Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167837.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_109, 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: 82430
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Found at i:5905 original size:26 final size:24
Alignment explanation
Indices: 5857--5926 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 24
5847 GCCCTTTTCT
*
5857 ATTTTTTAATTAATAAATTATGAAATA
1 ATTTTTTAATTAAT-AATAATG-AA-A
5884 ATTTTTTAATTTAAT-ATAATGAAA
1 ATTTTTTAA-TTAATAATAATGAAA
5908 ATTTTTT-ATTATATAATAA
1 ATTTTTTAATTA-ATAATAA
5927 ACTTATAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 3 0.08
23 3 0.08
24 12 0.31
25 2 0.05
26 5 0.13
27 9 0.23
28 5 0.13
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (24 bp):
ATTTTTTAATTAATAATAATGAAA
Found at i:5909 original size:27 final size:26
Alignment explanation
Indices: 5857--5909 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
5847 GCCCTTTTCT
*
5857 ATTTTTTAATTAATAAATTATGAAATA
1 ATTTTTTAATTAATAAATGA-GAAATA
5884 ATTTTTTAATTTAATATAATGA-AAAT
1 ATTTTTTAA-TTAATA-AATGAGAAAT
5910 TTTTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 13 0.57
28 6 0.26
29 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
ATTTTTTAATTAATAAATGAGAAATA
Found at i:6864 original size:18 final size:18
Alignment explanation
Indices: 6841--6898 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
6831 GATGACAGAG
*
6841 TTTTTAAAAATTTATTAA
1 TTTTTAAAAATATATTAA
*
6859 TTTTTATAAATATATT-A
1 TTTTTAAAAATATATTAA
* *
6876 -TTATAAAATATATATCAA
1 TTTTTAAAA-ATATATTAA
6894 TTTTT
1 TTTTT
6899 TAATTTTCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 6 0.19
17 7 0.23
18 15 0.48
19 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTTAAAAATATATTAA
Found at i:7420 original size:17 final size:16
Alignment explanation
Indices: 7398--7445 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 16
7388 ACACAAAAAA
*
7398 ATTAAATAAAAATATTT
1 ATTAAATAAAAA-AATT
7415 ATTAAATATAAAAAATT
1 ATTAAATA-AAAAAATT
7432 ATTAAATAAAAAAA
1 ATTAAATAAAAAAA
7446 CAAATAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 6 0.21
17 19 0.66
18 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTAAATAAAAAAATT
Found at i:8184 original size:22 final size:22
Alignment explanation
Indices: 8159--8218 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
8149 TTTTTATTTT
8159 TATTTTCATTATTTA-ATA-TAGA
1 TATTTT-ATTATTTATATATTA-A
* *
8181 TATTTTATTTTTTATCTATTAA
1 TATTTTATTATTTATATATTAA
8203 TATTTTTATTATTTAT
1 TA-TTTTATTATTTAT
8219 CTGCTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 7 0.22
22 11 0.34
23 14 0.44
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTTTATTATTTATATATTAA
Found at i:8208 original size:17 final size:17
Alignment explanation
Indices: 8186--8299 Score: 65
Period size: 17 Copynumber: 6.7 Consensus size: 17
8176 ATAGATATTT
8186 TATTTTTTATCTATTAA
1 TATTTTTTATCTATTAA
*
8203 TA-TTTTTAT-TATTTA
1 TATTTTTTATCTATTAA
* * * * *
8218 TCTGCTTTTATTTTTTAT
1 TAT-TTTTTATCTATTAA
* **
8236 TATTATTTATCTATTTC
1 TATTTTTTATCTATTAA
*
8253 T-TTTATTTATCTAATTAT
1 TATTT-TTTATCT-ATTAA
*
8271 TTTTTTATTATCTATTAA
1 TATTTT-TTATCTATTAA
8289 TA-TTTTTATCT
1 TATTTTTTATCT
8300 TTTTATTTTG
Statistics
Matches: 72, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
15 6 0.08
16 15 0.21
17 27 0.38
18 15 0.21
19 9 0.12
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.68
Consensus pattern (17 bp):
TATTTTTTATCTATTAA
Found at i:8227 original size:40 final size:40
Alignment explanation
Indices: 8182--8297 Score: 119
Period size: 44 Copynumber: 2.8 Consensus size: 40
8172 TAATATAGAT
*
8182 ATTTTATTTTTTATCTATTAATATTTTTATTATTTATCTG
1 ATTTTATTTTTTATCTATTAATATTTTTATTATTTATCTA
*
8222 CTTTTATTTTTTAT-TATTATTTATCTATTTCTT-TTATTTATCTA
1 ATTTTATTTTTTATCTATTA---A--TATTT-TTATTATTTATCTA
*
8266 ATTATTTTTTTATTATCTATTAATATTTTTAT
1 ATT-TTATTTT-TTATCTATTAATATTTTTAT
8298 CTTTTTATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
39 5 0.08
40 13 0.21
41 2 0.03
42 7 0.11
44 18 0.29
45 8 0.13
46 4 0.06
47 5 0.08
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.69
Consensus pattern (40 bp):
ATTTTATTTTTTATCTATTAATATTTTTATTATTTATCTA
Found at i:8261 original size:27 final size:28
Alignment explanation
Indices: 8203--8272 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 28
8193 TATCTATTAA
*
8203 TATTT-TTATTATTTATCTGCTTTTATT
1 TATTTATTATTATTTATCTGATTTTATT
8230 T-TTTATTATTATTTATCT-ATTTCT-TT
1 TATTTATTATTATTTATCTGATTT-TATT
8256 TATTTATCTAATTATTT
1 TATTTAT-T-ATTATTT
8273 TTTTATTATC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
26 9 0.24
27 20 0.54
28 1 0.03
29 7 0.19
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.70
Consensus pattern (28 bp):
TATTTATTATTATTTATCTGATTTTATT
Found at i:8262 original size:24 final size:23
Alignment explanation
Indices: 8183--8281 Score: 80
Period size: 23 Copynumber: 4.4 Consensus size: 23
8173 AATATAGATA
* * *
8183 TTTTATTTTTTATCTATTAATAT
1 TTTTATTATTTATCTATTTATTT
*
8206 TTTTATTATTTATCTGCTTT-TATT
1 TTTTATTATTTATCT-ATTTAT-TT
* *
8230 TTTTATTA-TTATTTATCTA-TT
