897 A-ATAA
1 ATATAA
26947902 TTTATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 10 0.45
20 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATAAATAAAAAAATTT
Found at i:26950651 original size:248 final size:248
Alignment explanation
Indices: 26950213--26950708 Score: 974
Period size: 248 Copynumber: 2.0 Consensus size: 248
26950203 CGTTTTCCTA
26950213 TTTTGATCAATTTATTCCATATCTATATTTCTCAATAGATTTATTCAAGATCCTCCTTTTATTTT
1 TTTTGATCAATTTATTCCATATCTATATTTCTCAATAGATTTATTCAAGATCCTCCTTTTATTTT
26950278 ATTATTTCAATAATAATATCGCATGCAAAATCATTGTCAACCACTTTTATTATTCGATTCCACAT
66 ATTATTTCAATAATAATATCGCATGCAAAATCATTGTCAACCACTTTTATTATTCGATTCCACAT
26950343 TTTCTCGAATTGACATAACTTATCATGATATTTTATTTTCATTATTTTAAAATTCAGTTTCAGGT
131 TTTCTCGAATTGACATAACTTATCATGATATTTTATTTTCATTATTTTAAAATTCAGTTTCAGGT
26950408 ACCTGAATCTCTTCTGGAGTTTTACACATTAGTTATGTTTTGGGTCTCTTCTT
196 ACCTGAATCTCTTCTGGAGTTTTACACATTAGTTATGTTTTGGGTCTCTTCTT
* *
26950461 TTTTGATCAATTTATTCCATATCTATATTTCTCAATAGATTTATTTAAGATCCTTCTTTTATTTT
1 TTTTGATCAATTTATTCCATATCTATATTTCTCAATAGATTTATTCAAGATCCTCCTTTTATTTT
26950526 ATTATTTCAATAATAATATCGCATGCAAAATCATTGTCAACCACTTTTATTATTCGATTCCACAT
66 ATTATTTCAATAATAATATCGCATGCAAAATCATTGTCAACCACTTTTATTATTCGATTCCACAT
26950591 TTTCTCGAATTGACATAACTTATCATGATATTTTATTTTCATTATTTTAAAATTCAGTTTCAGGT
131 TTTCTCGAATTGACATAACTTATCATGATATTTTATTTTCATTATTTTAAAATTCAGTTTCAGGT
26950656 ACCTGAATCTCTTCTGGAGTTTTACACATTAGTTATGTTTTGGGTCTCTTCTT
196 ACCTGAATCTCTTCTGGAGTTTTACACATTAGTTATGTTTTGGGTCTCTTCTT
26950709 GAGCACCCGC
Statistics
Matches: 246, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
248 246 1.00
ACGTcount: A:0.27, C:0.17, G:0.09, T:0.47
Consensus pattern (248 bp):
TTTTGATCAATTTATTCCATATCTATATTTCTCAATAGATTTATTCAAGATCCTCCTTTTATTTT
ATTATTTCAATAATAATATCGCATGCAAAATCATTGTCAACCACTTTTATTATTCGATTCCACAT
TTTCTCGAATTGACATAACTTATCATGATATTTTATTTTCATTATTTTAAAATTCAGTTTCAGGT
ACCTGAATCTCTTCTGGAGTTTTACACATTAGTTATGTTTTGGGTCTCTTCTT
Found at i:26957750 original size:24 final size:25
Alignment explanation
Indices: 26957706--26957753 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
26957696 AATTTAATTT
*
26957706 TTTTAGAAATATTTTTGAAAAAATA
1 TTTTAGAAATATTTTTAAAAAAATA
26957731 TTTT-GAAA-ATTTTCTAAAAAAAT
1 TTTTAGAAATATTTT-TAAAAAAAT
26957754 TCAAAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (25 bp):
TTTTAGAAATATTTTTAAAAAAATA
Found at i:26960682 original size:21 final size:22
Alignment explanation
Indices: 26960653--26960699 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
26960643 CAGAAGGAGT
*
26960653 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
26960675 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
26960696 GAGT
1 GAGT
26960700 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:26964854 original size:29 final size:30
Alignment explanation
Indices: 26964821--26964890 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 30
26964811 TTATTGAATG
26964821 AATTTTA-GCTGAGATTGTATTTCATTTCA
1 AATTTTAGGCTGAGATTGTATTTCATTTCA
26964850 AATTTTAGCGTTGGCTGAGATTGTATTTCATTTCA
1 AATTTTA-----GGCTGAGATTGTATTTCATTTCA
26964885 AATTTT
1 AATTTT
26964891 CAACCACCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 7 0.20
35 28 0.80
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.49
Consensus pattern (30 bp):
AATTTTAGGCTGAGATTGTATTTCATTTCA
Found at i:26966128 original size:21 final size:21
Alignment explanation
Indices: 26966102--26966158 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
26966092 CAGGACAAAA
26966102 AAGTATCGATACTTTTTGTCT
1 AAGTATCGATACTTTTTGTCT
26966123 AAGTATCGATACTTTTTGTCT
1 AAGTATCGATACTTTTTGTCT
*
26966144 AAGCATCGATA-TTTT
1 AAGTATCGATACTTTT
26966159 ACAAGATATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (21 bp):
AAGTATCGATACTTTTTGTCT
Found at i:26966261 original size:20 final size:20
Alignment explanation
Indices: 26966233--26966276 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
26966223 GTAAGTATCA
*
26966233 ATATTTTTCTTAAGGTACTG
1 ATATATTTCTTAAGGTACTG
*
26966253 ATATATTTCTTAAGGTATTG
1 ATATATTTCTTAAGGTACTG
26966273 ATAT
1 ATAT
26966277 TCCTGCTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.50
Consensus pattern (20 bp):
ATATATTTCTTAAGGTACTG
Found at i:26970316 original size:40 final size:40
Alignment explanation
Indices: 26970272--26970391 Score: 222
Period size: 40 Copynumber: 3.0 Consensus size: 40
26970262 AAAAATTAAT
26970272 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
1 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
26970312 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
1 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
* *
26970352 TTGGTAGAAATCCATTCAAGCAAAACGAGAAAACGAAGAA
1 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
26970392 AGAAAGTGAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.50, C:0.15, G:0.20, T:0.15
Consensus pattern (40 bp):
TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
Found at i:26971142 original size:19 final size:20
Alignment explanation
Indices: 26971099--26971142 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
26971089 GCCACACAGA
*
26971099 CATGTGTGAGGCCATATGGG
