Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167833.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_105, whole genome shotgun sequence
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: 85413
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
File 1 of 3
Found at i:348 original size:16 final size:17
Alignment explanation
Indices: 327--359 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
317 TAATGATTTG
327 AAATAG-ATAATTGTTC
1 AAATAGCATAATTGTTC
343 AAATAGTCATAATTGTT
1 AAATAG-CATAATTGTT
360 TGCACTGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTGTTC
Found at i:682 original size:16 final size:17
Alignment explanation
Indices: 661--693 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
651 TAACAATTTG
661 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
677 AAATAGTCATAATTATT
1 AAATAG-CATAATTATT
694 TGAAATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:701 original size:19 final size:18
Alignment explanation
Indices: 656--702 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
646 GATACTAACA
656 ATTTGAAATAG-ATAATT
1 ATTTGAAATAGTATAATT
*
673 A-TTCAAATAGTCATAATT
1 ATTTGAAATAGT-ATAATT
691 ATTTGAAATAGT
1 ATTTGAAATAGT
703 TTTGTAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 8 0.32
17 1 0.04
18 7 0.28
19 9 0.36
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (18 bp):
ATTTGAAATAGTATAATT
Found at i:1094 original size:24 final size:24
Alignment explanation
Indices: 1039--1094 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
1029 GTTTTTGTTA
*
1039 ATAAATTATTATAGTTATTATAAT
1 ATAAATTATTATAGTTAATATAAT
*
1063 A-AATATTATTTATATTTAAT-TAAT
1 ATAA-ATTA-TTATAGTTAATATAAT
1087 ATAAATTA
1 ATAAATTA
1095 AATACATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 2 0.07
24 14 0.52
25 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATAAATTATTATAGTTAATATAAT
Found at i:1507 original size:176 final size:177
Alignment explanation
Indices: 1235--1923 Score: 656
Period size: 174 Copynumber: 3.9 Consensus size: 177
1225 TATGACCTTC
* * * * * * *
1235 TGTTTTATCATAAAAGAATTGTTTCAATTCATATAAGCTTA-TTCGAAATAAATTAATACTTATT
1 TGTTTTGTCATAAAAAAATTATTTCTATTCATACAAGCTTATTTCG-AATAAAATAATACTAATT
* * * *
1299 TACTAATAATCTAAAAATTAATGA-TAAAAAGATTTAAAAAATGAATCTGTTTACTGAATAATTT
65 TATTAAT-ATCTAAAAATTAATAAGT-AAAAGATTTAAAAAATGAATTTGTTTACTGAATAA-GT
* *
1363 TC-AATAATTATGACTATTTAAACAATTATTTATTTCAA-ATCA-CCTTTT
127 TCAAATAGTTATGACTATTTAAACAATTATTTATTTCAATATCAGACTTTT
* *
1411 TGTTTTGTCATAAAATAAAAT-TTTCTATTCATACAAGCTTATTTCGAATAAAATAATACAAATT
1 TGTTTTGTCATAAAA-AAATTATTTCTATTCATACAAGCTTATTTCGAATAAAATAATACTAATT
* * *
1475 TATTAATAT-TAAGACAATGAATAAGTAAAAGATTTAAAAAAGGAATTTGTTTACTCAATAAGTT
65 TATTAATATCTAA-A-AATTAATAAGTAAAAGATTTAAAAAATGAATTTGTTTACTGAATAAGTT
* * *
1539 CAAATCGTTATGACTATTTAAGCAATTGTTTATTTCAACT-TGCTATGACTTTT
128 CAAATAGTTATGACTATTTAAACAATTATTTATTTCAA-TAT-C-A-GACTTTT
* * * * * * *
1592 TGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGTTTATTTGGATTAAAATAATATTAATTT
1 TGTTTTGTCATAAAAAAATTATTTCTATTCATACAAGCTTATTTCGAATAAAATAATACTAATTT
* * * *
1657 ATTAATAT-T-----TTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACGGAACAAGTTCAA
66 ATTAATATCTAAAAATTAATAAGTAAAAGATTTAAAAAATGAATTTGTTTACTGAATAAGTTCAA
* * * * * *
1716 ATAGTGATGACCATTTAAATAATTATCTATTTCAAATTATTATGACATTT
131 ATAGTTATGACTATTTAAACAATTATTTATTTC-AA-TATCA-GACTTTT
* * *
1766 TCTTTTGTAATAAAAGAATTATTTC-AGTTCATACAAGCTTATTT-GAAGTAAAATAATACTAAT
1 TGTTTTGTCATAAAAAAATTATTTCTA-TTCATACAAGCTTATTTCGAA-TAAAATAATACTAAT
* * * *
1829 TTATTAATATTCTAAAAATTAATGAGTAAGAGAATTAAAAAAAAGAATTTGTTTA-TCGAATAAG
64 TTATTAATA-TCTAAAAATTAATAAGTAAAAG-ATTTAAAAAATGAATTTGTTTACT-GAATAAG
* * *
1893 TTTAAATAGTTATGACTATCTGAACAATTAT
126 TTCAAATAGTTATGACTATTTAAACAATTAT
1924 CTATCACAAA
Statistics
Matches: 420, Mismatches: 67, Indels: 46
0.79 0.13 0.09
Matches are distributed among these distances:
173 2 0.00
174 140 0.33
175 10 0.02
176 126 0.30
177 9 0.02
178 1 0.00
179 1 0.00
180 3 0.01
181 79 0.19
182 49 0.12
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (177 bp):
TGTTTTGTCATAAAAAAATTATTTCTATTCATACAAGCTTATTTCGAATAAAATAATACTAATTT
ATTAATATCTAAAAATTAATAAGTAAAAGATTTAAAAAATGAATTTGTTTACTGAATAAGTTCAA
ATAGTTATGACTATTTAAACAATTATTTATTTCAATATCAGACTTTT
Found at i:1798 original size:174 final size:175
Alignment explanation
Indices: 1152--1967 Score: 637
Period size: 174 Copynumber: 4.6 Consensus size: 175
1142 AATTAATAAG
* * * * *
1152 TAAAAAATAAATATGTTTACTAAACTAGATCAAATAATGATGACTATTTGAATAATTATCTATTT
1 TAAAAAATAAATATGTTTACTGAACAAGTTCAAATAATGATGACTATTTAAACAATTATCTATTT
* * * * * * * * *
1217 TAAATTGTTATGACCTTCTGTTTTATCATAAAAGAATTGTTTCAATTCATATAAGCTTATTCGAA
66 CAAATTATTATGACTTTTTGTTTTGTCATAAAAGAATTATTTCAGTTCATACAAGCTTATTTGAA
* * * *
1282 ATAAATTAATACTTATTTACTAATAATCTAAAAATTAATGATAAAAAGATT
131 ATAAAATAATACTAATTTATTAAT-AT-TATAAA-TAA-G-T-AAAAGATT
* * * * * *
1333 TAAAAAATGAATCTGTTTACTGAATAATTTTC-AATAATTATGACTATTTAAACAATTATTTATT
1 TAAAAAATAAATATGTTTACTGAACAA-GTTCAAATAATGATGACTATTTAAACAATTATCTATT
* * * *
1397 TC-AA--ATCA--CCTTTTTGTTTTGTCATAAAATAA-AATTTTCTA-TTCATACAAGCTTATTT
65 TCAAATTATTATGACTTTTTGTTTTGTCATAAAAGAATTA-TTTC-AGTTCATACAAGCTTATTT
* *
1455 CG-AATAAAATAATACAAATTTATTAATATTAAGACAATGAATAAGTAAAAGATT
128 -GAAATAAAATAATACTAATTTATTAATATT------ATAAATAAGTAAAAGATT
** * * * ** * * * *
1509 TAAAAAAGGAATTTGTTTACTCAATAAGTTCAAATCGTTATGACTATTTAAGCAATTGTTTATTT
1 TAAAAAATAAATATGTTTACTGAACAAGTTCAAATAATGATGACTATTTAAACAATTATCTATTT
* ** * * * * *
1574 CAACTTGCTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGTTTATTTGGA
66 CAAATTATTATGACTTTTTGTTTTGTCATAAAAGAATTATTTCAGTTCATACAAGCTTATTTGAA
* * *
1639 TTAAAATAATATTAATTTATTAATATT-TTAATAAGTAAAAGATT
131 ATAAAATAATACTAATTTATTAATATTATAAATAAGTAAAAGATT
* * * *
1683 TAAAAAATAAATATGTTTACGGAACAAGTTCAAATAGTGATGACCATTTAAATAATTATCTATTT
1 TAAAAAATAAATATGTTTACTGAACAAGTTCAAATAATGATGACTATTTAAACAATTATCTATTT
* * *
1748 CAAATTATTATGACATTTTCTTTTGTAATAAAAGAATTATTTCAGTTCATACAAGCTTATTTGAA
66 CAAATTATTATGACTTTTTGTTTTGTCATAAAAGAATTATTTCAGTTCATACAAGCTTATTTGAA
* * * *
1813 GTAAAATAATACTAATTTATTAATATTCTAAAAATTAATGAGTAAGAGAAT
131 ATAAAATAATACTAATTTATTAATA-T-TATAAA-T-A--AGTAAAAGATT
* * * * * * * *
1864 TAAAAAAAAGAATTTGTTTA-TCGAATAAGTTTAAATAGTTATGACTATCTGAACAATTATCTAT
1 TAAAAAATA-AATATGTTTACT-GAACAAGTTCAAATAATGATGACTATTTAAACAATTATCTAT
** ** * * *
1928 CACAAAACATTATGACCTTATGTTTTGTCATAAAACAATT
64 TTCAAATTATTATGACTTTTTGTTTTGTCATAAAAGAATT
1968 GGTTTTGTTT
Statistics
Matches: 507, Mismatches: 100, Indels: 55
0.77 0.15 0.08
Matches are distributed among these distances:
174 146 0.29
175 6 0.01
176 122 0.24
177 6 0.01
178 4 0.01
179 5 0.01
180 6 0.01
181 135 0.27
182 77 0.15
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (175 bp):
TAAAAAATAAATATGTTTACTGAACAAGTTCAAATAATGATGACTATTTAAACAATTATCTATTT
CAAATTATTATGACTTTTTGTTTTGTCATAAAAGAATTATTTCAGTTCATACAAGCTTATTTGAA
ATAAAATAATACTAATTTATTAATATTATAAATAAGTAAAAGATT
Found at i:2051 original size:12 final size:12
Alignment explanation
Indices: 1997--2111 Score: 55
Period size: 12 Copynumber: 9.5 Consensus size: 12
1987 TATTTTAAAA
1997 AATAATTTATTA-
1 AATAA-TTATTAT
* *
2009 ATTAATTTTTAT
1 AATAATTATTAT
2021 -ATCAATTATTAACT
1 AAT-AATTATT-A-T
2035 AATAATTATTAT
1 AATAATTATTAT
2047 AATAA-TATT-T
1 AATAATTATTAT
*
2057 AATTAAATATT-T
1 AA-TAATTATTAT
*
2069 ACTAA--ATTAT
1 AATAATTATTAT
*
2079 AATATTATAATTAT
1 AATA--ATTATTAT
2093 AATAATTTATTAT
1 AATAA-TTATTAT
*
2106 ATTAAT
1 AATAAT
2112 ATAATACTAC
Statistics
Matches: 82, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
9 3 0.04
10 7 0.09
11 16 0.20
12 25 0.30
13 12 0.15
14 17 0.21
15 2 0.02
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
AATAATTATTAT
Found at i:2084 original size:17 final size:15
Alignment explanation
Indices: 2042--2102 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 15
2032 ACTAATAATT
2042 ATTATAATAATATT-TA
1 ATTATAAT-AT-TTATA
2058 ATTA-AATATTTACTAA
1 ATTATAATATTTA-T-A
2074 ATTATAATA-TTATA
1 ATTATAATATTTATA
2088 ATTATAATAATTTAT
1 ATTATAAT-ATTTAT
2103 TATATTAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.05
14 11 0.28
15 6 0.15
16 16 0.41
17 4 0.10
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAATATTTATA
Found at i:2746 original size:264 final size:264
Alignment explanation
Indices: 2276--2804 Score: 1022
Period size: 264 Copynumber: 2.0 Consensus size: 264
2266 GAATTATTAT
2276 CTAATATTTCATAAATGGTTAAATTAGTTTAATAATACTAATTTTATTCCAAATAAGCTTGTATG
1 CTAATATTTCATAAATGGTTAAATTAGTTTAATAATACTAATTTTATTCCAAATAAGCTTGTATG
* *
2341 AACTGAAATAATTATTTTATGACTAAACAAAAGGATAGAATGATTTGAAATAGATAATTATTCTG
66 AACTGAAATAATTATTTTATAACTAAACAAAAGGATAGAACGATTTGAAATAGATAATTATTCTG
*
2406 ATAGTCTTAACTATTTGAATTAGTTTGGCTAACATATTTATTTTTTAAATCTCTTATTAATTTTT
131 ATAGTCTTAACTATTTGAATTAGTTCGGCTAACATATTTATTTTTTAAATCTCTTATTAATTTTT
2471 GAAATATTATTAAATTAGTATCATTTTAATCCGAATAAGCTTGTATGAAAGGAAACAATTGTTGT
196 GAAATATTATTAAATTAGTATCATTTTAATCCGAATAAGCTTGTATGAAAGGAAACAATTGTTGT
2536 ATGA
261 ATGA
2540 CTAATATTTCATAAATGGTTAAATTAGTTTAATAATACTAATTTTATTCCAAATAAGCTTGTATG
1 CTAATATTTCATAAATGGTTAAATTAGTTTAATAATACTAATTTTATTCCAAATAAGCTTGTATG
2605 AACTGAAATAATTATTTTATAACTAAACAAAAGGATAGAACGATTTGAAATAGATAATTATTCTG
66 AACTGAAATAATTATTTTATAACTAAACAAAAGGATAGAACGATTTGAAATAGATAATTATTCTG
2670 ATAGTCTTAACTATTTGAATTAGTTCGGCTAACATATTTATTTTTTAAATCTCTTATTAATTTTT