1 TTTTATTATTTATCTATTTATTT
* *
8251 TCTT-TTATTTATCTAATTATTT
1 TTTTATTATTTATCTATTTATTT
8273 TTTTATTAT
1 TTTTATTAT
8282 CTATTAATAT
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
20 3 0.05
21 13 0.22
22 7 0.12
23 24 0.41
24 11 0.19
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.71
Consensus pattern (23 bp):
TTTTATTATTTATCTATTTATTT
Found at i:8281 original size:19 final size:18
Alignment explanation
Indices: 8229--8297 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 18
8219 CTGCTTTTAT
*
8229 TTTTTATTATTATTTATCTA
1 TTTTT-TTATTATCTAT-TA
8249 TTTCTTTTATTTATCTAATTA
1 TTT-TTTTA-TTATCT-ATTA
8270 TTTTTTTATTATCTATTAA
1 TTTTTTTATTATCTATT-A
*
8289 TATTTTTAT
1 TTTTTTTAT
8298 CTTTTTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
18 3 0.07
19 15 0.35
20 11 0.26
21 12 0.28
22 2 0.05
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTTTATTATCTATTA
Found at i:8621 original size:4 final size:4
Alignment explanation
Indices: 8614--8638 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8604 TTTTTTTTCG
8614 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
8639 ATTATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:8687 original size:6 final size:6
Alignment explanation
Indices: 8676--8759 Score: 82
Period size: 6 Copynumber: 13.5 Consensus size: 6
8666 TTTAATATTC
* * *
8676 TTTTAT TTTTAT CTTTA- TTTTAT TTTTAT CTTTAT TTTACTTT TCTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT--TAT T-TTTAT
8726 TTTTAT TTTTAT TTTTA- TTTTATT ATTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTA-T -TTTTAT TTT
8760 CTTTAAATAA
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
5 9 0.14
6 42 0.65
7 4 0.06
8 8 0.12
9 2 0.03
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:8696 original size:17 final size:17
Alignment explanation
Indices: 8676--8749 Score: 107
Period size: 17 Copynumber: 4.4 Consensus size: 17
8666 TTTAATATTC
8676 TTTTATTTTTATCTTTA
1 TTTTATTTTTATCTTTA
8693 TTTTATTTTTATCTTTA
1 TTTTATTTTTATCTTTA
*
8710 TTTTA-CTTT-TCTTTA
1 TTTTATTTTTATCTTTA
*
8725 TTTTTATTTTTATTTTTA
1 -TTTTATTTTTATCTTTA
8743 TTTTATT
1 TTTTATT
8750 ATTTTATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
15 6 0.12
16 8 0.16
17 32 0.63
18 5 0.10
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATTTTTATCTTTA
Found at i:8841 original size:58 final size:56
Alignment explanation
Indices: 8779--9133 Score: 326
Period size: 58 Copynumber: 6.1 Consensus size: 56
8769 AAATTCAAAA
* * *
8779 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAGTTTCC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTT-AAAAATAAA-TTTCC
*
8837 AAAAAATAGTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT-C
1 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTT-CTTAAAAAT-AAATTTCC
* *
8894 AAAAAAGGT-TTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAATTTCC
* * * ** * *
8952 AAAAAAGGTTTTTTTTTTTTAGGAAAAGTTGAAACTATCAATTTTCCTCGAAACTAAAGTTTCA
1 AAAAAA------TATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAA-TTTCC
* *
9016 AAAAAATATTTTTG-GACAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAA-TTTTCTTAAAAATAAATTTCC
** * *
9073 -AAAAA-GGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAGAATAAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC-TTAAAAATAAATTTCC
9128 AAAAAA
1 AAAAAA
9134 AAAAAAGGTT
Statistics
Matches: 250, Mismatches: 29, Indels: 38
0.79 0.09 0.12
Matches are distributed among these distances:
54 5 0.02
55 38 0.15
56 11 0.04
57 19 0.08
58 115 0.46
59 14 0.06
62 1 0.00
63 38 0.15
64 9 0.04
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (56 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAATTTCC
Found at i:9016 original size:121 final size:121
Alignment explanation
Indices: 8846--9083 Score: 347
Period size: 121 Copynumber: 2.0 Consensus size: 121
8836 CAAAAAATAG
* * *
8846 TTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAGGT-TTTTT-G
1 TTTTAGGAAAAAGTTGAAACTATCAATTTTCCTCAAAAATAAAATTTCAAAAAA-ATATTTTTGG
*
8909 AGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGGTTTTTTTT
65 A-CAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAGGTTTTTTTT
* * *
8968 TTTTAGG-AAAAGTTGAAACTATCAATTTTCCTCGAAACTAAAGTTTCAAAAAAATATTTTTGGA
1 TTTTAGGAAAAAGTTGAAACTATCAATTTTCCTCAAAAATAAAATTTCAAAAAAATATTTTTGGA
* *
9032 CAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAGGTTTT
66 CAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAGGTTTT
9084 GAGGAAAAGT
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
120 12 0.11
121 84 0.80
122 9 0.09
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (121 bp):
TTTTAGGAAAAAGTTGAAACTATCAATTTTCCTCAAAAATAAAATTTCAAAAAAATATTTTTGGA
CAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAGGTTTTTTTT
Found at i:13121 original size:18 final size:18
Alignment explanation
Indices: 13100--13162 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
13090 AAAAAAGAAA
13100 AGAAAAAATAAAAAATAG
1 AGAAAAAATAAAAAATAG
* * *
13118 AGAAAAAAAAAAGAAAGAA
1 AGAAAAAATAAA-AAATAG
13137 AGGAAAAAAATGAAAAAAT-G
1 A-G-AAAAAAT-AAAAAATAG
13157 AGAAAA
