Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 89 of 182
Found at i:26869357 original size:44 final size:44
Alignment explanation
Indices: 26869264--26869421 Score: 207
Period size: 44 Copynumber: 3.7 Consensus size: 44
26869254 TGCTACTTTT
* * *
26869264 AACCTACTCCACTGCT-ACTCACGGAGATATGATT---AATCTTC
1 AACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTC
26869305 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTC
26869349 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTC
* * * * *
26869393 AGCCTATTCCATTGTTGTCTAGGGAGATA
1 AACCTATTCCACTGCTGACCAGGGAGATA
26869422 TGGCTGGGGT
Statistics
Matches: 105, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
41 28 0.27
42 2 0.02
44 75 0.71
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTC
Found at i:26871831 original size:25 final size:25
Alignment explanation
Indices: 26871781--26871840 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
26871771 AAGAAAATCC
* *
26871781 AAAAGAATGAAAGAATAATTATTAA
1 AAAAGAATGAAAAAATAATTACTAA
*
26871806 AAAAGAATGAAAAAAT-ATTGGCTAA
1 AAAAGAATGAAAAAATAATT-ACTAA
26871831 AAAATGAATG
1 AAAA-GAATG
26871841 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.10
25 22 0.73
26 5 0.17
ACGTcount: A:0.62, C:0.02, G:0.15, T:0.22
Consensus pattern (25 bp):
AAAAGAATGAAAAAATAATTACTAA
Found at i:26876262 original size:17 final size:17
Alignment explanation
Indices: 26876242--26876276 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
26876232 GAAATAAAAA
*
26876242 AAAATGTATATGTATAT
1 AAAATGTAAATGTATAT
26876259 AAAATGTAAATGTATAT
1 AAAATGTAAATGTATAT
26876276 A
1 A
26876277 TATGTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (17 bp):
AAAATGTAAATGTATAT
Found at i:26876414 original size:3 final size:3
Alignment explanation
Indices: 26876408--26876461 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
26876398 TATGCGTATG
26876408 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
26876456 TAA TAA
1 TAA TAA
26876462 ATTGGGACTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:26880839 original size:16 final size:16
Alignment explanation
Indices: 26880820--26880867 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
26880810 TGATTACGAT
* *
26880820 TTTATTCGATTACAGC
1 TTTATTCAATTACAAC
26880836 TTTATTCAATTACAAC
1 TTTATTCAATTACAAC
* *
26880852 TCTATTCCATTACAAC
1 TTTATTCAATTACAAC
26880868 CCTATCTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (16 bp):
TTTATTCAATTACAAC
Found at i:26880878 original size:16 final size:16
Alignment explanation
Indices: 26880838--26880872 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
26880828 ATTACAGCTT
* *
26880838 TATTCAATTACAACTC
1 TATTCCATTACAACCC
26880854 TATTCCATTACAACCC
1 TATTCCATTACAACCC
26880870 TAT
1 TAT
26880873 CTCATTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (16 bp):
TATTCCATTACAACCC
Found at i:26884672 original size:17 final size:17
Alignment explanation
Indices: 26884647--26884685 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
26884637 ATTAATAATT
* *
26884647 TAAATTTTATATTTGCA
1 TAAAATTTACATTTGCA
*
26884664 TAAAATTTACATTTTCA
1 TAAAATTTACATTTGCA
26884681 TAAAA
1 TAAAA
26884686 ATATATTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (17 bp):
TAAAATTTACATTTGCA
Found at i:26885473 original size:25 final size:27
Alignment explanation
Indices: 26885442--26885499 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
26885432 TTAAGTTAAT
26885442 ATTATAA-T-TATATATAATTGTCTTA
1 ATTATAATTATATATATAATTGTCTTA
26885467 ATTATAATTAAATATATATAATTGTCTTA
1 ATTATAATT--ATATATATAATTGTCTTA
26885496 ATTA
1 ATTA
26885500 AGTTAATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.24
26 1 0.03
29 21 0.72
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (27 bp):
ATTATAATTATATATATAATTGTCTTA
Found at i:26885887 original size:20 final size:20
Alignment explanation
Indices: 26885845--26885880 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26885835 AGGTAAAATA
26885845 AATCAAAGATTAAGTTAATT
1 AATCAAAGATTAAGTTAATT
26885865 AATCAAAG-TTAA-TTAA
1 AATCAAAGATTAAGTTAA
26885881 GATTAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.25
19 4 0.25
20 8 0.50
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (20 bp):
AATCAAAGATTAAGTTAATT
Found at i:26888620 original size:26 final size:26
Alignment explanation
Indices: 26888591--26888649 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
26888581 TACCCCTAGC
*
26888591 AAAATTTTGATGATTTTACCTC-TGGT
1 AAAATTTTGATCATTTT-CCTCTTGGT
*
26888617 AAAATTTTGATCATTTTGCTCTTGGT
1 AAAATTTTGATCATTTTCCTCTTGGT
26888643 AAAATTT
1 AAAATTT
26888650 CAAAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 3 0.10
26 27 0.90
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (26 bp):
AAAATTTTGATCATTTTCCTCTTGGT
Found at i:26888797 original size:6 final size:6
Alignment explanation
Indices: 26888782--26888829 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
26888772 GCAAATGGAT
* * *
26888782 CATTTC CATTTT CATTTT CATTTC CATTTC CATTTT CATTTC CATTTC
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
26888830 TAGAAACCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.56
Consensus pattern (6 bp):
CATTTC
Found at i:26888798 original size:12 final size:12
Alignment explanation
Indices: 26888781--26888828 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
26888771 TGCAAATGGA
26888781 TCATTTCCATTT
1 TCATTTCCATTT
*
26888793 TCATTTTCATTT
1 TCATTTCCATTT
*
26888805 CCATTTCCATTT
1 TCATTTCCATTT
26888817 TCATTTCCATTT
1 TCATTTCCATTT
26888829 CTAGAAACCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.17, C:0.25, G:0.00, T:0.58
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:26888804 original size:18 final size:18
Alignment explanation
Indices: 26888781--26888829 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
26888771 TGCAAATGGA
*
26888781 TCATTTCCATTTTCATTT
1 TCATTTCCATTTCCATTT
26888799 TCATTTCCATTTCCATTT
1 TCATTTCCATTTCCATTT
26888817 TCATTTCCATTTC
1 TCATTTCCATTTC
26888830 TAGAAACCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.16, C:0.27, G:0.00, T:0.57
Consensus pattern (18 bp):
TCATTTCCATTTCCATTT
Found at i:26892272 original size:24 final size:25
Alignment explanation
Indices: 26892226--26892272 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
26892216 TGGCTATTAT
* * *
26892226 GAGCTTTCCGTTATATGGTTCTTGC
1 GAGCTTCCCGTTATATAGCTCTTGC
26892251 GAGCTTCCCGTTA-ATAGCTCTT
1 GAGCTTCCCGTTATATAGCTCTT
26892273 CGGAACATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.40
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTGC
Found at i:26892461 original size:24 final size:24
Alignment explanation
Indices: 26892378--26892486 Score: 71
Period size: 24 Copynumber: 4.5 Consensus size: 24
26892368 TAAAGGCTAT
* *
26892378 TTATGAGCTTTTTGATTAATGGCTC
1 TTATGAGCTTCTCGATT-ATGGCTC
*
26892403 TTCA-GAGCTTCCCGA-TATTGGCTC
1 TT-ATGAGCTTCTCGATTA-TGGCTC
* *
26892427 GTT-TGAACTTCTCGATTATGGTTC
1 -TTATGAGCTTCTCGATTATGGCTC
* *
26892451 TTATGAGCTTCCCGTTATATGGCTC
1 TTATGAGCTTCTCGAT-TATGGCTC
**
26892476 ACATGAGCTTC
1 TTATGAGCTTC
26892487 CAGATTACCT
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
23 3 0.05
24 31 0.48
25 30 0.46
26 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.40
Consensus pattern (24 bp):
TTATGAGCTTCTCGATTATGGCTC
Found at i:26899641 original size:27 final size:27
Alignment explanation
Indices: 26899591--26899657 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 27
26899581 CCCGTTATAT
*
26899591 GGCT-TTTCAGAGCTTCTCGGTTAA-A
1 GGCTCTTTCAGAGCTTCTCGATTAATA
26899616 GGCTCTTTCATGAGCTTC-CTGATTAATA
1 GGCTCTTTCA-GAGCTTCTC-GATTAATA
*
26899644 -GCTC-TTCGGAGCTT
1 GGCTCTTTCAGAGCTT
26899658 GCCAATATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
25 10 0.28
26 9 0.25
27 16 0.44
28 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
GGCTCTTTCAGAGCTTCTCGATTAATA
Found at i:26899719 original size:25 final size:25
Alignment explanation
Indices: 26899689--26899736 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
26899679 CATCCCGATT
* *
26899689 ATGGCTCTCATGAGCTTTCCATTAC
1 ATGGCTCACATGAGCTTCCCATTAC
26899714 ATGGCTCACATGAGCTTCCCATT
1 ATGGCTCACATGAGCTTCCCATT
26899737 TATGTGCTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (25 bp):
ATGGCTCACATGAGCTTCCCATTAC
Found at i:26899745 original size:25 final size:24
Alignment explanation
Indices: 26899687--26899745 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
26899677 AACATCCCGA
* *
26899687 TTATGGCTCTCATGAGCTTTCCAT
1 TTATGGCTCACATGAGCTTCCCAT
*
26899711 TACATGGCTCACATGAGCTTCCCAT
1 T-TATGGCTCACATGAGCTTCCCAT
26899736 TTATGTGCTC
1 TTATG-GCTC
26899746 GTATGAGCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (24 bp):
TTATGGCTCACATGAGCTTCCCAT