131 ATAGTCTTAACTATTTGAATTAGTTCGGCTAACATATTTATTTTTTAAATCTCTTATTAATTTTT
*
2735 GAAATATTATTAAATTAGTATCATTTTAATCTGAATAAGCTTGTATGAAAGGAAACAATTGTTGT
196 GAAATATTATTAAATTAGTATCATTTTAATCCGAATAAGCTTGTATGAAAGGAAACAATTGTTGT
2800 ATGA
261 ATGA
2804 C
1 C
2805 AAAATAAAGA
Statistics
Matches: 261, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
264 261 1.00
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (264 bp):
CTAATATTTCATAAATGGTTAAATTAGTTTAATAATACTAATTTTATTCCAAATAAGCTTGTATG
AACTGAAATAATTATTTTATAACTAAACAAAAGGATAGAACGATTTGAAATAGATAATTATTCTG
ATAGTCTTAACTATTTGAATTAGTTCGGCTAACATATTTATTTTTTAAATCTCTTATTAATTTTT
GAAATATTATTAAATTAGTATCATTTTAATCCGAATAAGCTTGTATGAAAGGAAACAATTGTTGT
ATGA
Found at i:2958 original size:176 final size:176
Alignment explanation
Indices: 2646--3020 Score: 418
Period size: 176 Copynumber: 2.1 Consensus size: 176
2636 AGGATAGAAC
** * * * *
2646 GATTTGAAATAGATAATTATTCTGATAGTCTTAACTATTTGAATTAGTTCGGCTAACATATTTAT
1 GATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAGCTAACATATTTAG
** * * **
2711 TTTTTAAATCTCTTATTAATTTTTGAAATATTATTAAATTAGTATCATTTTAATCTGAATAAGCT
66 TTTTTAAATCTCTTATTAATTTTCAAAATATTAATAAATCAAAATCATTTTAATCTGAATAAGCT
*
2776 TGTATGAA-AGGAAACAATTGTTGTATGACAAAATAAAGATTGTTAT
131 TGTATGAACA-AAAACAATTGTTGTATGACAAAATAAAGATTGTTAT
* * *
2822 GATTTGAGATAGATAATTTTTCAAATAGTCATAACTATTTGAACTAGTTTAG-TAA-ATAGATTT
1 GATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAGCTAACAT--ATTT
* *
2885 AGTTTTTAAATCTCTTATTAATTTTCAAAATATTAATAAATCAAAATTATTTT-ATTTCGAATAA
64 AGTTTTTAAATCTCTTATTAATTTTCAAAATATTAATAAATCAAAATCATTTTAATCT-GAATAA
* * * * ** * *
2949 -TTCTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAAC
128 GCT-TGTATGAACAAAAACAATTGTTGTATGACAAAA-TAAAGATTGTTAT
*
2999 AATTTGAAATAGATAATTATTC
1 GATTTGAAATAGATAATTATTC
3021 TAATGGACAT
Statistics
Matches: 164, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
174 2 0.01
175 7 0.04
176 128 0.78
177 27 0.16
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (176 bp):
GATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAGCTAACATATTTAG
TTTTTAAATCTCTTATTAATTTTCAAAATATTAATAAATCAAAATCATTTTAATCTGAATAAGCT
TGTATGAACAAAAACAATTGTTGTATGACAAAATAAAGATTGTTAT
Found at i:3434 original size:23 final size:23
Alignment explanation
Indices: 3408--3451 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
3398 ATACATATAA
3408 AATAATATACTT-AATATTAGATT
1 AATAATATA-TTAAATATTAGATT
*
3431 AATAATTTATTAAATATTAGA
1 AATAATATATTAAATATTAGA
3452 AATATTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (23 bp):
AATAATATATTAAATATTAGATT
Found at i:4645 original size:37 final size:33
Alignment explanation
Indices: 4598--4677 Score: 79
Period size: 33 Copynumber: 2.3 Consensus size: 33
4588 ATTTATTCAT
* * *
4598 TAATTGTAATTATACAATTATTAATATTATTAATAAT
1 TAATTATAATT-T-CAA-TATTAA-ATTATAAATAAA
* *
4635 TACTTATAATTTTAATATTAAATTATAAATAAA
1 TAATTATAATTTCAATATTAAATTATAAATAAA
4668 TAATTATAAT
1 TAATTATAAT
4678 ATATTAGTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
33 19 0.51
34 6 0.16
35 2 0.05
36 1 0.03
37 9 0.24
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (33 bp):
TAATTATAATTTCAATATTAAATTATAAATAAA
Found at i:5163 original size:24 final size:24
Alignment explanation
Indices: 5091--5163 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
5081 TAAGTTCTAG
* * *
5091 AAATATTAATATAATAAATTATTG
1 AAATTTTAATATCATAAATTATTT
* * *
5115 ATA-TTTAATA-CTTAAATATAATT
1 AAATTTTAATATCATAAAT-TATTT
5138 AAATTTTAATATCATAAATTATTT
1 AAATTTTAATATCATAAATTATTT
5162 AA
1 AA
5164 TTATTAGTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
22 5 0.14
23 11 0.30
24 15 0.41
25 6 0.16
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (24 bp):
AAATTTTAATATCATAAATTATTT
Found at i:5165 original size:23 final size:23
Alignment explanation
Indices: 5096--5165 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
5086 TCTAGAAATA
* *
5096 TTAATATAATAAATTA-TTGATAT
1 TTAATATCATAAATTATTTAAT-T
* *
5119 TTAATA-CTTAAATATAATTAAATT
1 TTAATATCATAAAT-T-ATTTAATT
5143 TTAATATCATAAATTATTTAATT
1 TTAATATCATAAATTATTTAATT
5166 ATTAGTTTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
22 5 0.14
23 14 0.38
24 9 0.24
25 9 0.24
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (23 bp):
TTAATATCATAAATTATTTAATT
Found at i:5641 original size:18 final size:16
Alignment explanation
Indices: 5602--5659 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 16
5592 TATTATATTA
5602 ATATTATAATTAAATT
1 ATATTATAATTAAATT
*
5618 -TATTATAATTATCGATT
1 ATATTATAATTA--AATT
5635 ATATTAT--TTAAAGTT
1 ATATTATAATTAAA-TT
*
5650 AAATTATAAT
1 ATATTATAAT
5660 GTTCAAACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
14 1 0.03
15 19 0.58
16 3 0.09
17 4 0.12
18 6 0.18
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (16 bp):
ATATTATAATTAAATT
Found at i:5916 original size:13 final size:13
Alignment explanation
Indices: 5898--5948 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
5888 GAATTAAATT
*
5898 TATATATTTATTA
1 TATATAATTATTA
*
5911 TATATAATTATAA
1 TATATAATTATTA
*
5924 TATATAATTAATA
1 TATATAATTATTA
5937 TAATATTAATTA
1 T-ATA-TAATTA
5949 ATAATTGTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 23 0.72
14 3 0.09
15 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TATATAATTATTA
Found at i:5946 original size:15 final size:16
Alignment explanation
Indices: 5919--5951 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
5909 TATATATAAT
5919 TATAATATATAATTAA
1 TATAATATATAATTAA
5935 TATAATAT-TAATTAA
1 TATAATATATAATTAA
5950 TA
1 TA
5952 ATTGTACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATATATAATTAA
Found at i:5952 original size:13 final size:14
Alignment explanation
Indices: 5910--5953 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 14
5900 TATATTTATT
5910 ATATATAATT-ATA
1 ATATATAATTAATA
5923 ATATATAATTAAT-
1 ATATATAATTAATA
5936 ATAATATTAATTAATA
1 AT-ATA-TAATTAATA
5952 AT
1 AT
5954 TGTACTTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 12 0.44
14 5 0.19
15 8 0.30
16 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATATAATTAATA
Found at i:6222 original size:10 final size:10
Alignment explanation
Indices: 6209--6243 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
6199 TTAAGAGTTA
6209 ATTAATTATT
1 ATTAATTATT
6219 ATTAATTAATT
1 ATTAATT-ATT
*
6230 ATTAATAATT
1 ATTAATTATT
6240 ATTA
1 ATTA
6244 TAATGAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATTAATTATT
Found at i:6225 original size:14 final size:14
Alignment explanation
Indices: 6206--6244 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
6196 AAGTTAAGAG
6206 TTAATTAATTATTA
1 TTAATTAATTATTA
6220 TTAATTAATTATTA
1 TTAATTAATTATTA
*
6234 ATAATT-ATTAT
1 TTAATTAATTAT
6245 AATGAATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAATTAATTATTA
Found at i:6635 original size:19 final size:16
Alignment explanation
Indices: 6612--6667 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
6602 ATATAGTTAT
6612 TATTATTTAATCAATTAA
1 TATTA-TTAAT-AATTAA
*
6630 TAATTAATAATTAATT-A
1 T-ATTATTAA-TAATTAA
6647 TATTATTAATAATTAA
1 TATTATTAATAATTAA
6663 T-TTAT
1 TATTAT
6668 AAAAAATACT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
15 9 0.27
16 9 0.27
17 2 0.06
18 8 0.24
19 5 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTATTAATAATTAA
Found at i:6636 original size:7 final size:7
Alignment explanation
Indices: 6618--6663 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
6608 TTATTATTAT
6618 TTAATCAA
1 TTAAT-AA
6626 TTAATAA
1 TTAATAA
6633 TTAATAA
1 TTAATAA
*
6640 TTAATTA
1 TTAATAA
*
6647 -T-ATTA
1 TTAATAA
6652 TTAATAA
1 TTAATAA
6659 TTAAT
1 TTAAT
6664 TTATAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 4 0.12
6 2 0.06
7 23 0.68
8 5 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (7 bp):
TTAATAA
Found at i:7195 original size:9 final size:10
Alignment explanation
Indices: 7181--7231 Score: 54
Period size: 9 Copynumber: 5.1 Consensus size: 10
7171 TTAATTGGAT
7181 TATTAAAT-A
1 TATTAAATAA
7190 TATT-AATAA
1 TATTAAATAA
7199 TATTAATATAA
1 TATTAA-ATAA
7210 TATTATTAATAA
1 TATTA--AATAA
7222 TA-TAAATAA
1 TATTAAATAA
7231 T
1 T
7232 TTATTCAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
8 3 0.08
9 15 0.41
10 1 0.03
11 11 0.30
12 6 0.16
13 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
TATTAAATAA
Found at i:7218 original size:23 final size:21
Alignment explanation
Indices: 7186--7241 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
7176 TGGATTATTA
7186 AATA-TATTAATAATATTAATAT
1 AATATTATTAATAATA-TAA-AT
7208 AATATTATTAATAATATAAAT
1 AATATTATTAATAATATAAAT
7229 AAT-TTATTCAATA
1 AATATTATT-AATA
7242 GGCATTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.16
21 9 0.28
22 7 0.22
23 11 0.34
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATTATTAATAATATAAAT
Found at i:8037 original size:23 final size:20
Alignment explanation
Indices: 8011--8057 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
8001 ATGTTTAAAT
8011 TTATTAACTATAATTAATAATAA
1 TTATT-ACTATAA-T-ATAATAA
*
8034 TTATTATTATAATATAATAA
1 TTATTACTATAATATAATAA
8054 TTAT
1 TTAT
8058 AATTAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 11 0.48
21 1 0.04
22 6 0.26
23 5 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTACTATAATATAATAA
Found at i:8062 original size:23 final size:23
Alignment explanation
Indices: 8013--8071 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