1 AGAAAA
13163 TGAAAAAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 15 0.43
19 6 0.17
20 2 0.06
21 9 0.26
22 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (18 bp):
AGAAAAAATAAAAAATAG
Found at i:13152 original size:8 final size:8
Alignment explanation
Indices: 13097--13186 Score: 91
Period size: 8 Copynumber: 11.5 Consensus size: 8
13087 GAGAAAAAAG
13097 AAAA-GAA
1 AAAATGAA
13104 AAAAT-AA
1 AAAATGAA
*
13111 AAAATAGAG
1 AAAAT-GAA
13120 AAAA--AA
1 AAAATGAA
13126 AAAA-GAA
1 AAAATGAA
*
13133 AGAAAGGAAA
1 A-AAATG-AA
13143 AAAATGAA
1 AAAATGAA
*
13151 AAAATGAG
1 AAAATGAA
13159 AAAATGAA
1 AAAATGAA
13167 AAAATGAA
1 AAAATGAA
13175 AAAATGAA
1 AAAATGAA
13183 AAAA
1 AAAA
13187 AAAAGATTCA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
6 5 0.07
7 14 0.20
8 39 0.55
9 10 0.14
10 3 0.04
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (8 bp):
AAAATGAA
Found at i:14482 original size:22 final size:22
Alignment explanation
Indices: 14457--14516 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
14447 TGAATATTTT
*
14457 AATGAGAATTTTTGAGAACTC-A
1 AATGAGAATCTTTGAG-ACTCAA
**
14479 AATGAGAATCTTTGAGTTTCAA
1 AATGAGAATCTTTGAGACTCAA
14501 AATGAGAATCTTTGAG
1 AATGAGAATCTTTGAG
14517 GAGTGAAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 2 0.06
22 32 0.94
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.33
Consensus pattern (22 bp):
AATGAGAATCTTTGAGACTCAA
Found at i:14754 original size:43 final size:42
Alignment explanation
Indices: 14703--14784 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 42
14693 GCCTTTGAAC
*
14703 TCAAATGAAAAGCTTT-GAATTTTTGGATGTGAATTTCCAAAAT
1 TCAAATGAAAAGCTTTAG-ATTTTTGGATATGAA-TTCCAAAAT
14746 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
1 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
14785 GTTTGCCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 6 0.16
43 30 0.81
44 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (42 bp):
TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAAAAT
Found at i:15137 original size:41 final size:40
Alignment explanation
Indices: 15074--15378 Score: 214
Period size: 41 Copynumber: 7.5 Consensus size: 40
15064 ATGATTGTCA
15074 AGGAGCAATTTACTTTTCAAAGTTCTGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCTGTTGCCTCTGTTTAG
*
15115 AGGAGCAATTTA-TTTTCTAAAGTCGTGGTTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTC-AAAGTC-T-GTTGCCTCTGTTTAG
* *
15157 AGGAGTAATTTACTTTTCAAAGT-TGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCTGT--TGCCTCTGTTTAG
** * * *
15198 AGGAGC-ATTTA-TTTTTGAAGTCATGGTGCTTCTGCTTAG
1 AGGAGCAATTTACTTTTCAAAGTC-TGTTGCCTCTGTTTAG
* *** * *
15237 AGAATTTATTTATTTTTCAAAGTC-GTTGAGCCTCTGATTAG
1 AGGAGCAATTTACTTTTCAAAGTCTGTT--GCCTCTGTTTAG
* *
15278 AGGAGGC-ATTTACTTGTCAAAGT-TGTTGAGCCTCTGATTAG
1 AGGA-GCAATTTACTTTTCAAAGTCTGTT--GCCTCTGTTTAG
* * *
15319 AGGAGCCATTTATTTTTCCAAAGTCAT-TGAGCCTCT-TATTAG
1 AGGAGCAATTTACTTTT-CAAAGTC-TGT-TGCCTCTGT-TTAG
* *
15361 AGGAGCCATTTATTTTTC
1 AGGAGCAATTTACTTTTC
15379 CAAAATCATT
Statistics
Matches: 218, Mismatches: 26, Indels: 40
0.77 0.09 0.14
Matches are distributed among these distances:
39 25 0.11
40 20 0.09
41 103 0.47
42 63 0.29
43 6 0.03
44 1 0.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (40 bp):
AGGAGCAATTTACTTTTCAAAGTCTGTTGCCTCTGTTTAG
Found at i:15298 original size:121 final size:123
Alignment explanation
Indices: 15074--15403 Score: 321
Period size: 121 Copynumber: 2.7 Consensus size: 123
15064 ATGATTGTCA
* * ** * * *
15074 AGGAGCAATTTACTTTTCAAAGTTC-TGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCTAAAG
1 AGGAGCCATTTATTTTTCAAAG-TCATGGAGCCTCTGATTAGAGAAGCCATTTATTTTTC-AAAG
* * * * *
15137 TCGTGGTTGCCTCT-ATTTAGAGGAGTAATTTACTTTTCAAAGTTGTGGTGCCTCT-ATTTAG
64 TCGTTG-AGCCTCTGA-TTAGAGGAGGAATTTACTTGTCAAAGTTGTGGAGCCTCTGA-TTAG
* * * * ***
15198 AGGAG-CATTTATTTTT-GAAGTCATGGTGCTTCTGCTTAGAGAATTTATTTATTTTTCAAAGTC
1 AGGAGCCATTTATTTTTCAAAGTCATGGAGCCTCTGATTAGAGAAGCCATTTATTTTTCAAAGTC
* *
15261 GTTGAGCCTCTGATTAGAGGAGGCATTTACTTGTCAAAGTTGTTGAGCCTCTGATTAG
66 GTTGAGCCTCTGATTAGAGGAGGAATTTACTTGTCAAAGTTGTGGAGCCTCTGATTAG
* * * *
15319 AGGAGCCATTTATTTTTCCAAAGTCATTGAGCCTCTTATTAGAGGAGCCATTTATTTTTCCAAAA
1 AGGAGCCATTTATTTTT-CAAAGTCATGGAGCCTCTGATTAGAGAAGCCATTTATTTTT-CAAAG
*
15384 TCATTGAGCCTCTGATTAGA
64 TCGTTGAGCCTCTGATTAGA
15404 AGAGCCTTGT
Statistics
Matches: 169, Mismatches: 29, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
121 51 0.30
122 46 0.27
123 14 0.08
124 35 0.21
125 23 0.14
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (123 bp):
AGGAGCCATTTATTTTTCAAAGTCATGGAGCCTCTGATTAGAGAAGCCATTTATTTTTCAAAGTC
GTTGAGCCTCTGATTAGAGGAGGAATTTACTTGTCAAAGTTGTGGAGCCTCTGATTAG
Found at i:15354 original size:83 final size:85
Alignment explanation
Indices: 15243--15452 Score: 282
Period size: 86 Copynumber: 2.5 Consensus size: 85
15233 TTAGAGAATT
* * * **
15243 TATTTATTTTT-CAAAGTCGTTGAGCCTCTGATTAGAGGAGGCATTTACTTGT-CAAAGTTGTTG
1 TATTTATTTTTCCAAAGTCATTGAGCCTCTGATTAGAGGAGCCATTTACTTGTCCAAAATCATTG
*
15306 AGCCTCTGATTAGAGGAGCC
66 AGCCTCTGATTAGAAGAGCC
* * *