Found at i:26905761 original size:38 final size:38
Alignment explanation
Indices: 26905710--26905816 Score: 126
Period size: 38 Copynumber: 2.8 Consensus size: 38
26905700 GTTTACACGA
* *
26905710 TGTCACCCTGAATGACTAGTAGATAACCGTTGTCACAG
1 TGTCACCCTGAATGACCAGTAGATAACCATTGTCACAG
*
26905748 TGTCA-CCTCGAATGACCAGTAGATAACCATTGTCACGG
1 TGTCACCCT-GAATGACCAGTAGATAACCATTGTCACAG
** * * *
26905786 TGTTGCCCTGAAAGACCAGAAGATAATCATT
1 TGTCACCCTGAATGACCAGTAGATAACCATT
26905817 CCACAATGCT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
37 3 0.05
38 53 0.90
39 3 0.05
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (38 bp):
TGTCACCCTGAATGACCAGTAGATAACCATTGTCACAG
Found at i:26916142 original size:30 final size:30
Alignment explanation
Indices: 26916106--26916208 Score: 172
Period size: 30 Copynumber: 3.4 Consensus size: 30
26916096 ATTGTATAAA
26916106 GTATGATATGTAATTGAAAATGATTAGAAG
1 GTATGATATGTAATTGAAAATGATTAGAAG
*
26916136 GTATGATATGTAATTGGAAATGATTAGAAG
1 GTATGATATGTAATTGAAAATGATTAGAAG
*
26916166 GTATGATATGTAATT-AGAAATTATTAGAAG
1 GTATGATATGTAATTGA-AAATGATTAGAAG
26916196 GTATGATATGTAA
1 GTATGATATGTAA
26916209 CTATGAATGA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (30 bp):
GTATGATATGTAATTGAAAATGATTAGAAG
Found at i:26916750 original size:2 final size:2
Alignment explanation
Indices: 26916743--26916767 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26916733 TGATACTCTT
26916743 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
26916768 GTTATAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26917804 original size:14 final size:14
Alignment explanation
Indices: 26917785--26917824 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
26917775 TTGATTGCCA
26917785 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
26917799 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
26917813 GGAAAATGTTTT
1 GTAAAATGTTTT
26917825 ACTTTTCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:26919009 original size:30 final size:30
Alignment explanation
Indices: 26918973--26919030 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
26918963 GACCATGCCA
26918973 GTCATAGCAAATTGGTACTTATGGTCTTAT
1 GTCATAGCAAATTGGTACTTATGGTCTTAT
26919003 GTCATAGCAAATTGGTACTTATGGTCTT
1 GTCATAGCAAATTGGTACTTATGGTCTT
26919031 GTACAAATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (30 bp):
GTCATAGCAAATTGGTACTTATGGTCTTAT
Found at i:26920504 original size:13 final size:13
Alignment explanation
Indices: 26920488--26920533 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
26920478 GGGGTAGAGA
*
26920488 AAAGGGGTAGGGG
1 AAAGGGGAAGGGG
*
26920501 AAA-GGGAAGGAG
1 AAAGGGGAAGGGG
26920513 -AAGGGGAAAGGGG
1 AAAGGGG-AAGGGG
26920526 AAAGGGGA
1 AAAGGGGA
26920534 GAAGAATGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
11 2 0.07
12 10 0.37
13 9 0.33
14 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.57, T:0.02
Consensus pattern (13 bp):
AAAGGGGAAGGGG
Found at i:26920523 original size:31 final size:31
Alignment explanation
Indices: 26920467--26920525 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
26920457 GCTTCGAAAC
* *
26920467 GGGAAAGGGAAGGGGTAGAGAAAAGGGGTAG
1 GGGAAAGGGAAGGAGAAGAGAAAAGGGGTAG
* *
26920498 GGGAAAGGGAAGGAGAAGGGGAAAGGGG
1 GGGAAAGGGAAGGAGAAGAGAAAAGGGG
26920526 AAAGGGGAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.58, T:0.03
Consensus pattern (31 bp):
GGGAAAGGGAAGGAGAAGAGAAAAGGGGTAG
Found at i:26920539 original size:25 final size:25
Alignment explanation
Indices: 26920467--26920539 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
26920457 GCTTCGAAAC
*
26920467 GGGAAA-GGG-AAGGGGTAGAGAAAAG
1 GGGAAAGGGGAAAGGGG-AGA-AGAAG
* * *
26920492 GGG-TAGGGGAAAGGGAAGGAGAAG
1 GGGAAAGGGGAAAGGGGAGAAGAAG
26920516 GGGAAAGGGGAAAGGGGAGAAGAA
1 GGGAAAGGGGAAAGGGGAGAAGAA
26920540 TGGGTCATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
24 8 0.21
25 25 0.66
26 5 0.13
ACGTcount: A:0.42, C:0.00, G:0.55, T:0.03
Consensus pattern (25 bp):
GGGAAAGGGGAAAGGGGAGAAGAAG
Found at i:26924098 original size:28 final size:28
Alignment explanation
Indices: 26924056--26924119 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
26924046 TTTTATCCTG
* * * *
26924056 AACCCTAAATCTAGAATCCCATACCCTA
1 AACCCAAAATCTAGAACCCCAAACCATA
*
26924084 AACCCAAAATTTAGAACCCCAAACCATA
1 AACCCAAAATCTAGAACCCCAAACCATA
26924112 AA-CCAAAA
1 AACCCAAAA
26924120 CCCGTAACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.48, C:0.33, G:0.03, T:0.16
Consensus pattern (28 bp):
AACCCAAAATCTAGAACCCCAAACCATA
Found at i:26924184 original size:21 final size:21
Alignment explanation
Indices: 26924139--26924186 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
26924129 ATGAATCCTT
26924139 AAACCC-AAACTTAAAACCTC
1 AAACCCTAAACTTAAAACCTC
* *
26924159 GAACCCTAAACCTT-AAATCTC
1 AAACCCTAAA-CTTAAAACCTC
26924180 AAACCCT
1 AAACCCT
26924187 GAATCTCGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 5 0.22
21 15 0.65
22 3 0.13
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (21 bp):
AAACCCTAAACTTAAAACCTC
Found at i:26929899 original size:20 final size:19
Alignment explanation
Indices: 26929874--26929919 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
26929864 ATAAAAATAG
*
26929874 TAAAAATAGTAAATATTATT
1 TAAAAATAAT-AATATTATT
* *
26929894 TAAAAATAATATTTTTATT
1 TAAAAATAATAATATTATT
26929913 TAAAAAT
1 TAAAAAT
26929920 TAATTAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TAAAAATAATAATATTATT
Found at i:26929957 original size:29 final size:31
Alignment explanation
Indices: 26929883--26929961 Score: 110
Period size: 30 Copynumber: 2.6 Consensus size: 31
26929873 GTAAAAATAG
* *
26929883 TAAATATTATTTAA-AAATAATATTTTTATT
1 TAAAAATTATTTAATAATTAATATTTTTATT
*
26929913 TAAAAATTAATTAATAATTAATATTTTTA-T
1 TAAAAATTATTTAATAATTAATATTTTTATT
26929943 TAAAAA-TATTTAATAATTA
1 TAAAAATTATTTAATAATTA
26929962 TTGTAAACTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 12 0.27
30 19 0.43
31 13 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
TAAAAATTATTTAATAATTAATATTTTTATT
Found at i:26929997 original size:29 final size:29
Alignment explanation
Indices: 26929908--26929997 Score: 67
Period size: 32 Copynumber: 3.0 Consensus size: 29
26929898 AATAATATTT
* * *
26929908 TTATTTAAAAATTAAT-TAATAATTAATAT
1 TTATTTAAAAATTAATAAAATTATTAA-AC
* *
26929937 TTTTATTAAAAA-TATTTAATAATTATTGTAAAC
1 TTAT-TTAAAAATTA-ATAA-AATTA-T-TAAAC
26929970 TTATTTAAAAATTAATAAAATTATTAAA
1 TTATTTAAAAATTAATAAAATTATTAAA
26929998 AAGTTGTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
29 9 0.19
30 9 0.19
31 5 0.11
32 14 0.30
33 7 0.15
34 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
TTATTTAAAAATTAATAAAATTATTAAAC
Found at i:26931085 original size:5 final size:5
Alignment explanation
Indices: 26931075--26931105 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
26931065 TTTTCTTCAA
26931075 TCTGC TCTGC TCTGC TCTGC TCTGC TCTGC T
1 TCTGC TCTGC TCTGC TCTGC TCTGC TCTGC T
26931106 TTATGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.39, G:0.19, T:0.42
Consensus pattern (5 bp):
TCTGC
Found at i:26932071 original size:23 final size:24
Alignment explanation
Indices: 26932035--26932079 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
26932025 ATATATTACT
*
26932035 ATTTTGAAATAAAAAATATGTAAA
1 ATTTTCAAATAAAAAATATGTAAA
*
26932059 ATTTTCAAA-AAAAAATTTGTA
1 ATTTTCAAATAAAAAATATGTA
26932080 GATTACTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (24 bp):
ATTTTCAAATAAAAAATATGTAAA
Found at i:26932236 original size:19 final size:19
Alignment explanation
Indices: 26932197--26932269 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
26932187 TTTTTAGTTC
* **
26932197 TTTTATATATTTATATTTT
1 TTTTATAAATTTATAAATT
26932216 TTTTATAAATTTATAAA-T
1 TTTTATAAATTTATAAATT
***
26932234 TTTTAGTTCTTTTATAATATT
1 TTTTA-TAAATTTATAA-ATT
26932255 TTTTATAAATTTATA
1 TTTTATAAATTTATA
26932270 TTTTATAGAT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
18 6 0.14
19 22 0.52
20 8 0.19
21 6 0.14
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTATAAATTTATAAATT
Found at i:26932275 original size:15 final size:16
Alignment explanation
Indices: 26932250--26932287 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
26932240 TTCTTTTATA
*
26932250 ATATTTTTTATAAATT
1 ATATATTTTATAAATT
*
26932266 -TATATTTTATAGATT
1 ATATATTTTATAAATT
26932281 ATATATT
1 ATATATT
26932288 ACAACTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
ATATATTTTATAAATT
Found at i:26932358 original size:16 final size:16
Alignment explanation
Indices: 26932328--26932408 Score: 69
Period size: 16 Copynumber: 5.0 Consensus size: 16
26932318 ACTATAGGCT
**
26932328 TTTTATATAAGTTTAA
1 TTTTATATATTTTTAA
*
26932344 TTTTATATACTTTTATA