8003 GTTTAAATTT
*
8013 ATTAACTATAAT-TAATAATAATT
1 ATTAA-TATAATATAATAATAATA
* *
8036 ATTATTATAATATAATAATTATA
1 ATTAATATAATATAATAATAATA
*
8059 ATTAATAGAATAT
1 ATTAATATAATAT
8072 TTATATTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 6 0.20
23 24 0.80
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTAATATAATATAATAATAATA
Found at i:8530 original size:15 final size:16
Alignment explanation
Indices: 8502--8544 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
8492 AATTGTTTAA
*
8502 TAAT-ATTATAATAC-
1 TAATAATTATTATACT
8516 TAATAATTATTATACT
1 TAATAATTATTATACT
8532 TAATTAATTATTA
1 TAA-TAATTATTA
8545 AATTCATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 4 0.16
15 9 0.36
16 3 0.12
17 9 0.36
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATAATTATTATACT
Found at i:8925 original size:19 final size:19
Alignment explanation
Indices: 8901--8941 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
8891 AAATATCGCT
8901 TAATTTATAATAATATTAA
1 TAATTTATAATAATATTAA
** *
8920 TAATTTATTTTATTATTAA
1 TAATTTATAATAATATTAA
8939 TAA
1 TAA
8942 ATCTTATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATTTATAATAATATTAA
Found at i:8957 original size:20 final size:20
Alignment explanation
Indices: 8915--8983 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
8905 TTATAATAAT
*
8915 ATTAAT-AAT-TTATTTTATT
1 ATTAATAAATCTTA-TTTATA
8934 ATTAATAAATCTTATTTATA
1 ATTAATAAATCTTATTTATA
* *
8954 ATTATATTAA-CTTATTAATA
1 ATTA-ATAAATCTTATTTATA
8974 ATTAAATAAA
1 ATT-AATAAA
8984 CAATATAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 6 0.14
20 28 0.67
21 8 0.19
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTAATAAATCTTATTTATA
Found at i:9075 original size:15 final size:14
Alignment explanation
Indices: 9055--9088 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
9045 GTTTATTTGA
9055 ATAATTAATTATAAT
1 ATAATTAATTAT-AT
*
9070 ATAATTATTTATAT
1 ATAATTAATTATAT
9084 ATAAT
1 ATAAT
9089 AATAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAATTAATTATAT
Found at i:9349 original size:26 final size:26
Alignment explanation
Indices: 9285--9369 Score: 72
Period size: 26 Copynumber: 3.4 Consensus size: 26
9275 ATAATAATTG
*
9285 AATTATAATTTAATCTA-TTATATATA
1 AATTATAATATAAT-TATTTATATATA
* * *
9311 AATAATTATATAATTATTTATTTATA
1 AATTATAATATAATTATTTATATATA
* *
9337 AATTATAAAATAACTA--TAT-TAT-
1 AATTATAATATAATTATTTATATATA
9359 AATTATAATAT
1 AATTATAATAT
9370 TTGAAATGTC
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
22 10 0.20
23 3 0.06
24 3 0.06
25 2 0.04
26 31 0.63
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AATTATAATATAATTATTTATATATA
Found at i:9775 original size:24 final size:25
Alignment explanation
Indices: 9727--9787 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
9717 TATAATGTTT
9727 AATTA-TTAATAA--TTAGATATTA
1 AATTATTTAATAATTTTAGATATTA
9749 AATTATTTAATAATTTTA-ATATTA
1 AATTATTTAATAATTTTAGATATTA
* *
9773 AATAATATAATAATT
1 AATTATTTAATAATT
9788 AATAAGTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 5 0.15
23 7 0.21
24 19 0.56
25 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
AATTATTTAATAATTTTAGATATTA
Found at i:9829 original size:39 final size:39
Alignment explanation
Indices: 9755--9830 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
9745 ATTAAATTAT
* *
9755 TTAATAATTTTAATATTAAATAATATAATAATTAATAAG
1 TTAATAATATTAATATTAAATAATAAAATAATTAATAAG
* *
9794 TTAACTAATATTAAT-TTAATTTATAAAATAATTAATA
1 TTAA-TAATATTAATATTAAATAATAAAATAATTAATA
9831 TTTTAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 23 0.72
40 9 0.28
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (39 bp):
TTAATAATATTAATATTAAATAATAAAATAATTAATAAG
Found at i:9844 original size:24 final size:24
Alignment explanation
Indices: 9744--9844 Score: 61
Period size: 24 Copynumber: 4.3 Consensus size: 24
9734 AATAATTAGA
* *
9744 TATTAAATTATTTAATAATTTTAA-
1 TATTAAAATAATTAAT-ATTTTAAT
*
9768 TATT-AAATAATATAATA-ATTAAT
1 TATTAAAATAAT-TAATATTTTAAT
* * * *
9791 AAGTT-AACTAA-TATTAATTTAAT
1 TA-TTAAAATAATTAATATTTTAAT
9814 T-TATAAAATAATTAATATTTTAAT
1 TAT-TAAAATAATTAATATTTTAAT
9838 TATTAAA
1 TATTAAA
9845 TATGGTTAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 16
0.68 0.13 0.19
Matches are distributed among these distances:
21 1 0.02
22 9 0.16
23 17 0.29
24 30 0.52
25 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (24 bp):
TATTAAAATAATTAATATTTTAAT
Found at i:9935 original size:20 final size:20
Alignment explanation
Indices: 9906--9949 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
9896 TGATAGCAAA
**
9906 TATTTAATAATTAAATAAAT
1 TATTTAATAAACAAATAAAT
* *
9926 TATTTGATAAACAAATAAGT
1 TATTTAATAAACAAATAAAT
9946 TATT
1 TATT
9950 AATTTATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (20 bp):
TATTTAATAAACAAATAAAT
Found at i:11007 original size:23 final size:25
Alignment explanation
Indices: 10972--11018 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
10962 TAATCATTAT
10972 ATTAATAACTATTTAA-TATACAAA
1 ATTAATAACTATTTAATTATACAAA
*
10996 ATTATTAA-TATTTAATTATACAA
1 ATTAATAACTATTTAATTATACAA
11019 TTAACAACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTAATAACTATTTAATTATACAAA
Found at i:11055 original size:11 final size:11
Alignment explanation
Indices: 11041--11078 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
11031 TAACTAATAC
11041 ATAATTATTAA
1 ATAATTATTAA
11052 ATAATCTATTAA
1 ATAAT-TATTAA
*
11064 TTAATTATT-A
1 ATAATTATTAA
11074 ATAAT
1 ATAAT
11079 ATTTATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 5 0.21
11 9 0.38
12 10 0.42
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (11 bp):
ATAATTATTAA
Found at i:11081 original size:20 final size:22
Alignment explanation
Indices: 11029--11088 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
11019 TTAACAACCT
*
11029 AATAACTAATACA-TAATTATTA
1 AATAACTATTA-ATTAATTATTA
11051 AATAATCTATTAATTAATTATT-
1 AATAA-CTATTAATTAATTATTA
*
11073 AATAA-TATTTATTAAT
1 AATAACTATTAATTAAT
11089 ATAAGCTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 10 0.29
22 11 0.32
23 13 0.38
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
AATAACTATTAATTAATTATTA
Found at i:11268 original size:16 final size:16
Alignment explanation
Indices: 11249--11280 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11239 ATTATATATA
11249 TTTATTATTAACTAAT
1 TTTATTATTAACTAAT
*
11265 TTTATTATTAATTAAT
1 TTTATTATTAACTAAT
11281 AATATTAATA
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:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATTATTAACTAAT
Found at i:12605 original size:22 final size:23
Alignment explanation
Indices: 12558--12607 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
12548 TATTATAATT
* * *
12558 AATA-ATAATCTAATTTAATTAT
1 AATATATAATCTAATTAAAATAA
12580 AATATATAAT-TAATTAAAATAA
1 AATATATAATCTAATTAAAATAA
12602 AATATA
1 AATATA
12608 AATATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATATATAATCTAATTAAAATAA
Found at i:12616 original size:20 final size:20
Alignment explanation
Indices: 12578--12617 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
12568 TAATTTAATT
* *
12578 ATAATATATAATTAATTAAA
1 ATAAAATATAAATAATTAAA
*
12598 ATAAAATATAAATATTTAAA
1 ATAAAATATAAATAATTAAA
12618 TTTTAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAAATATAAATAATTAAA
Found at i:12976 original size:14 final size:14
Alignment explanation
Indices: 12957--12983 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12947 GAATTAATTA
12957 AAATATAATTAATC
1 AAATATAATTAATC
12971 AAATATAATTAAT
1 AAATATAATTAAT
12984 AAACTATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATATAATTAATC
Found at i:13461 original size:18 final size:21
Alignment explanation
Indices: 13440--13483 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 21
13430 TTGATTATAT
13440 TTAATTATATT-AT-AATTA-
1 TTAATTATATTAATAAATTAG
13458 TTAA--ATATTAATAAATTAG
1 TTAATTATATTAATAAATTAG
13477 TTAATTA
1 TTAATTA
13484 ATCTATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
16 5 0.24
17 2 0.10
18 9 0.43
19 4 0.19
21 1 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAATTATATTAATAAATTAG
Found at i:13624 original size:24 final size:22
Alignment explanation
Indices: 13585--13628 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
13575 AATATGTTTA
13585 TTAGTTTAAAACTAATTATATAG
1 TTAGTTTAAAACTAA-TATATAG
13608 TTAGTTTTAAATA-TAATATAT
1 TTAG-TTTAAA-ACTAATATAT
13629 TTTAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 9 0.47
24 9 0.47
25 1 0.05
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAGTTTAAAACTAATATATAG
Found at i:13901 original size:12 final size:13
Alignment explanation
Indices: 13886--13961 Score: 63
Period size: 12 Copynumber: 6.0 Consensus size: 13
13876 TTTAGTTATT
13886 TTATATATTAT-A
1 TTATATATTATAA
13898 TTATA-ATT-TAA
1 TTATATATTATAA
*
13909 TTCTATATT-TAA
1 TTATATATTATAA
*
13921 TTATATATAATAA
1 TTATATATTATAA
13934 TTATCATATAATATAA
1 TTAT-ATAT--TATAA
*
13950 ATA-ATATTATAA
1 TTATATATTATAA
13962 ATAGTTAAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
10 1 0.02
11 8 0.15
12 23 0.43
13 7 0.13
14 8 0.15
16 6 0.11
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TTATATATTATAA
Found at i:13934 original size:13 final size:14
Alignment explanation
Indices: 13918--13946 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13908 ATTCTATATT