15326 -ATTTATTTTTCCAAAGTCATTGAGCCTCTTATTAGAGGAGCCATTTATTTTTCCAAAATCATTG
1 TATTTATTTTTCCAAAGTCATTGAGCCTCTGATTAGAGGAGCCATTTACTTGTCCAAAATCATTG
15390 AGCCTCTGATTAGAAGAGCC
66 AGCCTCTGATTAGAAGAGCC
* * *
15410 TTGTTTATTTTTCAAAAGTCATTAAGCCTCTGATTAGAGGAGC
1 -TATTTATTTTTCCAAAGTCATTGAGCCTCTGATTAGAGGAGC
15453 TTTGTTTATG
Statistics
Matches: 110, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
82 10 0.09
83 36 0.33
84 27 0.25
86 37 0.34
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (85 bp):
TATTTATTTTTCCAAAGTCATTGAGCCTCTGATTAGAGGAGCCATTTACTTGTCCAAAATCATTG
AGCCTCTGATTAGAAGAGCC
Found at i:15432 original size:44 final size:41
Alignment explanation
Indices: 15103--15497 Score: 305
Period size: 42 Copynumber: 9.4 Consensus size: 41
15093 AAGTTCTGTT
* * * * *
15103 GCCTCTGTTTAGAGGAGCAATTTA-TTTTCTAAAGTCGTGGTT
1 GCCTCTGATTAGAGGAGCCATTTATTTTTC-AAAGTCATTG-A
** * ** * *
15145 GCCTCT-ATTTAGAGGAGTAATTTACTTTTCAAAGTTGTGGT
1 GCCTCTGA-TTAGAGGAGCCATTTATTTTTCAAAGTCATTGA
* * *
15186 GCCTCT-ATTTAGAGGAG-CATTTATTTTT-GAAGTCATGGT
1 GCCTCTGA-TTAGAGGAGCCATTTATTTTTCAAAGTCATTGA
* * * *** *
15225 GCTTCTGCTTAGAGAATTTATTTATTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTGA
* * * **
15266 GCCTCTGATTAGAGGAGGCATTTACTTGTCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTGA
15307 GCCTCTGATTAGAGGAGCCATTTATTTTTCCAAAGTCATTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTT-CAAAGTCATTGA
* *
15349 GCCTCTTATTAGAGGAGCCATTTATTTTTCCAAAATCATTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTT-CAAAGTCATTGA
* * *
15391 GCCTCTGATTAGAAGAGCCTTGTTTATTTTTCAAAAGTCATTAA
1 GCCTCTGATTAGAGGAGCC--ATTTATTTTTC-AAAGTCATTGA
** *
15435 GCCTCTGATTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCATTAA
1 GCCTCTGATTAGAGGAGC--CATTTAT-TTT-TCAAAGTCATTGA
**
15480 GCCTCTCCTTAGAGGAGC
1 GCCTCTGATTAGAGGAGC
15498 TTTGATCAAA
Statistics
Matches: 298, Mismatches: 42, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
39 20 0.07
40 19 0.06
41 83 0.28
42 97 0.33
43 6 0.02
44 41 0.14
45 30 0.10
46 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (41 bp):
GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTGA
Found at i:15563 original size:10 final size:10
Alignment explanation
Indices: 15518--15565 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
15508 ATTTTAACAA
15518 AAAAAAAAAC
1 AAAAAAAAAC
* *
15528 AAAACAAAAT
1 AAAAAAAAAC
15538 AAAATAAAAGA-
1 AAAA-AAAA-AC
15549 AAAAAAAAAC
1 AAAAAAAAAC
15559 AAAAAAA
1 AAAAAAA
15566 GTGTCAAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
9 1 0.03
10 23 0.72
11 7 0.22
12 1 0.03
ACGTcount: A:0.88, C:0.06, G:0.02, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:15832 original size:22 final size:22
Alignment explanation
Indices: 15784--15842 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
15774 TATTTAATAT
*
15784 ATATTTTATTTTTTATCTATTA
1 ATATTTTATTATTTATCTATTA
*
15806 ATATTTTATTATTTATCTACTTTT
1 ATATTTTATTATTTATCTA--TTA
*
15830 ATTTTTTATTATT
1 ATATTTTATTATT
15843 ATTTATCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 18 0.56
24 14 0.44
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (22 bp):
ATATTTTATTATTTATCTATTA
Found at i:15865 original size:24 final size:25
Alignment explanation
Indices: 15810--15865 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
15800 CTATTAATAT
*
15810 TTTATTATTTATCTACTTTTATTTTT
1 TTTATTATTTATCTAC-TTTATTTTA
*
15836 TATTATTATTTATCTA-TTTCTTTTA
1 T-TTATTATTTATCTACTTTATTTTA
15861 TTTAT
1 TTTAT
15866 CTAATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 4 0.15
25 8 0.30
26 1 0.04
27 14 0.52
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTATTATTTATCTACTTTATTTTA
Found at i:15876 original size:17 final size:17
Alignment explanation
Indices: 15835--15876 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
15825 CTTTTATTTT
*
15835 TTATTATTATTTATCTAT
1 TTATT-TTATTTATCTAA
*
15853 TTCTTTTATTTATCTAA
1 TTATTTTATTTATCTAA
15870 TTATTTT
1 TTATTTT
15877 TTTGTTATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTTTATTTATCTAA
Found at i:15898 original size:44 final size:42
Alignment explanation
Indices: 15785--15898 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 42
15775 ATTTAATATA
* * *
15785 TATTTTATTTTTTATCTATTA-ATATTTTATTATTTATCTACT
1 TATTTT-TTTATTATCTTTTATATATTTTATTATTTATCTAAT
* * *
15827 TTTATTTTTTATTAT-TATTTATCTATTTCTTTTATTTATCTAAT
1 TAT-TTTTTTATTATCT-TTTATATATTT-TATTATTTATCTAAT
*
15871 TATTTTTTTGTTATCTTTTAATATATTT
1 TATTTTTTTATTATCTTTT-ATATATTT
15899 ATCTTTTTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
41 1 0.02
42 12 0.21
43 21 0.37
44 23 0.40
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.69
Consensus pattern (42 bp):
TATTTTTTTATTATCTTTTATATATTTTATTATTTATCTAAT
Found at i:16245 original size:12 final size:12
Alignment explanation
Indices: 16211--16340 Score: 65
Period size: 12 Copynumber: 10.9 Consensus size: 12
16201 CCCAGGTTTT
16211 TTTTTCATTATT-
1 TTTTT-ATTATTA
*
16223 TATTTATTTATTA
1 TTTTTA-TTATTA
16236 TTTTTATTATTA
1 TTTTTATTATTA
** **
16248 TTAGTAGATTAGAA
1 TT--TTTATTATTA
*
16262 TTGTTTAATATT-
1 TT-TTTATTATTA
* *