1 CATGTGTGAGGCCACATGGG
*
26971119 -TTGTGT-AGGCCACATGGG
1 CATGTGTGAGGCCACATGGG
26971137 CATGTG
1 CATGTG
26971143 GGCCCAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (20 bp):
CATGTGTGAGGCCACATGGG
Found at i:26972882 original size:50 final size:49
Alignment explanation
Indices: 26972776--26972943 Score: 149
Period size: 50 Copynumber: 3.2 Consensus size: 49
26972766 GGGAATGAGA
*
26972776 TCCCATGTAAGACGATGTTTAGGACATGGCATTGGCATCATTAAGATTATGAGAGG
1 TCCCATGTAAGACCATGTTTAGGACATGGC-TTGGCA-C--T--GA-TATGAGAGG
* * *
26972832 TCCCATGTAAGACTATGTTTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTTTAGGACATGGC-TTGGCACTGATATGAGAGG
* * * * **
26972882 TCTCC-CGTAAGACCATGTCTAGGACATGGCATGAGCACCGATATGAGAAC
1 TC-CCATGTAAGACCATGTTTAGGACATGGCTTG-GCACTGATATGAGAGG
26972932 TCCCATGTAAGA
1 TCCCATGTAAGA
26972944 TCATATATGG
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
49 4 0.04
50 51 0.54
51 4 0.04
53 1 0.01
55 1 0.01
56 34 0.36
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTTTAGGACATGGCTTGGCACTGATATGAGAGG
Found at i:26973265 original size:32 final size:32
Alignment explanation
Indices: 26973228--26973298 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
26973218 TTAAGTAAGT
26973228 AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
1 AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
26973260 AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
1 AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
26973292 AAGTAAA
1 AAGTAAA
26973299 GAGCATGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.52, C:0.03, G:0.30, T:0.15
Consensus pattern (32 bp):
AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
Found at i:26973280 original size:16 final size:16
Alignment explanation
Indices: 26973229--26973281 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
26973219 TAAGTAAGTA
26973229 AGTAAATGAGTAAGAG
1 AGTAAATGAGTAAGAG
* *
26973245 AGTAAGTACAG-AAG-G
1 AGTAAAT-GAGTAAGAG
26973260 AAGTAAATGAGTAAGAG
1 -AGTAAATGAGTAAGAG
26973277 AGTAA
1 AGTAA
26973282 GTACAGAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.30, T:0.17
Consensus pattern (16 bp):
AGTAAATGAGTAAGAG
Found at i:26973296 original size:16 final size:16
Alignment explanation
Indices: 26973245--26973297 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
26973235 TGAGTAAGAG
26973245 AGTAAGTACAGAAGGA
1 AGTAAGTACAGAAGGA
* *
26973261 AGTAAAT-GAGTAA-GA
1 AGTAAGTACAG-AAGGA
26973276 GAGTAAGTACAGAAGGA
1 -AGTAAGTACAGAAGGA
26973293 AGTAA
1 AGTAA
26973298 AGAGCATGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
15 4 0.14
16 21 0.72
17 4 0.14
ACGTcount: A:0.51, C:0.04, G:0.30, T:0.15
Consensus pattern (16 bp):
AGTAAGTACAGAAGGA
Found at i:26980187 original size:13 final size:14
Alignment explanation
Indices: 26980164--26980201 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
26980154 TTCTTTATAT
26980164 ATTATATTATTTCA
1 ATTATATTATTTCA
26980178 ATTA-ATTATTTCA
1 ATTATATTATTTCA
*
26980191 AATATCATTAT
1 ATTAT-ATTAT
26980202 GTTTATACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 12 0.57
14 4 0.19
15 5 0.24
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTATATTATTTCA
Found at i:26987146 original size:21 final size:22
Alignment explanation
Indices: 26987122--26987169 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
26987112 TTCATTGTTG
*
26987122 TTTTGTTGTTG-TTTGCTGTCA
1 TTTTGATGTTGTTTTGCTGTCA
26987143 TTTTGATGTTGTTTTGCTGTCA
1 TTTTGATGTTGTTTTGCTGTCA
26987165 TTTTG
1 TTTTG
26987170 CTTTTATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.06, C:0.08, G:0.23, T:0.62
Consensus pattern (22 bp):
TTTTGATGTTGTTTTGCTGTCA
Found at i:26987168 original size:11 final size:11
Alignment explanation
Indices: 26987133--26987171 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
26987123 TTTGTTGTTG
26987133 TTTGCTGTCAT
1 TTTGCTGTCAT
* **
26987144 TTTGATGTTGT
1 TTTGCTGTCAT
26987155 TTTGCTGTCAT
1 TTTGCTGTCAT
26987166 TTTGCT
1 TTTGCT
26987172 TTTATATTGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.08, C:0.13, G:0.21, T:0.59
Consensus pattern (11 bp):
TTTGCTGTCAT
Found at i:26996813 original size:14 final size:15
Alignment explanation
Indices: 26996778--26996819 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
26996768 AAAAATGTTG
* *
26996778 AAAAAATAAGTGTTC
1 AAAAATTAAGTATTC
26996793 AAAAATTAAGTATT-
1 AAAAATTAAGTATTC
26996807 AAAAATTTAAGTA
1 AAAAA-TTAAGTA
26996820 ATGAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (15 bp):
AAAAATTAAGTATTC
Found at i:27003058 original size:13 final size:13
Alignment explanation
Indices: 27003026--27003058 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
27003016 ACTGCTCTCT
*
27003026 AAATCCCCTTCCA
1 AAATCCTCTTCCA
27003039 AAATCCTCTTCCA
1 AAATCCTCTTCCA
27003052 AAATCCT
1 AAATCCT
27003059 TGTTTCTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.39, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATCCTCTTCCA
Found at i:27004692 original size:15 final size:16
Alignment explanation
Indices: 27004655--27004696 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
27004645 AATGCATGTA