13918 TAATTAT-ATATAA
1 TAATTATCATATAA
13931 TAATTATCATATAA
1 TAATTATCATATAA
13945 TA
1 TA
13947 TAAATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATTATCATATAA
Found at i:14036 original size:25 final size:24
Alignment explanation
Indices: 14011--14098 Score: 77
Period size: 25 Copynumber: 3.6 Consensus size: 24
14001 AATAAGATAT
14011 TTTATATATAATAAAATTTAATTA
1 TTTATATATAATAAAATTTAATTA
* * * * *
14035 TTTATATTATACTTATATTCAATGA
1 TTTATA-TATAATAAAATTTAATTA
* * * *
14060 TTAATATATTATATAATGTACATTA
1 TTTATATATAATAAAATTTA-ATTA
14085 TTTATATATAATAA
1 TTTATATATAATAA
14099 TCTTTATAAT
Statistics
Matches: 45, Mismatches: 17, Indels: 3
0.69 0.26 0.05
Matches are distributed among these distances:
24 13 0.29
25 32 0.71
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTATATATAATAAAATTTAATTA
Found at i:15328 original size:21 final size:23
Alignment explanation
Indices: 15302--15343 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
15292 TTTAATTATA
15302 ATAATTA-ATAA-ACTAAGAATT
1 ATAATTATATAATACTAAGAATT
*
15323 ATAATTATATAATACTTAGAA
1 ATAATTATATAATACTAAGAA
15344 ATAATACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (23 bp):
ATAATTATATAATACTAAGAATT
Found at i:15347 original size:21 final size:19
Alignment explanation
Indices: 15301--15348 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
15291 ATTTAATTAT
15301 AATAATTAATAAACTAAGA
1 AATAATTAATAAACTAAGA
*
15320 ATTATAATTATATAATACTTAGA
1 A--ATAATTA-ATAA-ACTAAGA
15343 AATAAT
1 AATAAT
15349 ACTAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
21 12 0.50
22 4 0.17
23 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (19 bp):
AATAATTAATAAACTAAGA
Found at i:15631 original size:21 final size:22
Alignment explanation
Indices: 15591--15638 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
15581 TGTAACTTAC
*
15591 TAATTAAAATAAATAGTATAAT
1 TAATTAAAATAAATAATATAAT
*
15613 TAATTAATAT-AATAATATAAT
1 TAATTAAAATAAATAATATAAT
15634 TAATT
1 TAATT
15639 TTATAGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TAATTAAAATAAATAATATAAT
Found at i:15648 original size:17 final size:20
Alignment explanation
Indices: 15602--15650 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
15592 AATTAAAATA
15602 AATAGTATAATTAATTAATAT
1 AATAGTATAATTAATT-ATAT
*
15623 AATAATATAATTAATT-T-T
1 AATAGTATAATTAATTATAT
15641 -ATAGTATAAT
1 AATAGTATAAT
15651 AGGTTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 9 0.35
18 1 0.04
19 1 0.04
21 15 0.58
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
AATAGTATAATTAATTATAT
Found at i:16096 original size:24 final size:24
Alignment explanation
Indices: 16046--16104 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
16036 AGTATATATG
16046 TTATTTGTATT-ATATAATAAAATA
1 TTATTT-TATTAATATAATAAAATA
*
16070 TTATTTTATTAAT-TAATAAATTAA
1 TTATTTTATTAATATAATAAAAT-A
*
16094 TTAATTTATTA
1 TTATTTTATTA
16105 TAAGCTTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TTATTTTATTAATATAATAAAATA
Found at i:16668 original size:37 final size:37
Alignment explanation
Indices: 16586--16679 Score: 95
Period size: 37 Copynumber: 2.5 Consensus size: 37
16576 ATAATTAATA
* * *
16586 TTATAAAATTATAAAATTATTTATAAATTATATTTAG
1 TTATAATATTATTAAATTATTTATAAATTACATTTAG
*
16623 TTATTAATATTATTAAATT-TTTATTAATTACATTTA-
1 TTA-TAATATTATTAAATTATTTATAAATTACATTTAG
16659 TAGTATAATA-TATTAATATTA
1 T--TATAATATTATTAA-ATTA
16680 ATATAATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
36 7 0.15
37 26 0.54
38 15 0.31
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (37 bp):
TTATAATATTATTAAATTATTTATAAATTACATTTAG
Found at i:17480 original size:21 final size:22
Alignment explanation
Indices: 17455--17500 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
17445 TTCTTAGTTA
*
17455 TAAATCTAATTGTATTT-ATTT
1 TAAATATAATTGTATTTAATTT
* *
17476 TAAATATTATTTTATTTAATTT
1 TAAATATAATTGTATTTAATTT
17498 TAA
1 TAA
17501 TAATCAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TAAATATAATTGTATTTAATTT
Found at i:17674 original size:17 final size:17
Alignment explanation
Indices: 17635--17676 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
17625 CATATTTTAA
*
17635 ATTATTATTTAATAATT
1 ATTATTATTTAATAATC
17652 ATTATTATTATAATAATC
1 ATTATTATT-TAATAATC
17670 A-TATTAT
1 ATTATTAT
17677 AAAGTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTATTTAATAATC
Found at i:17923 original size:15 final size:15
Alignment explanation
Indices: 17903--17950 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 15
17893 TGATAAACTA
17903 TATTATTATCTTAAT
1 TATTATTATCTTAAT
17918 TATTATTAAT-TATAACAT
1 TATTATT-ATCT-T-A-AT
17936 TATTATTATCTTAAT
1 TATTATTATCTTAAT
17951 AATAACAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
15 10 0.36
16 4 0.14
17 4 0.14
18 10 0.36
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTATTATCTTAAT
Found at i:19690 original size:179 final size:178
Alignment explanation
Indices: 19321--19933 Score: 552
Period size: 179 Copynumber: 3.5 Consensus size: 178
19311 TTATCAATCA
* * * * * *
19321 AGTTGAAATAGTTATGACTATCTAAATAATTATCTATTTCAAAACAATATGACATTTTGTTTTGT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACA-TTTGTTTTGT
* * * * * *
19386 CATAAAACAATTGGTTCTATTCAAGCAAGCATATTT-TGGATAAAATAATAT-AAATTTATTAAT
65 CATAAAACAATTGTTTCTATTCAAACAAGCTTATTTGT-AATAAAATAAT-TCTAATTAATTAAT
* * ** * **
19449 ATTCCAAAAATTAATAAGTATAAT-TTTAGAAAATAAAGCTATTTTTTGAAC
128 ATTCC-AAAATTAATAAGTAAAATATTTAAAAAATAAATTTGTTTACTGAAC
*
19500 AATTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCATTTGTTTTGT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-CATTTGTTTTGT
* *
19565 CATAAACCAA-TGTTTCTGTTCAAACAAGCTTATTTGTAATAAAATAATTCTAATTAATTAATAT
65 CATAAAACAATTGTTTCTATTCAAACAAGCTTATTTGTAATAAAATAATTCTAATTAATTAATAT
* **
19629 TCCAAAATTAATAAGTAAAATATTTAAAAAATAAATTTGTTTACCGAGTG
130 TCCAAAATTAATAAGTAAAATATTTAAAAAATAAATTTGTTTACTGA-AC
* * * * *
19679 AGTTTAAATAGTTATG---A-TTG----TTTATTTATTTCAAATCGTTATGATCTTTTGTTTTGT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-CATTTGTTTTGT
* * * * * *
19736 TATAAAACAATTGTTTCTATTCATACAAGTTTATTTGGAA-AAAATAATACTAA-TATATTAACA
65 CATAAAACAATTGTTTCTATTCAAACAAGCTTATTTGTAATAAAATAATTCTAATTA-ATTAATA
** ** * * * *
19799 TTTTAAAAATTAATAAGTTGAAGATTTAAGAAATTAATTAGTTTACTGAACC
129 -TTCCAAAATTAATAAGTAAAATATTTAAAAAATAAATTTGTTTACTGAA-C
* * * * ** *
19851 AGTTCAAATAGTCATGTCCATTTGAACTATTATCTATTTCAAATTGTTATGACATTTTATTTTGT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACA-TTTGTTTTGT
**
19916 TGTAAAACAATTGTTTCT
65 CATAAAACAATTGTTTCT
19934 TATCGATCAA
Statistics
Matches: 357, Mismatches: 59, Indels: 35
0.79 0.13 0.08
Matches are distributed among these distances:
170 2 0.01
171 58 0.16
172 78 0.22
175 4 0.01
176 4 0.01
177 18 0.05
178 64 0.18
179 80 0.22
180 49 0.14
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (178 bp):
AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACATTTGTTTTGTC
ATAAAACAATTGTTTCTATTCAAACAAGCTTATTTGTAATAAAATAATTCTAATTAATTAATATT
CCAAAATTAATAAGTAAAATATTTAAAAAATAAATTTGTTTACTGAAC
Found at i:19862 original size:172 final size:175
Alignment explanation
Indices: 19349--19933 Score: 501
Period size: 172 Copynumber: 3.3 Consensus size: 175
19339 TATCTAAATA
* ** * * *
19349 ATTATCTATTTCAAAACAATATGACATTTTGTTTTGTCATAAAACAATTGGTTCTATTCAAGCAA
1 ATTATCTATTTCAAATCGTTATGAC-TTTTGTTTTGTTATAAAACAATTGTTTCTATTCAAACAA
* * * * *
19414 GCATATTTTGG-ATAAAATAATA-TAAATTTATTAATATTCCAAAAATTAATAAGTATAA-TTTT
65 GCTTA-TTTGGAATAAAATAATACT-AATTAATTAACATT-CAAAAATTAATAAGTAAAAGATTT
* * *** * * *
19476 AGAAAATAAAGCTA-TTTTTTGAA-CAATTCAAATAGTTATGACTATTTGAACA
127 AAAAAATAAA-TTAGTTTACCGAACCAGTTCAAATAGTCATG-C-ATTTG-A-T
* * * * *
19528 ATTATCTATTTCAAATCATTATGACCATTTGTTTTGTCATAAACCAA-TGTTTCTGTTCAAACAA
1 ATTATCTATTTCAAATCGTTATGA-CTTTTGTTTTGTTATAAAACAATTGTTTCTATTCAAACAA
* * * * *
19592 GCTTATTTGTAATAAAATAATTCTAATTAATTAATATTCCAAAATTAATAAGTAAAATATTTAAA
65 GCTTATTTGGAATAAAATAATACTAATTAATTAACATTCAAAAATTAATAAGTAAAAGATTTAAA
* *** * *
19657 AAATAAATTTGTTTACCGAGTGAGTTTAAATAGTTATG-A-TTG-T
130 AAATAAATTAGTTTACCGAACCAGTTCAAATAGTCATGCATTTGAT
* *
19700 -TTATTTATTTCAAATCGTTATGATCTTTTGTTTTGTTATAAAACAATTGTTTCTATTCATACAA
1 ATTATCTATTTCAAATCGTTATGA-CTTTTGTTTTGTTATAAAACAATTGTTTCTATTCAAACAA
* * **
19764 GTTTATTTGGAA-AAAATAATACTAA-TATATTAACATTTTAAAAATTAATAAGTTGAAGATTTA
65 GCTTATTTGGAATAAAATAATACTAATTA-ATTAACA-TTCAAAAATTAATAAGTAAAAGATTTA
* * *
19827 AGAAATTAATTAGTTTACTGAACCAGTTCAAATAGTCATGTCCATTTGAACT
128 AAAAATAAATTAGTTTACCGAACCAGTTCAAATAGTCATG--CATTTG-A-T
* * *
19879 ATTATCTATTTCAAATTGTTATGACATTTTATTTTGTTGTAAAACAATTGTTTCT
1 ATTATCTATTTCAAATCGTTATGAC-TTTTGTTTTGTTATAAAACAATTGTTTCT
19934 TATCGATCAA
Statistics
Matches: 333, Mismatches: 55, Indels: 35
0.79 0.13 0.08
Matches are distributed among these distances:
170 2 0.01
171 58 0.17
172 78 0.23
175 4 0.01
176 4 0.01
177 22 0.07
178 58 0.17
179 58 0.17
180 49 0.15
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (175 bp):
ATTATCTATTTCAAATCGTTATGACTTTTGTTTTGTTATAAAACAATTGTTTCTATTCAAACAAG
CTTATTTGGAATAAAATAATACTAATTAATTAACATTCAAAAATTAATAAGTAAAAGATTTAAAA
AATAAATTAGTTTACCGAACCAGTTCAAATAGTCATGCATTTGAT
Found at i:20599 original size:23 final size:22
Alignment explanation
Indices: 20573--20634 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
20563 AACTTTAAAT
**
20573 ATTAAATCTAATTTATTTATATA
1 ATTAAAT-TAATTTAAATATATA