1 TTTTATATATTTTTA-A
26932361 TTTT-TATATTTTTATAA
1 TTTTATATA-TTTT-TAA
*
26932378 ATTTATA-A-TTTTATA
1 TTTTATATATTTTTA-A
26932393 TTTTATATATTTTTAA
1 TTTTATATATTTTTAA
26932409 AATAATAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
14 2 0.04
15 10 0.19
16 19 0.36
17 18 0.34
18 4 0.08
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (16 bp):
TTTTATATATTTTTAA
Found at i:26932365 original size:8 final size:8
Alignment explanation
Indices: 26932339--26932407 Score: 77
Period size: 8 Copynumber: 8.5 Consensus size: 8
26932329 TTTATATAAG
26932339 TTTA-ATT
1 TTTATATT
*
26932346 TTATATACT
1 TT-TATATT
26932355 TTTATATT
1 TTTATATT
26932363 TTTATATT
1 TTTATATT
**
26932371 TTTATAAA
1 TTTATATT
*
26932379 TTTATAAT
1 TTTATATT
26932387 TTTATATT
1 TTTATATT
26932395 TTATATATT
1 TT-TATATT
26932404 TTTA
1 TTTA
26932408 AAATAATAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
7 2 0.04
8 39 0.74
9 12 0.23
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTATATT
Found at i:26932366 original size:24 final size:25
Alignment explanation
Indices: 26932333--26932407 Score: 91
Period size: 24 Copynumber: 3.1 Consensus size: 25
26932323 AGGCTTTTTA
* *
26932333 TATAAGTTTA-ATTTTATATACTTT
1 TATAATTTTATATTTTATATAATTT
* *
26932357 TATATTTTTATATTTT-TATAAATT
1 TATAATTTTATATTTTATATAATTT
*
26932381 TATAATTTTATATTTTATATATTTT
1 TATAATTTTATATTTTATATAATTT
26932406 TA
1 TA
26932408 AAATAATAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 29 0.69
25 13 0.31
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (25 bp):
TATAATTTTATATTTTATATAATTT
Found at i:26932395 original size:32 final size:32
Alignment explanation
Indices: 26932349--26932411 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
26932339 TTTAATTTTA
*
26932349 TATACTTTTATATTTT-TATATTTTTATAAATT
1 TATAATTTTATATTTTATATATTTTTA-AAATT
26932381 TATAATTTTATATTTTATATATTTTTAAAAT
1 TATAATTTTATATTTTATATATTTTTAAAAT
26932412 AATAATAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (32 bp):
TATAATTTTATATTTTATATATTTTTAAAATT
Found at i:26935630 original size:307 final size:307
Alignment explanation
Indices: 26935076--26935688 Score: 1154
Period size: 307 Copynumber: 2.0 Consensus size: 307
26935066 GCTCATATGA
*
26935076 GTATTCAAAATAAGGTTTCACGGCTGTGTCGCAGACTTTGTACCAGACCATACGTGTATTCGAAA
1 GTATTCAAAATAAGGTTTCACGGCTGTGTCGCAGACTATGTACCAGACCATACGTGTATTCGAAA
26935141 TAAAGTTACACGACCGTATAACACAACCTTATGCCGTGTGAAAAATCTTGGACTTAAAATCAAGA
66 TAAAGTTACACGACCGTATAACACAACCTTATGCCGTGTGAAAAATCTTGGACTTAAAATCAAGA
26935206 AAACACACAACCGTGTAAGGAGGCCGTGTGTGGCACACGGCCAGGTGACAGCCTATGTCCCAGGC
131 AAACACACAACCGTGTAAGGAGGCCGTGTGTGGCACACGGCCAGGTGACAGCCTATGTCCCAGGC
* *
26935271 CGTGTACACCTTAAAAGGCTTTCAAAACAAGGCAAATTTTTAACCAAACCTTAGGTACCAAGCTA
196 CGTGTACACCTTAAAAGGCTTTCAAAACAAGCCAAATTCTTAACCAAACCTTAGGTACCAAGCTA
26935336 ACTTAAAATCAAACATTTCCATATCTTAAAAACATATTCAAATAGGT
261 ACTTAAAATCAAACATTTCCATATCTTAAAAACATATTCAAATAGGT
*
26935383 GTATTCAAAATAATGTTTCACGGCTGTGTCGCAGACTATGTACCAGACCATACGTGTATTCGAAA
1 GTATTCAAAATAAGGTTTCACGGCTGTGTCGCAGACTATGTACCAGACCATACGTGTATTCGAAA
*
26935448 TAAAGTTACATGACCGTATAACACAACCTTATGCCGTGTGAAAAATCTTGGACTTAAAATCAAGA
66 TAAAGTTACACGACCGTATAACACAACCTTATGCCGTGTGAAAAATCTTGGACTTAAAATCAAGA
* *
26935513 AAACACACAACCGTGTGAGGAGGCCGTGTGTGGCACACGGCCGGGTGACAGCCTATGTCCCAGGC
131 AAACACACAACCGTGTAAGGAGGCCGTGTGTGGCACACGGCCAGGTGACAGCCTATGTCCCAGGC
*
26935578 CGTGTACACCTTAAAAGGCTTTCAAAACAAGCCAAATTCTTAATCAAACCTTAGGTACCAAGCTA
196 CGTGTACACCTTAAAAGGCTTTCAAAACAAGCCAAATTCTTAACCAAACCTTAGGTACCAAGCTA
26935643 ACTTAAAATCAAACATTTCCATATCTTAAAAACATATTCAAATAGG
261 ACTTAAAATCAAACATTTCCATATCTTAAAAACATATTCAAATAGG
26935689 CTTAAAACAT
Statistics
Matches: 298, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
307 298 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (307 bp):
GTATTCAAAATAAGGTTTCACGGCTGTGTCGCAGACTATGTACCAGACCATACGTGTATTCGAAA
TAAAGTTACACGACCGTATAACACAACCTTATGCCGTGTGAAAAATCTTGGACTTAAAATCAAGA
AAACACACAACCGTGTAAGGAGGCCGTGTGTGGCACACGGCCAGGTGACAGCCTATGTCCCAGGC
CGTGTACACCTTAAAAGGCTTTCAAAACAAGCCAAATTCTTAACCAAACCTTAGGTACCAAGCTA
ACTTAAAATCAAACATTTCCATATCTTAAAAACATATTCAAATAGGT
Found at i:26943624 original size:51 final size:51
Alignment explanation
Indices: 26943548--26943817 Score: 468
Period size: 51 Copynumber: 5.3 Consensus size: 51
26943538 ACTTCTGATC
*
26943548 AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
26943599 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * *
26943650 AATAACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
26943701 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * * *
26943752 AATAACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGGGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
26943803 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
26943818 ATGTGATCTG
Statistics
Matches: 206, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 206 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:26945278 original size:19 final size:20
Alignment explanation
Indices: 26945254--26945303 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
26945244 GATACTTTTT
26945254 TATCGATATT-TTTAAAAAA
1 TATCGATATTATTTAAAAAA
*
26945273 TATCGATACTTATTTAAAAAT
1 TATCGATA-TTATTTAAAAAA
*
26945294 TATTGATATT
1 TATCGATATT
26945304 CATCTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 8 0.30
20 4 0.15
21 15 0.56
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (20 bp):
TATCGATATTATTTAAAAAA
Found at i:26948852 original size:15 final size:15
Alignment explanation
Indices: 26948832--26948866 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
26948822 TATATATGCC
26948832 ACAATAATAAATACA
1 ACAATAATAAATACA
*
26948847 ACAATAATAAATATA
1 ACAATAATAAATACA
26948862 ACAAT
1 ACAAT
26948867 GGCATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
ACAATAATAAATACA
Found at i:26949127 original size:18 final size:19
Alignment explanation
Indices: 26949106--26949143 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
26949096 ATGTGGAAAG
*
26949106 TGTATATGTGT-TATAAAA
1 TGTATATGTATATATAAAA
26949124 TGTATATGTATATATAAAA
1 TGTATATGTATATATAAAA
26949143 T
1 T
26949144 ATAAAGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (19 bp):
TGTATATGTATATATAAAA
Found at i:26949252 original size:22 final size:21
Alignment explanation
Indices: 26949224--26949266 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
26949214 GAGTTAAAAT
26949224 ATATATATTATATAAAAAATGC
1 ATATATATTATA-AAAAAATGC
26949246 ATATATATTATAAAAAAATGC
1 ATATATATTATAAAAAAATGC
26949267 TTGTATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
ATATATATTATAAAAAAATGC
Found at i:26949279 original size:22 final size:21
Alignment explanation
Indices: 26949224--26949280 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
26949214 GAGTTAAAAT
*
26949224 ATATATATTATATAAAAAATGC
1 ATATATAATATA-AAAAAATGC
*
26949246 ATATATATTATAAAAAAATGC
1 ATATATAATATAAAAAAATGC
* *
26949267 TTGTATAAATATAA
1 ATATAT-AATATAA
26949281 TAATAACAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.37
Consensus pattern (21 bp):
ATATATAATATAAAAAAATGC
Found at i:26949298 original size:21 final size:21
Alignment explanation
Indices: 26949273--26949317 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
26949263 ATGCTTGTAT
26949273 AAAT-ATAATAATAAC-AACAAA
1 AAATAATAA-AATAACTAA-AAA
26949294 AAATAATAAAATAACTAAAAA
1 AAATAATAAAATAACTAAAAA
26949315 AAA
1 AAA
26949318 GGACTAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.18
Consensus pattern (21 bp):
AAATAATAAAATAACTAAAAA
Found at i:26949301 original size:19 final size:19
Alignment explanation
Indices: 26949277--26949315 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26949267 TTGTATAAAT
26949277 ATAATAATAACAAC-AAAAA
1 ATAATAA-AACAACTAAAAA
*
26949296 ATAATAAAATAACTAAAAA
1 ATAATAAAACAACTAAAAA
26949315 A
1 A
26949316 AAGGACTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (19 bp):
ATAATAAAACAACTAAAAA
Found at i:26951746 original size:35 final size:35
Alignment explanation
Indices: 26951707--26951775 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
26951697 ACACTATCAT
* *
26951707 AAATATAATAAATGTTTTATTATATTAAAAATAAA
1 AAATATAAAAAATATTTTATTATATTAAAAATAAA
* *
26951742 AAATATAAAAAATATTTTATTGTATTAAATATAA
1 AAATATAAAAAATATTTTATTATATTAAAAATAA
26951776 TTTTTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (35 bp):
AAATATAAAAAATATTTTATTATATTAAAAATAAA
Found at i:26951943 original size:18 final size:19
Alignment explanation
Indices: 26951906--26951945 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
26951896 ATAAATACAA
*
26951906 ATATATAATTATTATTTAAC
1 ATATATAATTA-TATATAAC
26951926 ATATATAATTA-ATATAAC
1 ATATATAATTATATATAAC
26951944 AT
1 AT