27004655 AAAATGAAAAAAATAT
1 AAAATGAAAAAAATAT
27004671 AATAATGAAAAAAATA-
1 AA-AATGAAAAAAATAT
*
27004687 CAAATGAAAA
1 AAAATGAAAA
27004697 GGAAAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 3 0.12
17 13 0.54
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (16 bp):
AAAATGAAAAAAATAT
Found at i:27013174 original size:24 final size:24
Alignment explanation
Indices: 27013145--27013194 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
27013135 GTTTTTCACG
27013145 ACACGAACATGGGCATTTAATGAC
1 ACACGAACATGGGCATTTAATGAC
27013169 ACACGAACATGGGCATTTAATGAC
1 ACACGAACATGGGCATTTAATGAC
27013193 AC
1 AC
27013195 CAAAAAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (24 bp):
ACACGAACATGGGCATTTAATGAC
Found at i:27014331 original size:22 final size:22
Alignment explanation
Indices: 27014304--27014358 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
27014294 ATATGGGTTA
27014304 AAAACCCAAAACCAAGATAATT
1 AAAACCCAAAACCAAGATAATT
27014326 AAAACCCAAAACCAAGATAATT
1 AAAACCCAAAACCAAGATAATT
*
27014348 ACAACCCAAAA
1 AAAACCCAAAA
27014359 ACTTAGCCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.60, C:0.25, G:0.04, T:0.11
Consensus pattern (22 bp):
AAAACCCAAAACCAAGATAATT
Found at i:27029766 original size:29 final size:29
Alignment explanation
Indices: 27029733--27029896 Score: 165
Period size: 29 Copynumber: 5.6 Consensus size: 29
27029723 GTCGTATTCG
* **
27029733 TCCCTTTTCATATTCGATGGCCGAAACCA
1 TCCCTTTTCATATTCGATGGTCGTCACCA
*
27029762 TCCCTTTTCATTAATCGATGGTCGTCACCA
1 TCCCTTTTCA-TATTCGATGGTCGTCACCA
27029792 TCCCCTTTT-ATAGTT-GATGGTCGTCACCA
1 T-CCCTTTTCATA-TTCGATGGTCGTCACCA
* * * * *
27029821 TACCTTTTCATAATT-GATAGTTG-AAGCTA
1 TCCCTTTTCAT-ATTCGATGGTCGTCA-CCA
27029850 TCCCTTTTCATATTCGATGGTCGTCACCA
1 TCCCTTTTCATATTCGATGGTCGTCACCA
*
27029879 TCCCTTTTCATAATCGAT
1 TCCCTTTTCATATTCGAT
27029897 ACTGAAGCTA
Statistics
Matches: 111, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
28 10 0.09
29 74 0.67
30 20 0.18
31 7 0.06
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (29 bp):
TCCCTTTTCATATTCGATGGTCGTCACCA
Found at i:27029873 original size:58 final size:58
Alignment explanation
Indices: 27029733--27029917 Score: 207
Period size: 58 Copynumber: 3.2 Consensus size: 58
27029723 GTCGTATTCG
* ** * * * *
27029733 TCCCTTTTCATATTCGATGGCCGAAACCATCCCTTTTCATTAATCGATGGTCGTCA-CCA
1 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCA-TAATCGATAGTTG-AAGCTA
* *
27029792 TCCCCTTTT-ATAGTT-GATGGTCGTCACCATACCTTTTCATAATTGATAGTTGAAGCTA
1 T-CCCTTTTCATA-TTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGTTGAAGCTA
*
27029850 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATA-CTGAAGCTA
1 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGTTGAAGCTA
*
27029907 TCCTTTTTCAT
1 TCCCTTTTCAT
27029918 GTTCAATGAT
Statistics
Matches: 108, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
57 28 0.26
58 47 0.44
59 24 0.22
60 9 0.08
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.38
Consensus pattern (58 bp):
TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGTTGAAGCTA
Found at i:27034574 original size:14 final size:15
Alignment explanation
Indices: 27034555--27034598 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 15
27034545 ACATCTTTCG
27034555 TTCTCTTTTCCT-CT
1 TTCTCTTTTCCTGCT
27034569 TTCTCTTTTCCTGCT
1 TTCTCTTTTCCTGCT
*
27034584 TT-TCTTTTCTTGCT
1 TTCTCTTTTCCTGCT
27034598 T
1 T
27034599 CATACCTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 24 0.86
15 4 0.14
ACGTcount: A:0.00, C:0.30, G:0.05, T:0.66
Consensus pattern (15 bp):
TTCTCTTTTCCTGCT
Found at i:27056254 original size:4 final size:4
Alignment explanation
Indices: 27056245--27056274 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
27056235 GCCAAAACGG
27056245 TTTA TTTA TTTA TTTA TTTA TTTA TATTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA T
27056275 CATTATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:27056615 original size:16 final size:17
Alignment explanation
Indices: 27056594--27056626 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27056584 CAACACGGAG
27056594 ATTAAA-AATCCCAAAA
1 ATTAAACAATCCCAAAA
*
27056610 ATTAAACAATCTCAAAA
1 ATTAAACAATCCCAAAA
27056627 GTCCATTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (17 bp):
ATTAAACAATCCCAAAA
Found at i:27058982 original size:21 final size:22
Alignment explanation
Indices: 27058956--27059002 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
27058946 CTCTGCTCAA
*
27058956 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
27058977 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
27058999 ACTC
1 ACTC
27059003 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:27064086 original size:22 final size:22
Alignment explanation
Indices: 27064050--27064091 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
27064040 CTAAGAGCCG
* *
27064050 TAAACAGGATAGTTATAAGCTA
1 TAAACAGAATAGTTACAAGCTA
*
27064072 TAAACAGAATGGTTACAAGC
1 TAAACAGAATAGTTACAAGC
27064092 CATATGTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (22 bp):
TAAACAGAATAGTTACAAGCTA
Found at i:27064187 original size:32 final size:32