16274 CTTTTATTTTTA
1 TTTTTATTATTA
*
16286 TCTTTATT-TTA
1 TTTTTATTATTA
*
16297 -CTTTATT-TTA
1 TTTTTATTATTA
*
16307 TTTTTATTTTTA
1 TTTTTATTATTA
*
16319 TTTTTATTTTTA
1 TTTTTATTATTA
16331 -TTTTATTATT
1 TTTTTATTATT
16341 TTATTTTCTT
Statistics
Matches: 93, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
10 10 0.11
11 26 0.28
12 39 0.42
13 10 0.11
14 8 0.09
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTTATTATTA
Found at i:16247 original size:27 final size:27
Alignment explanation
Indices: 16208--16342 Score: 67
Period size: 27 Copynumber: 5.1 Consensus size: 27
16198 GTTCCCAGGT
*
16208 TTTTTTTTCATTATTTATTTATTTATTA
1 TTTTTATT-ATTATTTATTTATTTATTA
* * **
16236 TTTTTATTATTA-TTA-GTAGATTAGAA
1 TTTTTATTATTATTTATTTA-TTTATTA
16262 TTGTTTA--A-TATTCT-TTTATTT-TTA
1 TT-TTTATTATTATT-TATTTATTTATTA
*
16286 TCTTTATT-TTACTTTATTTTATTT-TTA
1 TTTTTATTATTA-TTTA-TTTATTTATTA
*
16313 TTTTTATTTTTA-TT-TTTATTTTATTA
1 TTTTTATTATTATTTATTTA-TTTATTA
16339 TTTT
1 TTTT
16343 ATTTTCTTTA
Statistics
Matches: 82, Mismatches: 11, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
23 4 0.05
24 8 0.10
25 12 0.15
26 23 0.28
27 25 0.30
28 10 0.12
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (27 bp):
TTTTTATTATTATTTATTTATTTATTA
Found at i:16286 original size:6 final size:6
Alignment explanation
Indices: 16275--16347 Score: 82
Period size: 6 Copynumber: 12.5 Consensus size: 6
16265 TTTAATATTC
* *
16275 TTTTAT TTTTAT CTTTA- TTTTA- CTTTA- TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
16320 TTTTAT TTTTA- TTTTATT ATTTTAT TTT
1 TTTTAT TTTTAT TTTTA-T -TTTTAT TTT
16348 CTTTAAATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
5 17 0.29
6 36 0.61
7 1 0.02
8 5 0.08
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:16518 original size:58 final size:56
Alignment explanation
Indices: 16385--16570 Score: 239
Period size: 58 Copynumber: 3.2 Consensus size: 56
16375 ATTTTTGAAA
* *
16385 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAATAGGTTTTGA-GG
1 AAAAGTTGAAAGTATCAA-TTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTTAGGG
* * * **
16441 AAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAGTTTCTAAAAAATATTTTTAGGG
1 AAAAGTTGAAAGTATCAATTTTCTT-AAAAATAAATTTTC-AAAAAAGGTTTTTAGGG
* *
16499 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGGTTTTTTGAAG
1 AAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAATTTTCAAAAAAGGTTTTTAG-GG
16557 AAAAGTTGAAAGTA
1 AAAAGTTGAAAGTA
16571 GGAAAAAGTT
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
55 7 0.06
56 29 0.26
57 22 0.20
58 50 0.45
59 3 0.03
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (56 bp):
AAAAGTTGAAAGTATCAATTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTTAGGG
Found at i:16583 original size:133 final size:130
Alignment explanation
Indices: 16441--16700 Score: 425
Period size: 133 Copynumber: 2.0 Consensus size: 130
16431 GGTTTTGAGG
*
16441 AAAAGTTGAAAGTATCAATTTT-CTTCGAAATTAAAG-TTTCTAAAAAATATTTTTAGGGAAAAG
1 AAAAGTTGAAAGTATCAATTTTCCTT-GAAACTAAAGTTTTC-AAAAAATATTTTTAGGGAAAAG
*
16504 TTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGGTTTTTTGAAGAAAAGTTGAAAG
64 GTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAGG--TTTTGAAGAAAAGTTGAAAG
16569 TAGGA
126 TAGGA
*
16574 AAAAGTTGAAAGTATCAATTTTCCTTGAAACTAAAGTTTTCAAAAAATATTTTTGGGGAAAAGGT
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAACTAAAGTTTTCAAAAAATATTTTTAGGGAAAAGGT
*
16639 GAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAGGTTTTGAGGAAAAGTTGAAAGTA
66 GAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAGGTTTTGAAGAAAAGTTGAAAGTA
16701 TCAATTTTCT
Statistics
Matches: 121, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
130 21 0.17
132 7 0.06
133 86 0.71
134 7 0.06
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.34
Consensus pattern (130 bp):
AAAAGTTGAAAGTATCAATTTTCCTTGAAACTAAAGTTTTCAAAAAATATTTTTAGGGAAAAGGT
GAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAGGTTTTGAAGAAAAGTTGAAAGTAGGA
Found at i:16586 original size:75 final size:75
Alignment explanation
Indices: 16494--16645 Score: 218
Period size: 75 Copynumber: 2.0 Consensus size: 75
16484 AAAATATTTT
*
16494 TAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTCAAAAAAGGT-TTTTTGAAG
1 TAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTTCAAAAAA--TATTTTTGAAG
*
16557 AAAAGTTGAAAG
64 AAAAGGTGAAAG
* * **
16569 TAGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAACTAAAGTTTTCAAAAAATATTTTTGGGGAA
1 TAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTTCAAAAAATATTTTTGAAGAA
16634 AAGGTGAAAG
66 AAGGTGAAAG
16644 TA
1 TA
16646 TCAATTTTCC
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
74 1 0.01
75 57 0.83
76 11 0.16
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (75 bp):
TAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTTCAAAAAATATTTTTGAAGAA
AAGGTGAAAG
Found at i:16636 original size:58 final size:57
Alignment explanation
Indices: 16574--16894 Score: 285
Period size: 58 Copynumber: 5.5 Consensus size: 57
16564 GAAAGTAGGA
*
16574 AAAAGTTGAAAGTATCAATTTTCCTTGAAACTAAAGTTTTCAAAAAATATTTTTGGGG