26951946 TTTTTATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATATAATTATATATAAC
Found at i:26952192 original size:18 final size:18
Alignment explanation
Indices: 26952169--26952204 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
26952159 ATAGTTTGAC
26952169 TAAAACCGAATTAACCAA
1 TAAAACCGAATTAACCAA
26952187 TAAAACCGAATTAACCAA
1 TAAAACCGAATTAACCAA
26952205 CCGAACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.06, T:0.17
Consensus pattern (18 bp):
TAAAACCGAATTAACCAA
Found at i:26952519 original size:3 final size:3
Alignment explanation
Indices: 26952506--26952540 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
26952496 CGAAGCAAAT
26952506 AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
26952541 GAACTTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:26953566 original size:12 final size:12
Alignment explanation
Indices: 26953549--26953573 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26953539 GCTACTCTGT
26953549 CATTATTTTCTA
1 CATTATTTTCTA
26953561 CATTATTTTCTA
1 CATTATTTTCTA
26953573 C
1 C
26953574 TAAATTTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (12 bp):
CATTATTTTCTA
Found at i:26957695 original size:22 final size:22
Alignment explanation
Indices: 26957670--26957739 Score: 122
Period size: 22 Copynumber: 3.2 Consensus size: 22
26957660 AAATTCAATA
26957670 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
*
26957692 TCAATTCCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
*
26957714 TCAATTTCCTTCCAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
26957736 TCAA
1 TCAA
26957740 ACTCTCAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.31, C:0.30, G:0.00, T:0.39
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:26957745 original size:30 final size:30
Alignment explanation
Indices: 26957711--26957769 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
26957701 TTCAAAAATT
* *
26957711 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
26957741 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
26957770 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:26957746 original size:52 final size:51
Alignment explanation
Indices: 26957689--26957791 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 51
26957679 TTCAAAAATT
* * *
26957689 CTCTC-AATTCCCTTCAAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATT-CCTTCAAAAATCCTCTCAATTTCCTTCAAAAAATCTC-CAAA
*
26957741 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTCAAATTCCTTCAAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
26957792 TCCATATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
51 4 0.09
52 38 0.83
53 4 0.09
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (51 bp):
CTCTCAAATTCCTTCAAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
Found at i:26957780 original size:21 final size:22
Alignment explanation
Indices: 26957741--26957782 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
26957731 TTCTCTCAAA
26957741 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
26957763 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
26957783 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:26957881 original size:28 final size:29
Alignment explanation
Indices: 26957824--26957880 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
26957814 ATTAAATTTC
26957824 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTT
26957853 ATTTTTTTAA-AATAATTTTAAAATTTTT
1 ATTTTTTTAAGAA-AATTTTAAAATTTTT
26957881 AATATTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTT
Found at i:26957888 original size:29 final size:29
Alignment explanation
Indices: 26957827--26957888 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
26957817 AAATTTCATT
* *
26957827 TTTTTAAGAAAATTTTAAAATTTTTTATT
1 TTTTTAAGAAAATTTTAAAATTTTTAATA
26957856 TTTTTAA-AATAATTTTAAAATTTTTAATA
1 TTTTTAAGAA-AATTTTAAAATTTTTAATA
26957885 TTTT
1 TTTT
26957889 CAACAATGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTTAAGAAAATTTTAAAATTTTTAATA
Found at i:26960193 original size:23 final size:23
Alignment explanation
Indices: 26960167--26960255 Score: 151
Period size: 23 Copynumber: 3.9 Consensus size: 23
26960157 TAAAAACCCT
*
26960167 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAACTTAATTAAA
*
26960190 AACCCTAACTTAACTTAATTAAA
1 AACCCTAACCTAACTTAATTAAA
*
26960213 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAACTTAATTAAA
26960236 AACCCTAACCTAACTTAATT
1 AACCCTAACCTAACTTAATT
26960256 TAATTTGATT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (23 bp):
AACCCTAACCTAACTTAATTAAA
Found at i:26960234 original size:46 final size:46
Alignment explanation
Indices: 26960167--26960255 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
26960157 TAAAAACCCT
*
26960167 AACCCTAACCTAATTTAATTAAAAACCCTAACTTAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAA
26960213 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATT
26960256 TAATTTGATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (46 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAA
Found at i:26962679 original size:32 final size:32
Alignment explanation
Indices: 26962620--26962685 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
26962610 AAACCTGTTA
26962620 AACTTACTCCGAAAAATCATGCCACAAACAATT
1 AACTTACTCCGAAAAATCATGCCACAAA-AATT
* **
26962653 AACTTACTCC-TAAAATCATGTGACAAAAATT
1 AACTTACTCCGAAAAATCATGCCACAAAAATT
26962684 AA
1 AA
26962686 AATTCCTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 6 0.20
32 14 0.47
33 10 0.33
ACGTcount: A:0.47, C:0.23, G:0.06, T:0.24
Consensus pattern (32 bp):
AACTTACTCCGAAAAATCATGCCACAAAAATT
Found at i:26971719 original size:63 final size:64
Alignment explanation
Indices: 26971647--26971809 Score: 179
Period size: 63 Copynumber: 2.6 Consensus size: 64
26971637 GTATCTTTGT
*
26971647 CCCATGTGACTCTAATTTCAAAACAGTGAGTTACACAG-CCTAGACACACACTCGTGTCCCTAA
1 CCCATGTGACTCTAATTTCAAAACAGTGAGTTACACAGACCTAGACACACACTCATGTCCCTAA
* * * * * **
26971710 CCCGTGTGACTCTAA-TTCTAAAGCAGTGAGTTACGC-GACCTGGACGCACACTCATGTCCCTGG
1 CCCATGTGACTCTAATTTC-AAAACAGTGAGTTACACAGACCTAGACACACACTCATGTCCCTAA
* * * * *
26971773 TCCATGTGACTTTAATTTTAAAATAGTGTGTTACACA
1 CCCATGTGACTCTAATTTCAAAACAGTGAGTTACACA
26971810 ATCGTGTTGC
Statistics
Matches: 80, Mismatches: 16, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
62 4 0.05
63 74 0.93
64 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (64 bp):
CCCATGTGACTCTAATTTCAAAACAGTGAGTTACACAGACCTAGACACACACTCATGTCCCTAA
Found at i:26985292 original size:34 final size:34
Alignment explanation
Indices: 26985215--26985294 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 34
26985205 ATATCATATT
* *
26985215 AGAATGTCACATTACCAAAAACATATATCAAATC
1 AGAATGTCATATTACCAAAAACATATACCAAATC
* * *
26985249 AAAATGTCATATTCCCAAAAACATATACCAGATC
1 AGAATGTCATATTACCAAAAACATATACCAAATC
26985283 AGAATGTCATAT
1 AGAATGTCATAT
26985295 CAAATTAGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.25
Consensus pattern (34 bp):
AGAATGTCATATTACCAAAAACATATACCAAATC
Found at i:26994270 original size:22 final size:22
Alignment explanation
Indices: 26994245--26994289 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
26994235 TTGGCTGAGA
*
26994245 TAGGAGAAATGGTTGGAAAGGT
1 TAGGAGAAATGGTTAGAAAGGT
26994267 TAGGAGAAATGGTTAGAAAGGT
1 TAGGAGAAATGGTTAGAAAGGT
26994289 T
1 T
26994290 GTCAAGTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.24
Consensus pattern (22 bp):
TAGGAGAAATGGTTAGAAAGGT
Found at i:27000151 original size:16 final size:16
Alignment explanation
Indices: 27000130--27000161 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27000120 TTTTTTGTAT
*
27000130 TTTTTAATATTAAATA
1 TTTTTAAAATTAAATA
27000146 TTTTTAAAATTAAATA
1 TTTTTAAAATTAAATA
27000162 ACATTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTTAAAATTAAATA
Found at i:27003524 original size:4 final size:4
Alignment explanation
Indices: 27003515--27003539 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
27003505 GATTTTTCAA
27003515 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
27003540 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:27003544 original size:2 final size:2
Alignment explanation
Indices: 27003537--27003565 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27003527 AAATAAATAA
27003537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27003566 AATGAGGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27010430 original size:12 final size:11
Alignment explanation
Indices: 27010378--27010458 Score: 58
Period size: 11 Copynumber: 7.3 Consensus size: 11
27010368 TAAGTTTAAG
*
27010378 AAAATAAATAA
1 AAAATAAAAAA
*
27010389 AAAAT-AAAAG
1 AAAATAAAAAA
* * *
27010399 CAACT-AAAAC
1 AAAATAAAAAA
*
27010409 AAAATTAAAAA
1 AAAATAAAAAA
*