20596 ATTAAAATTAATTTAAATATATA
1 ATT-AAATTAATTTAAATATATA
20619 ATTTAAA-T-ATTTAAAT
1 A-TTAAATTAATTTAAAT
20635 TTTAAATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 8 0.23
22 1 0.03
23 20 0.57
24 6 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAATTAATTTAAATATATA
Found at i:20657 original size:20 final size:22
Alignment explanation
Indices: 20621--20667 Score: 80
Period size: 20 Copynumber: 2.2 Consensus size: 22
20611 AATATATAAT
20621 TTAAATATTTAAATTTTAAATA
1 TTAAATATTTAAATTTTAAATA
20643 TTAAATA-TT-AATTTTAAATA
1 TTAAATATTTAAATTTTAAATA
20663 TTAAA
1 TTAAA
20668 ACTAATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 16 0.64
21 2 0.08
22 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAAATATTTAAATTTTAAATA
Found at i:20661 original size:13 final size:12
Alignment explanation
Indices: 20558--20666 Score: 62
Period size: 13 Copynumber: 9.6 Consensus size: 12
20548 ACTATAATAT
20558 ATATTAACTTTAA
1 ATATTAA-TTTAA
*
20571 ATATTAAATCT-A
1 ATATT-AATTTAA
20583 AT-TT-ATTT--
1 ATATTAATTTAA
20591 ATA-TAA-TTAA
1 ATATTAATTTAA
20601 A-ATTAATTTAA
1 ATATTAATTTAA
20612 ATATATAATTT-A
1 ATAT-TAATTTAA
20624 A-A-T-ATTTAA
1 ATATTAATTTAA
*
20633 ATTTTAAATATTAA
1 ATATT-AAT-TTAA
20647 ATATTAATTTTAA
1 ATATTAA-TTTAA
20660 ATATTAA
1 ATATTAA
20667 AACTAATATA
Statistics
Matches: 76, Mismatches: 4, Indels: 32
0.68 0.04 0.29
Matches are distributed among these distances:
8 9 0.12
9 8 0.11
10 4 0.05
11 9 0.12
12 7 0.09
13 28 0.37
14 11 0.14
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
ATATTAATTTAA
Found at i:20675 original size:47 final size:44
Alignment explanation
Indices: 20558--20680 Score: 112
Period size: 47 Copynumber: 2.8 Consensus size: 44
20548 ACTATAATAT
*
20558 ATATTAACTTTAAATATTAAATCT-A-ATTTATTTATATAATTAA
1 ATATTAA-TTTAAATATTAAATCTAATATTTATTTAAATAATTAA
*
20601 A-ATTAATTTAAATA-TATAATTTAAATATTTAAATTTTAAAT-ATTAA
1 ATATTAATTTAAATATTA-AATCT-AATATTT--A-TTTAAATAATTAA
* *
20647 ATATTAATTTTAAATATTAAAACTAATATATATT
1 ATATTAA-TTTAAATATTAAATCTAATATTTATT
20681 GTTTAAATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
40 2 0.03
41 12 0.18
42 5 0.08
43 2 0.03
44 6 0.09
45 1 0.02
46 7 0.11
47 17 0.26
48 11 0.17
49 2 0.03
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (44 bp):
ATATTAATTTAAATATTAAATCTAATATTTATTTAAATAATTAA
Found at i:20677 original size:27 final size:27
Alignment explanation
Indices: 20628--20690 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
20618 AATTTAAATA
* *
20628 TTTAAATTTTAAATATTAAATATTAAT-
1 TTTAAATATTAAATACTAAATA-TAATG
*
20655 TTTAAATATTAAA-ACTAATATATATTG
1 TTTAAATATTAAATACTAA-ATATAATG
20682 TTTAAATAT
1 TTTAAATAT
20691 ATTAATTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (27 bp):
TTTAAATATTAAATACTAAATATAATG
Found at i:20742 original size:29 final size:29
Alignment explanation
Indices: 20684--20743 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
20674 ATATATTGTT
* * *
20684 TAAATATATTAATTTGTTTAAATTAAAAA
1 TAAATATATAAATTTATTTAAAGTAAAAA
*
20713 TAAATATA-AAATTTATTTTAAGTAATAAA
1 TAAATATATAAATTTATTTAAAGTAA-AAA
20742 TA
1 TA
20744 TTACAATAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (29 bp):
TAAATATATAAATTTATTTAAAGTAAAAA
Found at i:21299 original size:27 final size:24
Alignment explanation
Indices: 21257--21317 Score: 86
Period size: 26 Copynumber: 2.4 Consensus size: 24
21247 TAAACAAATT
21257 TATTTTTTAAATTTAATAAATTTAA
1 TATTTTTTAAATTTAATAAA-TTAA
21282 TATTTTTTGAAATATTAATAAATTAA
1 TATTTTTT-AAAT-TTAATAAATTAA
21308 TATTATTTTA
1 TATT-TTTTA
21318 TTATGAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
25 8 0.24
26 13 0.39
27 12 0.36
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TATTTTTTAAATTTAATAAATTAA
Found at i:21510 original size:41 final size:43
Alignment explanation
Indices: 21464--21546 Score: 134
Period size: 41 Copynumber: 2.0 Consensus size: 43
21454 TTAACTTATC
*
21464 AATTTTTAAAATATTAA-TAAAGTAATATTATTTTA-TTTGGT
1 AATTTTTAAAATATTAAGAAAAGTAATATTATTTTACTTTGGT
*
21505 AATTTTTAAAATATTAAGAAAAGTAGTATTATTTTACTTTGG
1 AATTTTTAAAATATTAAGAAAAGTAATATTATTTTACTTTGG
21547 ATAAACTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 17 0.45
42 16 0.42
43 5 0.13
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.48
Consensus pattern (43 bp):
AATTTTTAAAATATTAAGAAAAGTAATATTATTTTACTTTGGT
Found at i:22109 original size:180 final size:177
Alignment explanation
Indices: 21504--22501 Score: 795
Period size: 180 Copynumber: 5.6 Consensus size: 177
21494 TTTTATTTGG
* * * ** * * * *
21504 TAATTTTTAAAATATTAAGAAAAGTAGTATTATTTTACTTT-GGATAAACTTTTGTGAACTAAAA
1 TAATTTTTGAAATATTAA-TAAATTAGTATTATTTTA-TTTCAAATAAGCTTGTATGAACTGAAA
* * * * * **
21568 CAATTGTTTTATGACAAAACAAAAATTCACAACGATTTTAAATAGATAATCGTTCAAATAGTCAT
64 CAATTATTTTATGACAAAACAAAGA-TCAAAATGATTTGAAATAGATAATTATTCAAATAGTCAT
* *
21633 AACTATTTGAACTTGTTCAGTAAACAAATTTAGTTTTTCAAATATCCTGCTTAT
128 AACTATTTGAA-TTGTTCA-AAAACAAATTTAGTTTTT-AAAT-TCTTGCTTAT
* * * * * * *
21687 TAATCTTTCAAA-AGTTAATAAATTAGTATTACTTTCTTTGAAATAAGTTTGTATAAACTGAAAC
1 TAATTTTTGAAATA-TTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACTGAAAC
** * * * *
21751 AATTATTTTATGATTAAACAAAAGGTCAAAATGATTTGAAATAGATAATTATTCTAATAATCTTA
65 AATTATTTTATGACAAAAC-AAAGATCAAAATGATTTGAAATAGATAATTATTCAAATAGTCATA
* * ** * *
21816 ACTATTTGAACTGATCAACAAACACGTTTATTTTTTAAA-T-AT-CTTAT
129 ACTATTTGAATTGTTCAA-AAACAAATTTAGTTTTTAAATTCTTGCTTAT
** * * * * **
21863 TAATTTTCAAAATATTATTAAATTAGTATTATTTT-TATCTAAATCAGCTTATATGATA-AAAAA
1 TAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTC-AAATAAGCTTGTATGA-ACTGAAA
* * * * *
21926 CAATTGTTTTATGACAAAACAAAGATCATAATGATTTGAGATTA-ATATTTGTTCAAATAGTCAT
64 CAATTATTTTATGACAAAACAAAGATCAAAATGATTTGA-AATAGATAATTATTCAAATAGTCAT
* * * *
21990 AACTATTAGAATTGCTTTGAAAAACAACTTTAGTTTTTAAATCTCTTGCTTAA
128 AACTATTTGAATTG--TTCAAAAACAAATTTAGTTTTTAAAT-TCTTGCTTAT
* * * * * *
22043 TAATTTTTGACATATTAATAAAGTAGTATTATTTTATTTCAGATAAGTTTTTATTAACTGAAACA
1 TAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACTGAAACA
* * * *
22108 ATTATTTTATGACAAAACAAA-ATGTCAAAATAATTTTAAACAGATAATTATTTAAATAGTCATA
66 ATTATTTTATGACAAAACAAAGA--TCAAAATGATTTGAAATAGATAATTATTCAAATAGTCATA
* * *
22172 TCTATTTGAAATTATTCAATAAACAAATTTATTTTTTTAAATCTCTTGC-T-T
129 ACTATTTG-AATTGTTCAA-AAACAAATTTA-GTTTTTAAAT-TCTTGCTTAT
* *
22223 TAATTTTTTG-AATGTTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACTGAAAT
1 TAA-TTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACTGAAAC
* * ** *
22287 AACTATTTTATGACTAAACAAAAGGAT-AAAATGATTTGAAATAGATAATTATTCTGATAGTCTT
65 AATTATTTTATGACAAAAC-AAA-GATCAAAATGATTTGAAATAGATAATTATTCAAATAGTCAT
* **** * *
22351 AACTATTTGAACTAGTTTGGCTAACATATTTAATTTTTAAA-TC-T-CTTAT
128 AACTATTTGAA-TTG-TTCAAAAACAAATTTAGTTTTTAAATTCTTGCTTAT
* * * * * * **
22400 TAATTTTTGAAATATTATTAAATTAGTATCATTTGAATCCGAATAAGCTTGTATGAAAGGAAACA
1 TAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACTGAAACA
* * * **
22465 ATTGTTGTATGACAAAATAAAGATCATTATGATTTGA
66 ATTATTTTATGACAAAACAAAGATCAAAATGATTTGA
22502 TTATAATTAC
Statistics
Matches: 644, Mismatches: 139, Indels: 71
0.75 0.16 0.08
Matches are distributed among these distances:
175 50 0.08
176 106 0.16
177 70 0.11
178 2 0.00
179 13 0.02
180 193 0.30
181 83 0.13
182 109 0.17
183 18 0.03
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (177 bp):
TAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACTGAAACA
ATTATTTTATGACAAAACAAAGATCAAAATGATTTGAAATAGATAATTATTCAAATAGTCATAAC
TATTTGAATTGTTCAAAAACAAATTTAGTTTTTAAATTCTTGCTTAT
Found at i:22112 original size:356 final size:361
Alignment explanation
Indices: 21564--22257 Score: 859
Period size: 356 Copynumber: 1.9 Consensus size: 361
21554 TTTGTGAACT
*
21564 AAAACAATTGTTTTATGACAAAACAAAAATTCACAACGATTTTAAATAGATAATCGTTCAAATAG
1 AAAACAATTGTTTTATGACAAAACAAAAATTCACAACGATTTGAAATAGATAATCGTTCAAATAG
* * *
21629 TCATAACTATTTGAACTTGTTCAGTAAACAAATTTAGTTTTTCAAATATCCTGCTTATTAATCTT
66 TCATAACTATTAGAACTTGTTCAGAAAACAAATTTAGTTTTTCAAATATCCTGCTTAATAATCTT
* * *
21694 TCAAAAGTTAATAAATTAGTATTACTTTCTTTGAAATAAGTTTGTATAAACTGAAACAATTATTT
131 TCAAAAGTTAATAAAGTAGTATTACTTTATTTCAAATAAGTTTGTATAAACTGAAACAATTATTT
** * * *
21759 TATGATTAAACAAAAGGTCAAAATGATTTGAAATAGATAATTATTCT-AATAATCTTAACTATTT
196 TATGACAAAACAAAAGGTCAAAATAATTTGAAACAGATAATTATT-TAAATAATCATAACTATTT
* ** *
21823 GAACTGA-TCAACAAACACGTTTA-TTTTTTAAATATCTT-ATTAATTTTCAAAATATTATTAAA
260 GAAATGATTCAACAAACAAATTTATTTTTTTAAATATCTTCATTAATTTTCAAAATATTAATAAA
21885 TTAGTATTATTTTTATCTAAATCAGCTTATATGATAA
325 TTAGTATTATTTTTATCTAAATCAGCTTATATGATAA
* * * * * *
21922 AAAACAATTGTTTTATGACAAAACAAAGA-TCATAATGATTTGAGATTA-ATATTTGTTCAAATA
1 AAAACAATTGTTTTATGACAAAACAAAAATTCACAACGATTTGA-AATAGATAATCGTTCAAATA
* * * *
21985 GTCATAACTATTAGAA-TTGCTT-TGAAAAACAACTTTAGTTTTT-AAATCTCTTGCTTAATAAT
65 GTCATAACTATTAGAACTTG-TTCAG-AAAACAAATTTAGTTTTTCAAATATCCTGCTTAATAAT
* * * * * * *
22047 TTTTGACATA-TTAATAAAGTAGTATTATTTTATTTCAGATAAGTTTTTATTAACTGAAACAATT
128 CTTTCA-AAAGTTAATAAAGTAGTATTACTTTATTTCAAATAAGTTTGTATAAACTGAAACAATT
* * * *
22111 ATTTTATGACAAAACAAAATGTCAAAATAATTTTAAACAGATAATTATTTAAATAGTCATATCTA
192 ATTTTATGACAAAACAAAAGGTCAAAATAATTTGAAACAGATAATTATTTAAATAATCATAACTA
* * * * *** *
22176 TTTGAAATTATTCAATAAACAAATTTATTTTTTTAAATCTCTTGCTTTAATTTTTTGAATGTTAA
257 TTTGAAATGATTCAACAAACAAATTTATTTTTTTAAATATCTT-CATTAATTTTCAAAATATTAA
22241 TAAATTAGTATTATTTT
321 TAAATTAGTATTATTTT
22258 ATTTCAAATA
Statistics
