Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 64 of 230
Found at i:17822487 original size:40 final size:38
Alignment explanation
Indices: 17822443--17822553 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 38
17822433 GGCGTTTGGA
* * *
17822443 TAAAAATGCCACTAAAAATCAAGCATTAGCGGTGCTTTT
1 TAAAAACGCCGCTAAAAAT-AAGCATTAGCGGTACTTTT
* * *
17822482 CTAAAAACGCCGCCAAAGATGGAGCATTAGCGGTACTTTT
1 -TAAAAACGCCGCTAAAAAT-AAGCATTAGCGGTACTTTT
* *
17822522 TGGAAAACGCCGCTAAAAATAAACATTAGCGG
1 T-AAAAACGCCGCTAAAAATAAGCATTAGCGG
17822554 CATTTTCTGA
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
39 11 0.19
40 47 0.81
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (38 bp):
TAAAAACGCCGCTAAAAATAAGCATTAGCGGTACTTTT
Found at i:17822805 original size:41 final size:40
Alignment explanation
Indices: 17822614--17822814 Score: 235
Period size: 41 Copynumber: 4.9 Consensus size: 40
17822604 TGAGTTTTGG
* *
17822614 GGGCATTTAGCGGCGTTTTTGAAGAA-CTGCCGCTAATGATC
1 GGGCCTTTAGCGGCGTTTTTGAA-AAGC-GCCGCTAATGCTC
* *
17822655 GGGCCTTTAGCGGTGTTTTTGAAGAA-CTGCTGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAA-AAGC-GCCGCTAATGCTC
*
17822696 GGGCCTTTAACGGCGTTTTTGAAAATGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAA-GCGCCGCTAATGCTC
** *
17822737 GTTCCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCTC
* *
17822778 GGGCCATTAGCGGCATTTTTGAGAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAAT
17822815 AATAAAAAAA
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.02
41 132 0.94
42 5 0.04
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (40 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTC
Found at i:17823853 original size:19 final size:17
Alignment explanation
Indices: 17823812--17823845 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17823802 AATATAAGAA
17823812 AAAATAAAATAAAAAAT
1 AAAATAAAATAAAAAAT
*
17823829 ATAAATGAAATAAAAAA
1 A-AAATAAAATAAAAAA
17823846 ATTAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 1 0.07
18 14 0.93
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAATAAAATAAAAAAT
Found at i:17824658 original size:39 final size:38
Alignment explanation
Indices: 17824601--17824697 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 38
17824591 TAGGGTTTGA
* * *
17824601 GATTTAAGGTTTAGGGGTTATGTTTTAGGGGTTATTGGG
1 GATTTAAGGGTTAGGGGTTATGCTTTAGGGGTTA-GGGG
*
17824640 GATTTAAGGGTTAAGGGTTATGCTTTAGGGGTTAGGGG
1 GATTTAAGGGTTAGGGGTTATGCTTTAGGGGTTAGGGG
17824678 GATTT-AGGGATTAGGGGTTA
1 GATTTAAGGG-TTAGGGGTTA
17824698 GGGATTTGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
37 4 0.08
38 17 0.33
39 31 0.60
ACGTcount: A:0.21, C:0.01, G:0.40, T:0.38
Consensus pattern (38 bp):
GATTTAAGGGTTAGGGGTTATGCTTTAGGGGTTAGGGG
Found at i:17824700 original size:14 final size:15
Alignment explanation
Indices: 17824663--17824715 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 15
17824653 AGGGTTATGC
*
17824663 TTTAGGGGTTAGGGGG
1 TTTAGGGATTA-GGGG
17824679 ATTTAGGGATTAGGGG
1 -TTTAGGGATTAGGGG
*
17824695 -TTAGGGATTTGGGG
1 TTTAGGGATTAGGGG
17824709 TTTAGGG
1 TTTAGGG
17824716 TTTCAACGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.39
15 6 0.18
16 4 0.12
17 10 0.30
ACGTcount: A:0.17, C:0.00, G:0.49, T:0.34
Consensus pattern (15 bp):
TTTAGGGATTAGGGG
Found at i:17824704 original size:22 final size:23
Alignment explanation
Indices: 17824664--17824715 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
17824654 GGGTTATGCT
17824664 TTAGGGGTTAGGGGGATTTAGGGA
1 TTAGGGGTTA-GGGGATTTAGGGA
* *
17824688 TTAGGGGTTA-GGGATTTGGGGT
1 TTAGGGGTTAGGGGATTTAGGGA
17824710 TTAGGG
1 TTAGGG
17824716 TTTCAACGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 16 0.62
24 10 0.38
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (23 bp):
TTAGGGGTTAGGGGATTTAGGGA
Found at i:17827276 original size:21 final size:21
Alignment explanation
Indices: 17827250--17827296 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
17827240 TTAATTAAAT
17827250 CAGAGGCGGCAGCGAGGGAAG
1 CAGAGGCGGCAGCGAGGGAAG
* *
17827271 CAGAGGCTGCAGTGAGGGAAG
1 CAGAGGCGGCAGCGAGGGAAG
*
17827292 TAGAG
1 CAGAG
17827297 CAGAGTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.49, T:0.06
Consensus pattern (21 bp):
CAGAGGCGGCAGCGAGGGAAG
Found at i:17827459 original size:19 final size:19
Alignment explanation
Indices: 17827437--17827488 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
17827427 AAAAATAATA
17827437 TGATTTATATTTGA-TTTAT
1 TGATTTA-ATTTGATTTTAT
17827456 TGATATTAATATT-ATTTTAT
1 TGAT-TTAAT-TTGATTTTAT
*
17827476 TCATTTAATTTGA
1 TGATTTAATTTGA
17827489 AATAATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 2 0.07
19 13 0.46
20 13 0.46
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.60
Consensus pattern (19 bp):
TGATTTAATTTGATTTTAT
Found at i:17827684 original size:44 final size:44
Alignment explanation
Indices: 17827615--17827720 Score: 149
Period size: 44 Copynumber: 2.4 Consensus size: 44
17827605 GGCGTTTTCA
* *
17827615 GAAAAAGCACCGCTAAAGGTCACCAAACAATAGCGGCATTTGTG
1 GAAAAAGCGCCGCTAAAGGTCACCAAACAATAGCGACATTTGTG
* * *
17827659 GGAAAAGCGCCGCTAAAGGTTACCAAACAATAGCGACGTTTGTG
1 GAAAAAGCGCCGCTAAAGGTCACCAAACAATAGCGACATTTGTG
* *
17827703 GAAAAAGTGCAGCTAAAG
1 GAAAAAGCGCCGCTAAAG
17827721 AACATGACCT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (44 bp):
GAAAAAGCGCCGCTAAAGGTCACCAAACAATAGCGACATTTGTG
Found at i:17827737 original size:43 final size:42
Alignment explanation
Indices: 17827689--17827870 Score: 215
Period size: 43 Copynumber: 4.3 Consensus size: 42
17827679 TACCAAACAA
* *
17827689 TAGCGACGTTTGTGGAAAAAGTGCAGCTAAAGAACATGACCTT
1 TAGCGACGTTTGTGG-AAAAGCGCCGCTAAAGAACATGACCTT
* * *
17827732 CAGCGATGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACTTT
1 TAGCGACGTTTGT-GGAAAAGCGCCGCTAAAGAACATGACCTT
* *
17827775 TAAC-AGCATTTGTAGGAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGA-CGTTTGT-GGAAAAGCGCCGCTAAAGAACATGACCTT
* * *
17827818 TAGCGGCGTTTTTGTG-AAAGTGCCGCTAAAGAACATGACCTT
1 TAGCGACGTTTGTG-GAAAAGCGCCGCTAAAGAACATGACCTT
17827860 TAGCGACGTTT
1 TAGCGACGTTT
17827871 ATAGAAATAA
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
42 37 0.31
43 79 0.67
44 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (42 bp):
TAGCGACGTTTGTGGAAAAGCGCCGCTAAAGAACATGACCTT
Found at i:17829059 original size:38 final size:38
Alignment explanation
Indices: 17829011--17829105 Score: 131
Period size: 38 Copynumber: 2.5 Consensus size: 38
17829001 TGAGATTTGG
*
17829011 TTGCATGTTAAAACATGCCCTATATGAAATTATCCGAT
1 TTGCATGTTAAAACATGCCCTATACGAAATTATCCGAT
* * *
17829049 TTGCATGTTAAAACATGCCTTATACGATATTATTCGAT
1 TTGCATGTTAAAACATGCCCTATACGAAATTATCCGAT
17829087 TTGCATGATT--AACATGCCC
1 TTGCATG-TTAAAACATGCCC
17829106 AATGTGACAA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
37 8 0.16
38 41 0.80
39 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (38 bp):
TTGCATGTTAAAACATGCCCTATACGAAATTATCCGAT
Found at i:17829462 original size:191 final size:191
Alignment explanation
Indices: 17829138--17829525 Score: 623
Period size: 191 Copynumber: 2.0 Consensus size: 191
17829128 GATGAGTAAA
* * *
17829138 ATGTTTATATATGTTCATTATGGTCATATCACAAGCATGGGGTGAGATATTATAAGGACGATGAA
1 ATGTTTACATATGTTCATTATGATCATATCACAAGCATGGGGTGAGATATTATAAGGACGAGGAA
* * * * *
17829203 TTGGTGGCTTCGTCCACAACCTACATGGTAGCTTGTTTGCAAATATTGGTGGCTTCGTCTACATT
66 TTGGTGGCTTCGTCCACAACCTACATGATAGATTGTCTGCAAATATTGGTGGCTTCATCCACATT
* * * *
17829268 GGAGTGTTTGGATGGATGAGTTTTGGGGAACTCTTTTTGGAGTGTAGCGATGATGGGTAGG
131 GGAGTGTTTGGATGGATGAGTTCTCGGGAAATCTTTTTGAAGTGTAGCGATGATGGGTAGG
* * *
17829329 ATGTTTACATATGTTCATTATGATCATATCACATGCATGGGGTGGGATATTATAAGGAGGAGGAA
1 ATGTTTACATATGTTCATTATGATCATATCACAAGCATGGGGTGAGATATTATAAGGACGAGGAA
*
17829394 TTGGTGGCTTCGTCTACAACCTACATGATAGATTGTCTGCAAATATTGGTGGCTTCATCCACATT
66 TTGGTGGCTTCGTCCACAACCTACATGATAGATTGTCTGCAAATATTGGTGGCTTCATCCACATT
*
17829459 GGAGTGTTTGGATGGATGAGTTCTCGGGAAATCTTTTTGAAGTGTAGCGGTGATGGGTAGG
131 GGAGTGTTTGGATGGATGAGTTCTCGGGAAATCTTTTTGAAGTGTAGCGATGATGGGTAGG
17829520 ATGTTT
1 ATGTTT
17829526 TATAAAAACT
Statistics
Matches: 180, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
191 180 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (191 bp):
ATGTTTACATATGTTCATTATGATCATATCACAAGCATGGGGTGAGATATTATAAGGACGAGGAA
TTGGTGGCTTCGTCCACAACCTACATGATAGATTGTCTGCAAATATTGGTGGCTTCATCCACATT
GGAGTGTTTGGATGGATGAGTTCTCGGGAAATCTTTTTGAAGTGTAGCGATGATGGGTAGG
Found at i:17831082 original size:14 final size:14
Alignment explanation
Indices: 17831063--17831093 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17831053 CAAACAGAAA
*
17831063 AAATAAACCCAAAT
1 AAATAAACCAAAAT
17831077 AAATAAACCAAAAT
1 AAATAAACCAAAAT
17831091 AAA
1 AAA
17831094 ATCAAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (14 bp):
AAATAAACCAAAAT
Found at i:17833596 original size:18 final size:18
Alignment explanation
Indices: 17833573--17833613 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
17833563 TTAAGTGAGA
17833573 GTGAGAAACTATTCCTTC
1 GTGAGAAACTATTCCTTC
17833591 GTGAGAAACTATTCCTTC
1 GTGAGAAACTATTCCTTC
17833609 GTGAG
1 GTGAG
17833614 GTCTTCACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (18 bp):