1 AAAAGTTGAAAGTATCAATTTT-CTTGAAAATAAAGTTTTCAAAAAATATTTTTGGGG
* * ** *
16632 AAAAGGTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC-AAAAA-GGTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTT-CTTGAAAATAAAGTTTTCAAAAAATATTTTTGGGG
* *
16687 AAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAG-TTTCAAAAAAATATTTTTAGGG
1 AAAAGTTGAAAGTATCAATTTTCTT-GAAAATAAAGTTTTC-AAAAAATATTTTTGGGG
* * * * **
16745 AAAAGTTGAAAGTATCAATTTTCTTTAAGAATAAATTTTTTTTAAAAAAAAGGTTTTTTTTTAAG
1 AAAAGTTGAAAGTATCAATTTTCTTGAA-AATAAA---GTTTT-CAAAAAA----TATTTTTGGG
16810 G
57 G
* * * *
16811 AAAAGTTAAAAGTATTAATTTTTCTCGAAATTAAAG-TTTCTAAAAAATA-TTTTGGGG
1 AAAAGTTGAAAGTATCAA-TTTTCTTGAAAATAAAGTTTTC-AAAAAATATTTTTGGGG
*
16868 AGAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAGTTGAAAGTATCAA-TTTTCTTG
16895 TACAAAAGCG
Statistics
Matches: 213, Mismatches: 33, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
54 3 0.01
55 39 0.18
56 5 0.02
57 41 0.19
58 69 0.32
62 18 0.08
66 30 0.14
67 8 0.04
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (57 bp):
AAAAGTTGAAAGTATCAATTTTCTTGAAAATAAAGTTTTCAAAAAATATTTTTGGGG
Found at i:16733 original size:113 final size:115
Alignment explanation
Indices: 16574--16889 Score: 383
Period size: 113 Copynumber: 2.7 Consensus size: 115
16564 GAAAGTAGGA
* *
16574 AAAAGTTGAAAGTATCAATTTTCCTT-GAAACTAAAGTTTTCAAAAAATATTTTTGGGGAAAAGG
1 AAAAGTTGAAAGTATCAATTTT-CTTCGAAATTAAAG-TTTCAAAAAATATTTTTGGGGAAAAGT
* *
16638 TGAAAGTATCAATTTTCCTTAAAAATAAA-TTTT-CAAAAAGG-TTTTGAGG
64 TGAAAGTATCAATTTTCCTTAAAAATAAATTTTTAAAAAAAGGTTTTTAAGG
*
16687 AAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAGTTTCAAAAAAATATTTTTAGGGAAAAGTT
1 AAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAGTTTC-AAAAAATATTTTTGGGGAAAAGTT
* *
16752 GAAAGTATCAATTTTCTTTAAGAATAAATTTTTTTTAAAAAAAAGGTTTTTTTTTAAGG
65 GAAAGTATCAATTTTCCTTAAAAATAAA---TTTTT-AAAAAAAGG----TTTTTAAGG
* * *
16811 AAAAGTTAAAAGTATTAATTTT-TCTCGAAATTAAAGTTTCTAAAAAATA-TTTTGGGGAGAAGT
1 AAAAGTTGAAAGTATCAATTTTCT-TCGAAATTAAAGTTTC-AAAAAATATTTTTGGGGAAAAGT
16874 TGAAAGTATCAATTTT
64 TGAAAGTATCAATTTT
16890 TCTTGTACAA
Statistics
Matches: 177, Mismatches: 12, Indels: 18
0.86 0.06 0.09
Matches are distributed among these distances:
112 7 0.04
113 79 0.45
117 4 0.02
119 7 0.04
123 29 0.16
124 51 0.29
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (115 bp):
AAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAGTTTCAAAAAATATTTTTGGGGAAAAGTTG
AAAGTATCAATTTTCCTTAAAAATAAATTTTTAAAAAAAGGTTTTTAAGG
Found at i:17437 original size:17 final size:17
Alignment explanation
Indices: 17415--17447 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17405 AATTTATTAT
*
17415 AAAAATTATCAATTAAG
1 AAAAATAATCAATTAAG
17432 AAAAATAATCAATTAA
1 AAAAATAATCAATTAA
17448 TTAATAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (17 bp):
AAAAATAATCAATTAAG
Found at i:18436 original size:30 final size:30
Alignment explanation
Indices: 18402--18461 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
18392 TTCCATCAAG
*
18402 GAAACAATTCAATTAAAAATTGGAAACTAA
1 GAAACAATTAAATTAAAAATTGGAAACTAA
18432 GAAACAATTAAATTAAAAATTGGAAACTAA
1 GAAACAATTAAATTAAAAATTGGAAACTAA
18462 TTTTCGGTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.23
Consensus pattern (30 bp):
GAAACAATTAAATTAAAAATTGGAAACTAA
Found at i:21396 original size:22 final size:21
Alignment explanation
Indices: 21348--21396 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
21338 AAACTTATAA
21348 ATAAA-TAAAATTATTATTTT
1 ATAAATTAAAATTATTATTTT
* * *
21368 TTGAATTAAAAGTTATTGTTTT
1 ATAAATTAAAA-TTATTATTTT
21390 ATAAATT
1 ATAAATT
21397 TTATTATTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 3 0.14
21 5 0.23
22 14 0.64
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (21 bp):
ATAAATTAAAATTATTATTTT
Found at i:21598 original size:19 final size:20
Alignment explanation
Indices: 21576--21618 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
21566 TTTGACATAA
*
21576 AAATAATTTACTGATTTT-T
1 AAATAATTTACTAATTTTAT
* *
21595 AAATTATTTATTAATTTTAT
1 AAATAATTTACTAATTTTAT
21615 AAAT
1 AAAT
21619 GTTAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
AAATAATTTACTAATTTTAT
Found at i:22065 original size:14 final size:14
Alignment explanation
Indices: 22046--22072 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22036 TTAGCACCAT
22046 GAACACCTTAGAAC
1 GAACACCTTAGAAC
22060 GAACACCTTAGAA
1 GAACACCTTAGAA
22073 ATGAGAGGCC
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:0.44, C:0.26, G:0.15, T:0.15
Consensus pattern (14 bp):
GAACACCTTAGAAC
Found at i:25156 original size:222 final size:225
Alignment explanation
Indices: 24764--25210 Score: 616
Period size: 222 Copynumber: 2.0 Consensus size: 225
24754 ATTTTATTAT
* * * ** *
24764 GAAAAAACTCTTTATTTAAGGTCAATTAATTTTAAATTGGATATCTTCTAATTTTTTTTATTTTA
1 GAAAAAACTCTTTATTTAAGATCAATTAATTTTAAATCGGATACCTTCTAA-TAATTTTACTTTA
*
24829 TGTTTTTATGCTTTTTAATTTAGATGCTCAATTTGATTTATGTAACACAATTTTTTAATTCATCA
65 --TTTTTATGCTTTTTAATTTAAATGCTCAATTTGATTTATGTAACACAATTTTTTAATTCATCA
* * *