27010420 AAGATAAAAAA
1 AAAATAAAAAA
27010431 TAAAATAAAATAA
1 -AAAATAAAA-AA
27010444 AAAATGAAAAAA
1 AAAAT-AAAAAA
27010456 AAA
1 AAA
27010459 CTTAATGGTA
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
10 13 0.24
11 18 0.33
12 18 0.33
13 6 0.11
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.14
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:27010434 original size:28 final size:27
Alignment explanation
Indices: 27010403--27010457 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
27010393 TAAAAGCAAC
*
27010403 TAAAACAAAATTAAAAAAAGATAAAAAA
1 TAAAACAAAA-TAAAAAAAGAAAAAAAA
* *
27010431 TAAAATAAAATAAAAAATGAAAAAAAA
1 TAAAACAAAATAAAAAAAGAAAAAAAA
27010458 ACTTAATGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.15
Consensus pattern (27 bp):
TAAAACAAAATAAAAAAAGAAAAAAAA
Found at i:27010458 original size:18 final size:17
Alignment explanation
Indices: 27010378--27010458 Score: 65
Period size: 17 Copynumber: 4.5 Consensus size: 17
27010368 TAAGTTTAAG
*
27010378 AAAATAAATAAAAAATA
1 AAAAAAAATAAAAAATA
*
27010395 AAAGCAACTAAA-ACAAAATTA
1 AAA--AA--AAATA-AAAAATA
*
27010416 AAAAAAGATAAAAAATA
1 AAAAAAAATAAAAAATA
*
27010433 AAATAAAATAAAAAATGA
1 AAAAAAAATAAAAAAT-A
27010451 AAAAAAAA
1 AAAAAAAA
27010459 CTTAATGGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
17 25 0.50
18 9 0.18
19 3 0.06
20 1 0.02
21 12 0.24
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.14
Consensus pattern (17 bp):
AAAAAAAATAAAAAATA
Found at i:27020359 original size:14 final size:14
Alignment explanation
Indices: 27020340--27020367 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27020330 TTCAAACACT
27020340 ACATGTTCGATAGA
1 ACATGTTCGATAGA
27020354 ACATGTTCGATAGA
1 ACATGTTCGATAGA
27020368 GGCTTGAACG
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:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
ACATGTTCGATAGA
Found at i:27021028 original size:23 final size:24
Alignment explanation
Indices: 27020989--27021036 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
27020979 TTTATTTGAT
27020989 AATATGTTTTGATATAACAAATTAA
1 AATATGTTTTGATATAA-AAATTAA
*
27021014 AATAT-TTTTGA-ATAAAAGTTAA
1 AATATGTTTTGATATAAAAATTAA
27021036 A
1 A
27021037 GTTGAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 6 0.27
25 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (24 bp):
AATATGTTTTGATATAAAAATTAA
Found at i:27021164 original size:20 final size:18
Alignment explanation
Indices: 27021139--27021190 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
27021129 TCAACATTTA
27021139 AATCAAGTTAAAATGGTTTT
1 AATCAAGTTAAAAT--TTTT
*
27021159 AATCAAGTTAGAACTTTTT
1 AATCAAGTTA-AAATTTTT
27021178 AATCAAAGTTAAA
1 AATC-AAGTTAAA
27021191 TTGTCTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 10 0.34
20 16 0.55
21 3 0.10
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCAAGTTAAAATTTTT
Found at i:27021199 original size:20 final size:18
Alignment explanation
Indices: 27021139--27021199 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 18
27021129 TCAACATTTA
*
27021139 AATCAAGTTAAAATGGTTTT
1 AATCAAGTT-AAATTG-TTT
27021159 AATCAAGTTAGAACTT-TTT
1 AATCAAGTTA-AA-TTGTTT
27021178 AATCAAAGTTAAATTGTCTT
1 AATC-AAGTTAAATTGT-TT
27021198 AA
1 AA
27021200 AACAAGTCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
19 11 0.31
20 21 0.60
21 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (18 bp):
AATCAAGTTAAATTGTTT
Found at i:27023952 original size:77 final size:80
Alignment explanation
Indices: 27023848--27024029 Score: 192
Period size: 82 Copynumber: 2.3 Consensus size: 80
27023838 TATATACCAT
* ** * *
27023848 TAGTGGCGTTTTTCTTATAAACGCCGCAAAAGGTAAAGC-A-T-GCA-TTTCTCCTATAAACGCC
1 TAGTGGCGTTTTCCCCATAAATGCCGCAAAAGGTAAAGCAAGTGGCATTTTC-CCTATAAACACC
27023909 GCAAAAGATAAAGCAA
65 GCAAAAGATAAAGCAA
* * *
27023925 TAGTGGCGTTTTCCCCATAAATGCCGCAAAAGGTGAGGCAATAGTGGCATTTTCCCTATAAACAT
1 TAGTGGCGTTTTCCCCATAAATGCCGCAAAAGGTAAAGC-A-AGTGGCATTTTCCCTATAAACAC
** * *
27023990 CGTTAAAGGTAAGGCAA
64 CGCAAAAGATAAAGCAA
*
27024007 TAGCGGCGTTTTCCCCATAAATG
1 TAGTGGCGTTTTCCCCATAAATG
27024030 TCGCGAATTT
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
77 33 0.38
80 1 0.01
81 1 0.01
82 47 0.55
83 4 0.05
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (80 bp):
TAGTGGCGTTTTCCCCATAAATGCCGCAAAAGGTAAAGCAAGTGGCATTTTCCCTATAAACACCG
CAAAAGATAAAGCAA
Found at i:27023966 original size:41 final size:41
Alignment explanation
Indices: 27023900--27024027 Score: 157
Period size: 41 Copynumber: 3.1 Consensus size: 41
27023890 CATTTCTCCT
* *
27023900 ATAAACGCCGCAAAAGATAAAGCAATAGTGGCGTTTTCCCC
1 ATAAACGCCGCAAAAGGTAAGGCAATAGTGGCGTTTTCCCC
* * * *
27023941 ATAAATGCCGCAAAAGGTGAGGCAATAGTGGCATTTTCCCT
1 ATAAACGCCGCAAAAGGTAAGGCAATAGTGGCGTTTTCCCC
** ** *
27023982 ATAAACATCGTTAAAGGTAAGGCAATAGCGGCGTTTTCCCC
1 ATAAACGCCGCAAAAGGTAAGGCAATAGTGGCGTTTTCCCC
27024023 ATAAA
1 ATAAA
27024028 TGTCGCGAAT
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (41 bp):
ATAAACGCCGCAAAAGGTAAGGCAATAGTGGCGTTTTCCCC
Found at i:27025163 original size:10 final size:10
Alignment explanation
Indices: 27025148--27025172 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27025138 ACATACACTT
27025148 TAGCTAGAAG
1 TAGCTAGAAG
27025158 TAGCTAGAAG
1 TAGCTAGAAG
27025168 TAGCT
1 TAGCT
27025173 TACTCATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (10 bp):
TAGCTAGAAG
Found at i:27025877 original size:24 final size:24
Alignment explanation
Indices: 27025845--27025892 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
27025835 TACAAATAAG
27025845 ATCATATGTTTGATTTAGGTTTAT
1 ATCATATGTTTGATTTAGGTTTAT
27025869 ATCATATGTTTGATTTAGGTTTAT
1 ATCATATGTTTGATTTAGGTTTAT
27025893 CTTATGGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.17, T:0.54
Consensus pattern (24 bp):
ATCATATGTTTGATTTAGGTTTAT
Found at i:27035635 original size:18 final size:17
Alignment explanation
Indices: 27035612--27035652 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
27035602 AAAATTGTTA
27035612 AAAAAAAGAAGAAAAAAG
1 AAAAAAAGAAG-AAAAAG
*
27035630 AAAAAAAGAAGAATAAG
1 AAAAAAAGAAGAAAAAG
27035647 AAAAAA
1 AAAAAA
27035653 GAAAAGGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAAGAAAAAG
Found at i:27035658 original size:21 final size:19
Alignment explanation
Indices: 27035611--27035652 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
27035601 AAAAATTGTT
27035611 AAAAAAAAGAAGAAAAAAG
1 AAAAAAAAGAAGAAAAAAG
*
27035630 -AAAAAAAGAAG-AATAAG
1 AAAAAAAAGAAGAAAAAAG
27035647 AAAAAA
1 AAAAAA
27035653 GAAAAGGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (19 bp):
AAAAAAAAGAAGAAAAAAG
Found at i:27037020 original size:45 final size:44
Alignment explanation
Indices: 27036889--27037111 Score: 200
Period size: 44 Copynumber: 5.0 Consensus size: 44
27036879 AACAGATCAG
* * *
27036889 TGAAGATAGCAGATCTTACCTTCCTGTACTAACGGTGAAGCAGA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGA
* * * * * *
27036933 TCGAAGACATCAG-CCTTACCTTCCTGTATTGACAGCGAAGCAGA
1 T-GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGA
* **
27036977 CTGAAGATAGCAGATCTTGCCTTTCTGTACTGATGGTGAAGCAGA
1 -TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGA
* * * * *
27037022 TCGAAGACACCAG-CCTTGCTTTCCTGTACTGACAG-CAGAGCAGA
1 T-GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGA-AGCAGA
* * *
27037066 TTGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAAGCAGA
1 -TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGA
27037111 T
1 T
27037112 CGAAAAATAA
Statistics
Matches: 140, Mismatches: 31, Indels: 16
0.75 0.17 0.09
Matches are distributed among these distances:
43 1 0.01
44 70 0.50
45 68 0.49
46 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (44 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGA
Found at i:27037046 original size:89 final size:89
Alignment explanation
Indices: 27036889--27037115 Score: 321
Period size: 89 Copynumber: 2.6 Consensus size: 89
27036879 AACAGATCAG
* * *
27036889 TGAAGATAGCAGATCTTACCTTCCTGTACTAACGGTGAAGCAGATCGAAGACATCAGCCTTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTACCT
*
27036954 TCCTGTATTGACAGC-GAAGCAGAC
66 TCCTGTACTGACAGCAG-AGCAGAC
* * * *
27036978 TGAAGATAGCAGATCTTGCCTTTCTGTACTGATGGTGAAGCAGATCGAAGACACCAGCCTTGCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTACCT
*
27037043 TCCTGTACTGACAGCAGAGCAGAT
66 TCCTGTACTGACAGCAGAGCAGAC
* * * *
27037067 TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAAGCAGATCGAA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAA
27037116 AAATAACGAA
Statistics
Matches: 122, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
89 121 0.99
90 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (89 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTACCT
TCCTGTACTGACAGCAGAGCAGAC
Found at i:27037064 original size:44 final size:45
Alignment explanation
Indices: 27036890--27037115 Score: 208
Period size: 45 Copynumber: 5.1 Consensus size: 45
27036880 ACAGATCAGT
* * * * * *
27036890 GAAGATAGCAGATCTTACCTTCCTGTACTAACGGTGAAGCAGATC
1 GAAGACAGCAGACCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * *
27036935 GAAGACATCAG-CCTTACCTTCCTGTATTGACAGCGAAGCAGA-C
1 GAAGACAGCAGACCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * ** *
27036978 TGAAGATAGCAGATCTTGCCTTTCTGTACTGATGGTGAAGCAGATC
1 -GAAGACAGCAGACCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * *
27037024 GAAGACACCAG-CCTTGCTTTCCTGTACTGACAGC-AGAGCAGATT
1 GAAGACAGCAGACCTTGCCTTCCTGTACTGACAGCGA-AGCAGATC
* * * *
27037068 GAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAAGCAGATC
1 GAAGACAGCAGACCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
27037113 GAA
1 GAA
27037116 AAATAACGAA
Statistics
Matches: 143, Mismatches: 32, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
43 2 0.01
44 68 0.48
45 71 0.50
46 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.23
Consensus pattern (45 bp):
GAAGACAGCAGACCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
Found at i:27037494 original size:115 final size:115
Alignment explanation
Indices: 27037277--27037500 Score: 279
Period size: 115 Copynumber: 1.9 Consensus size: 115
27037267 AGTGGACCAA
* * * *
27037277 ACTAAAACCGCGAATCTCATCCCCCTGAAGTTGTCGCGAAGAAGATTGAAGTTACAAGTCGTATC
1 ACTAAAACCACGAATCTCATCCCCCTGAAGTTGTCGCGAAGAAGATTGAAGCTACAACTCATATC
* * * *
27037342 TCTCTGAAGTGCAATAGAGTGGATTGAAGCTAGAAGACACAGTGAAGCAG
66 TCTCTGAAGTGCAATAGAGTGGATCGAAACAACAAGACACAGTGAAGCAG
* ** * * *
27037392 ACTAAAACCATGAATCTTGTCCCTCTGAAGTTG-CTGTGAAGAAGATTGATGCTACAACTCATAT
1 ACTAAAACCACGAATCTCATCCCCCTGAAGTTGTC-GCGAAGAAGATTGAAGCTACAACTCATAT
* * *
27037456 CTCTCTGAAGTGCAGTAGAGTGTATCGAAACAACAAGACCCAGTG
65 CTCTCTGAAGTGCAATAGAGTGGATCGAAACAACAAGACACAGTG
27037501 GACTGGAATG
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
114 1 0.01
115 90 0.99
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (115 bp):
ACTAAAACCACGAATCTCATCCCCCTGAAGTTGTCGCGAAGAAGATTGAAGCTACAACTCATATC
TCTCTGAAGTGCAATAGAGTGGATCGAAACAACAAGACACAGTGAAGCAG
Found at i:27038981 original size:6 final size:6
Alignment explanation
Indices: 27038970--27038997 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27038960 CTTTTTATAT
27038970 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
27038998 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:27039012 original size:18 final size:17
Alignment explanation
Indices: 27038961--27039015 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
27038951 GTATCAACAC
27038961 TTTTTATATTTTTAATTT
1 TTTTTAT-TTTTTAATTT
*
27038979 TAATTTTA-ATTTTAATTT
1 T--TTTTATTTTTTAATTT
27038997 TTTTTATTTTTATAATTT
1 TTTTTATTTTT-TAATTT
27039015 T
1 T
27039016 AAATTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 5 0.16
17 3 0.10
18 18 0.58
20 5 0.16
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTATTTTTTAATTT
Found at i:27039068 original size:8 final size:8
Alignment explanation
Indices: 27039055--27039100 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
27039045 CTATGTTAAA
27039055 TTATAATT
1 TTATAATT
27039063 TTATAATT
1 TTATAATT
27039071 TTAT--TT
1 TTATAATT
*
27039077 TTTTAATT
1 TTATAATT
*
27039085 TTTTAATT
1 TTATAATT
27039093 TTA-AATT
1 TTATAATT
27039100 T
1 T
27039101 AGCTAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 5 0.15
7 5 0.15
8 24 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TTATAATT
Found at i:27039502 original size:13 final size:13
Alignment explanation
Indices: 27039486--27039527 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
27039476 AGCTTGAAAA
27039486 AATATTTGTAACT
1 AATATTTGTAACT
*
27039499 AATATTCGTAACT
1 AATATTTGTAACT
*
27039512 AACT-TTTGTAATT
1 AA-TATTTGTAACT
27039525 AAT
1 AAT
27039528 TAGGTTGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (13 bp):
AATATTTGTAACT
Found at i:27039893 original size:31 final size:32
Alignment explanation
Indices: 27039856--27039930 Score: 98
Period size: 34 Copynumber: 2.3 Consensus size: 32
27039846 AAGAGTCAAT
27039856 ATTTAAAGATGATAATCATAACTTACATAAA-
1 ATTTAAAGATGATAATCATAACTTACATAAAC
* *
27039887 ATTTAAAGTTTATGATTATCATAACTTATATAAAC
1 ATTTAAAG---ATGATAATCATAACTTACATAAAC
27039922 ATTTAAAGA
1 ATTTAAAGA
27039931 ATATAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
31 8 0.21
32 1 0.03
34 21 0.55
35 8 0.21
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (32 bp):
ATTTAAAGATGATAATCATAACTTACATAAAC
Found at i:27039908 original size:34 final size:35
Alignment explanation
Indices: 27039864--27039929 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
27039854 ATATTTAAAG
27039864 ATGATAATCATAACTTACATAAA-ATTTAAAGTTT
1 ATGATAATCATAACTTACATAAACATTTAAAGTTT
* *
27039898 ATGATTATCATAACTTATATAAACATTTAAAG
1 ATGATAATCATAACTTACATAAACATTTAAAG
27039930 AATATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 21 0.72
35 8 0.28
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (35 bp):
ATGATAATCATAACTTACATAAACATTTAAAGTTT
Found at i:27046250 original size:43 final size:43
Alignment explanation
Indices: 27046172--27046279 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
27046162 CCGCAAAATA
* * * *
27046172 TCATGTTCTTTAGCGGCGTTTGTGTGAAAACCGCCGCTAAAGG
1 TCATGTTCTATAGCGGCATTTTTATGAAAACCGCCGCTAAAGG
* *
27046215 TCATGTTCTATAGCGGCATTTTTATGAGAAGCGCCGCTAAAGG
1 TCATGTTCTATAGCGGCATTTTTATGAAAACCGCCGCTAAAGG
**
27046258 TCATGTTCTATAGTAGCATTTT
1 TCATGTTCTATAGCGGCATTTT
27046280 CCCACATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (43 bp):
TCATGTTCTATAGCGGCATTTTTATGAAAACCGCCGCTAAAGG
Found at i:27058179 original size:30 final size:30
Alignment explanation
Indices: 27058107--27058171 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
27058097 ATAATAATGA
27058107 CACACG-ACTGTGTAGGGTGGCCATGTGTGG
1 CACACGAAC-GTGTAGGGTGGCCATGTGTGG
* *
27058137 CACACGAACGTGTAGGGTGGTCGTGTGTGG
1 CACACGAACGTGTAGGGTGGCCATGTGTGG
27058167 CACAC
1 CACAC
27058172 AGCCGTGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (30 bp):
CACACGAACGTGTAGGGTGGCCATGTGTGG
Found at i:27074168 original size:25 final size:24
Alignment explanation
Indices: 27074109--27074185 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 24
27074099 CTCACCACAA
*
27074109 CTCGTATGAGCTTACCTATTTCAG
1 CTCGTATGAGCTTACCAATTTCAG
*
27074133 CTCGTGA-GAGCTTACCAATTCTCCG
1 CTCGT-ATGAGCTTACCAATT-TCAG
*
27074158 CTCGTATGAGCTTACCGATTTCCAG
1 CTCGTATGAGCTTACCAATTT-CAG
27074183 CTC
1 CTC
27074186 ATGAGAGCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
24 19 0.42
25 26 0.58
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.32
Consensus pattern (24 bp):
CTCGTATGAGCTTACCAATTTCAG
Found at i:27074193 original size:25 final size:25
Alignment explanation
Indices: 27074116--27074202 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 25
27074106 CAACTCGTAT
*
27074116 GAGCTTACCTATTT-CAGCTCGTGA
1 GAGCTTACCGATTTCCAGCTCGTGA
*
27074140 GAGCTTACCAATTCTCC-GCTCGT-A
1 GAGCTTACCGATT-TCCAGCTCGTGA
*
27074164 TGAGCTTACCGATTTCCAGCTCATGA
1 -GAGCTTACCGATTTCCAGCTCGTGA
* *
27074190 GAGCATACTGATT
1 GAGCTTACCGATT
27074203 CATAGCTCGT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
24 16 0.30
25 35 0.66
26 2 0.04
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGATTTCCAGCTCGTGA
Found at i:27074211 original size:50 final size:49
Alignment explanation
Indices: 27074109--27074218 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 49
27074099 CTCACCACAA
* * * *
27074109 CTCGTATGAGCTTACCTATTTCAGCTCGTGAGAGCTTACCAATTCTCCG
1 CTCGTATGAGCTTACCGATTTCAGCTCATGAGAGCATACCAATTCTCAG
**
27074158 CTCGTATGAGCTTACCGATTTCCAGCTCATGAGAGCATACTGATTCAT-AG
1 CTCGTATGAGCTTACCGATTT-CAGCTCATGAGAGCATACCAATTC-TCAG
27074208 CTCGTATGAGC
1 CTCGTATGAGC
27074219 ATACATGTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
49 20 0.38
50 32 0.60
51 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (49 bp):
CTCGTATGAGCTTACCGATTTCAGCTCATGAGAGCATACCAATTCTCAG
Found at i:27081425 original size:134 final size:134
Alignment explanation
Indices: 27081177--27081974 Score: 829
Period size: 134 Copynumber: 6.0 Consensus size: 134
27081167 GAACCTAAAC
* * * *
27081177 TGTGATCGTAAATTAGCTAACTGTTTCAATGGAGTTGTGATCGTAAATCAGCTAACTCAAAATAA
1 TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
* * * * *
27081242 ATTGTTCACGATTGTAAATCAGTGAACTTAGGTTGTGCTCGTAATTCAGCGAGCCTTAATAATAT
66 ATTGTTCATGATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATAT
*
27081307 TAGT
131 CAGT
* * *
27081311 CGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATTAGGTAACTCAAAATAA
1 TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