GTGAGAAACTATTCCTTC
Found at i:17836198 original size:19 final size:19
Alignment explanation
Indices: 17836174--17836219 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
17836164 TCGATGCTTT
*
17836174 TTTGCATT-CATTTCATGCA
1 TTTGCATTGCATTACAT-CA
17836193 TTTGCATTGCATTACATCA
1 TTTGCATTGCATTACATCA
*
17836212 TATGCATT
1 TTTGCATT
17836220 AAAGTCCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTGCATTGCATTACATCA
Found at i:17844971 original size:143 final size:140
Alignment explanation
Indices: 17844664--17845203 Score: 552
Period size: 140 Copynumber: 3.9 Consensus size: 140
17844654 AGTCATTATG
* * *
17844664 GCGAATCTTATTTCCCT-GAAGTTGCAGTGGAGCAGATTAAAGC--CA--A---TAATCTTATC-
1 GCGAATCTTATTTCCCTGGCA-TTGCAGTGGAACAGATTAAAGCTACAGTACGCAAATCTTATCT
* * * * ** * *
17844720 TCTCTAAACTTGCAGTGAAGCGGATTGAAGTTACGAGTCTTATCTCCCTGAAGTTGTAGCGAAGC
65 TCT-TGAAGTTGCAGTGAAGCAGATTAAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGAAGC
*
17844785 AAACTA-AAGACA
129 AGAC-AGAAGACA
* * *
17844797 GCGAATCTTATTTCCGTAGCATTGCAATGGAACAGATTAAAGCTACAAGTTACGGCAAATCTTAT
1 GCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTAC-AG-TAC-GCAAATCTTAT
17844862 CTT-TCTGAAGTTGCAGTGAAGCAGATTAAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGAA
63 CTTCT-TGAAGTTGCAGTGAAGCAGATTAAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGAA
*
17844926 GCAGACAGAAGATA
127 GCAGACAGAAGACA
*
17844940 GCGAATCTTATTTCCCTGGCATTGTAGTGGAACAGATTAAAGCTACAGATA-GCAAATCTTATCT
1 GCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAG-TACGCAAATCTTATCT
* * * * *
17845004 CCTTGAAGTTGCAAAG-GAA-CAAATTAAAGCCACTAGCCTTATCCCCCTGAAGTTGTAGCGGAG
65 TCTTGAAGTTGC--AGTGAAGCAGATTAAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGAAG
* *
17845067 TAGACTGAAGACA
128 CAGACAGAAGACA
* * * * *
17845080 GCGAATCTTATTTCCTTGGCGTTGCAGTAGAATAGATTAAAGCTACAG-ACAACAAATCTTATCT
1 GCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAGTAC-GCAAATCTTATCT
* * * * * * *
17845144 TCTTGAAGTTGTAGAGGAGCAGATTAAAGCCACCATCCTTATCTACTTGAAGTTGCAGCG
65 TCTTGAAGTTGCAGTGAAGCAGATTAAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCG
17845204 GAGTAGATCG
Statistics
Matches: 343, Mismatches: 44, Indels: 33
0.82 0.10 0.08
Matches are distributed among these distances:
133 36 0.10
134 2 0.01
135 1 0.00
136 1 0.00
138 3 0.01
139 3 0.01
140 171 0.50
141 4 0.01
142 7 0.02
143 114 0.33
144 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (140 bp):
GCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAGTACGCAAATCTTATCTT
CTTGAAGTTGCAGTGAAGCAGATTAAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGAAGCAG
ACAGAAGACA
Found at i:17845210 original size:140 final size:140
Alignment explanation
Indices: 17844758--17845203 Score: 579
Period size: 140 Copynumber: 3.2 Consensus size: 140
17844748 AGTTACGAGT
* * * *
17844758 CTTATCTCCCTGAAGTTGTAGCGAAGCAAACTAAAGACAGCGAATCTTATTTCCGTAGCATTGCA
1 CTTATCTCCCTGAAGTTGTAGCGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCATTGCA
* * * *
17844823 ATGGAACAGATTAAAGCTACAAGTTACGGCAAATCTTATCTT-TCTGAAGTTGCAGTGAAGCAGA
66 GTGGAACAGATTAAAGCTAC-AG--ACAGCAAATCTTATCTTCT-TGAAGTTGCAGAGGAGCAGA
17844887 TTAAAGCCACCAGC
127 TTAAAGCCACCAGC
* * *
17844901 CTTATCTCCCTGAAGTTGTAGCGAAGCAGACAGAAGATAGCGAATCTTATTTCCCTGGCATTGTA
1 CTTATCTCCCTGAAGTTGTAGCGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCATTGCA
* * * * *
17844966 GTGGAACAGATTAAAGCTACAGATAGCAAATCTTATCTCCTTGAAGTTGCAAAGGAACAAATTAA
66 GTGGAACAGATTAAAGCTACAGACAGCAAATCTTATCTTCTTGAAGTTGCAGAGGAGCAGATTAA
*
17845031 AGCCACTAGC
131 AGCCACCAGC
* * * * *
17845041 CTTATCCCCCTGAAGTTGTAGCGGAGTAGACTGAAGACAGCGAATCTTATTTCCTTGGCGTTGCA
1 CTTATCTCCCTGAAGTTGTAGCGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCATTGCA
* * * *
17845106 GTAGAATAGATTAAAGCTACAGACAACAAATCTTATCTTCTTGAAGTTGTAGAGGAGCAGATTAA
66 GTGGAACAGATTAAAGCTACAGACAGCAAATCTTATCTTCTTGAAGTTGCAGAGGAGCAGATTAA
*
17845171 AGCCACCATC
131 AGCCACCAGC
* * *
17845181 CTTATCTACTTGAAGTTGCAGCG
1 CTTATCTCCCTGAAGTTGTAGCG
17845204 GAGTAGATCG
Statistics
Matches: 262, Mismatches: 40, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
140 182 0.69
141 1 0.00
142 2 0.01
143 77 0.29
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (140 bp):
CTTATCTCCCTGAAGTTGTAGCGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCATTGCA
GTGGAACAGATTAAAGCTACAGACAGCAAATCTTATCTTCTTGAAGTTGCAGAGGAGCAGATTAA
AGCCACCAGC
Found at i:17846978 original size:21 final size:21
Alignment explanation
Indices: 17846954--17847013 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
17846944 TTACCATTAT
*
17846954 TGTTA-TAGTTGTTATTATTCA
1 TGTTATTAGTTATT-TTATTCA
17846975 TGTTATTAGTTATTTTATT--
1 TGTTATTAGTTATTTTATTCA
*
17846994 TGGTTGTTAGTTATTTTATT
1 T-GTTATTAGTTATTTTATT
17847014 TGTTTACTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 1 0.03
20 17 0.49
21 10 0.29
22 7 0.20
ACGTcount: A:0.20, C:0.02, G:0.15, T:0.63
Consensus pattern (21 bp):
TGTTATTAGTTATTTTATTCA
Found at i:17847510 original size:18 final size:17
Alignment explanation
Indices: 17847483--17847516 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17847473 AAGGGATCGT
17847483 ATTTTAAATTCTTTTCAA
1 ATTTTAAATT-TTTTCAA
*
17847501 ATTTTCAATTTTTTCA
1 ATTTTAAATTTTTTCA
17847517 CATTAAGACG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTAAATTTTTTCAA
Found at i:17849688 original size:54 final size:53
Alignment explanation
Indices: 17849563--17849755 Score: 151
Period size: 54 Copynumber: 3.6 Consensus size: 53
17849553 CTCTACCAAA
** * * * **
17849563 AGATAGTCCTGATAGACCTT-CTACATAAAATAGTCATGACAGACCTT-CCACAAA
1 AGATAGTCCTGACGGA-CTTCCTCCATAAGATAGTC-TGA-AGAACTTCCCACATT
*
17849617 AGATAGTCCTGACGGACTTTCTACCA-AAGATAGTCCTGAAGAACTTCCCACATT
1 AGATAGTCCTGACGGACTTCCT-CCATAAGATAGT-CTGAAGAACTTCCCACATT
* * * * *
17849671 AGATAGTCCTTG-TGGACTTCCTGCATAAGATAGTCTTATGGACTTCCCACATT
1 AGATAGTCC-TGACGGACTTCCTCCATAAGATAGTCTGAAGAACTTCCCACATT
* * **
17849724 AGATAGTCATTACGGACTTCCAGCATAAGATA
1 AGATAGTCCTGACGGACTTCCTCCATAAGATA
17849756 ATCCTACGAA
Statistics
Matches: 115, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
52 1 0.01
53 53 0.46
54 56 0.49
55 5 0.04
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (53 bp):
AGATAGTCCTGACGGACTTCCTCCATAAGATAGTCTGAAGAACTTCCCACATT
Found at i:17849754 original size:27 final size:26
Alignment explanation
Indices: 17849562--17849775 Score: 130
Period size: 27 Copynumber: 8.0 Consensus size: 26
17849552 CCTCTACCAA
** *
17849562 AAGATAGTCCTGATAGACCTTCTACAT
1 AAGATAGTCCTGACGGA-CTTCCACAT
* * * *
17849589 AAAATAGTCATGACAGACCTTCCACAA
1 AAGATAGTCCTGACGGA-CTTCCACAT
*
17849616 AAGATAGTCCTGACGGACTTTCTACCA-
1 AAGATAGTCCTGACGGAC-TTCCA-CAT
* *
17849643 AAGATAGTCCTGAAGAACTTCCCACAT
1 AAGATAGTCCTGACGGACTT-CCACAT
* * *
17849670 TAGATAGTCCTTG-TGGACTTCCTGCAT
1 AAGATAGTCC-TGACGGACTTCC-ACAT
* *
17849697 AAGATAGT-CTTATGGACTTCCCACAT
1 AAGATAGTCCTGACGGACTT-CCACAT
* * *
17849723 TAGATAGTCATTACGGACTTCCAGCAT
1 AAGATAGTCCTGACGGACTTCCA-CAT
* *
17849750 AAGATAATCCT-ACGAACTTCCTACAT
1 AAGATAGTCCTGACGGACTTCC-ACAT
17849776 TTACGGTAAT
Statistics
Matches: 150, Mismatches: 26, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
25 1 0.01
26 40 0.27
27 105 0.70
28 4 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (26 bp):
AAGATAGTCCTGACGGACTTCCACAT
Found at i:17849769 original size:53 final size:53
Alignment explanation
Indices: 17849617--17849776 Score: 178
Period size: 53 Copynumber: 3.0 Consensus size: 53
17849607 CTTCCACAAA
* * *
17849617 AGATAGTCCTGACGGACTTTCTACCA-AAGATAGTCCTGAAGAACTTCCCACATT
1 AGATAGTCCTTACGGAC-TTCCAGCATAAGATAGTCCT-AAGAACTTCCCACATT
** * * * *
17849671 AGATAGTCCTTGTGGACTTCCTGCATAAGATAGTCTTATGGACTTCCCACATT
1 AGATAGTCCTTACGGACTTCCAGCATAAGATAGTCCTAAGAACTTCCCACATT
* * * *
17849724 AGATAGTCATTACGGACTTCCAGCATAAGATAATCCTACGAACTTCCTACATT
1 AGATAGTCCTTACGGACTTCCAGCATAAGATAGTCCTAAGAACTTCCCACATT
17849777 TACGGTAATG
Statistics
Matches: 87, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
53 63 0.72
54 24 0.28
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (53 bp):
AGATAGTCCTTACGGACTTCCAGCATAAGATAGTCCTAAGAACTTCCCACATT
Found at i:17851615 original size:60 final size:60
Alignment explanation
Indices: 17851542--17851672 Score: 145
Period size: 60 Copynumber: 2.2 Consensus size: 60
17851532 TCCCTTTTGA
* * * * *
17851542 AATTTTCAAAATTTGAACTAAATTGAGAAATTTAATAAATCCTGAGAGCTAAATTTATTG
1 AATTTTTAGAATTTGAACTAAAATGACAAATTTAATAAATACTGAGAGCTAAATTTATTG
* ** * * * *
17851602 AATTTTTAGAATTTGGACTAAAATGACAAATTTTGTAAATATTGAGGGTTAAATTTGTTG
1 AATTTTTAGAATTTGAACTAAAATGACAAATTTAATAAATACTGAGAGCTAAATTTATTG
17851662 AACTTTTTAGA
1 AA-TTTTTAGA
17851673 TTTAGTGTCA
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 50 0.86
61 8 0.14
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (60 bp):
AATTTTTAGAATTTGAACTAAAATGACAAATTTAATAAATACTGAGAGCTAAATTTATTG
Found at i:17851759 original size:20 final size:19
Alignment explanation
Indices: 17851735--17851772 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17851725 TAGACGAATA
17851735 AAAAAAGACCCACGTCAGC
1 AAAAAAGACCCACGTCAGC
17851754 AAAAAAGACCCACGTCAGC
1 AAAAAAGACCCACGTCAGC