Matches: 282, Mismatches: 45, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
355 1 0.00
356 133 0.47
357 72 0.26
358 45 0.16
360 31 0.11
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (361 bp):
AAAACAATTGTTTTATGACAAAACAAAAATTCACAACGATTTGAAATAGATAATCGTTCAAATAG
TCATAACTATTAGAACTTGTTCAGAAAACAAATTTAGTTTTTCAAATATCCTGCTTAATAATCTT
TCAAAAGTTAATAAAGTAGTATTACTTTATTTCAAATAAGTTTGTATAAACTGAAACAATTATTT
TATGACAAAACAAAAGGTCAAAATAATTTGAAACAGATAATTATTTAAATAATCATAACTATTTG
AAATGATTCAACAAACAAATTTATTTTTTTAAATATCTTCATTAATTTTCAAAATATTAATAAAT
TAGTATTATTTTTATCTAAATCAGCTTATATGATAA
Found at i:23458 original size:21 final size:20
Alignment explanation
Indices: 23434--23479 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
23424 AATAACTATC
23434 ATAATTAGTATTATTAAATTA
1 ATAATTAGTATTATTAAA-TA
* *
23455 ATAATTATTATTTTTAAATA
1 ATAATTAGTATTATTAAATA
23475 ATAAT
1 ATAAT
23480 CAAACAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATAATTAGTATTATTAAATA
Found at i:24445 original size:21 final size:22
Alignment explanation
Indices: 24421--24470 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
24411 TTCATTGACG
24421 ATTTAATTAA-TAATTTTATA-A
1 ATTTAA-TAATTAATTTTATATA
*
24442 ATTTAATAATTATTTTTATATA
1 ATTTAATAATTAATTTTATATA
24464 A-TTAATA
1 ATTTAATA
24471 TTATAATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 21 0.81
22 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTAATAATTAATTTTATATA
Found at i:24465 original size:17 final size:16
Alignment explanation
Indices: 24422--24498 Score: 50
Period size: 17 Copynumber: 4.5 Consensus size: 16
24412 TCATTGACGA
24422 TTTAAT-TAATAAT-T
1 TTTAATATAATAATAT
*
24436 TTATAAATTTAATAATTAT
1 TT-T-AATATAATAA-TAT
*
24455 TTTTATATAATTAATAT
1 TTTAATATAA-TAATAT
*
24472 TATAATATGAATAACTAT
1 TTTAATAT-AATAA-TAT
24490 TTTAGATAT
1 TTTA-ATAT
24499 TAAATAGTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
14 2 0.04
15 1 0.02
16 3 0.06
17 23 0.47
18 13 0.27
19 7 0.14
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTAATATAATAATAT
Found at i:24590 original size:35 final size:36
Alignment explanation
Indices: 24526--24613 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 36
24516 TAAATAGTCA
*
24526 AATAATTATTCATTATTTAAACTATTATTAAAAATAATT
1 AATAATTATT-A-TATTTAAACTAATATTAAAAATAA-T
* *
24565 AATAATTATTATATTT-AA-TAATATTATAATTAAT
1 AATAATTATTATATTTAAACTAATATTAAAAATAAT
*
24599 -ATAATCATTATATTT
1 AATAATTATTATATTT
24614 TAGTTATAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
33 14 0.31
34 1 0.02
35 12 0.27
36 2 0.04
37 5 0.11
38 1 0.02
39 10 0.22
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (36 bp):
AATAATTATTATATTTAAACTAATATTAAAAATAAT
Found at i:24591 original size:15 final size:15
Alignment explanation
Indices: 24563--24613 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
24553 TTAAAAATAA
24563 TTAATAATTATTATAT
1 TTAATAA-TATTATAT
24579 TTAATAATATTATAAT
1 TTAATAATATTAT-AT
*
24595 TAATATAATCATTATAT
1 TTA-ATAAT-ATTATAT
24612 TT
1 TT
24614 TAGTTATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 6 0.20
16 11 0.37
17 8 0.27
18 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATAATATTATAT
Found at i:24649 original size:19 final size:19
Alignment explanation
Indices: 24627--24671 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
24617 TTATAAGCTT
*
24627 TTGTTTTGACATACAACAA
1 TTGTTTCGACATACAACAA
*
24646 TTGTTTCGTCATACAACAA
1 TTGTTTCGACATACAACAA
24665 TTGTTTC
1 TTGTTTC
24672 AATTCATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (19 bp):
TTGTTTCGACATACAACAA
Found at i:24829 original size:23 final size:22
Alignment explanation
Indices: 24789--24837 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
24779 AATTAATAGT
24789 TATTTATAGTATTACTTATATGA
1 TATTTATAGTATTACTTA-ATGA
* *
24812 TATTTATA-TATATGCTTAATTA
1 TATTTATAGTAT-TACTTAATGA
24834 TATT
1 TATT
24838 AATTGATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (22 bp):
TATTTATAGTATTACTTAATGA
Found at i:26131 original size:16 final size:16
Alignment explanation
Indices: 26107--26146 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
26097 ATATTTAAAT
26107 GTTTAAATAATAATATTA
1 GTTT-AATAATAAT-TTA
26125 -TTTAATAATAATTTA
1 GTTTAATAATAATTTA
26140 GTTTAAT
1 GTTTAAT
26147 TATTATCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 3 0.14
16 15 0.71
17 3 0.14
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
GTTTAATAATAATTTA
Found at i:26158 original size:26 final size:27
Alignment explanation
Indices: 26120--26170 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
26110 TAAATAATAA
* *
26120 TATTATTTAATAATAATTTAGTTTAAT
1 TATTATCTAATAATAATTAAGTTTAAT
*
26147 TATTATCT-ATAATTATTAAGTTTA
1 TATTATCTAATAATAATTAAGTTTA
26171 TAAAAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (27 bp):
TATTATCTAATAATAATTAAGTTTAAT
Found at i:26420 original size:9 final size:10
Alignment explanation
Indices: 26406--26438 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
26396 TATCCTAAAG
26406 TTATAATTA-
1 TTATAATTAT
26415 TTATAATTAT
1 TTATAATTAT
26425 TTATAA-TAT
1 TTATAATTAT
26434 TTATA
1 TTATA
26439 TATAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTATAATTAT
Found at i:26627 original size:19 final size:18
Alignment explanation
Indices: 26603--26641 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
26593 TAAAATACTA
* *
26603 TAATATGGTATCTTCTTAT
1 TAATATAGTAT-TTATTAT
26622 TAATATAGTATTTATTAT
1 TAATATAGTATTTATTAT
26640 TA
1 TA
26642 CACTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (18 bp):
TAATATAGTATTTATTAT
Found at i:26753 original size:26 final size:24
Alignment explanation
Indices: 26724--26776 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
26714 TTATATTAAG
26724 ATAATTACAT-TATTTATAATATAATT
1 ATAATTA-ATATA-TTATAAT-TAATT
*
26750 ATAATTAATATATTATTATTAATT
1 ATAATTAATATATTATAATTAATT
26774 ATA
1 ATA
26777 GTAAAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 8 0.32
25 8 0.32
26 9 0.36
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
ATAATTAATATATTATAATTAATT
Found at i:26770 original size:14 final size:15
Alignment explanation
Indices: 26740--26772 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
26730 ACATTATTTA
26740 TAATATAATTATAAT
1 TAATATAATTATAAT
*
26755 TAATAT-ATTATTAT
1 TAATATAATTATAAT
26769 TAAT
1 TAAT
26773 TATAGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATATAATTATAAT
Found at i:26875 original size:19 final size:17
Alignment explanation
Indices: 26848--26886 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
26838 TAATTAATAC
26848 AATTAATTTAACTACTAAT
1 AATTAATTTAA-TA-TAAT
*
26867 AATTTATTTAATATAAT
1 AATTAATTTAATATAAT
26884 AAT
1 AAT
26887 ATACTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAATTTAATATAAT
Found at i:26907 original size:27 final size:28
Alignment explanation
Indices: 26860--26915 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
26850 TTAATTTAAC
*
26860 TACTAATAATTTATTTAATATAATAATA
1 TACTAATAATTTATATAATATAATAATA
* *
26888 TACTATTAA-TTATATAATATAATTATA
1 TACTAATAATTTATATAATATAATAATA
26915 T
1 T
26916 GAATATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (28 bp):
TACTAATAATTTATATAATATAATAATA
Found at i:26920 original size:14 final size:13
Alignment explanation
Indices: 26865--26930 Score: 64
Period size: 13 Copynumber: 5.0 Consensus size: 13
26855 TTAACTACTA
*
26865 ATAATTTATTTAAT
1 ATAA-TTATATAAT
* *
26879 ATAATAATATACT
1 ATAATTATATAAT
26892 ATTAATTATATAAT
1 A-TAATTATATAAT
26906 ATAATTATATGAAT
1 ATAATTATAT-AAT
26920 AT-ATTA-ATAAT
1 ATAATTATATAAT
26931 TATTAAATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
11 3 0.07
12 2 0.04
13 20 0.44
14 20 0.44
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (13 bp):
ATAATTATATAAT
Found at i:27042 original size:22 final size:20
Alignment explanation
Indices: 26997--27034 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26987 TTAATAATAT
* *
26997 ATAAATTTTTAAGTATATTA
1 ATAAAGTTTAAAGTATATTA
27017 ATAAAGTTTAAAGTATAT
1 ATAAAGTTTAAAGTATAT
27035 ATACATAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (20 bp):
ATAAAGTTTAAAGTATATTA
Found at i:28086 original size:19 final size:18
Alignment explanation
Indices: 28054--28092 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
28044 ATGTTATTTT
28054 ATTAAAAATAAATTATTA
1 ATTAAAAATAAATTATTA
*
28072 ATTAAAATATTAATTATTA
1 ATTAAAA-ATAAATTATTA
28091 AT
1 AT
28093 ATTTCAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAAAAATAAATTATTA
Found at i:28461 original size:38 final size:38
Alignment explanation
Indices: 28388--28476 Score: 92
Period size: 38 Copynumber: 2.3 Consensus size: 38
28378 GGATAACAAA
* *
28388 ATTACTAATATTATAAAAATATTATAATTATATTAATT
1 ATTACTAATATTATAAAAATAATATAATTAAATTAATT
* * * *
28426 ATTAGTAATATTATGAATATTAATATAA-TAAATTAAATA
1 ATTACTAATATTAT-AAAAATAATATAATTAAATT-AATT
28465 ATTAC-AATATTA
1 ATTACTAATATTA
28477 ATTAGTAGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
38 25 0.60
39 17 0.40
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (38 bp):
ATTACTAATATTATAAAAATAATATAATTAAATTAATT
Found at i:28550 original size:16 final size:16
Alignment explanation
Indices: 28529--28592 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 16
28519 ATTAAATTGT
28529 TAATAATAAATAATCA
1 TAATAATAAATAATCA
28545 TAATAATAAAATTAATCAA
1 TAATAAT-AAA-TAATC-A
*
28564 TAATAATTAAATAATTA
1 TAATAA-TAAATAATCA
*