* * * * *
27081376 AATGTTCATGATCGTAAAGCAGTGAACTTAGGTTGTGATTGTAAATCAGCGAGCCTTAATATTAT
66 ATTGTTCATGATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATAT
*
27081441 TAGT
131 CAGT
* * * *
27081445 TATGGTCGTAAATCAA-TGAACTGTTTGAATGGAGTTGCGATCGTAAATTAGCTAACTCAGAATA
1 TGTGATCGTAAATCAACT-AACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATA
* * *
27081509 AATCT-TTTATGATCGTAAAGT-AGA-GAACTTAGGCTGTGATCATAAATCAGCGAGCCTTAATA
65 AAT-TGTTCATGATCGTAAA-TCA-ATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATA
27081571 ATATCAGT
127 ATATCAGT
* * * * * *
27081579 TGTGATCATAAATC-ATTAAATTATTTGAATGGATTTGCGATCGTAAATCACCTAACTCAAAATA
1 TGTGATCGTAAATCAACT-AACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATA
* * * * * * * *
27081643 AATTGTTCAAGATCATAAATCAATGGACTTAGGCTGTGATCGTAAATTAGTGAGGCTTAATAGTA
65 AATTGTTCATGATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATA
27081708 TCAGT
130 TCAGT
* * * * * * ** * * * *
27081713 TGTGATCATAAATCATCGAACAGTTTCACTGGAGTTATGATTGTAAAACAACTAACTCATAAT-A
1 TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
* * * * * *
27081777 ATTATTCATGATCATAAATCAATGAACTTA-ATCTGTTATCGTAAATCAACGACCCTTAATAATA
66 ATTGTTCATGATCGTAAATCAATGAACTTAGGT-TGTGATCGTAAATCAGCGAGCCTTAATAATA
*
27081841 TAAGT
130 TCAGT
* * * * * * * * * *
27081846 CGTGATGGTAAACCATCAAACTGTTTGAATGGAGTTGCAACCGTTAATCGGCTAACTCAGAATAA
1 TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
* * *
27081911 ATTGTTCATG-TACGTAAATCAATGAACTTAGGTTGTGATCATAAATTAACGAGCCTTAATAATA
66 ATTGTTCATGAT-CGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATA
27081975 ATGTAACACC
Statistics
Matches: 550, Mismatches: 101, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
133 107 0.19
134 441 0.80
135 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (134 bp):
TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
ATTGTTCATGATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATAT
CAGT
Found at i:27082237 original size:17 final size:17
Alignment explanation
Indices: 27082215--27082254 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
27082205 AGAACATGGG
* *
27082215 TCACACAGTCGTCTGAC
1 TCACACAGTCATATGAC
*
27082232 TCACACTGTCATATGAC
1 TCACACAGTCATATGAC
27082249 TCACAC
1 TCACAC
27082255 GGCTGAGACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.35, G:0.12, T:0.25
Consensus pattern (17 bp):
TCACACAGTCATATGAC
Found at i:27094468 original size:222 final size:222
Alignment explanation
Indices: 27094082--27095191 Score: 2103
Period size: 222 Copynumber: 5.0 Consensus size: 222
27094072 TTAATAACAC
*
27094082 TCCGTAAATATTTAGTAAAATATTTATAACTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
1 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
27094147 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
66 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
27094212 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
131 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
27094277 CTTACTCGTTGGATTTGTGGCCACAAA
196 CTTACTCGTTGGATTTGTGGCCACAAA
*
27094304 TCCGTAAATATTTAGTAAAATATTTATAGCTCGGTTTATAGAAACTAGATCTCGATACCTCATTT
1 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
27094369 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
66 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
* **
27094434 TTCCAATTCAAATTTATTTTAATATAATATTTGACTCATAAATATTAAATAATATCATTTACGAA
131 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
27094499 CTTACTCGTTGGATTTGTGGCCACAAA
196 CTTACTCGTTGGATTTGTGGCCACAAA
* *
27094526 TCCGTAAATATTTAGTAAAATATTTATAGCTCGGTTTATAGAAACTAGATCTCGATACCTCGTTT
1 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
27094591 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
66 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
27094656 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
131 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
27094721 CTTACTCGTTGGATTTGTGGCCACAAA
196 CTTACTCGTTGGATTTGTGGCCACAAA
27094748 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
1 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
* * *
27094813 TCTAACACCATTTGACTTTAGGGTAAGACTACTTAACCCTAATTATTCATTCAAATGACATAAAT
66 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
*
27094878 TACCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
131 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
27094943 CTTACTCGTTGGATTTGTGGCCACAAA
196 CTTACTCGTTGGATTTGTGGCCACAAA
* *
27094970 TCTGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATATCGATACCTCATTT
1 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
27095035 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
66 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
27095100 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
131 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
27095165 CTTACTCGTTGGATTTGTGGCCACAAA
196 CTTACTCGTTGGATTTGTGGCCACAAA
27095192 ACCACTATTT
Statistics
Matches: 867, Mismatches: 21, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
222 867 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (222 bp):
TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
CTTACTCGTTGGATTTGTGGCCACAAA
Found at i:27095954 original size:13 final size:13
Alignment explanation
Indices: 27095936--27095964 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
27095926 ACTTTGGGAG
27095936 AGTGATATTTGTA
1 AGTGATATTTGTA
27095949 AGTGATATTTGTA
1 AGTGATATTTGTA
27095962 AGT
1 AGT
27095965 CTGTACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (13 bp):
AGTGATATTTGTA
Found at i:27105558 original size:18 final size:18
Alignment explanation
Indices: 27105535--27105570 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27105525 TTAGGTTTCC
*
27105535 AAAAATGGAAATGGAAAT
1 AAAAATGAAAATGGAAAT
*
27105553 AAAAATGAAAATTGAAAT
1 AAAAATGAAAATGGAAAT
27105571 TATCTATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (18 bp):
AAAAATGAAAATGGAAAT
Found at i:27111284 original size:7 final size:7
Alignment explanation
Indices: 27111272--27111302 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
27111262 CCAATCAAAT
27111272 TTTATTC
1 TTTATTC
27111279 TTTATTC
1 TTTATTC
27111286 TTTATTC
1 TTTATTC
27111293 TTTATT-
1 TTTATTC
27111299 TTTA
1 TTTA
27111303 ATTAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTC
Found at i:27115361 original size:25 final size:25
Alignment explanation
Indices: 27115326--27115396 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
27115316 ACACACCACA
*
27115326 GCTCTCTTGAGCTTCCCGATACTTG
1 GCTCTCATGAGCTTCCCGATACTTG
* *
27115351 GCTCTCATGAGCTTCTCGATATTTG
1 GCTCTCATGAGCTTCCCGATACTTG
* *
27115376 GCTCACAAGAGCTTCCCGATA
1 GCTCTCATGAGCTTCCCGATA
27115397 TACAGCTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.32
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATACTTG
Found at i:27121721 original size:23 final size:23
Alignment explanation
Indices: 27121638--27121758 Score: 95
Period size: 23 Copynumber: 5.1 Consensus size: 23
27121628 CTCACCACAA
*
27121638 CTCGTATGAGCTTCCCGATATATCAG
1 CTCGTATGAGCTTACCG-T-T-TCAG
* * * *
27121664 CTCGTAAGAGGTTACTGTTTTCAA
1 CTCGTATGAGCTTACCG-TTTCAG
*
27121688 CTCAT-TGGAGCTTACCGTTTCAG
1 CTCGTAT-GAGCTTACCGTTTCAG
*
27121711 CTCGTATGAGCTTACTGTTT-AG
1 CTCGTATGAGCTTACCGTTTCAG
*
27121733 CTCGT-TAGAGCTTACCATTTCAG
1 CTCGTAT-GAGCTTACCGTTTCAG
27121756 CTC
1 CTC
27121759 AATAGAGCCT
Statistics
Matches: 76, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
21 1 0.01
22 18 0.24
23 26 0.34
24 16 0.21
25 1 0.01
26 14 0.18
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (23 bp):
CTCGTATGAGCTTACCGTTTCAG
Found at i:27121726 original size:47 final size:46
Alignment explanation
Indices: 27121660--27121775 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 46
27121650 TCCCGATATA
* * * *
27121660 TCAGCTCGTAAGAGGTTACTGTTTTCAACTCATTGGAGCTTACCGTT
1 TCAGCTCGTATGAGCTTACTGTTTT-AACTCATTAGAGCTTACCATT
* *
27121707 TCAGCTCGTATGAGCTTACTG-TTTAGCTCGTTAGAGCTTACCATT
1 TCAGCTCGTATGAGCTTACTGTTTTAACTCATTAGAGCTTACCATT
* *
27121752 TCAGCTC-AATAGAGCCTACTGTTT
1 TCAGCTCGTAT-GAGCTTACTGTTT
27121776 ATTAGCTCAG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
44 2 0.03
45 33 0.56
46 5 0.08
47 19 0.32
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (46 bp):
TCAGCTCGTATGAGCTTACTGTTTTAACTCATTAGAGCTTACCATT
Found at i:27121764 original size:23 final size:22
Alignment explanation
Indices: 27121695--27121775 Score: 74
Period size: 23 Copynumber: 3.6 Consensus size: 22
27121685 CAACTCATTG
*
27121695 GAGCTTACCGTTTCAGCTCGTA
1 GAGCTTACCGTTTCAGCTCATA
* *
27121717 TGAGCTTACTGTTT-AGCTCGTTA
1 -GAGCTTACCGTTTCAGCTC-ATA
*
27121740 GAGCTTACCATTTCAGCTCAATA
1 GAGCTTACCGTTTCAGCTC-ATA
* *
27121763 GAGCCTACTGTTT