17851773 TTTCTATCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.32, G:0.16, T:0.05
Consensus pattern (19 bp):
AAAAAAGACCCACGTCAGC
Found at i:17852413 original size:37 final size:37
Alignment explanation
Indices: 17852354--17852427 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
17852344 TAAATTATTT
* * * *
17852354 TAATTAAATTTTAATTCATTATTCAAAATTTTAAATA
1 TAATTAAATTGTAATTAATTATTCAAAAATTCAAATA
*
17852391 TAATTAAATTGT-ATTAACTTATTTAAAAATTCAAATA
1 TAATTAAATTGTAATTAA-TTATTCAAAAATTCAAATA
17852428 CAATAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
36 4 0.13
37 27 0.87
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.46
Consensus pattern (37 bp):
TAATTAAATTGTAATTAATTATTCAAAAATTCAAATA
Found at i:17854161 original size:16 final size:16
Alignment explanation
Indices: 17854140--17854181 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
17854130 TTTTGATAAA
17854140 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
17854156 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
17854172 AGTAAAATTA
1 ATTAAAATTA
17854182 TCAAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:17854416 original size:16 final size:16
Alignment explanation
Indices: 17854395--17854428 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
17854385 TATATATTTT
17854395 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
17854411 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
17854427 AA
1 AA
17854429 CTAGTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACATAAAAAACTTA
Found at i:17855609 original size:20 final size:20
Alignment explanation
Indices: 17855581--17855619 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17855571 ATATATTACT
*
17855581 TTTTGTTTAAAATTTTATTC
1 TTTTATTTAAAATTTTATTC
**
17855601 TTTTATTTATTATTTTATT
1 TTTTATTTAAAATTTTATT
17855620 TTATTTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTATTTAAAATTTTATTC
Found at i:17856504 original size:22 final size:22
Alignment explanation
Indices: 17856468--17856509 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17856458 AAAATTGTTT
17856468 TAATGTTGCACGT-AATTTTCA
1 TAATGTTGCACGTAAATTTTCA
*
17856489 TAATAGTTGCATGTAAATTTT
1 TAAT-GTTGCACGTAAATTTT
17856510 TATTTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (22 bp):
TAATGTTGCACGTAAATTTTCA
Found at i:17857714 original size:16 final size:16
Alignment explanation
Indices: 17857695--17857727 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17857685 TGTTTTTGGG
*
17857695 TTTCGGGGTTTAGTTT
1 TTTCGGGATTTAGTTT
17857711 TTTCGGGATTTAGTTT
1 TTTCGGGATTTAGTTT
17857727 T
1 T
17857728 ATCTCTATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.27, T:0.58
Consensus pattern (16 bp):
TTTCGGGATTTAGTTT
Found at i:17860720 original size:25 final size:25
Alignment explanation
Indices: 17860692--17860904 Score: 107
Period size: 25 Copynumber: 8.7 Consensus size: 25
17860682 CGTTAAATGA
*
17860692 CTCTCACGAGCTTCCCGATATTTGG
1 CTCTCATGAGCTTCCCGATATTTGG
* * *
17860717 CTCTTATGAGCTTTCCGAT-TAATGG
1 CTCTCATGAGCTTCCCGATAT-TTGG
** * * *
17860742 CTCTTTTGAGTTTCCCGATAATTAG
1 CTCTCATGAGCTTCCCGATATTTGG
***
17860767 CTCTCATGAGCTTCTTAATA-TTGG
1 CTCTCATGAGCTTCCCGATATTTGG
* * * *
17860791 CACGCATGAACTTCCCGA-ATTTAG
1 CTCTCATGAGCTTCCCGATATTTGG
17860815 CTC-CATTGAGCTTCCCG-T-TTATGG
1 CTCTCA-TGAGCTTCCCGATATT-TGG
* * *
17860839 CTCGCATAAGCTTCCTGATA-TTGG
1 CTCTCATGAGCTTCCCGATATTTGG
* * ** * * *
17860863 CTCGCAGGAGCTTCTTGTTATATGA
1 CTCTCATGAGCTTCCCGATATTTGG
*
17860888 CTCACATGAGCTTCCCG
1 CTCTCATGAGCTTCCCG
17860905 TTACATGGCT
Statistics
Matches: 139, Mismatches: 39, Indels: 20
0.70 0.20 0.10
Matches are distributed among these distances:
23 5 0.04
24 64 0.46
25 70 0.50
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATATTTGG
Found at i:17860850 original size:24 final size:25
Alignment explanation
Indices: 17860672--17860926 Score: 105
Period size: 25 Copynumber: 10.4 Consensus size: 25
17860662 TTTAGATCTT
* * * *
17860672 ATGAGCATCCCGTTAAATGACTCTC
1 ATGAGCTTCCCGTTATATGGCTCGC
* * * **
17860697 ACGAGCTTCCCGATATTTGGCTCTT
1 ATGAGCTTCCCGTTATATGGCTCGC
* **
17860722 ATGAGCTTTCCGATTA-ATGGCTCTT
1 ATGAGCTTCCCG-TTATATGGCTCGC
* * * * *
17860747 TTGAGTTTCCCGATA-ATTAGCTCTC
1 ATGAGCTTCCCGTTATA-TGGCTCGC
*
17860772 ATGAGCTT--C-TTAATATTGGCACGC
1 ATGAGCTTCCCGTT-ATA-TGGCTCGC
* * * *
17860796 ATGAACTTCCCG-AATTTAGCTC-C
1 ATGAGCTTCCCGTTATATGGCTCGC
17860819 ATTGAGCTTCCCGTT-TATGGCTCGC
1 A-TGAGCTTCCCGTTATATGGCTCGC
* * *
17860844 ATAAGCTTCCTGATAT-TGGCTCGC
1 ATGAGCTTCCCGTTATATGGCTCGC
* ** * *
17860868 AGGAGCTTCTTGTTATATGACTCAC
1 ATGAGCTTCCCGTTATATGGCTCGC
* *
17860893 ATGAGCTTCCCGTTACATGGCTCGT
1 ATGAGCTTCCCGTTATATGGCTCGC
*
17860918 AAGAGCTTC
1 ATGAGCTTC
17860927 TCGACTACAT
Statistics
Matches: 169, Mismatches: 49, Indels: 24
0.70 0.20 0.10
Matches are distributed among these distances:
22 1 0.01
23 4 0.02
24 67 0.40
25 94 0.56
26 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATGGCTCGC
Found at i:17868158 original size:24 final size:24
Alignment explanation
Indices: 17868114--17868240 Score: 123
Period size: 24 Copynumber: 5.2 Consensus size: 24
17868104 GGCTCCCTCA
17868114 AGCTTCCCGATAATTGGCTCGCATG
1 AGCTTCCCGAT-ATTGGCTCGCATG
*
17868139 AGCTTCCCGATATTGGCTCGCGTG
1 AGCTTCCCGATATTGGCTCGCATG
* ***
17868163 AGCTTCTCGA-ATTTGGCTCTTTTG
1 AGCTTCCCGATA-TTGGCTCGCATG
* * * *
17868187 AGCTTCCCG-TTTATGACTCGTATA
1 AGCTTCCCGATAT-TGGCTCGCATG
*
17868211 AGCTTCCCGATATTGGCTCGCAAG
1 AGCTTCCCGATATTGGCTCGCATG
17868235 AGCTTC
1 AGCTTC
17868241 TCGTTACATG
Statistics
Matches: 82, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
23 2 0.02
24 67 0.82
25 13 0.16
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (24 bp):
AGCTTCCCGATATTGGCTCGCATG
Found at i:17868279 original size:25 final size:25
Alignment explanation
Indices: 17868224--17868287 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
17868214 TTCCCGATAT
* *
17868224 TGGCTCGCAAGAGCTTCTCGTTACA
1 TGGCTCGTAAGAGCTTCTCGCTACA
17868249 TGGCTCGTAAGAGCTTCTCGACTACA
1 TGGCTCGTAAGAGCTTCTCG-CTACA
*
17868275 T-GCTCGTATGAGC
1 TGGCTCGTAAGAGC
17868288 ATACCTGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 30 0.86
26 5 0.14
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (25 bp):
TGGCTCGTAAGAGCTTCTCGCTACA
Found at i:17870846 original size:24 final size:24
Alignment explanation
Indices: 17870802--17870853 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
17870792 TTTCTAGAAG
* *
17870802 ATTTAATATTTATTAATATAATAT
1 ATTTAACATTTATTAACATAATAT
* *
17870826 ATTTAACATTTATTAGCATAATTT
1 ATTTAACATTTATTAACATAATAT
17870850 ATTT
1 ATTT
17870854 GACCTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTAACATTTATTAACATAATAT
Found at i:17872147 original size:31 final size:31
Alignment explanation
Indices: 17872109--17872177 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
17872099 AATATATTTA
* *
17872109 TTTTTTTAATTTTAAAATATTTTTAAAATGC
1 TTTTTTTAATTTAAAAATATTTTTAAAATAC
17872140 TTTTTTTAATTTAAAAATATTTTTAAAATAC
1 TTTTTTTAATTTAAAAATATTTTTAAAATAC
17872171 TTTTTTT
1 TTTTTTT
17872178 TTAATTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (31 bp):
TTTTTTTAATTTAAAAATATTTTTAAAATAC
Found at i:17872165 original size:42 final size:42
Alignment explanation
Indices: 17872118--17872217 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
17872108 ATTTTTTTAA
**
17872118 TTTTAAAATA-TTTTTAAAATGCTTTTTTTAATTTAAAAATAT
1 TTTTAAAATACTTTTT-AAATAATTTTTTTAATTTAAAAATAT
***
17872160 TTTTAAAATACTTTTTTTTTAATTTTTTTAATTTAAAAATAT
1 TTTTAAAATACTTTTTAAATAATTTTTTTAATTTAAAAATAT
17872202 TTTTAAAATACTTTTT
1 TTTTAAAATACTTTTT
17872218 TTAATTTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
42 47 0.90
43 5 0.10
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (42 bp):
TTTTAAAATACTTTTTAAATAATTTTTTTAATTTAAAAATAT
Found at i:17872218 original size:42 final size:40
Alignment explanation
Indices: 17872140--17872226 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 40
17872130 TTTAAAATGC
17872140 TTTTTTTAATTTAAAAATATTTTTAAAATACTTTTTTTTTAA
1 TTTTTTTAATTTAAAAATATTTTTAAAATAC--TTTTTTTAA
17872182 TTTTTTTAATTTAAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTTTTAATTTAAAAATATTTTTAAAATACTTTTTTTAA
17872222 TTTTT
1 TTTTT
17872227 AAAATAAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 14 0.31
42 31 0.69
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTTTTTAATTTAAAAATATTTTTAAAATACTTTTTTTAA
Found at i:17872238 original size:21 final size:21
Alignment explanation
Indices: 17872200--17872239 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17872190 ATTTAAAAAT
**
17872200 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
17872221 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
17872240 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:17872246 original size:22 final size:20
Alignment explanation
Indices: 17872199--17872253 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
17872189 AATTTAAAAA
* *
17872199 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTG
17872219 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
17872242 TATTTATTAAAA
1 TATTT-TTAAAA