Alignment explanation
Indices: 27064108--27064257 Score: 166
Period size: 32 Copynumber: 4.7 Consensus size: 32
27064098 TACAGTAATG
* * *
27064108 TGATTGGCACAAAGTCATCAGTAGA-AGTGA-TA
1 TGATCGGCACAAAGCCATCAGTA-ACGGT-ACTA
*
27064140 TGATC-GCACACAGCCATCAGTAACGGTAAC-A
1 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
*
27064171 TGATCGGCACAAAGCCATTAGTAACGGTACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTA
27064203 TGA-CTGGCACAAAGCCATCAGTAACGGTACTA
1 TGATC-GGCACAAAGCCATCAGTAACGGTACTA
* *
27064235 TGACCGACACAAAGCCATCAGTA
1 TGATCGGCACAAAGCCATCAGTA
27064258 GCATCGCAGC
Statistics
Matches: 103, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.01
31 27 0.26
32 74 0.72
33 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACGGTACTA
Found at i:27064312 original size:26 final size:26
Alignment explanation
Indices: 27064260--27064313 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
27064250 CATCAGTAGC
* *
27064260 ATCGCAGCAAAGCTGCTAGCAACAGT
1 ATCGCAGCAAAGCTACCAGCAACAGT
* *
27064286 ATCGCAGCAAAGCTACCAGTAATAGT
1 ATCGCAGCAAAGCTACCAGCAACAGT
27064312 AT
1 AT
27064314 ATGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (26 bp):
ATCGCAGCAAAGCTACCAGCAACAGT
Found at i:27064330 original size:27 final size:26
Alignment explanation
Indices: 27064295--27064360 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
27064285 TATCGCAGCA
* *
27064295 AAGCTACCAGTAATAGT-ATATGTGGCC
1 AAGCCACCAGTAACAGTGAT-TGTGG-C
*
27064322 AAGCCACCAGCAACAGTGATTGTGGC
1 AAGCCACCAGTAACAGTGATTGTGGC
27064348 AGAGCCACCAGTA
1 A-AGCCACCAGTA
27064361 TAATACTTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 2 0.06
27 29 0.88
28 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (26 bp):
AAGCCACCAGTAACAGTGATTGTGGC
Found at i:27064560 original size:27 final size:27
Alignment explanation
Indices: 27064508--27064789 Score: 252
Period size: 27 Copynumber: 10.5 Consensus size: 27
27064498 GGCAAAAATA
27064508 GTCA-TTTACCC-ACCAGG-GCATTACG
1 GTCATTTTACCCTA-CAGGAGCATTACG
* * * *
27064533 GTCATTTTATCGTATAGGAGTATTACG
1 GTCATTTTACCCTACAGGAGCATTACG
** * *
27064560 GTCATTTTACTTTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGAGCATTACG
* * *
27064587 ATCATTTTACCCTATA-GAGGTATTACG
1 GTCATTTTACCCTACAGGA-GCATTACG
* *
27064614 ATCATTTTACCCTACA-AAGGCATTACG
1 GTCATTTTACCCTACAGGA-GCATTACG
* * *
27064641 ATCATTTTACCCTACAGGGGAATTACG
1 GTCATTTTACCCTACAGGAGCATTACG
* *
27064668 GTCATTTTACCTTACAGGTGCATTACG
1 GTCATTTTACCCTACAGGAGCATTACG
27064695 GTCATTTTACCCTACTAGG-GCATTACG
1 GTCATTTTACCCTAC-AGGAGCATTACG
* * *
27064722 GTCATTTTATCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGAGCATTACG
* * **
27064749 GTCATTTTACCCTACAGGGGTATTATA
1 GTCATTTTACCCTACAGGAGCATTACG
*
27064776 ATCATTTTACCCTA
1 GTCATTTTACCCTA
27064790 TGGGGGTATT
Statistics
Matches: 219, Mismatches: 31, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
25 4 0.02
26 12 0.05
27 200 0.91
28 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGAGCATTACG
Found at i:27064592 original size:54 final size:54
Alignment explanation
Indices: 27064508--27064789 Score: 288
Period size: 54 Copynumber: 5.3 Consensus size: 54
27064498 GGCAAAAATA
* * *
27064508 GTCA-TTTACCC-ACCA-GGGCATTACGGTCATTTTATCGTATAGGAGTATTACG
1 GTCATTTTACCCTA-CAGGGGCATTACGATCATTTTACCCTATAGGAGTATTACG
** *
27064560 GTCATTTTACTTTATAGGGGCATTACGATCATTTTACCCTATA-GAGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTATAGGA-GTATTACG
* ** * * *
27064614 ATCATTTTACCCTACAAAGGCATTACGATCATTTTACCCTACAGGGGAATTACG
1 GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTATAGGAGTATTACG
* * * *
27064668 GTCATTTTACCTTACAGGTGCATTACGGTCATTTTACCCTACTAGG-GCATTACG
1 GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTA-TAGGAGTATTACG
* * * **
27064722 GTCATTTTATCCTACAGGGGCATTAC-AGTCATTTTACCCTACAGGGGTATTATA
1 GTCATTTTACCCTACAGGGGCATTACGA-TCATTTTACCCTATAGGAGTATTACG
*
27064776 ATCATTTTACCCTA
1 GTCATTTTACCCTA
27064790 TGGGGGTATT
Statistics
Matches: 189, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
52 4 0.02
53 11 0.06
54 170 0.90
55 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (54 bp):
GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTATAGGAGTATTACG
Found at i:27078857 original size:40 final size:40
Alignment explanation
Indices: 27078813--27079074 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
27078803 GCTCCTCGTT
* *
27078813 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
27078853 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27078893 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27078932 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27078971 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
27079010 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
27079051 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27079075 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:27082252 original size:21 final size:21
Alignment explanation
Indices: 27082210--27082252 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
27082200 CACTACTCTG
**
27082210 TTTCTAGTTGTACGACTGCAT
1 TTTCTAGTTGTACGACCACAT