24894 ATTTAAAATTTTAATTTTAGTTTTTATTTAATATATTTAATAAAAAATTCACAATTTTACTTACA
128 ATTTAAAATTTTAAGTTTAGCTTTAATTTAATATATTTAATAAAAAATTCACAATTTTACTTACA
*
24959 AAATTTTATCT-AAAACCTCATTTAAAATGAAG
193 AAATTTCATCTCAAAACCTCATTTAAAATGAAG
* *
24991 GAAAAAACT-TTTATTTAAGATCAATTAATTTTAAATCGGATGCCTTTTAA-AATTTT-CTTTA-
1 GAAAAAACTCTTTATTTAAGATCAATTAATTTTAAATCGGATACCTTCTAATAATTTTACTTTAT
* * * * * *
25052 TTTTATGGTTTTTATTTTAAATGCTTAATTTGATTTATGTAACATGATTTTTTTTAATTTATCAA
66 TTTTATGCTTTTTAATTTAAATGCTCAATTTGATTTATGTAACA-CA-ATTTTTTAATTCATCAA
25117 TTTAAAATTTTAAGTTTAGCTTTAATTTAATATATTTAATAAAAAATTCACAATTTTACTTACAA
129 TTTAAAATTTTAAGTTTAGCTTTAATTTAATATATTTAATAAAAAATTCACAATTTTACTTACAA
** *
25182 AATTTCATCTCAAGTCTTCATTTAAAATG
194 AATTTCATCTCAAAACCTCATTTAAAATG
25211 GAGGGAAATA
Statistics
Matches: 195, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
220 40 0.21
221 1 0.01
222 86 0.44
223 19 0.10
224 4 0.02
226 36 0.18
227 9 0.05
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (225 bp):
GAAAAAACTCTTTATTTAAGATCAATTAATTTTAAATCGGATACCTTCTAATAATTTTACTTTAT
TTTTATGCTTTTTAATTTAAATGCTCAATTTGATTTATGTAACACAATTTTTTAATTCATCAATT
TAAAATTTTAAGTTTAGCTTTAATTTAATATATTTAATAAAAAATTCACAATTTTACTTACAAAA
TTTCATCTCAAAACCTCATTTAAAATGAAG
Found at i:26245 original size:20 final size:19
Alignment explanation
Indices: 26203--26258 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 19
26193 TGAAATTATT
*
26203 ATTTTATTATGA-ATTAAA
1 ATTTTATTATTATATTAAA
* *
26221 A-ATTATTATTTTA-T-AA
1 ATTTTATTATTATATTAAA
26237 ATTTTATTATTATATTAAA
1 ATTTTATTATTATATTAAA
26256 ATT
1 ATT
26259 AATAATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
16 3 0.10
17 18 0.62
18 3 0.10
19 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
ATTTTATTATTATATTAAA
Found at i:27015 original size:32 final size:35
Alignment explanation
Indices: 26949--27022 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 35
26939 GATCACTAGT
*
26949 TAAATATAATTTATTTATTAATAATTTAAATATTTAA
1 TAAATATAATTTATTTAATAATAATTT--ATATTTAA
*
26986 TAAATAT-ATTTATTTAAT-ATAATTT-TATTTTA
1 TAAATATAATTTATTTAATAATAATTTATATTTAA
27018 TAAAT
1 TAAAT
27023 TATCAACAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 11 0.31
35 7 0.20
36 10 0.29
37 7 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (35 bp):
TAAATATAATTTATTTAATAATAATTTATATTTAA
Found at i:27023 original size:14 final size:15
Alignment explanation
Indices: 26951--27015 Score: 51
Period size: 15 Copynumber: 4.0 Consensus size: 15
26941 TCACTAGTTA
26951 AATATAA-TTTATTT
1 AATATAATTTTATTT
*
26965 ATTAATAATTTAAATATTT
1 AAT-ATAATTT---TATTT
*
26984 AATAAATATATTTATTT
1 AATATA-AT-TTTATTT
27001 AATATAATTTTATTT
1 AATATAATTTTATTT
27016 TATAAATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
14 2 0.05
15 11 0.28
16 4 0.10
17 10 0.25
18 2 0.05
19 9 0.22
20 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATATAATTTTATTT
Found at i:28995 original size:144 final size:141
Alignment explanation
Indices: 28710--29168 Score: 571
Period size: 144 Copynumber: 3.2 Consensus size: 141
28700 ACTATCTACG
* * * * * *
28710 TGGTTCTATCCCCGCTTCCATAGGAAACTTGACCTACTTTTCTGTTCTCCACCTCTATCAAAACA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACC-ACTTATC-CTTCTCTACCTC-ATCAAAATA
* *
28775 T-TTTTTTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGATTTGAGT
63 TGTTTTTTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAAT
28839 CAAAATAATTTCTC
128 CAAAATAATTTCTC
* *
28853 TGGTTCAATCCCTGCTTCTATGGGAAACTTGACCAGCTTATCCATTCTCTACCTTCATCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCA-CTTATCC-TTCTCTACC-TCATCAAAATA
* * * * * * * **
28918 TGTTTTTTGGGTCGATACTTAAAGAGATTGAGATGCTTAAATCTCTCACTAAATTTTCGTTGAAT
63 TGTTTTTTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAAT
* *
28983 CAGAATAGTTTCTC
128 CAAAATAATTTCTC
* *
28997 TGGTTCAATCCCTGCTTCCATAGGAAACTTAACCAACTTATCTCTTTTCTACCTC-TGCCAAAAT
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACC-ACTTATC-CTTCTCTACCTCAT--CAAAAT
* * **
29061 ATGTTTTCTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGGCTTTGAGTTGGC
62 ATGTTTTTTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAA
29126 TCAAAATAATTTCTC
127 TCAAAATAATTTCTC
29141 TGGTTCAATCCCTGCTTCCATAGGAAAC
1 TGGTTCAATCCCTGCTTCCATAGGAAAC
29169 ATGTCGAAGC
Statistics
Matches: 268, Mismatches: 40, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
142 2 0.01
143 54 0.20
144 210 0.78
145 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (141 bp):
TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCACTTATCCTTCTCTACCTCATCAAAATATGT
TTTTTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAATCAA
AATAATTTCTC
Found at i:33542 original size:21 final size:18
Alignment explanation
Indices: 33505--33539 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33495 GACCATAGAG
33505 TTTTTAAAAATTTATTAA
1 TTTTTAAAAATTTATTAA
* *
33523 TTTTTATAAATATATTA
1 TTTTTAAAAATTTATTA
33540 TTATAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTAAAAATTTATTAA
Found at i:33567 original size:43 final size:43
Alignment explanation
Indices: 33513--33710 Score: 107
Period size: 43 Copynumber: 4.3 Consensus size: 43