17872254 AATGGGTCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.38
22 10 0.34
23 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:17873174 original size:19 final size:19
Alignment explanation
Indices: 17873128--17873174 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
17873118 CAATTCCCAT
17873128 ATTTTAATAATTTTAAAAA
1 ATTTTAATAATTTTAAAAA
* **
17873147 AGTAAAATAA-TTTAAAAA
1 ATTTTAATAATTTTAAAAA
17873165 ACTTTTAATA
1 A-TTTTAATA
17873175 TATATCAATT
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
ATTTTAATAATTTTAAAAA
Found at i:17873297 original size:21 final size:21
Alignment explanation
Indices: 17873273--17873325 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
17873263 CATTGTTTCT
*
17873273 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
17873294 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
17873315 AATCTCACCGC
1 AATCTCACCGC
17873326 CACCGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:17874906 original size:26 final size:26
Alignment explanation
Indices: 17874849--17874920 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
17874839 ATTAAAAAGA
* *
17874849 TATTAAGAAATATAAGAAATTGTAAC
1 TATTAAGAATTATAAGAAATTATAAC
* *
17874875 TTTTAATAATTATAAGAAATTATAA-
1 TATTAAGAATTATAAGAAATTATAAC
*
17874900 TAATTAAGAATTATAAAAAAT
1 T-ATTAAGAATTATAAGAAAT
17874921 ATTAGAAACT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 1 0.03
26 37 0.97
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.36
Consensus pattern (26 bp):
TATTAAGAATTATAAGAAATTATAAC
Found at i:17875064 original size:11 final size:10
Alignment explanation
Indices: 17875043--17875109 Score: 50
Period size: 10 Copynumber: 6.6 Consensus size: 10
17875033 TCTGGACATT
17875043 ATTTTTAATA
1 ATTTTTAATA
17875053 ATTTTTAGATA
1 ATTTTTA-ATA
*
17875064 A-GTTTAATA
1 ATTTTTAATA
*
17875073 ATTAATT-ATAA
1 ATT-TTTAAT-A
*
17875084 ATTTTAAATA
1 ATTTTTAATA
17875094 ATTATTT-ATA
1 ATT-TTTAATA
17875104 ATTTTT
1 ATTTTT
17875110 TTTTTAAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
9 7 0.16
10 24 0.53
11 14 0.31
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:17875095 original size:21 final size:21
Alignment explanation
Indices: 17875069--17875109 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17875059 AGATAAGTTT
17875069 AATAATTAATTATAAATTTTA
1 AATAATTAATTATAAATTTTA
* *
17875090 AATAATTATTTATAATTTTT
1 AATAATTAATTATAAATTTT
17875110 TTTTTAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATAATTAATTATAAATTTTA
Found at i:17875615 original size:7 final size:7
Alignment explanation
Indices: 17875604--17875638 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
17875594 ATCATTATAT
*
17875604 GCCAACT
1 GCCAACC
17875611 GCCAACC
1 GCCAACC
*
17875618 GCAAACC
1 GCCAACC
17875625 GCCAACC
1 GCCAACC
17875632 GCCAACC
1 GCCAACC
17875639 ATTTTCCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.51, G:0.14, T:0.03
Consensus pattern (7 bp):
GCCAACC
Found at i:17876414 original size:28 final size:29
Alignment explanation
Indices: 17876354--17876414 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
17876344 TTACATGGAC
* *
17876354 TGATTATTTAACTAGTACACAAAGTATAA
1 TGATTATTTAACTAATAAACAAAGTATAA
17876383 -GATTATTTAACTACATAAAC-AA-TATAA
1 TGATTATTTAACTA-ATAAACAAAGTATAA
17876410 TGATT
1 TGATT
17876415 TTGCCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
27 5 0.18
28 19 0.68
29 4 0.14
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (29 bp):
TGATTATTTAACTAATAAACAAAGTATAA
Found at i:17876533 original size:70 final size:67
Alignment explanation
Indices: 17876407--17876539 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 67
17876397 ATAAACAATA
* ** * *
17876407 TAATGATTTTGCCTTTTAACTTAATGAGTAAACATTCATCAAAGCGATGTAGTTTTGCCTTTTAA
1 TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTCATCAAAACGACGTAGTTTTGCCTTTTAA
17876472 CT
66 CT
* *
17876474 TAATGATTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAACGACGTGGTTTTGCCTTT
1 TAATGATTTTGACTTTTAAC-TTA-AAAA-GTAAACATTCATCAAAACGACGTAGTTTTGCCTTT
17876539 T
63 T
17876540 CTTATTCGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 19 0.34
68 3 0.05
69 2 0.04
70 32 0.57
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (67 bp):
TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTCATCAAAACGACGTAGTTTTGCCTTTTAA
CT
Found at i:17880505 original size:29 final size:29
Alignment explanation
Indices: 17880473--17880566 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 29
17880463 TAATTGTCCT
*
17880473 TTTTCATATTCAATGGTCGAAACCATCCC
1 TTTTCATATTCGATGGTCGAAACCATCCC
* * * *
17880502 TTTTCATAATCGAT--TACTGAATCTATCCT
1 TTTTCATATTCGATGGT-C-GAAACCATCCC
**
17880531 TTTTCATATTCGATGGTCGTCACCATCCC
1 TTTTCATATTCGATGGTCGAAACCATCCC
17880560 TTTTCAT
1 TTTTCAT
17880567 TGGTTGATTA
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
27 1 0.02
28 1 0.02
29 46 0.92
30 1 0.02
31 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (29 bp):
TTTTCATATTCGATGGTCGAAACCATCCC
Found at i:17896749 original size:13 final size:13
Alignment explanation
Indices: 17896709--17896742 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17896699 TCTGAGTAAG
* *
17896709 GTCACAAGGTAGT
1 GTCACACGGCAGT
17896722 GTCACACGGCAGT
1 GTCACACGGCAGT
17896735 GTCACACG
1 GTCACACG
17896743 CAAGTGTGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.18
Consensus pattern (13 bp):
GTCACACGGCAGT
Found at i:17901002 original size:3 final size:3
Alignment explanation
Indices: 17900994--17901039 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
17900984 TATTTTAGTG
* *
17900994 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA CTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17901040 GACTATCATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:17901199 original size:16 final size:16
Alignment explanation
Indices: 17901174--17901206 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17901164 ATACTCATTT
17901174 TATATATATATTTATA
1 TATATATATATTTATA
*
17901190 TATATGTATATTTATA
1 TATATATATATTTATA
17901206 T
1 T
17901207 TTTTTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TATATATATATTTATA
Found at i:17902487 original size:23 final size:24
Alignment explanation
Indices: 17902461--17902510 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
17902451 AAAATACCTC
**
17902461 AAGTATCGTATTGA-AAAAAACTT
1 AAGTATCAAATTGAGAAAAAACTT
17902484 AAGTATCAAATTGAGGAAAAAACTT
1 AAGTATCAAATTGA-GAAAAAACTT
17902509 AA
1 AA
17902511 TTACTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
25 11 0.48
ACGTcount: A:0.52, C:0.08, G:0.14, T:0.26
Consensus pattern (24 bp):
AAGTATCAAATTGAGAAAAAACTT
Found at i:17907954 original size:19 final size:20
Alignment explanation
Indices: 17907906--17907957 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
17907896 CTTAGAATTT
17907906 TTTTCATTCA-TTATCAAAA
1 TTTTCATTCATTTATCAAAA
* *
17907925 TTTGGCATTCATTTAT-AAAG
1 TTT-TCATTCATTTATCAAAA
17907945 TTTTCATTCATTT
1 TTTTCATTCATTT
17907958 TTAGTTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.43
20 12 0.43
21 4 0.14
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCATTCATTTATCAAAA
Found at i:17909896 original size:19 final size:21
Alignment explanation
Indices: 17909858--17909912 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
17909848 AACCCGATAG
17909858 GTATCGATAATTTTTCAT-AA
1 GTATCGATAATTTTTCATAAA
*
17909878 GTATTGATAATTTTT-ATAAA
1 GTATCGATAATTTTTCATAAA
17909898 GTATCGAT-ATTTTTC
1 GTATCGATAATTTTTC
17909913 TATTGGTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (21 bp):
GTATCGATAATTTTTCATAAA
Found at i:17913941 original size:12 final size:12
Alignment explanation
Indices: 17913926--17913952 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17913916 TATTCATCAA
17913926 TTAATTCCACTC
1 TTAATTCCACTC
17913938 TTAATTCCACTC
1 TTAATTCCACTC
17913950 TTA
1 TTA
17913953 CTATTTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAATTCCACTC
Found at i:17914960 original size:29 final size:29
Alignment explanation
Indices: 17914897--17914964 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
17914887 TAATCAACCG
*
17914897 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
17914926 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
17914955 CGCACACTTA
1 CGCACACTTA
17914965 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:17915076 original size:174 final size:174
Alignment explanation
Indices: 17914786--17915113 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
17914776 AACTCAAGGT
* *
17914786 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
17914851 GAAGATATATATTGGGTTCGCACACATAATGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAATGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
17914916 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
17914960 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
17915025 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAATGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
17915090 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
17915114 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAATGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:17915105 original size:29 final size:30