27082231 TTTCTAGTTGGTA-GACCACAT
1 TTTCTAGTT-GTACGACCACAT
27082252 T
1 T
27082253 ATTGGTGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (21 bp):
TTTCTAGTTGTACGACCACAT
Found at i:27082642 original size:4 final size:4
Alignment explanation
Indices: 27082633--27082663 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
27082623 TGGAACTTTG
27082633 GTTT GTTT GTTT GTTT GTTT GTTT -TTT GTTT
1 GTTT GTTT GTTT GTTT GTTT GTTT GTTT GTTT
27082664 TGAGACTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
GTTT
Found at i:27087878 original size:32 final size:32
Alignment explanation
Indices: 27087811--27087887 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
27087801 GTATAATCGG
* *
27087811 TGGTGGTGTAAGGTGGTGGCCATAGTGGTGAT
1 TGGTGGTGTAAGGTGGTGGCCACAGCGGTGAT
* * * *
27087843 TGGTAGTGCAAGGTGGTGGCCACGGCGGTGGT
1 TGGTGGTGTAAGGTGGTGGCCACAGCGGTGAT
27087875 TGGTGGTGTAAGG
1 TGGTGGTGTAAGG
27087888 GTCGACGTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.14, C:0.09, G:0.49, T:0.27
Consensus pattern (32 bp):
TGGTGGTGTAAGGTGGTGGCCACAGCGGTGAT
Found at i:27090518 original size:32 final size:32
Alignment explanation
Indices: 27090463--27090633 Score: 127
Period size: 32 Copynumber: 5.4 Consensus size: 32
27090453 GAATGACTAT
* *
27090463 AAGCCATAAGT-ACATTAATATGATTCGCACA
1 AAGCCATCAGTAACAGTAATATGATTCGCACA
** *
27090494 AAGCCATCAGTAGTAGTGATATGA-TCGACACA
1 AAGCCATCAGTAACAGTAATATGATTCG-CACA
* *
27090526 CAA-CCATCAGTAACGGTAATATGATAT-ACACA
1 -AAGCCATCAGTAACAGTAATATGAT-TCGCACA
* * *
27090558 AAGGCATGAGTAACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATTCGCACA
** ** *
27090590 AAGATATCAGTAATGGTAATATGA-TCGGTACA
1 AAGCCATCAGTAACAGTAATATGATTC-GCACA
*
27090622 AATCCATCAGTA
1 AAGCCATCAGTA
27090634 GCATCGCAGT
Statistics
Matches: 108, Mismatches: 24, Indels: 15
0.73 0.16 0.10
Matches are distributed among these distances:
31 17 0.16
32 88 0.81
33 2 0.02
34 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATTCGCACA
Found at i:27090705 original size:27 final size:28
Alignment explanation
Indices: 27090669--27090723 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
27090659 AGTATCGCAG
* *
27090669 CAAAGCTACCCGTAATAGT-ATATGTGGC
1 CAAAGCTACCAGTAACAGTGAT-TGTGGC
27090697 CAAA-CTACCAGTAACAGTGATTGTGGC
1 CAAAGCTACCAGTAACAGTGATTGTGGC
27090724 AGAGCCACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (28 bp):
CAAAGCTACCAGTAACAGTGATTGTGGC
Found at i:27090832 original size:24 final size:24
Alignment explanation
Indices: 27090805--27090886 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
27090795 CCATGCTCAG
27090805 AATCAATCATACAAATCACAGACA
1 AATCAATCATACAAATCACAGACA
* * *
27090829 AATCAGTTATACCAATCACAGACA
1 AATCAATCATACAAATCACAGACA
* ** *
27090853 AATCAGTCATTTAAATCACAGAAA
1 AATCAATCATACAAATCACAGACA
27090877 AATCAATCAT
1 AATCAATCAT
27090887 TTGCATCACG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAATCATACAAATCACAGACA
Found at i:27090887 original size:24 final size:24
Alignment explanation
Indices: 27090805--27090913 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
27090795 CCATGCTCAG
** *
27090805 AATCAATCATACAAATCACAGACA
1 AATCAATCATTTAAATCACAGAAA
* * *** *
27090829 AATCAGTTATACCAATCACAGACA
1 AATCAATCATTTAAATCACAGAAA
*
27090853 AATCAGTCATTTAAATCACAGAAA
1 AATCAATCATTTAAATCACAGAAA
**
27090877 AATCAATCATTTGCATCAC-GAACA
1 AATCAATCATTTAAATCACAGAA-A
27090901 AATCAATCATTTA
1 AATCAATCATTTA
27090914 CACTCGAGGG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
23 3 0.04
24 69 0.96
ACGTcount: A:0.48, C:0.22, G:0.06, T:0.24
Consensus pattern (24 bp):
AATCAATCATTTAAATCACAGAAA
Found at i:27090989 original size:27 final size:27
Alignment explanation
Indices: 27090959--27091222 Score: 200
Period size: 27 Copynumber: 9.9 Consensus size: 27
27090949 GGCATTACGA
*
27090959 TCATTTTA-CCTTACAAGGGTATTTTGG
1 TCATTTTACCCTT-CGAGGGTATTTTGG
* * **
27090986 TCATTTAACCCTAT-GGGGGTATTAAGG
1 TCATTTTACCCT-TCGAGGGTATTTTGG
* *
27091013 TCATTTTA-CCTTATG-GGGT-TTTTAG
1 TCATTTTACCCTT-CGAGGGTATTTTGG
* * *
27091038 TTATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTTGG
* * *
27091065 TCATTTTACCCTTCAAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTTGG
* *
27091092 TTATTTTACCCTTCG-GGAATATTTTGG
1 TCATTTTACCCTTCGAGG-GTATTTTGG
*
27091119 TCATTTTACCCTTCGAGGGTATTTTAG
1 TCATTTTACCCTTCGAGGGTATTTTGG
* * * *
27091146 TAAATTTT-CCCTTCTAGGGTATTTCGA
1 T-CATTTTACCCTTCGAGGGTATTTTGG
* * *
27091173 TAATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTTGG
* * *
27091200 TAATTTTACCCTTTGGGGGTATT
1 TCATTTTACCCTTCGAGGGTATT
27091223 ACTATCATTT
Statistics
Matches: 194, Mismatches: 32, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
25 12 0.06
26 23 0.12
27 148 0.76
28 10 0.05
29 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTTGG
Found at i:27091232 original size:27 final size:27
Alignment explanation
Indices: 27091040--27091234 Score: 216
Period size: 27 Copynumber: 7.2 Consensus size: 27
27091030 GTTTTTAGTT
27091040 ATTTTACCCTTCGAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* *
27091067 ATTTTACCCTTCAAGGGTATTTCGATT
1 ATTTTACCCTTCGAGGGTATTTCGATC
* * *