28581 -AATAATTAATAA
1 TAATAATAAATAA
28593 ACAAATAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
15 6 0.14
16 12 0.29
17 4 0.10
18 9 0.21
19 10 0.24
20 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATAATAAATAATCA
Found at i:28553 original size:19 final size:18
Alignment explanation
Indices: 28529--28593 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 18
28519 ATTAAATTGT
28529 TAATAATAAATAATCATAA
1 TAATAATAAATAATCA-AA
*
28548 TAATAA-AATTAATC-AA
1 TAATAATAAATAATCAAA
*
28564 TAATAATTAAATAATTAAA
1 TAATAA-TAAATAATCAAA
28583 TAATTAATAAA
1 TAA-TAATAAA
28594 CAAATAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 8 0.21
18 13 0.33
19 15 0.38
20 3 0.08
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATAATAAATAATCAAA
Found at i:28578 original size:8 final size:8
Alignment explanation
Indices: 28565--28589 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
28555 ATTAATCAAT
28565 AATAATTA
1 AATAATTA
28573 AATAATTA
1 AATAATTA
28581 AATAATTA
1 AATAATTA
28589 A
1 A
28590 TAAACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AATAATTA
Found at i:29273 original size:33 final size:35
Alignment explanation
Indices: 29236--29318 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 35
29226 TTTAATTTAC
*
29236 ATATTATTATAATTA-ATTTA-ACTAAT-AA-ATTAG
1 ATATTATTATAATTATATTTATA--AATGAAGATTAA
*
29269 ATATTATTAT-ACTATATTTATAAATGAAGATTAA
1 ATATTATTATAATTATATTTATAAATGAAGATTAA
29303 ATATTATTATAATTAT
1 ATATTATTATAATTAT
29319 TGTAATATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
32 6 0.14
33 17 0.40
34 15 0.36
35 4 0.10
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (35 bp):
ATATTATTATAATTATATTTATAAATGAAGATTAA
Found at i:29684 original size:14 final size:14
Alignment explanation
Indices: 29635--29684 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
29625 AAATTGTATA
*
29635 TAATTAATTAA-AT
1 TAATTAATAAATAT
29648 TAATTAATAAAT-T
1 TAATTAATAAATAT
29661 TAAATTAATAAATAT
1 T-AATTAATAAATAT
*
29676 TAATAAATA
1 TAATTAATA
29685 TATTTATTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 12 0.38
14 18 0.56
15 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATTAATAAATAT
Found at i:29818 original size:11 final size:11
Alignment explanation
Indices: 29798--29856 Score: 57
Period size: 11 Copynumber: 5.1 Consensus size: 11
29788 TAGTAATAAG
29798 TATATAATTAAA
1 TATAT-ATTAAA
29810 TATATATTAAA
1 TATATATTAAA
*
29821 TAT-TATTAAT
1 TATATATTAAA
29831 TAATTATAATTAAA
1 T-A-TAT-ATTAAA
*
29845 TATGTATTAAA
1 TATATATTAAA
29856 T
1 T
29857 TAATTATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 7 0.17
11 17 0.43
12 8 0.20
13 2 0.05
14 6 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (11 bp):
TATATATTAAA
Found at i:29831 original size:25 final size:26
Alignment explanation
Indices: 29769--29871 Score: 88
Period size: 25 Copynumber: 3.8 Consensus size: 26
29759 TAACAATTAT
*
29769 TTAATTAAATATTTATATTTAGTAATAAGTA
1 TTAATTAAATA--TATA-TTA--AATATGTA
29800 TATAATTAAATATATATTAAATAT-TA
1 T-TAATTAAATATATATTAAATATGTA
*
29826 TTAATTAATTATA-ATTAAATATGTA
1 TTAATTAAATATATATTAAATATGTA
*
29851 TTAAATT-AAT-TATAATAAATA
1 TT-AATTAAATATATATTAAATA
29872 ATTTGAATAA
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
24 11 0.17
25 24 0.38
26 7 0.11
27 4 0.06
29 3 0.05
30 4 0.06
31 1 0.02
32 10 0.16
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (26 bp):
TTAATTAAATATATATTAAATATGTA
Found at i:30238 original size:25 final size:25
Alignment explanation
Indices: 30191--30238 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
30181 AAATAGAATT
*
30191 TATTTCAAATAATTTAAACATATAA
1 TATTTCAAATAATTTAAAAATATAA
*
30216 TATTTTAAAT-ATTTATAAAATAT
1 TATTTCAAATAATTTA-AAAATAT
30239 TATAGGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTTCAAATAATTTAAAAATATAA
Found at i:30746 original size:15 final size:15
Alignment explanation
Indices: 30708--30760 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 15
30698 ATTTAGTATT
30708 TAATTATATGAATTAA
1 TAATTATAT-AATTAA
30724 TATTATTATATAATTAA
1 TA--ATTATATAATTAA
30741 TAATTATATTAATTAA
1 TAATTATA-TAATTAA
30757 -AATT
1 TAATT
30761 TAAACTAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.29
16 9 0.26
17 8 0.24
18 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TAATTATATAATTAA
Found at i:30750 original size:20 final size:18
Alignment explanation
Indices: 30710--30756 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
30700 TTAGTATTTA
30710 ATTATATGAATTAATATT
1 ATTATATGAATTAATATT
30728 ATTATAT-AATTAATA--
1 ATTATATGAATTAATATT
*
30743 ATTATATTAATTAA
1 ATTATATGAATTAA
30757 AATTTAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.25
16 6 0.21
17 8 0.29
18 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATTATATGAATTAATATT
Found at i:30755 original size:9 final size:9
Alignment explanation
Indices: 30707--30755 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
30697 AATTTAGTAT
30707 TTAATTATA
1 TTAATTATA
*
30716 TGAATTAATA
1 TTAATT-ATA
30726 TT-ATTATA
1 TTAATTATA
30734 -TAATTA-A
1 TTAATTATA
30741 -TAATTATA
1 TTAATTATA
30749 TTAATTA
1 TTAATTA
30756 AAATTTAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
7 8 0.24
8 8 0.24
9 14 0.41
10 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (9 bp):
TTAATTATA
Found at i:31970 original size:110 final size:109
Alignment explanation
Indices: 31772--31973 Score: 264
Period size: 110 Copynumber: 1.8 Consensus size: 109
31762 TAGTAAAAAA
* * *
31772 ATTTATTTTTTTAAACTCTTGCTTATTAACTTTTGAAATATTAAGAAATTAGTATTATTTTATTT
1 ATTTATTTTTTAAAAATCTTGCTTATTAACTTTTGAAATATTAAGAAATTAGGATTATTTTATTT
* * *
31837 TGGATAAGCTTTTATGAAGTGAAACAATTGCGAATGTTAAATAG
66 TGAATAAGCTTATAAGAAGTGAAACAATTGCGAATGTTAAATAG
* * * * *
31881 ATTTATTTTTTAAAATATTTTGCTTATTAATTTTTTG-AATGTTAATAAATTTGGATTATTTTAT
1 ATTTATTTTTTAAAA-ATCTTGCTTATTAA-CTTTTGAAATATTAAGAAATTAGGATTATTTTAT
31945 TTTGAATAAGCTTATAAGATA-TGAAACAA
64 TTTGAATAAGCTTATAAGA-AGTGAAACAA
31974 ATATTTTGAC
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
109 14 0.18
110 59 0.75
111 6 0.08
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (109 bp):
ATTTATTTTTTAAAAATCTTGCTTATTAACTTTTGAAATATTAAGAAATTAGGATTATTTTATTT
TGAATAAGCTTATAAGAAGTGAAACAATTGCGAATGTTAAATAG
Found at i:33190 original size:180 final size:182
Alignment explanation
Indices: 32857--33205 Score: 404
Period size: 180 Copynumber: 1.9 Consensus size: 182
32847 TGGTAAATAG
* * * *
32857 ATTTATTTTTTTAAATCTCATTTTTATTAATTTTTTGAATGTTACTAAATTAGTATTAATTTATT
1 ATTTATTTTTTTAAATATCATTGTTATTAATTTTTTGAATATTACTAAATTAGTATTAATTTAAT
* * * ** * * * **
32922 CTAAATAACCTTTTATGAACTAAAACAATTGTTTTATAACCAAATAAAATATCAGAATGATTTGA
66 CCAAAAAACCTTGTACAAACTAAAACAATTGTTTTATAACAAAAAAAAAGATCAGAACAATTTGA
* * *
32987 CATAGATAATTATTTTAATAGTCTTAACCATTTGAACTGATTTAGTAAACAA
131 AATAGATAATCATTTTAATAGTCTTAACCATTTCAACTGATTTAGTAAACAA
** *
33039 ATTTA-TTTTTTAAATATC-TTAGTTATTAA-TTTTTGAAATATTGTTAAATTAGTATTAGTTTA
1 ATTTATTTTTTTAAATATCATT-GTTATTAATTTTTTG-AATATTACTAAATTAGTATTAATTTA
* * *
33101 ATCCAAAAAAGCTTGTACAAAC-AAAACAATTGTTTTACT-ACAAAAAAAAAGGTCATAACAATT
64 ATCCAAAAAACCTTGTACAAACTAAAACAATTGTTTTA-TAACAAAAAAAAAGATCAGAACAATT
*
33164 TGAAATAGATAATCA-TTTATATAGTCTTAACTATTTCAACTG
128 TGAAATAGATAATCATTTTA-ATAGTCTTAACCATTTCAACTG
33206 GTTTGGCAAT
Statistics
Matches: 139, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
179 4 0.03
180 73 0.53
181 57 0.41
182 5 0.04
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.42
Consensus pattern (182 bp):
ATTTATTTTTTTAAATATCATTGTTATTAATTTTTTGAATATTACTAAATTAGTATTAATTTAAT
CCAAAAAACCTTGTACAAACTAAAACAATTGTTTTATAACAAAAAAAAAGATCAGAACAATTTGA
AATAGATAATCATTTTAATAGTCTTAACCATTTCAACTGATTTAGTAAACAA
Found at i:33554 original size:23 final size:22
Alignment explanation
Indices: 33530--33620 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 22
33520 TTATATCAAT
*
33530 TAATTCAATAAATATATATTTAT
1 TAATT-AATAAATATATATTTAA
*
33553 TAATATTAATAAAT-TA-ATATAA
1 T-A-ATTAATAAATATATATTTAA
* *
33575 TCATTAATAAATTAAATATTTAA
1 TAATTAATAAA-TATATATTTAA
*
33598 TAATTAATAATTTATATATTTAA
1 TAATTAATAA-ATATATATTTAA
33621 ATTAATTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
20 9 0.17
21 1 0.02
22 6 0.11
23 27 0.50
24 8 0.15
25 3 0.06
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TAATTAATAAATATATATTTAA
Found at i:33580 original size:20 final size:19
Alignment explanation
Indices: 33553--33655 Score: 76
Period size: 20 Copynumber: 5.5 Consensus size: 19
33543 ATATATTTAT
33553 TAATATTAATAAATTAATA
1 TAATATTAATAAATTAATA
33572 TAATCATTAATAAATTAA-A
1 TAAT-ATTAATAAATTAATA
33591 T-AT-TTAAT-AATTAATAA
1 TAATATTAATAAATTAAT-A
33608 TTTATATATT--TAAATTAAT-
1 --TA-ATATTAATAAATTAATA
* *
33627 TTATATTAGTTAAATTAATA
1 TAATATTA-ATAAATTAATA
*
33647 TAAAATTAA
1 TAATATTAA
33656 ATAATACAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 26
0.69 0.04 0.27
Matches are distributed among these distances:
15 6 0.09
16 10 0.15
17 2 0.03
18 2 0.03
19 16 0.24
20 20 0.30
21 9 0.13
22 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (19 bp):
TAATATTAATAAATTAATA
Found at i:33628 original size:18 final size:19
Alignment explanation
Indices: 33605--33645 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
33595 TAATAATTAA
*
33605 TAATTTATA-TATTTAAAT
1 TAATTTATATTAGTTAAAT
33623 TAATTTATATTAGTTAAAT
1 TAATTTATATTAGTTAAAT
33642 TAAT
1 TAAT