Alignment explanation
Indices: 17915066--17915144 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
17915056 CTTAATAATC
17915066 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
17915096 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
17915125 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
17915145 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:17923097 original size:29 final size:29
Alignment explanation
Indices: 17923034--17923101 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
17923024 TAATCAACCG
17923034 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
17923063 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
17923092 CGCACACTTA
1 CGCACACTTA
17923102 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:17923214 original size:174 final size:174
Alignment explanation
Indices: 17922923--17923250 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
17922913 AACTCAAGGT
* *
17922923 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
17922988 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
17923053 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
17923097 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
17923162 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
17923227 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
17923251 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:17923242 original size:29 final size:30
Alignment explanation
Indices: 17923203--17923281 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
17923193 CTTAATAATC
17923203 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
17923233 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
17923262 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
17923282 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:17924884 original size:27 final size:27
Alignment explanation
Indices: 17924843--17925211 Score: 374
Period size: 27 Copynumber: 13.8 Consensus size: 27
17924833 GGGCTGTTAC
* * *
17924843 AATACCCCCACAGGGTTAAATGACCGA
1 AATACCCCTATAGGGTAAAATGACCGA
*
17924870 AATAGCCCTATAGGGTAAAATGACCGA
1 AATACCCCTATAGGGTAAAATGACCGA
* * **
17924897 AATACCCCCATAGGATAAAATGATTGA
1 AATACCCCTATAGGGTAAAATGACCGA
17924924 AATA-CCCTCATAGGGTAAAATGACCGA
1 AATACCCCT-ATAGGGTAAAATGACCGA
* * *
17924951 AGTACCCCTATCGGGTAAAATGACTGA
1 AATACCCCTATAGGGTAAAATGACCGA
* **
17924978 AATA-CCCTATAGTGTAAAATGAATGA
1 AATACCCCTATAGGGTAAAATGACCGA
* * *
17925004 AATACCCCCATAGGGTAAAATAACCAA
1 AATACCCCTATAGGGTAAAATGACCGA
*
17925031 AATACCTCTATAGGGTAAAATGACCGA
1 AATACCCCTATAGGGTAAAATGACCGA
* *
17925058 AATACCCCTATAAGGT-AAATGATCGA
1 AATACCCCTATAGGGTAAAATGACCGA
* * *
17925084 AATACCCCCATA-AGTAAAATGACTGA
1 AATACCCCTATAGGGTAAAATGACCGA
** * *
17925110 AATA-GTCTCATAAGGTAAAATGACCAA
1 AATACCCCT-ATAGGGTAAAATGACCGA
* * *
17925137 AATTCCCTTATAGGGTAAAATGACCAA
1 AATACCCCTATAGGGTAAAATGACCGA
* *
17925164 AATACCCCCCATA-GGTAAAATGACCAA
1 AATA-CCCCTATAGGGTAAAATGACCGA
17925191 AATACCCC-ATAGGGTAAAATG
1 AATACCCCTATAGGGTAAAATG
17925212 CTGGTATATC
Statistics
Matches: 282, Mismatches: 51, Indels: 19
0.80 0.14 0.05
Matches are distributed among these distances:
25 6 0.02
26 74 0.26
27 191 0.68
28 11 0.04
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
AATACCCCTATAGGGTAAAATGACCGA
Found at i:17925047 original size:80 final size:79
Alignment explanation
Indices: 17924843--17925211 Score: 406
Period size: 80 Copynumber: 4.6 Consensus size: 79
17924833 GGGCTGTTAC
* * *
17924843 AATACCCCCACAGGGTTAAATGACCGAAATAGCCCTATAGGGTAAAATGACCGAAATACCCCCAT
1 AATACCCCCATAGGGTAAAATGACCGAAATA-CCCTATAGGGTAAAATGACCGAAATACCCCTAT
*
17924908 AGGATAAAATGATTGA
65 AGG-TAAAATGAATGA
* * * *
17924924 AATACCCTCATAGGGTAAAATGACCGAAGTACCCCTATCGGGTAAAATGACTGAAATA-CCCTAT
1 AATACCCCCATAGGGTAAAATGACCGAAATA-CCCTATAGGGTAAAATGACCGAAATACCCCTAT
17924988 AGTGTAAAATGAATGA
65 AG-GTAAAATGAATGA
* *
17925004 AATACCCCCATAGGGTAAAATAACCAAAATACCTCTATAGGGTAAAATGACCGAAATACCCCTAT
1 AATACCCCCATAGGGTAAAATGACCGAAATACC-CTATAGGGTAAAATGACCGAAATACCCCTAT
17925069 AAGGT-AAATG-ATCGA
65 -AGGTAAAATGAAT-GA
* * ** * * * *
17925084 AATACCCCCATA-AGTAAAATGACTGAAATAGTCTCATAAGGTAAAATGACCAAAATTCCCTTAT
1 AATACCCCCATAGGGTAAAATGACCGAAATACCCT-ATAGGGTAAAATGACCGAAATACCCCTAT
***
17925148 AGGGTAAAATGACCAA
65 A-GGTAAAATGAATGA
* *
17925164 AATACCCCCCATA-GGTAAAATGACCAAAATACCCCATAGGGTAAAATG
1 AATA-CCCCCATAGGGTAAAATGACCGAAATACCCTATAGGGTAAAATG
17925212 CTGGTATATC
Statistics
Matches: 243, Mismatches: 35, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.01
79 46 0.19
80 108 0.44
81 84 0.35
82 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (79 bp):
AATACCCCCATAGGGTAAAATGACCGAAATACCCTATAGGGTAAAATGACCGAAATACCCCTATA
GGTAAAATGAATGA
Found at i:17925239 original size:106 final size:106
Alignment explanation
Indices: 17924843--17925211 Score: 289
Period size: 107 Copynumber: 3.4 Consensus size: 106
17924833 GGGCTGTTAC
* * * * * * * ** *
17924843 AATACCCCCACAGGGTTAAATGACCGAAATAGCCCTATAGGGTAAAATGACCGAAATACCCCCAT
1 AATACCCCCATAAGG-TAAATGACCAAAATACCCCCATA-AGTAAAATGACTGAAATAGTCTCAT
* *** *
17924908 AGGATAAAATGATTGAAATACC-CTCATAGGGTAAAATGACCGA
64 AAGATAAAATGACCAAAATACCTCT-ATAGGGTAAAATGACCAA
* * ** ** * * * ** *
17924951 AGTACCCCTATCGGGTAAAATGACTGAAATA-CCCTATAGTGTAAAATGAATGAAATACCCCCAT
1 AATACCCCCATAAGGT-AAATGACCAAAATACCCCCATA-AGTAAAATGACTGAAATAGTCTCAT
* * * *
17925015 AGGGTAAAATAACCAAAATACCTCTATAGGGTAAAATGACCGA
64 AAGATAAAATGACCAAAATACCTCTATAGGGTAAAATGACCAA
* * *
17925058 AATACCCCTATAAGGTAAATGATCGAAATACCCCCATAAGTAAAATGACTGAAATAGTCTCATAA
1 AATACCCCCATAAGGTAAATGACCAAAATACCCCCATAAGTAAAATGACTGAAATAGTCTCATAA
* *
17925123 GGTAAAATGACCAAAATTCC-CTTATAGGGTAAAATGACCAA
66 GATAAAATGACCAAAATACCTC-TATAGGGTAAAATGACCAA
*
17925164 AATACCCCCCAT-AGGTAAAATGACCAAAATA-CCCCATAGGGTAAAATG
1 AATA-CCCCCATAAGGT-AAATGACCAAAATACCCCCATA-AGTAAAATG
17925212 CTGGTATATC
Statistics
Matches: 222, Mismatches: 32, Indels: 15
0.83 0.12 0.06
Matches are distributed among these distances:
105 1 0.00
106 84 0.38
107 111 0.50
108 26 0.12
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (106 bp):
AATACCCCCATAAGGTAAATGACCAAAATACCCCCATAAGTAAAATGACTGAAATAGTCTCATAA
GATAAAATGACCAAAATACCTCTATAGGGTAAAATGACCAA
Found at i:17938893 original size:23 final size:23
Alignment explanation
Indices: 17938850--17938894 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17938840 AAGAATCTAG
* *
17938850 AGCTTATTTAGAGAATTATACAC
1 AGCTTATTCAGAGAATCATACAC
17938873 AGCTTATTCAGATG-ATCATACA
1 AGCTTATTCAGA-GAATCATACA
17938895 TGAAGCTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (23 bp):
AGCTTATTCAGAGAATCATACAC
Found at i:17941403 original size:30 final size:30
Alignment explanation
Indices: 17941367--17941495 Score: 127
Period size: 30 Copynumber: 4.3 Consensus size: 30
17941357 GGCTATCGAT
* *
17941367 TATGAAAAGGGATTGTGACGATCATCGAAC
1 TATGAAAAGGGATGGTGACGATCATCAAAC
* * *
17941397 TATGAAAAGGGATAGCT-TCGA-CTATCAAAT
1 TATGAAAAGGGAT-GGTGACGATC-ATCAAAC
*
17941427 TATGAAAAGGGATGGTGACGATCATCGAAC
1 TATGAAAAGGGATGGTGACGATCATCAAAC
* * * * *
17941457 AATGAAAAGAGATGGTGACAACCATCAAAT
1 TATGAAAAGGGATGGTGACGATCATCAAAC
17941487 TATGAAAAG
1 TATGAAAAG
17941496 ATATAGTTTC
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
29 3 0.04
30 74 0.94
31 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGATCATCAAAC
Found at i:17941453 original size:60 final size:59
Alignment explanation
Indices: 17941338--17941465 Score: 202
Period size: 60 Copynumber: 2.2 Consensus size: 59
17941328 ATTATCGATG
* * * *
17941338 AATGAAAATGGATAGCTTCGGCTATCGATTATGAAAAGGGATTGTGACGATCATCGAAC
1 AATGAAAAGGGATAGCTTCGACTATCAATTATGAAAAGGGATGGTGACGATCATCGAAC
*
17941397 TATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGATCATCGAAC
1 AATGAAAAGGGATAGCTTCGACTATC-AATTATGAAAAGGGATGGTGACGATCATCGAAC
17941457 AATGAAAAG
1 AATGAAAAG
17941466 AGATGGTGAC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
59 23 0.37
60 39 0.63
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (59 bp):
AATGAAAAGGGATAGCTTCGACTATCAATTATGAAAAGGGATGGTGACGATCATCGAAC
Found at i:17941484 original size:60 final size:60
Alignment explanation
Indices: 17941365--17941495 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 60
17941355 TCGGCTATCG
* * * * * *
17941365 ATTATGAAAAGGGATTGTGACGATCATCGAACTATGAAAAGGGATAGCTTCGACTATCAA
1 ATTATGAAAAGGGATGGTGACGATCATCGAACAATGAAAAGAGATAGCTACAACCATCAA
*
17941425 ATTATGAAAAGGGATGGTGACGATCATCGAACAATGAAAAGAGAT-GGTGACAACCATCAA
1 ATTATGAAAAGGGATGGTGACGATCATCGAACAATGAAAAGAGATAGCT-ACAACCATCAA
17941485 ATTATGAAAAG
1 ATTATGAAAAG
17941496 ATATAGTTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
59 2 0.03
60 61 0.97
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (60 bp):
ATTATGAAAAGGGATGGTGACGATCATCGAACAATGAAAAGAGATAGCTACAACCATCAA
Found at i:17941537 original size:30 final size:30
Alignment explanation
Indices: 17941480--17941559 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
17941470 GGTGACAACC
** **
17941480 ATCAAATTATGAAAAGATATAGTTTCGGCT
1 ATCAAATTATGAAAAGGGATAACTTCGGCT
* *