1 GAGCTTACCGTTT
27121776 ATTAGCTCAG
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
22 16 0.34
23 31 0.66
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (22 bp):
GAGCTTACCGTTTCAGCTCATA
Found at i:27122942 original size:13 final size:13
Alignment explanation
Indices: 27122924--27122948 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27122914 CATATGTTGG
27122924 ATATGAAATTGAT
1 ATATGAAATTGAT
27122937 ATATGAAATTGA
1 ATATGAAATTGA
27122949 CATTGAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATATGAAATTGAT
Found at i:27123583 original size:7 final size:7
Alignment explanation
Indices: 27123563--27123636 Score: 132
Period size: 7 Copynumber: 10.6 Consensus size: 7
27123553 GTTTAACATT
27123563 TATT-TA
1 TATTATA
27123569 TATCTATA
1 TAT-TATA
27123577 TATTATA
1 TATTATA
27123584 TATTATA
1 TATTATA
27123591 TATTATA
1 TATTATA
27123598 TATTATA
1 TATTATA
27123605 TATTATA
1 TATTATA
27123612 TATTATA
1 TATTATA
27123619 TATTATA
1 TATTATA
27123626 TATTATA
1 TATTATA
27123633 TATT
1 TATT
27123637 TTCAATTGTT
Statistics
Matches: 66, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
6 3 0.05
7 58 0.88
8 5 0.08
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:27123855 original size:31 final size:31
Alignment explanation
Indices: 27123820--27123879 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
27123810 ACTAAGTACT
* * *
27123820 AATTTGGATCAAAAAGCCAATTTTAGGTATC
1 AATTTGAACCAAAAAGCCAAGTTTAGGTATC
*
27123851 AATTTGAACCAAGAAGCCAAGTTTAGGTA
1 AATTTGAACCAAAAAGCCAAGTTTAGGTA
27123880 CCTAATTAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (31 bp):
AATTTGAACCAAAAAGCCAAGTTTAGGTATC
Found at i:27123893 original size:31 final size:31
Alignment explanation
Indices: 27123833--27123893 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
27123823 TTGGATCAAA
* * *
27123833 AAGCCAATTTTAGGTATCAATTTGAACCAAG
1 AAGCCAAGTTTAGGTACCAATTAGAACCAAG
27123864 AAGCCAAGTTTAGGTACCTAATTAG-ACCAA
1 AAGCCAAGTTTAGGTACC-AATTAGAACCAA
27123894 AATAAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (31 bp):
AAGCCAAGTTTAGGTACCAATTAGAACCAAG
Found at i:27130056 original size:17 final size:17
Alignment explanation
Indices: 27130011--27130053 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
27130001 TTATTTAATC
*
27130011 AATTAATTTAATTAACTA
1 AATTAATTT-CTTAACTA
*
27130029 AATTAATTTCTTAATTA
1 AATTAATTTCTTAACTA
27130046 AA-TAATTT
1 AATTAATTT
27130054 TCTCAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 9 0.39
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAATTTCTTAACTA
Found at i:27133438 original size:20 final size:20
Alignment explanation
Indices: 27133412--27133465 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
27133402 ACAAAAGCTT
*
27133412 TAGTAATTTTGTAAGAGAT-
1 TAGTAATTTTGTAAGAAATA
* *
27133431 TCAGTAATATTGTAATAAATA
1 T-AGTAATTTTGTAAGAAATA
27133452 TAGTAATTTTGTAA
1 TAGTAATTTTGTAA
27133466 AAAGAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.43
Consensus pattern (20 bp):
TAGTAATTTTGTAAGAAATA
Found at i:27138716 original size:19 final size:19
Alignment explanation
Indices: 27138692--27138730 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
27138682 ACTCCATTTG
27138692 ATTTTTGAATTTTT-TTTTC
1 ATTTTT-AATTTTTATTTTC
*
27138711 ATTTTTCATTTTTATTTTC
1 ATTTTTAATTTTTATTTTC
27138730 A
1 A
27138731 GAAAGTAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.72
Consensus pattern (19 bp):
ATTTTTAATTTTTATTTTC
Found at i:27150190 original size:128 final size:128
Alignment explanation
Indices: 27149958--27150212 Score: 492
Period size: 128 Copynumber: 2.0 Consensus size: 128
27149948 GGTAAGCCAT
27149958 CTCTGGATTTAGGGCCTGTAATTCTCTTATGTGTTTTTTATATGTGGGAATTTCCATATCCATAG
1 CTCTGGATTTAGGGCCTGTAATTCTCTTATGTGTTTTTTATATGTGGGAATTTCCATATCCATAG
*
27150023 ATTGCTCTTTGATGCAATAGATATCCTTGCCTTAAGAATCTCACCCTTTCTAAGTTTCATGAC
66 ATTGCTCTTTGATGCAATAGATATCCTTGCCTTAAGAATCTCACCCTTACTAAGTTTCATGAC
27150086 CTCTGGATTTAGGGCCTGTAATTCTCTTATGTGTTTTTTATATGTGGGAATTTCCATATCCATAG
1 CTCTGGATTTAGGGCCTGTAATTCTCTTATGTGTTTTTTATATGTGGGAATTTCCATATCCATAG
*
27150151 ATTGCTCTTTGATGCAATAGATATCCTTGCCTTAGGAATCTCACCCTTACTAAGTTTCATGA
66 ATTGCTCTTTGATGCAATAGATATCCTTGCCTTAAGAATCTCACCCTTACTAAGTTTCATGA
27150213 GTGCTAAATA
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 125 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (128 bp):
CTCTGGATTTAGGGCCTGTAATTCTCTTATGTGTTTTTTATATGTGGGAATTTCCATATCCATAG
ATTGCTCTTTGATGCAATAGATATCCTTGCCTTAAGAATCTCACCCTTACTAAGTTTCATGAC
Found at i:27152039 original size:18 final size:17
Alignment explanation
Indices: 27152016--27152068 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
27152006 ATATATTATG
*
27152016 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
27152034 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
27152051 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
27152069 TTAATAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:27152069 original size:100 final size:100
Alignment explanation
Indices: 27151959--27152150 Score: 375
Period size: 100 Copynumber: 1.9 Consensus size: 100
27151949 AAGTAGATTA
27151959 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
27152024 AAATTCATATATTTTATTAAATTATATATTTTTAT
66 AAATTCATATATTTTATTAAATTATATATTTTTAT
*
27152059 TAAATTATATTTAATAATAATTATTTTAAATTATTTTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
27152124 AAATTCATATATTTTATTAAATTATAT
66 AAATTCATATATTTTATTAAATTATAT
27152151 TTAATAATAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (100 bp):
TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
AAATTCATATATTTTATTAAATTATATATTTTTAT
Found at i:27152087 original size:26 final size:27
Alignment explanation
Indices: 27151955--27152013 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
27151945 AATAAAGTAG
27151955 ATTA-TAAATTATATTTAATAATAATT
1 ATTATTAAATTATATTTAATAATAATT
* *
27151981 ATT-TTAAATTATATTTTATAGT-ATT
1 ATTATTAAATTATATTTAATAATAATT
27152006 ATATATTA
1 AT-TATTA
27152014 TGATTTTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 5 0.18
26 20 0.71
27 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (27 bp):
ATTATTAAATTATATTTAATAATAATT
Found at i:27152139 original size:18 final size:17
Alignment explanation
Indices: 27151985--27152150 Score: 73
Period size: 18 Copynumber: 9.6 Consensus size: 17
27151975 ATAATTATTT
27151985 TAAATTATAT-TTTATAG
1 TAAATTATATATTT-TAG
*
27152002 TATTATATATTATGATTTTAG
1 TA-AAT-TA-TAT-ATTTTAG
*
27152023 TAAATTCATATATTTTAT
1 TAAATT-ATATATTTTAG
*
27152041 TAAATTATATATTTTTAT
1 TAAATTATATA-TTTTAG
*
27152059 TAAA-T-TATA-TTTAA
1 TAAATTATATATTTTAG
*
27152073 T-AATAAT-TA-TTT--
1 TAAATTATATATTTTAG
*
27152085 TAAATTAT-TTTTTATAG
1 TAAATTATATATTT-TAG
*
27152102 TATTATATATTATGATTTTAG
1 TA-AAT-TA-TAT-ATTTTAG
*
27152123 TAAATTCATATATTTTAT
1 TAAATT-ATATATTTTAG
27152141 TAAATTATAT
1 TAAATTATAT
27152151 TTAATAATAA
Statistics
Matches: 118, Mismatches: 11, Indels: 40
0.70 0.07 0.24
Matches are distributed among these distances:
12 1 0.01
13 8 0.07
14 12 0.10
15 2 0.02
16 4 0.03
17 14 0.12
18 38 0.32
19 12 0.10
20 10 0.08
21 11 0.09
22 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (17 bp):
TAAATTATATATTTTAG
Found at i:27152194 original size:100 final size:100
Alignment explanation
Indices: 27151958--27152173 Score: 350
Period size: 100 Copynumber: 2.2 Consensus size: 100
27151948 AAAGTAGATT
* *
27151958 ATAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAG
1 ATAAATTATAGTTAATAATAATTATTTTAAATTATTTTTTATAGTATTATATATTATGATTTTAG
**
27152023 TAAATTCATATATTTTATTAAATTATATATTTTTA
66 TAAATTCATATATTTTATTAAATTATATATTAATA
* *
27152058 TTAAATTATATTTAATAATAATTATTTTAAATTATTTTTTATAGTATTATATATTATGATTTTAG
1 ATAAATTATAGTTAATAATAATTATTTTAAATTATTTTTTATAGTATTATATATTATGATTTTAG
27152123 TAAATTCATATATTTTATTAAATTATAT-TTAATA
66 TAAATTCATATATTTTATTAAATTATATATTAATA
27152157 AT-AATTAT-GTTAA-AATA
1 ATAAATTATAGTTAATAATA
27152174 TGATTAAATT
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
96 4 0.04
97 4 0.04
98 6 0.05
99 5 0.05
100 91 0.83
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (100 bp):
ATAAATTATAGTTAATAATAATTATTTTAAATTATTTTTTATAGTATTATATATTATGATTTTAG
TAAATTCATATATTTTATTAAATTATATATTAATA
Found at i:27152361 original size:16 final size:16
Alignment explanation
Indices: 27152340--27152392 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
27152330 AGAATTACCT
27152340 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* *
27152356 ATTACGCATTTATTCC
1 ATTACGCCTCTATTCC
*
27152372 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
27152388 ATTAC
1 ATTAC
27152393 AGTGAACCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.25, C:0.32, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Done.