27091094 ATTTTACCCTTCG-GGAATATTTTGGTC
1 ATTTTACCCTTCGAGG-GTATTTCGATC
* *
27091121 ATTTTACCCTTCGAGGGTATTT-TAGTAA
1 ATTTTACCCTTCGAGGGTATTTCGA-T-C
* *
27091149 ATTTT-CCCTTCTAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATC
*
27091175 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATC
* * * *
27091202 ATTTTACCCTTTGGGGGTATTACTATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
27091229 ATTTTA
1 ATTTTA
27091235 GAAATATTGG
Statistics
Matches: 143, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.06
27 127 0.89
28 8 0.06
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATC
Found at i:27093336 original size:15 final size:16
Alignment explanation
Indices: 27093318--27093348 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
27093308 TTATATCATC
27093318 TCATAATCT-AAGTTT
1 TCATAATCTAAAGTTT
27093333 TCATAATCTAAAGTTT
1 TCATAATCTAAAGTTT
27093349 CAAGAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (16 bp):
TCATAATCTAAAGTTT
Found at i:27096209 original size:13 final size:13
Alignment explanation
Indices: 27096191--27096222 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
27096181 CGTGTGTAAC
27096191 ACATGGCCAGGCG
1 ACATGGCCAGGCG
*
27096204 ACATGGCTAGGCG
1 ACATGGCCAGGCG
27096217 ACATGG
1 ACATGG
27096223 TCTTGTGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.38, T:0.12
Consensus pattern (13 bp):
ACATGGCCAGGCG
Found at i:27098379 original size:16 final size:16
Alignment explanation
Indices: 27098358--27098388 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
27098348 TTCTTTGTGT
27098358 TTTTCTATTTTCTTTA
1 TTTTCTATTTTCTTTA
27098374 TTTTCTATTTTCTTT
1 TTTTCTATTTTCTTT
27098389 TCCTTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTCTATTTTCTTTA
Found at i:27104872 original size:14 final size:14
Alignment explanation
Indices: 27104853--27104880 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27104843 TAAAGTTATA
27104853 TTTAATAATTCATT
1 TTTAATAATTCATT
27104867 TTTAATAATTCATT
1 TTTAATAATTCATT
27104881 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:27110687 original size:3 final size:3
Alignment explanation
Indices: 27110675--27110752 Score: 65
Period size: 3 Copynumber: 27.3 Consensus size: 3
27110665 CTTTTTCAGC
* * * * *
27110675 TAT T-T TAT TAT TAT TAT T-T TTT TAG TGT TAT TAT TAT AAT TA- TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
27110720 TA- TAC TAT CAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
27110753 TCTATATTCA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
2 7 0.12
3 52 0.88
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:27110812 original size:29 final size:28
Alignment explanation
Indices: 27110776--27110853 Score: 99
Period size: 27 Copynumber: 2.8 Consensus size: 28
27110766 ACATGCATTA
27110776 TTTTTATATAATATATATATGCACT-TT
1 TTTTTATATAATATATATATGCACTGTT
* *
27110803 CTTTTT-TAT-ATAGTATATACGCGCTGTT
1 -TTTTTATATAATA-TATATATGCACTGTT
27110831 TTTTTATATAATATATATATGCA
1 TTTTTATATAATATATATATGCA
27110854 TTTTTAGTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 3 0.07
27 18 0.43
28 18 0.43
29 3 0.07
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.53
Consensus pattern (28 bp):
TTTTTATATAATATATATATGCACTGTT
Found at i:27110858 original size:26 final size:26
Alignment explanation
Indices: 27110768--27110858 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 26
27110758 ATTCATTCAC
*
27110768 ATGCATTATTTTTATATAATATATAT
1 ATGCATTTTTTTTATATAATATATAT
27110794 ATGCACTTTCTTTTT-TAT-ATAGTATAT
1 ATGCA-TTT-TTTTTATATAATA-TATAT
* *
27110821 ACGCGCTGTTTTTTTATATAATATATAT
1 ATGC-AT-TTTTTTTATATAATATATAT
27110849 ATGCATTTTT
1 ATGCATTTTT
27110859 AGTACCCGTC
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
26 12 0.23
27 20 0.38
28 18 0.34
29 3 0.06
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.54
Consensus pattern (26 bp):
ATGCATTTTTTTTATATAATATATAT
Found at i:27118365 original size:18 final size:18
Alignment explanation
Indices: 27118342--27118390 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
27118332 AATCGTGTCG
27118342 TTCATTTTCAAAACATTA
1 TTCATTTTCAAAACATTA
* * *
27118360 TTCATTTACAAATCGTTA
1 TTCATTTTCAAAACATTA
*
27118378 TTCAATTTCAAAA
1 TTCATTTTCAAAA
27118391 AGTTTTTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (18 bp):
TTCATTTTCAAAACATTA
Found at i:27128069 original size:85 final size:84
Alignment explanation
Indices: 27127867--27128125 Score: 286
Period size: 85 Copynumber: 3.0 Consensus size: 84
27127857 TAAAAGTAAA
* * * * * * *
27127867 TAAAATCCATTTCGGGATTAATTCCCGCCGTTCAATGGATTTTAATCCATTATTTTGATTTTATT
1 TAAAATTCGTTTCGAGATTTATTCCCACCGTTCAACGGATTTTAATCTATTATTTTGATTTTATT
*
27127932 GCCAAGAGGGAAATTAAAGG
66 TCCAA-AGGGAAATTAAAGG
*
27127952 TAAAATTCGTTTCGAGATTTATTCCCACCGTTCAACGGATTGTAATCTATTATTTTGATTTTATT
1 TAAAATTCGTTTCGAGATTTATTCCCACCGTTCAACGGATTTTAATCTATTATTTTGATTTTATT
27128017 TCCAAATGGGAAATTAAAGG
66 TCCAAA-GGGAAATTAAAGG
* ***** ** * *
27128037 TAAAA-TCTGTTTCGGGATTTATTTTTGTCGTTCAACAAATTTTATTCTATTATTTTTATTTTAT
1 TAAAATTC-GTTTCGAGATTTATTCCCACCGTTCAACGGATTTTAATCTATTATTTTGATTTTAT
* *
27128101 TTCCAAACAGGAAAGTAAAGG
65 TTCCAAA-GGGAAATTAAAGG