17941510 GTCAAATTATGAAAAGGGATAACTTCGGTT
1 ATCAAATTATGAAAAGGGATAACTTCGGCT
*
17941540 ATCGAATTATGAAAAGGGAT
1 ATCAAATTATGAAAAGGGAT
17941560 GGGTCAACCA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGGATAACTTCGGCT
Found at i:17941544 original size:90 final size:90
Alignment explanation
Indices: 17941339--17941570 Score: 245
Period size: 90 Copynumber: 2.6 Consensus size: 90
17941329 TTATCGATGA
* * * * * *
17941339 ATGAAAATGGATAGCTTCGGCTATCG-ATTATGAAAAGGGATTGTGACGATCATCGAACTATGAA
1 ATGAAAAGGGATAGCTTCGGTTATCGAATTATGAAAAGGGATGGTGACAACCATCAAACTATGAA
*
17941403 AAGGGATAGCTTCGACTATCAAATT
66 AAGAGATAGCTTCGACTATCAAATT
* * * * ** * *
17941428 ATGAAAAGGGAT-GGTGACGATCATCGAACAATGAAAAGAGATGGTGACAACCATCAAATTATGA
1 ATGAAAAGGGATAGCT-TCGGTTATCGAATTATGAAAAGGGATGGTGACAACCATCAAACTATGA
* * * *
17941492 AAAGATATAGTTTCGGCTGTCAAATT
65 AAAGAGATAGCTTCGACTATCAAATT
* *
17941518 ATGAAAAGGGATAACTTCGGTTATCGAATTATGAAAAGGGATGG-GTCAACCAT
1 ATGAAAAGGGATAGCTTCGGTTATCGAATTATGAAAAGGGATGGTGACAACCAT
17941571 TGTATTATTA
Statistics
Matches: 112, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
88 2 0.02
89 25 0.22
90 84 0.75
91 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.25
Consensus pattern (90 bp):
ATGAAAAGGGATAGCTTCGGTTATCGAATTATGAAAAGGGATGGTGACAACCATCAAACTATGAA
AAGAGATAGCTTCGACTATCAAATT
Found at i:17946991 original size:52 final size:52
Alignment explanation
Indices: 17946905--17947008 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
17946895 CGAGGTGTTC
* *
17946905 GGGTTAGCACCTAATTCCATAATATACTGAAAAATCAGTAGCTAATAATTAT
1 GGGTCAGCACCTAATTCCATAATATACTGAAAAATCAGTAACTAATAATTAT
* *
17946957 GGGTCAGCACCTAATTCCATAATATACTGGAAAATTAGTAACTAATAATTAT
1 GGGTCAGCACCTAATTCCATAATATACTGAAAAATCAGTAACTAATAATTAT
17947009 TAAATTCCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (52 bp):
GGGTCAGCACCTAATTCCATAATATACTGAAAAATCAGTAACTAATAATTAT
Found at i:17955606 original size:32 final size:32
Alignment explanation
Indices: 17955565--17955631 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
17955555 AGTGAGCAGG
* *
17955565 TAAGGTTCTTAGTCCTTCTATAAATGTAGGGA
1 TAAGGTTCTTAGTCCTTCGATAAACGTAGGGA
17955597 TAAGGTTCTTAGTCCTTCGATAAACGTAGGGA
1 TAAGGTTCTTAGTCCTTCGATAAACGTAGGGA
17955629 TAA
1 TAA
17955632 AGAGAATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (32 bp):
TAAGGTTCTTAGTCCTTCGATAAACGTAGGGA
Found at i:17956538 original size:27 final size:27
Alignment explanation
Indices: 17956467--17956570 Score: 102
Period size: 27 Copynumber: 3.8 Consensus size: 27
17956457 GTTAATTGAT
* *
17956467 ACATTAAACACAGGATAGTCCAAATGGG
1 ACATTAAACACAGGATAGTCC-AACGGA
* *
17956495 ATATTAAACAC-GAGATAGTCCGACGGA
1 ACATTAAACACAG-GATAGTCCAACGGA
* * *
17956522 ACATTAAACATAGGATAGTCTAACAGA
1 ACATTAAACACAGGATAGTCCAACGGA
* *
17956549 ACACTAAACACAGGATGGTCCA
1 ACATTAAACACAGGATAGTCCA
17956571 TCGAGATGGT
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
27 42 0.69
28 19 0.31
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.18
Consensus pattern (27 bp):
ACATTAAACACAGGATAGTCCAACGGA
Found at i:17956664 original size:27 final size:26
Alignment explanation
Indices: 17956634--17956739 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 26
17956624 TGGCATCATA
17956634 GATAGTTCGACGAGACATTAAACATCG
1 GATAGTTCGACGAGACATTAAACA-CG
* * *
17956661 GATAGTTTGATGGGACATTAAACACGG
1 GATAGTTCGACGAGACATTAAACAC-G
*
17956688 GATA-ATCTGACGAGACATTAAACACG
1 GATAGTTC-GACGAGACATTAAACACG
* * * *
17956714 AGATAGTCCAACGAAACACTAAACAC
1 -GATAGTTCGACGAGACATTAAACAC
17956740 AGGACAGTCT
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
26 3 0.05
27 59 0.94
28 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.20
Consensus pattern (26 bp):
GATAGTTCGACGAGACATTAAACACG
Found at i:17956777 original size:181 final size:181
Alignment explanation
Indices: 17956417--17956838 Score: 444
Period size: 181 Copynumber: 2.3 Consensus size: 181
17956407 GGTTAGATTG
* * *
17956417 TGTAAGACCATCGCTAAAAGACATTATGGCATCATAGATAGTTAATTGATACATTAAACACAGGA
1 TGTAAGACCATAGCTAAAAGACATTATGGCATCATAGATAGTTAATCGAGACATTAAACACAGGA
* * * *
17956482 TAGTCCAAATGGGATATTAAACACGAGATAGTCCGACGGAACATTAAACATAGGATAGTCTAACA
66 TAGTCCAAATGGGACATTAAACACGAGATAATCCGACGGAACATTAAACAGAGGATAGTCCAACA
** * * *
17956547 GAACACTAAACACAGGATGGTCCATCGAGATGGTAAACACGGGGTATATCA
131 GAACACTAAACACAGGACAGTCCACCGAGATGGTAAACAAGGAGTATATCA
* * * *
17956598 TGTAAGACTATAGCTACAAGACGTTATGGCATCATAGATAGTTCGA-CGAGACATTAAACATC-G
1 TGTAAGACCATAGCTAAAAGACATTATGGCATCATAGATAGTT-AATCGAGACATTAAACA-CAG
*** * *
17956661 GATAGT-TTGATGGGACATTAAACACGGGATAATCTGAC-GAGACATTAAACACGA-GATAGTCC
64 GATAGTCCAAATGGGACATTAAACACGAGATAATCCGACGGA-ACATTAAACA-GAGGATAGTCC
* *
17956723 AAC-GAAACACTAAACACAGGACAGTCTACCGAGATGGTAAACATAGGAGTATATCG
127 AACAG-AACACTAAACACAGGACAGTCCACCGAGATGGTAAACA-AGGAGTATATCA
* * * * * * * * *
17956779 TGAAATACCATAGTTGAAAGACACTATGGCATCGTAAATAG-TACATCGGGACAGTAAACA
1 TGTAAGACCATAGCTAAAAGACATTATGGCATCATAGATAGTTA-ATCGAGACATTAAACA
17956839 AGGGGATCCT
Statistics
Matches: 197, Mismatches: 36, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
179 3 0.02
180 81 0.41
181 111 0.56
182 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (181 bp):
TGTAAGACCATAGCTAAAAGACATTATGGCATCATAGATAGTTAATCGAGACATTAAACACAGGA
TAGTCCAAATGGGACATTAAACACGAGATAATCCGACGGAACATTAAACAGAGGATAGTCCAACA
GAACACTAAACACAGGACAGTCCACCGAGATGGTAAACAAGGAGTATATCA
Found at i:17962166 original size:20 final size:19
Alignment explanation
Indices: 17962120--17962168 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
17962110 GTGTGACCCC
17962120 TTTTCAAAATTTTTCATGTT
1 TTTTC-AAATTTTTCATGTT
*
17962140 TTCTCAAATTTTTCTAT-TT
1 TTTTCAAATTTTTC-ATGTT
17962159 TGTTTCAAAT
1 T-TTTCAAAT
17962169 GGATCCTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.59
Consensus pattern (19 bp):
TTTTCAAATTTTTCATGTT
Found at i:17964509 original size:20 final size:20
Alignment explanation
Indices: 17964486--17964539 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
17964476 TAAAATTTTG
17964486 AATCTATCGATACTCAACAA
1 AATCTATCGATACTCAACAA
* **
17964506 AATCTACCGATACTTGACAA
1 AATCTATCGATACTCAACAA
**
17964526 AAAGTATCGATACT
1 AATCTATCGATACT
17964540 AGATCAGTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (20 bp):
AATCTATCGATACTCAACAA
Found at i:17964691 original size:28 final size:27
Alignment explanation
Indices: 17964645--17964698 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
17964635 TGAGTTCAAC
* *
17964645 AATTTTTTTTAGATATTATTTGAAATG
1 AATTTTTTTTAAATATTATTTAAAATG
*
17964672 AATTTTTTATTAAATTTTATTTAAAAT
1 AATTTTTT-TTAAATATTATTTAAAAT
17964699 TACTTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (27 bp):
AATTTTTTTTAAATATTATTTAAAATG
Found at i:17967646 original size:99 final size:100
Alignment explanation
Indices: 17967542--17967743 Score: 266
Period size: 100 Copynumber: 2.0 Consensus size: 100
17967532 TTTTTTATAT
* ** *
17967542 AAATATATTTAACAAAATGAT--AGATATAAAAAATATAATTTCATTATATAATTACATATTTAT
1 AAATATATTTAACAAAATGATACATATATAAAAAATAT-ATTTCATTATATAATTACATATACAC
17967605 TAATTTAGTTATATAAAT-AAAGAAATTATTAATTAA
65 TAATTTAGTTATATAAATAAAAG-AATTATTAATTAA
* * *
17967641 AAATATTTTTAACATAATGATACATATATAAAAAATATATTTTATTATATAATTACATATACACT
1 AAATATATTTAACAAAATGATACATATATAAAAAATATATTTCATTATATAATTACATATACACT
* * * *
17967706 ATTTTATTTATATAAATAAAAGAGTTATTAATTGA
66 AATTTAGTTATATAAATAAAAGAATTATTAATTAA
17967741 AAA
1 AAA
17967744 GATAAATTAA
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
99 19 0.21
100 52 0.58
101 18 0.20
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (100 bp):
AAATATATTTAACAAAATGATACATATATAAAAAATATATTTCATTATATAATTACATATACACT
AATTTAGTTATATAAATAAAAGAATTATTAATTAA
Found at i:17967793 original size:13 final size:13
Alignment explanation
Indices: 17967775--17967801 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17967765 ACAATATATT
17967775 TATTAATTAAAAA
1 TATTAATTAAAAA
17967788 TATTAATTAAAAA
1 TATTAATTAAAAA
17967801 T
1 T
17967802 TAAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:17970595 original size:18 final size:18
Alignment explanation
Indices: 17970572--17970606 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17970562 GAAAACACCA
17970572 TCATGATCAAGTTCATGG
1 TCATGATCAAGTTCATGG
*
17970590 TCATGATCATGTTCATG
1 TCATGATCAAGTTCATG
17970607 ATGTGATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (18 bp):
TCATGATCAAGTTCATGG
Found at i:17980190 original size:24 final size:23
Alignment explanation
Indices: 17980143--17980199 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
17980133 TTTGGTTACG
*
17980143 ATAAAGGTTAAATTAGTAATTTA
1 ATAAAGGTTAAAATAGTAATTTA
*
17980166 ATAAATGTTAAAATAGT-A-TTA
1 ATAAAGGTTAAAATAGTAATTTA
* *
17980187 TTAAAGGTAAAAA
1 ATAAAGGTTAAAA
17980200 CATTAAAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 13 0.45
22 1 0.03
23 15 0.52
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (23 bp):
ATAAAGGTTAAAATAGTAATTTA
Found at i:17981318 original size:3 final size:3
Alignment explanation
Indices: 17981312--17981343 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
17981302 TTCCTCCTCC
17981312 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