33646 ATAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATTTATATTAGTTAAAT
Found at i:33808 original size:23 final size:23
Alignment explanation
Indices: 33771--33817 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
33761 AATTATTAAA
*
33771 TTAATTAAATAATAATTAAATAT
1 TTAATTAAATAATAAATAAATAT
* * *
33794 TTAATTAATTTATAAATAATTAT
1 TTAATTAAATAATAAATAAATAT
33817 T
1 T
33818 AAAATTACTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTAATTAAATAATAAATAAATAT
Found at i:34299 original size:31 final size:28
Alignment explanation
Indices: 34264--34405 Score: 89
Period size: 29 Copynumber: 4.8 Consensus size: 28
34254 AAAATATTTA
*
34264 ATTTAACAATTAAATTAATTCAGTTATTAAT
1 ATTTAA-AATTAAATAAATT-A-TTATTAAT
34295 ATTTATAAATTAATATAATATTTAATTA-TAAT
1 ATTTA-AAATTAA-ATAA-A-TT-ATTATTAAT
*
34327 ATTTAAATATTAAATAAACTATTATTAAT
1 ATTTAAA-ATTAAATAAATTATTATTAAT
* *
34356 ATAT-AAATTTAATAATATT-TTATTTAATT
1 ATTTAAAATTAAATAA-ATTATTA-TTAA-T
34385 ATATT--AATTAAAT-AATTATTA
1 AT-TTAAAATTAAATAAATTATTA
34406 CTTAGTCATA
Statistics
Matches: 92, Mismatches: 8, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
27 14 0.15
28 16 0.17
29 18 0.20
30 2 0.02
31 17 0.18
32 18 0.20
33 4 0.04
34 3 0.03
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (28 bp):
ATTTAAAATTAAATAAATTATTATTAAT
Found at i:34387 original size:29 final size:28
Alignment explanation
Indices: 34298--34400 Score: 93
Period size: 29 Copynumber: 3.5 Consensus size: 28
34288 TATTAATATT
*
34298 TATAAATTAATATAATATTTAATTATAATA
1 TATAAATTAA-ATAATATTTTATT-TAATA
* *
34328 TTTAAATATTAAATAA-ACTATTA-TTAATA
1 TAT-AA-ATTAAATAATA-TTTTATTTAATA
*
34357 TATAAATTTAATAATATTTTATTTAATTA
1 TATAAATTAAATAATATTTTATTTAA-TA
*
34386 TATTAATTAAATAAT
1 TATAAATTAAATAAT
34401 TATTACTTAG
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
27 12 0.20
28 7 0.12
29 22 0.37
30 4 0.07
31 9 0.15
32 5 0.08
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (28 bp):
TATAAATTAAATAATATTTTATTTAATA
Found at i:34989 original size:147 final size:147
Alignment explanation
Indices: 34771--35062 Score: 329
Period size: 147 Copynumber: 2.0 Consensus size: 147
34761 GATCGTTCTT
* * * * * * * *
34771 ACCTTTTGTTTGGTCATCAAATACTTGTTTCATATCTTACAAGTTTTATTCAGAATAAAATAATC
1 ACCTTTTGTTTGGACATAAAATAATTGTTTCATATCATAAAAGTCTTATTCAAAATAAAATAATA
* * *
34836 CAAATTTATTAACATTCAAAAAATTAATAAGCAA-AATATTGGAAAAAATAAATCTATTTATCGA
66 CAAATTTACTAACATTCAAAAAATTAATAAGCAAGAAT-TT-GAAAAAATAAATCTATTTACCAA
*
34900 ACAAGTTCAAATAGTTATG
129 ACAAATTCAAATAGTTATG
* *
34919 ACCTTTTGTTTTGACATAAAATAATTGTTTCAGT-TCATAAAAG-CTTATTTAAAATAAAATAAT
1 ACCTTTTGTTTGGACATAAAATAATTGTTTCA-TATCATAAAAGTCTTATTCAAAATAAAATAAT
* * * ** * * * *
34982 ACTAATTTCCTAATATTTTAAAAGTTAATAAGCAAGAGTTTTAAAAAATAAATTTATTTACCAAA
65 ACAAATTTACTAACATTCAAAAAATTAATAAGCAAGAATTTGAAAAAATAAATCTATTTACCAAA
35047 CAAATTCAAATAGTTA
130 CAAATTCAAATAGTTA
35063 CAACTATTTA
Statistics
Matches: 119, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
146 35 0.29
147 46 0.39
148 37 0.31
149 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (147 bp):
ACCTTTTGTTTGGACATAAAATAATTGTTTCATATCATAAAAGTCTTATTCAAAATAAAATAATA
CAAATTTACTAACATTCAAAAAATTAATAAGCAAGAATTTGAAAAAATAAATCTATTTACCAAAC
AAATTCAAATAGTTATG
Found at i:35179 original size:23 final size:23
Alignment explanation
Indices: 35132--35181 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
35122 TTATATGATT
*
35132 ATAATAAATTATAATTTAATATA
1 ATAATAAATTATAATTAAATATA
35155 ATAATGAAATTAT-A-TAAATATTA
1 ATAAT-AAATTATAATTAAATA-TA
35178 ATAA
1 ATAA
35182 AATATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 5 0.21
23 12 0.50
24 7 0.29
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
ATAATAAATTATAATTAAATATA
Found at i:35740 original size:27 final size:26
Alignment explanation
Indices: 35690--35750 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
35680 GTCTAATCAC
* *
35690 ATAAATATTATAATATTAATATTATTA
1 ATAAAT-TGATAATAATAATATTATTA
35717 ATAAATTGATAATAATAATAATTATTA
1 ATAAATTGATAATAATAAT-ATTATTA
*
35744 TTAAATT
1 ATAAATT
35751 TGTTTAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 11 0.37
27 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
ATAAATTGATAATAATAATATTATTA
Found at i:35948 original size:36 final size:38
Alignment explanation
Indices: 35906--35983 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 38
35896 AATATATAAA
*
35906 TAATTA-TC-AAATAAT-ATTAATTAATAATTATTAGTT
1 TAATTATTCAAAATAATAAATAATT-ATAATTATTAGTT
*
35942 TAATTATTCTAAAATAATAAATAATTATTATTATTAGTT
1 TAATTATTC-AAAATAATAAATAATTATAATTATTAGTT
35981 TAA
1 TAA
35984 AATAATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
36 6 0.17
37 2 0.06
39 22 0.61
40 6 0.17
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (38 bp):
TAATTATTCAAAATAATAAATAATTATAATTATTAGTT
Found at i:35987 original size:30 final size:29
Alignment explanation
Indices: 35927--36009 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 29
35917 TAATATTAAT
35927 TAATAATTATTAGTTTAATTATTCTAAAATAA
1 TAATAATTATTA--TT-ATTATTCTAAAATAA
35959 TAAATAATTATTATTATTAGTT-TAAAATAA
1 T-AATAATTATTATTATTA-TTCTAAAATAA
35989 TAATAAGTTATTATTATTATT
1 TAATAA-TTATTATTATTATT
36010 TTTAGTAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
29 7 0.15
30 25 0.52
31 4 0.08
32 1 0.02
33 11 0.23
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (29 bp):
TAATAATTATTATTATTATTCTAAAATAA
Found at i:36030 original size:33 final size:35
Alignment explanation
Indices: 35965--36031 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
35955 ATAATAAATA
*
35965 ATTATTATTATTAGTTTAAAATAATAATAAGTTATT
1 ATTATTATTATTAG-TTAAAATAATAACAAGTTATT
* *
36001 ATTATTATTTTTAG-TAAAAT-ATTACAAGTTA
1 ATTATTATTATTAGTTAAAATAATAACAAGTTA
36032 ATAATAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 9 0.32
34 6 0.21
36 13 0.46
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.49
Consensus pattern (35 bp):
ATTATTATTATTAGTTAAAATAATAACAAGTTATT
Found at i:36117 original size:21 final size:20
Alignment explanation
Indices: 36093--36148 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 20
36083 TTTAATTATA
36093 ATTTTAAATGTAATAT-TTAAT
1 ATTTTAAA-G-AATATATTAAT
36114 ATTTTATTAAGAATATAATTAAT
1 ATTTTA--AAGAATAT-ATTAAT
36137 ATTTTAAA-AATA
1 ATTTTAAAGAATA
36149 AACAATTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 4 0.13
21 13 0.42
22 1 0.03
23 13 0.42
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (20 bp):
ATTTTAAAGAATATATTAAT
Found at i:36561 original size:27 final size:26
Alignment explanation
Indices: 36511--36573 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
36501 ATTGTATATT
* * *
36511 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATAACAATCAAA-TAG
*
36538 TTAATAATTTTATAATAATCAAATAG
1 TTAATAATTTTATAACAATCAAATAG
36564 TATAATAATT
1 T-TAATAATT
36574 AAATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATAATTTTATAACAATCAAATAG
Found at i:36569 original size:16 final size:15
Alignment explanation
Indices: 36548--36582 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
36538 TTAATAATTT
36548 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
36564 TATAATAATTAAATG
1 TATAATAATCAAATG
36579 TATA
1 TATA
36583 TGTGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:36664 original size:16 final size:17
Alignment explanation
Indices: 36634--36666 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36624 TAAAATATTT
36634 AAATTATAATAATTATA
1 AAATTATAATAATTATA
*
36651 AAATTTTAAT-ATTATA
1 AAATTATAATAATTATA
36667 TTATTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTATAATAATTATA
Found at i:36672 original size:24 final size:25
Alignment explanation
Indices: 36624--36674 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
36614 AATCAATCAT
36624 TAAAATATTTAAATTATAATAATTA
1 TAAAATATTTAAATTATAATAATTA
*
36649 TAAAAT-TTTAATATTAT-ATTATTA
1 TAAAATATTTAA-ATTATAATAATTA
36673 TA
1 TA
36675 TTTATGTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TAAAATATTTAAATTATAATAATTA
Found at i:36962 original size:11 final size:11
Alignment explanation
Indices: 36914--36967 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
36904 AGTTAACAAT
36914 TAATA-TATTA
1 TAATATTATTA
**
36924 TAATAAAATTA
1 TAATATTATTA
36935 TAATTATT-TTA
1 TAA-TATTATTA
36946 T-A-ATTATTA
1 TAATATTATTA
36955 TAATATTATTA
1 TAATATTATTA
36966 TA
1 TA
36968 TTAAAATATG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
8 3 0.08
9 4 0.11
10 7 0.19
11 20 0.56
12 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATATTATTA
Found at i:36963 original size:8 final size:8
Alignment explanation
Indices: 36943--36999 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
36933 TATAATTATT
36943 TTATAATTA
1 TTATAA-TA
36952 TTATAATA
1 TTATAATA
*
36960 TTATTATA
1 TTATAATA
*
36968 TTAAAATA
1 TTATAATA
*
36976 TGATAATA
1 TTATAATA
*
36984 TAAT-ATA
1 TTATAATA
*
36991 ATATAATA
1 TTATAATA
36999 T
1 T
37000 ACTTATTATT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
7 5 0.13
8 27 0.71
9 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (8 bp):
TTATAATA
Found at i:37146 original size:12 final size:13
Alignment explanation
Indices: 37129--37158 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
37119 CACTTAGTTT
37129 TAAATA-TTATAA
1 TAAATATTTATAA
37141 TAAATATTTATAA
1 TAAATATTTATAA
37154 TAAAT
1 TAAAT
37159 TATATACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAAATATTTATAA
Done.