27128122 TAAA
1 TAAA
27128126 TAAAATCCAT
Statistics
Matches: 149, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
84 3 0.02
85 146 0.98
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (84 bp):
TAAAATTCGTTTCGAGATTTATTCCCACCGTTCAACGGATTTTAATCTATTATTTTGATTTTATT
TCCAAAGGGAAATTAAAGG
Found at i:27128355 original size:78 final size:77
Alignment explanation
Indices: 27128121--27128355 Score: 269
Period size: 78 Copynumber: 3.0 Consensus size: 77
27128111 GAAAGTAAAG
* ** ** *
27128121 GTAAATAAAATCCATTTTGTCATTGATTCCTACCATTCAACGATTTTATTCCAA-TTT-TTTTAT
1 GTAAATAAAATCCGTTTTGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAATTTTGTTTTAT
* *
27128184 TTCCAAAAGCAA
66 TTCCAAAAACGA
* ** * *
27128196 GTAAAATAAAATCTGTTTCAGGATTGATTCCCGCCGTTCAA-TATTTTTATTTCAAATTTTGTTT
1 GT-AAATAAAATCCGTTTTGGGATTGATTCCCGCCGTTCAACGA-TTTTA-TTCCAATTTTGTTT
*
27128260 TATTTCCAAAAATGA
63 TATTTCCAAAAACGA
*
27128275 GTAAATAAAATCCGTTTTGGGATTGATTCCCGTCGTTCAACGATTTTATTCCAATTTTGATTTTA
1 GTAAATAAAATCCGTTTTGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAATTTTG-TTTTA
*
27128340 TTTCCAAAACCGA
65 TTTCCAAAAACGA
27128353 GTA
1 GTA
27128356 TTAAAAATAA
Statistics
Matches: 131, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
75 3 0.02
76 34 0.26
77 15 0.11
78 61 0.47
79 18 0.14
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (77 bp):
GTAAATAAAATCCGTTTTGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAATTTTGTTTTAT
TTCCAAAAACGA
Found at i:27128535 original size:84 final size:84
Alignment explanation
Indices: 27128363--27128668 Score: 324
Period size: 84 Copynumber: 3.7 Consensus size: 84
27128353 GTATTAAAAA
* * * **
27128363 TAAATTAAAATCTATTACGAGATTTATTCTCGTCGTTCAAC-AGA-TTTATTACATTTTGATTTT
1 TAAA-TAAAATCTATTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTTTG-TTTT
*
27128426 GTTGCTAAA--A-AATGAGAAAT
64 GTTTCTAAATTAGAAT-AG-AAT
* * *
27128446 TAAATAAAATCTGTTTCAAGATTTATTCTCGCCATTTAACAAGATTTTATTTGATTTTGTTTTGT
1 TAAATAAAATCTATTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTTTGTTTTGT
27128511 TTCTAAATTAGAATAGAAT
66 TTCTAAATTAGAATAGAAT
* * * *
27128530 TAAATAAAATTTGTTTCGGGATTTATT-TCCGCCGTTTAACAAGATTTTATTTGATTTTATTTTG
1 TAAATAAAATCTATTTCGAGATTTATTCT-CGCCGTTTAACAAGATTTTATTTGATTTTGTTTTG
* *
27128594 TTTCCAAATTCGAATTA-AAT
65 TTTCTAAATTAGAA-TAGAAT
* * * *
27128614 TAAATAAAATCTATTTCGAGATTTATTCCCACCGTTTAA-TAGATTTT-TTTTATTT
1 TAAATAAAATCTATTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTT
27128669 AATGATATAA
Statistics
Matches: 192, Mismatches: 23, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
82 37 0.19
83 27 0.14
84 120 0.62
85 5 0.03
86 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (84 bp):
TAAATAAAATCTATTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTTTGTTTTGT
TTCTAAATTAGAATAGAAT
Found at i:27141567 original size:328 final size:327
Alignment explanation
Indices: 27140967--27141602 Score: 930
Period size: 328 Copynumber: 1.9 Consensus size: 327
27140957 GTTATAGTTT
*
27140967 AACTAAACTTACATTACATATTTAAATAAATAATTTATGACATTATTTTTATCAAATAAAATATT
1 AACTAAACTTACATTACATATTTAAATAAATAATTTATGACAATATTTTTATCAAATAAAATATT
* *
27141032 GAATTATAAAATATATAAAAAAATTATAAATTGTTTAAATTTATTTATGAAATCAATTATCAAAT
66 GAATTACAAAATATATAAAAAAATTATAAATTATTTAAATTTATTTATGAAATCAATTATCAAAT
* ** *
27141097 TTAATTTATACAAAAAATTAAAATAATTATAAAATATTTTAATTGATATATACAATTTAAACTTG
131 TTAATTTATACAAAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAATCCAAAC-TA
*
27141162 TAAAACAAGTAAAAAATAAAATAAAAATCTTTGGTTAAACTGGAAAACCAAGAAAAAGAATAACA
195 TAAAACAAGTAAAAAATAAAATAAAAATCTTTGGTCAAACTGGAAAACCAAGAAAAAGAATAACA
* * * *
27141227 TATGTTTTGATAGAAAGCTTACGTGAGGCATGACGTTTAGTTGGACAATTATGCCGTGGTATGTG
260 CATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAATTATGCCGTGGTATGTG
27141292 TTC
325 TTC
*
27141295 AACTAAACTTACATTACATATTTAAATAAATAATTTATGATAATATTTTTATCAAATAAAATATT
1 AACTAAACTTACATTACATATTTAAATAAATAATTTATGACAATATTTTTATCAAATAAAATATT
* * *
27141360 GAATTACAAGATATA-AAAAAAGTTATAAATTATTTAAATTTATTTAT-AATATGAATTATCAAA
66 GAATTACAAAATATATAAAAAAATTATAAATTATTTAAATTTATTTATGAA-ATCAATTATCAAA
*
27141423 TTTATTTTATAC-AAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAA-CCAAA-TA
130 TTTAATTTATACAAAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAATCCAAACTA
* * *
27141485 TACATATTGCCGAA-T-AAAAATATAA-AAAAATCTGCTTGGTCAAATTGGAAAACCAAGAAAAA
195 TA-A-A---AC-AAGTAAAAAATAAAATAAAAATCT--TTGGTCAAACTGGAAAACCAAGAAAAA
27141547 GAAT-ACTACATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAA
252 GAATAAC-ACATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAA
27141603 CTATAATGTG
Statistics
Matches: 278, Mismatches: 20, Indels: 20
0.87 0.06 0.06
Matches are distributed among these distances:
323 3 0.01
324 1 0.00
325 4 0.01
326 52 0.19
327 64 0.23
328 152 0.55
329 2 0.01
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.35
Consensus pattern (327 bp):
AACTAAACTTACATTACATATTTAAATAAATAATTTATGACAATATTTTTATCAAATAAAATATT
GAATTACAAAATATATAAAAAAATTATAAATTATTTAAATTTATTTATGAAATCAATTATCAAAT
TTAATTTATACAAAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAATCCAAACTAT
AAAACAAGTAAAAAATAAAATAAAAATCTTTGGTCAAACTGGAAAACCAAGAAAAAGAATAACAC
ATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAATTATGCCGTGGTATGTGT
TC
Found at i:27146816 original size:24 final size:24
Alignment explanation
Indices: 27146758--27146818 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
27146748 CATATGAACG
*
27146758 AGTAA-AAAAATGAAAACGTGAATAA
1 AGTAATAAAAAT--AAACGTGAACAA
*
27146783 A-TAATCAAAATAAACGTGAACAA
1 AGTAATAAAAATAAACGTGAACAA
27146806 AGTAATAAAAATA
1 AGTAATAAAAATA
27146819 TAAAAACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 12 0.39
24 13 0.42
25 6 0.19
ACGTcount: A:0.64, C:0.07, G:0.11, T:0.18
Consensus pattern (24 bp):
AGTAATAAAAATAAACGTGAACAA
Found at i:27148833 original size:132 final size:132
Alignment explanation
Indices: 27148673--27149165 Score: 754
Period size: 132 Copynumber: 3.7 Consensus size: 132
27148663 CTATACTACA
* * *
27148673 TTGGGAAGATAAGATTCATCATCTTCGATCTGCTCCACTACTACTCAGGGAGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
* *
27148738 T-TTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACT
66 TCTTT-GACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
27148802 ATC
130 ATC
* * * * *
27148805 TTGGGAAGATAAGCTTCACCATTTTCGATCTGCTCCACTATTGCTTAGGGAGATAGAATCTACAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
* * *
27148870 TCTTTGACCTATTCCACTACTGCTTATGGAGATAGGACTAATGGCTTAAATATGCTTCTCCACTA
66 TCTTTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
27148935 TC
131 TC
* * *
27148937 TTGGGAAGATAAGATTCACCATCCTCGATCTGCTCCACTATTGCTTAGGGAGACAGAATCTGTAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
* * * *
27149002 TCTTTGACTTATTCCACTATTGCTTAGGGAGATAGGACTAATGGCTTAAATCTTCTTCTCCACTA
66 TCTTTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
27149067 TC
131 TC
* * *
27149069 TTGGGAAGATAAGATTCACCATCTTTGATCTGCTCTACTACTGCTTAGGGAAACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
*
27149134 TCTTTGACCTACTCCACTATTGCTTAGGGAGA
66 TCTTTGACCTACTCCACTACTGCTTAGGGAGA
27149166 CAGAATCTGC
Statistics
Matches: 328, Mismatches: 32, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
132 325 0.99
133 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (132 bp):
TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
TCTTTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
TC
Found at i:27148886 original size:44 final size:44
Alignment explanation
Indices: 27148837--27149212 Score: 179
Period size: 44 Copynumber: 8.5 Consensus size: 44
27148827 TTTCGATCTG
27148837 CTCCACTATTGCTTAGGGAGATAGAATCTACAATCTTTGACCTA
1 CTCCACTATTGCTTAGGGAGATAGAATCTACAATCTTTGACCTA
* * * * * *
27148881 TTCCACTACTGCTTATGGAGATAGGA-CT--AATGGCTTAAAT-ATGCTT
1 CTCCACTATTGCTTAGGGAGATAGAATCTACAAT--CTT---TGA-CCTA
* * * * * *
27148927 CTCCACTA-T-CTT-GGGAAGATAAGATTC-ACCATCCTCGATCTG
1 CTCCACTATTGCTTAGGG-AGAT-AGAATCTACAATCTTTGACCTA
* ** *
27148969 CTCCACTATTGCTTAGGGAGACAGAATCTGTAATCTTTGACTTA
1 CTCCACTATTGCTTAGGGAGATAGAATCTACAATCTTTGACCTA
* * ** *
27149013 TTCCACTATTGCTTAGGGAGATAGGA-CT--AATGGCTTAAATCTTCTT
1 CTCCACTATTGCTTAGGGAGATAGAATCTACAAT--CTTTGA-C--CTA
* * * *
27149059 CTCCACTA-T-CTT-GGGAAGATAAGATTC-ACCATCTTTGATCTG
1 CTCCACTATTGCTTAGGG-AGAT-AGAATCTACAATCTTTGACCTA
* * * * *
27149101 CTCTACTACTGCTTAGGGAAACAGAATCTGCAATCTTTGACCTA
1 CTCCACTATTGCTTAGGGAGATAGAATCTACAATCTTTGACCTA
* * **
27149145 CTCCACTATTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
1 CTCCACTATTGCTTAGGGAGATAGAATCTACAATCTTTGACCTA
* * *
27149189 CTCCGCTACTACTTAGGGAGATAG
1 CTCCACTATTGCTTAGGGAGATAG
27149213 GATTGGTTTC
Statistics
Matches: 245, Mismatches: 57, Indels: 60
0.68 0.16 0.17
Matches are distributed among these distances:
41 6 0.02
42 19 0.08
43 29 0.12
44 148 0.60
45 19 0.08
46 20 0.08
47 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
CTCCACTATTGCTTAGGGAGATAGAATCTACAATCTTTGACCTA
Found at i:27149313 original size:51 final size:51
Alignment explanation
Indices: 27149254--27149533 Score: 203
Period size: 51 Copynumber: 5.5 Consensus size: 51
27149244 GTTGGGGAAG
* *
27149254 TAAGATTCGTCATCGTAGCTTCAATCTATTCCACTATACCACCAAGGAAAA
1 TAAGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCACCAAGGAAAA
* * * * * * * * * *
27149305 TAAGATTCGCCATCGTGGCCTCAATCT-TT-TAGTTTGCAATGTC-GGGGAAG
1 TAAGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCA--CCAAGGAAAA
* * * *
27149355 TGAGATTCGCCGTCATAGCTTCAATCTATTCCACTATACCACCAAGGAAAA
1 TAAGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCACCAAGGAAAA
* * * * * * * * * *
27149406 TAAGATTCGCCATCGTGGCCTCAATCT-TT-TAGTTTGCAATGTC-GGGGAAG
1 TAAGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCA--CCAAGGAAAA
* * * *
27149456 TGAGATTCGCCGTCATAGCTTCAATCTATTCCACTATACCACCAAGGAAAA
1 TAAGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCACCAAGGAAAA
*
27149507 TAAGATTCGCCATCGTGGCCTCAATCT
1 TAAGATTCGCCATCGTAGCCTCAATCT
27149534 TTTAGTTTGC
Statistics
Matches: 160, Mismatches: 59, Indels: 20
0.67 0.25 0.08
Matches are distributed among these distances:
49 10 0.06
50 58 0.36
51 82 0.51
52 10 0.06
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (51 bp):
TAAGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCACCAAGGAAAA
Done.