17981344 ACCTCAGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:17983918 original size:44 final size:44
Alignment explanation
Indices: 17983869--17983962 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
17983859 GTCTCGACTT
17983869 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
17983913 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
17983957 TCATTT
1 TCATTT
17983963 ATTGAATATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (44 bp):
TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
Found at i:17983956 original size:22 final size:22
Alignment explanation
Indices: 17983887--17983957 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
17983877 ATATGCTTAT
17983887 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
** * *
17983909 CAAATCAT-TTTCATATG-CTT-AT
1 CAAAT-ATAAGT-AT-TGTATTAAC
17983931 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
17983953 CAAAT
1 CAAAT
17983958 CATTTATTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 6 0.17
22 19 0.54
23 6 0.17
24 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (22 bp):
CAAATATAAGTATTGTATTAAC
Found at i:17983966 original size:21 final size:22
Alignment explanation
Indices: 17983941--17983984 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17983931 CAAATATAAG
*
17983941 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATCATT
17983962 TATTGAATATAACCAAATCATT
1 TATTGAATATAACCAAATCATT
17983984 T
1 T
17983985 TCATATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATCATT
Found at i:17984595 original size:13 final size:13
Alignment explanation
Indices: 17984573--17984649 Score: 127
Period size: 13 Copynumber: 5.9 Consensus size: 13
17984563 ACACTCAAAT
17984573 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
17984586 TTCTCCAAAGCAC
1 TTCTCAAAAGCAC
17984599 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* *
17984612 TTCTGAAAATCAC
1 TTCTCAAAAGCAC
17984625 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
17984638 TTCTCAAAAGCA
1 TTCTCAAAAGCA
17984650 ATAAAGAACT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 58 1.00
ACGTcount: A:0.38, C:0.30, G:0.08, T:0.25
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:17989820 original size:6 final size:6
Alignment explanation
Indices: 17989809--17989836 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
17989799 AAAGGAAGCA
17989809 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
17989837 TTTAAACATA
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:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:17992381 original size:31 final size:31
Alignment explanation
Indices: 17992346--17992406 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
17992336 TTCAATTTAG
17992346 TCACTAACATTTTAGATCATTTCTATTTTGA
1 TCACTAACATTTTAGATCATTTCTATTTTGA
* ** *
17992377 TCACTTATGTTTTAGATCGTTTCTATTTTG
1 TCACTAACATTTTAGATCATTTCTATTTTG
17992407 GTCAGTCTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.52
Consensus pattern (31 bp):
TCACTAACATTTTAGATCATTTCTATTTTGA
Found at i:17992405 original size:16 final size:16
Alignment explanation
Indices: 17992354--17992405 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
17992344 AGTCACTAAC
17992354 ATTTTAGATCATTTCT
1 ATTTTAGATCATTTCT
* *
17992370 ATTTT-GATCACTTAT
1 ATTTTAGATCATTTCT
* *
17992385 GTTTTAGATCGTTTCT
1 ATTTTAGATCATTTCT
17992401 ATTTT
1 ATTTT
17992406 GGTCAGTCTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.58
Consensus pattern (16 bp):
ATTTTAGATCATTTCT
Found at i:17992883 original size:30 final size:31
Alignment explanation
Indices: 17992828--17992894 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
17992818 TTTAACGGAA
17992828 AGTGACCAAAAGAAAAATAATCTAAAACGTG
1 AGTGACCAAAAGAAAAATAATCTAAAACGTG
* * * *
17992859 AGTGACCAAAA-TAGAATGATCTAAAACGTT
1 AGTGACCAAAAGAAAAATAATCTAAAACGTG
17992889 AGTGAC
1 AGTGAC
17992895 TTAATTGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.19
Consensus pattern (31 bp):
AGTGACCAAAAGAAAAATAATCTAAAACGTG
Found at i:17998226 original size:57 final size:58
Alignment explanation
Indices: 17998157--17998266 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 58
17998147 TCATTTTTCA
* *
17998157 TTTTCATTTTCATCTTGGAGAAAACCATATTCATTTCCAAATGATTCC-ATTTCTCCT
1 TTTTCATTTTCATCTTGAAGAAAACCATAATCATTTCCAAATGATTCCTATTTCTCCT
* *
17998214 TTTTCATTTTCATTTTGAAGAAAACCATAATCATTTCCAAATGTTTCCTATTT
1 TTTTCATTTTCATCTTGAAGAAAACCATAATCATTTCCAAATGATTCCTATTT
17998267 ATTCATTTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
57 44 0.92
58 4 0.08
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.45
Consensus pattern (58 bp):
TTTTCATTTTCATCTTGAAGAAAACCATAATCATTTCCAAATGATTCCTATTTCTCCT
Found at i:17998276 original size:57 final size:55
Alignment explanation
Indices: 17998148--17998276 Score: 159
Period size: 57 Copynumber: 2.3 Consensus size: 55
17998138 ATTTTTAGGT
* *
17998148 CATTTTTCATTTTCATTTTCATCTTGGAGAAAACCATATTCATTTCCAAATGATTC
1 CATTTTTCA-TTTCATTTTCATCTTGAAGAAAACCATAATCATTTCCAAATGATTC
* * * *
17998204 CATTTCTCCTTTTTCATTTTCATTTTGAAGAAAACCATAATCATTTCCAAATGTTTC
1 CATTT-TTC-ATTTCATTTTCATCTTGAAGAAAACCATAATCATTTCCAAATGATTC
17998261 CTATTTATTCATTTCA
1 C-ATTT-TTCATTTCA
17998277 CCATTACTGT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
56 5 0.08
57 50 0.82
58 6 0.10
ACGTcount: A:0.28, C:0.20, G:0.05, T:0.47
Consensus pattern (55 bp):
CATTTTTCATTTCATTTTCATCTTGAAGAAAACCATAATCATTTCCAAATGATTC
Found at i:18007610 original size:13 final size:14
Alignment explanation
Indices: 18007586--18007614 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18007576 AAGTGTAAAA
18007586 CAAAAAGAAAAATC
1 CAAAAAGAAAAATC
18007600 CAAAAAG-AAAATC
1 CAAAAAGAAAAATC
18007613 CA
1 CA
18007615 TACGAGTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.69, C:0.17, G:0.07, T:0.07
Consensus pattern (14 bp):
CAAAAAGAAAAATC
Found at i:18011532 original size:29 final size:29
Alignment explanation
Indices: 18011491--18011549 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
18011481 AAATAATAAT
*
18011491 GAGAGTAAACTTGCAAGTTGTTTCTCATA
1 GAGAGTAAACTTGCAAGTTGTTTCCCATA
18011520 GAGAGTAAACTTGCAAGTTGTTTCCCATA
1 GAGAGTAAACTTGCAAGTTGTTTCCCATA
18011549 G
1 G
18011550 CCATCGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (29 bp):
GAGAGTAAACTTGCAAGTTGTTTCCCATA
Found at i:18012918 original size:23 final size:23
Alignment explanation
Indices: 18012892--18012937 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
18012882 AGTCTTTTTA
18012892 TTAATATATGAATATTATGTTTG
1 TTAATATATGAATATTATGTTTG
18012915 TTAATATATGAATATTATGTTTG
1 TTAATATATGAATATTATGTTTG
18012938 GATATTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (23 bp):
TTAATATATGAATATTATGTTTG
Found at i:18013015 original size:65 final size:65
Alignment explanation
Indices: 18012911--18013135 Score: 450
Period size: 65 Copynumber: 3.5 Consensus size: 65
18012901 GAATATTATG
18012911 TTTGTTAATATATGAATATTATGTTTGGATATTATGACATATAAACTAATGAAATTATGTAACTT
1 TTTGTTAATATATGAATATTATGTTTGGATATTATGACATATAAACTAATGAAATTATGTAACTT
18012976 TTTGTTAATATATGAATATTATGTTTGGATATTATGACATATAAACTAATGAAATTATGTAACTT
1 TTTGTTAATATATGAATATTATGTTTGGATATTATGACATATAAACTAATGAAATTATGTAACTT
18013041 TTTGTTAATATATGAATATTATGTTTGGATATTATGACATATAAACTAATGAAATTATGTAACTT
1 TTTGTTAATATATGAATATTATGTTTGGATATTATGACATATAAACTAATGAAATTATGTAACTT
18013106 TTTGTTAATATATGAATATTATGTTTGGAT
1 TTTGTTAATATATGAATATTATGTTTGGAT
18013136 GTAAAATATA
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 160 1.00
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (65 bp):
TTTGTTAATATATGAATATTATGTTTGGATATTATGACATATAAACTAATGAAATTATGTAACTT
Found at i:18013312 original size:21 final size:21
Alignment explanation
Indices: 18013273--18013313 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18013263 TAAAATAGAT
*
18013273 TATATATTATTTTTATAGTAC
1 TATATATTATATTTATAGTAC
18013294 TATATATTATGATTT-TAGTA
1 TATATATTAT-ATTTATAGTA
18013314 AATTCATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (21 bp):
TATATATTATATTTATAGTAC
Found at i:18013622 original size:45 final size:44
Alignment explanation
Indices: 18013534--18013626 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 44
18013524 ATTACAACAT
18013534 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
*
18013578 CATTCCATTCAACCAAACA-ATTGAATTACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATTC
18013623 CATT
1 CATT
18013627 ACACCTCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:18013629 original size:16 final size:16
Alignment explanation
Indices: 18013608--18013663 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
18013598 TTGAATTACT
*
18013608 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
18013624 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
*
18013640 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
18013656 ATTACAGC
1 ATTACAGC
18013664 GAACCAAACG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.30, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:18028533 original size:15 final size:16
Alignment explanation
Indices: 18028513--18028545 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18028503 CACATCGTAT
*
18028513 TATCAC-AATATATAA
1 TATCACAAATAAATAA
18028528 TATCACAAATAAATAA
1 TATCACAAATAAATAA
18028544 TA
1 TA
18028546 ATTTGGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (16 bp):
TATCACAAATAAATAA
Found at i:18030984 original size:41 final size:42
Alignment explanation
Indices: 18030907--18030989 Score: 109
Period size: 40 Copynumber: 2.0 Consensus size: 42
18030897 TCTGCATTCT
*
18030907 GTATCTGATATGGGCCAAGGCCCTAATGTATTTCTGA-GACA
1 GTATCTGATATGGGCCAAGGCCCAAATGTATTTCTGATGACA
*
18030948 GTATCTGA-ATGGGCTAAGGCCCAAACTG-ATTCTCTGATGACA
1 GTATCTGATATGGGCCAAGGCCCAAA-TGTATT-TCTGATGACA
18030990 TAGGCCCCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
40 18 0.49
41 15 0.41
42 4 0.11
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (42 bp):
GTATCTGATATGGGCCAAGGCCCAAATGTATTTCTGATGACA
Found at i:18034702 original size:15 final size:16
Alignment explanation
Indices: 18034682--18034714 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18034672 CACATCGTAT
*
18034682 TATCAC-AATATATAA
1 TATCACAAATAAATAA
18034697 TATCACAAATAAATAA
1 TATCACAAATAAATAA
18034713 TA
1 TA
18034715 ATTTGGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (16 bp):
TATCACAAATAAATAA
Found at i:18037951 original size:15 final size:15
Alignment explanation
Indices: 18037931--18037962 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18037921 CACATCGTAT
*
18037931 TATCACAATATATAA
1 TATCACAATAAATAA
18037946 TATCACAATAAATAA
1 TATCACAATAAATAA
18037961 TA
1 TA
18037963 ATTTGGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (15 bp):
TATCACAATAAATAA
Found at i:18039485 original size:15 final size:15
Alignment explanation
Indices: 18039465--18039496 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18039455 CACATCGTAT
*
18039465 TATCACAATATATAA
1 TATCACAATAAATAA
18039480 TATCACAATAAATAA
1 TATCACAATAAATAA
18039495 TA
1 TA
18039497 ATTTGGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (15 bp):
TATCACAATAAATAA
Found at i:18041024 original size:15 final size:15
Alignment explanation
Indices: 18041004--18041035 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18040994 CACATCGTAT
*
18041004 TATCACAATATATAA
1 TATCACAATAAATAA
18041019 TATCACAATAAATAA
1 TATCACAATAAATAA
18041034 TA
1 TA
18041036 ATTTGGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (15 bp):
TATCACAATAAATAA
Found at i:18045647 original size:15 final size:16
Alignment explanation
Indices: 18045627--18045659 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18045617 CACATCGTAT
18045627 TATCAC-AATATATAA
1 TATCACAAATATATAA
18045642 TATCACAAATATATAA
1 TATCACAAATATATAA
18045658 TA
1 TA
18045660 ATTTGGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (16 bp):
TATCACAAATATATAA
Found at i:18053332 original size:10 final size:11
Alignment explanation
Indices: 18053317--18053363 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
18053307 AACTAAATCC
18053317 TTTCTCTC-AA
1 TTTCTCTCAAA
*
18053327 TTTCTCTCTAA
1 TTTCTCTCAAA
*
18053338 TATTCTTTCAAA
1 T-TTCTCTCAAA
*
18053350 TTCCTCTCAAA
1 TTTCTCTCAAA
18053361 TTT
1 TTT
18053364 ATATTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
10 8 0.27
11 13 0.43
12 9 0.30
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (11 bp):
TTTCTCTCAAA
Found at i:18055211 original size:18 final size:18
Alignment explanation
Indices: 18055188--18055230 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
18055178 TGCCAGGTGC
* *
18055188 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
18055206 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
18055224 GTTTCCT
1 GTATCCT
18055231 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:18055517 original size:21 final size:22
Alignment explanation
Indices: 18055471--18055518 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
18055461 CCAACACCGA
*
18055471 CAACCAGATCCCCTACCGGTTG
1 CAACCAGATCCCCTACCGGTAG
18055493 -AACCAGAATCCCCT-CCGG-AG
1 CAACCAG-ATCCCCTACCGGTAG
18055513 CAACCA
1 CAACCA
18055519 CAACCTCTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 15 0.65
22 7 0.30
ACGTcount: A:0.29, C:0.42, G:0.17, T:0.12
Consensus pattern (22 bp):
CAACCAGATCCCCTACCGGTAG
Found at i:18055705 original size:49 final size:49
Alignment explanation
Indices: 18055651--18055820 Score: 304
Period size: 49 Copynumber: 3.5 Consensus size: 49
18055641 GTTTATATTA
18055651 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
18055700 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
18055749 ATGTAATAAAATACAAAATAGTTTATTTTTAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
18055798 ATTTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
18055821 AATATTCTTA
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 116 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:18055726 original size:29 final size:29
Alignment explanation
Indices: 18055693--18055776 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
18055683 TATTTTGATA
18055693 TTATTTGATGTAATAAAATACAAAATAGT
1 TTATTTGATGTAATAAAATACAAAATAGT
***
18055722 TTATTT--TG-AAT--AAT--TTGATA--
1 TTATTTGATGTAATAAAATACAAAATAGT
18055742 TTATTTGATGTAATAAAATACAAAATAGT
1 TTATTTGATGTAATAAAATACAAAATAGT
18055771 TTATTT
1 TTATTT
18055777 TTAATATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
20 6 0.15
22 5 0.12
23 3 0.08
24 3 0.08
25 3 0.08
26 3 0.08
27 5 0.12
29 12 0.30
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (29 bp):
TTATTTGATGTAATAAAATACAAAATAGT
Found at i:18057280 original size:41 final size:41
Alignment explanation
Indices: 18057223--18057371 Score: 239
Period size: 41 Copynumber: 3.7 Consensus size: 41
18057213 TTTTGGGGCA
18057223 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
* * *
18057264 TTAGCGGCGTTTTTGAAAAAACGCCGCTATTGCTCATGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
*
18057305 TTAGCGGCGTTTTT-AAAGAAGCGCCGCTAATGCTCTGGCTT
1 TTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCTCAGGCTT
18057346 TTAGCGGCGTTTTTG-AAAAGCGCCGC
1 TTAGCGGCGTTTTTGAAAAAGCGCCGC
18057372 AAAAACATTG
Statistics
Matches: 99, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
40 12 0.12
41 87 0.88
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
Found at i:18057655 original size:14 final size:15
Alignment explanation
Indices: 18057625--18057657 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18057615 AAGGTTTATA
18057625 GATTATGGAATTAGG
1 GATTATGGAATTAGG
18057640 GATTATGGAA-TAGG
1 GATTATGGAATTAGG
18057654 GATT
1 GATT
18057658 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:18057786 original size:14 final size:13
Alignment explanation
Indices: 18057767--18057826 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 13
18057757 TAAATAAGGT
18057767 TTAGGGGTTAGTAG
1 TTAGGGGTTAG-AG
*
18057781 TTAGGGGTTAGGGG
1 TTAGGGGTTA-GAG
18057795 TTAGGGGTTAGAGG
1 TTAGGGGTTAGA-G
*
18057809 TTAGAGGTTAAGAG
1 TTAGGGGTT-AGAG
18057823 TTAG
1 TTAG
18057827 TGATTTAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.03
14 35 0.88
15 4 0.10
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.32
Consensus pattern (13 bp):
TTAGGGGTTAGAG
Found at i:18057790 original size:7 final size:7
Alignment explanation
Indices: 18057767--18057818 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
18057757 TAAATAAGGT
18057767 TTAGGGG
1 TTAGGGG
**
18057774 TTAGTAG
1 TTAGGGG
18057781 TTAGGGG
1 TTAGGGG
18057788 TTAGGGG
1 TTAGGGG
18057795 TTAGGGG
1 TTAGGGG
*
18057802 TTAGAGG
1 TTAGGGG
*
18057809 TTAGAGG
1 TTAGGGG
18057816 TTA
1 TTA
18057819 AGAGTTAGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:18057791 original size:21 final size:20
Alignment explanation
Indices: 18057767--18057826 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
18057757 TAAATAAGGT
*
18057767 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAG-AGTTAGAGG
*
18057788 TTAGGGGTTAGGGGTTAGAGG
1 TTAGGGGTTA-GAGTTAGAGG
*
18057809 TTAGAGGTTAAGAGTTAG
1 TTAGGGGTT-AGAGTTAG
18057827 TGATTTAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.32
Consensus pattern (20 bp):
TTAGGGGTTAGAGTTAGAGG
Found at i:18057942 original size:7 final size:7
Alignment explanation
Indices: 18057930--18057963 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
18057920 AATTGTAAAA
18057930 TAGGGGT
1 TAGGGGT
18057937 TAGGGGT
1 TAGGGGT
*
18057944 TAGAGGT
1 TAGGGGT
18057951 TAGGGGTT
1 TAGGGG-T
18057959 TAGGG
1 TAGGG
18057964 TTTATGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.18, C:0.00, G:0.53, T:0.29
Consensus pattern (7 bp):
TAGGGGT
Found at i:18058310 original size:38 final size:39
Alignment explanation
Indices: 18058228--18058311 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
18058218 TTTTTATATT
18058228 TAAAAATAAGCATTAGCGGCACTTTTCAGAAAACGCCGC
1 TAAAAATAAGCATTAGCGGCACTTTTCAGAAAACGCCGC
* * * *
18058267 TAAAAATGAGCATTAGTGGC-GTTTTTAGAAAAGCGCCGC
1 TAAAAATAAGCATTAGCGGCACTTTTCAGAAAA-CGCCGC
*
18058306 AAAAAA
1 TAAAAA
18058312 CCTAAGCCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 10 0.26
39 29 0.74
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.21
Consensus pattern (39 bp):
TAAAAATAAGCATTAGCGGCACTTTTCAGAAAACGCCGC
Done.