33503 AGTTTTTAAA
*
33513 AATTTATTAATTTTTATAAATATATTATTATAAAATACTTGTT
1 AATTTTTTAATTTTTATAAATATATTATTATAAAATACTTGTT
* * *
33556 AATTTTTTAATTTTGTTTATAAA-AT-TTA-TATTAGAT-CATTTTT
1 AATTTTTTAA--TT-TTTATAAATATATTATTATAAAATAC-TTGTT
* ** * * *
33599 AATTTGTTAATTTGTTATTTTATATAGATATATATAGAAGATAGAGTTTTT
1 AATTTTTTAATTT-TTA-TAAATATA-TTAT-TATA-AA-AT--ACTTGTT
* * *
33650 AAAATTTTATTAATTTTTATAAATATATTATTAAAAAATACATGTC
1 --AATTTT-TTAATTTTTATAAATATATTATTATAAAATACTTGTT
*
33696 AATTTTTTTATTTTT
1 AATTTTTTAATTTTT
33711 TTTAAATTTA
Statistics
Matches: 115, Mismatches: 21, Indels: 38
0.66 0.12 0.22
Matches are distributed among these distances:
40 1 0.01
41 5 0.04
42 3 0.03
43 38 0.33
44 9 0.08
45 6 0.05
46 11 0.10
47 3 0.03
48 3 0.03
49 4 0.03
50 3 0.03
51 8 0.07
52 6 0.05
53 8 0.07
54 7 0.06
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (43 bp):
AATTTTTTAATTTTTATAAATATATTATTATAAAATACTTGTT
Found at i:33668 original size:18 final size:21
Alignment explanation
Indices: 33645--33683 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33635 GAAGATAGAG
33645 TTTTTA-AAAT-T-TTATTAA
1 TTTTTATAAATATATTATTAA
33663 TTTTTATAAATATATTATTAA
1 TTTTTATAAATATATTATTAA
33684 AAAATACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 1 0.06
21 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTTATAAATATATTATTAA
Found at i:35264 original size:18 final size:18
Alignment explanation
Indices: 35241--35275 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35231 ATAAAATCAA
*
35241 TTATAAATTATATAATTG
1 TTATAAATTATAAAATTG
*
35259 TTATAATTTATAAAATT
1 TTATAAATTATAAAATT
35276 CTAACTAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTATAAATTATAAAATTG
Found at i:35522 original size:23 final size:22
Alignment explanation
Indices: 35496--35538 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
35486 GTTCAATTGG
35496 ATTTATGTAACATAATTTTTTTA
1 ATTTAT-TAACATAATTTTTTTA
**
35519 ATTTATTAATTTAATTTTTT
1 ATTTATTAACATAATTTTTT
35539 AATATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTATTAACATAATTTTTTTA
Found at i:35533 original size:13 final size:13
Alignment explanation
Indices: 35515--35565 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
35505 ACATAATTTT
35515 TTTAATTTATTAA
1 TTTAATTTATTAA
*
35528 TTTAATTTTTTAA
1 TTTAATTTATTAA
*
35541 TATAAATTT-TT-A
1 T-TTAATTTATTAA
*
35553 TTTAATGTATTAA
1 TTTAATTTATTAA
35566 AAAAATTCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
11 5 0.16
12 4 0.13
13 16 0.52
14 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TTTAATTTATTAA
Found at i:36227 original size:39 final size:40
Alignment explanation
Indices: 36168--36250 Score: 150
Period size: 39 Copynumber: 2.1 Consensus size: 40
36158 CATTTGGATT
36168 ATTATTAAACTAATTAAATATTATCTCACTGTATGAATTA
1 ATTATTAAACTAATTAAATATTATCTCACTGTATGAATTA
*
36208 ATTA-TAAACTAATTGAATATTATCTCACTGTATGAATTA
1 ATTATTAAACTAATTAAATATTATCTCACTGTATGAATTA
36247 ATTA
1 ATTA
36251 AATTAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 38 0.90
40 4 0.10
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (40 bp):
ATTATTAAACTAATTAAATATTATCTCACTGTATGAATTA
Found at i:38076 original size:210 final size:210
Alignment explanation
Indices: 37714--38135 Score: 745
Period size: 210 Copynumber: 2.0 Consensus size: 210
37704 GCAGTGCATT
* *
37714 AAGTTGATATTCGAAAAGGTCTAAAACAATGATTTGTCCTTTTCATCTCACAATCAAAGATATTA
1 AAGTTGATATTCGAAAAGGTCAAAAACAATAATTTGTCCTTTTCATCTCACAATCAAAGATATTA
* *
37779 GTCAACTTGTAATAACAGGTACCCTATTTTAAGTTGCATAACTTGAATGACGTGGCTTCACAACA
66 GACAACTTGTAATAACAGGCACCCTATTTTAAGTTGCATAACTTGAATGACGTGGCTTCACAACA
*
37844 TCTAAGTTGACATTTTAAAATTAATTATTATTAAATTCTATTTTAATTTTAAGTATGGGTAAATC
131 TCTAAGTTGACATTTTAAAATTAATTATTATTAAATTCTATTTTAATTTTAAGTACGGGTAAATC
*
37909 TTAGTCAGATTTTTC
196 TCAGTCAGATTTTTC
* *
37924 AAGTTGATATTTGAAAAGGTCAAAAATAATAATTTGTCCTTTTCATCTCACAATCAAAGATATTA
1 AAGTTGATATTCGAAAAGGTCAAAAACAATAATTTGTCCTTTTCATCTCACAATCAAAGATATTA
* *
37989 GACAACTTGTAATAACAGGCATCCTATTTTAAGTTGCATAACTTGAATGACGTGGCTTCGCAACA
66 GACAACTTGTAATAACAGGCACCCTATTTTAAGTTGCATAACTTGAATGACGTGGCTTCACAACA
*
38054 TCTAAGTTGACATTTTAAAATTAATTATTATTAAATTCTATTTTAATTTTAATTACGGGTAAATC
131 TCTAAGTTGACATTTTAAAATTAATTATTATTAAATTCTATTTTAATTTTAAGTACGGGTAAATC
38119 TCAGTCAGATTTTTC
196 TCAGTCAGATTTTTC
38134 AA
1 AA
38136 TCTTGATTGG
Statistics
Matches: 201, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
210 201 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (210 bp):
AAGTTGATATTCGAAAAGGTCAAAAACAATAATTTGTCCTTTTCATCTCACAATCAAAGATATTA
GACAACTTGTAATAACAGGCACCCTATTTTAAGTTGCATAACTTGAATGACGTGGCTTCACAACA
TCTAAGTTGACATTTTAAAATTAATTATTATTAAATTCTATTTTAATTTTAAGTACGGGTAAATC
TCAGTCAGATTTTTC
Found at i:40207 original size:144 final size:144
Alignment explanation
Indices: 39994--41735 Score: 2969
Period size: 144 Copynumber: 12.2 Consensus size: 144
39984 ACTATCTACG
* * **** *
39994 TGGTTCTATCCCTACTTCCATAGGAAACTTGACCAG-CTTATCTGTTCTAC-ACCTCTATCAAAA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTC-TATCCACCCT-CTACCTTTATCAAAA
* * *
40057 TATGTTTTCTGGATCGATACCTCAAGAGATAGGAATGCTTAAATCTCTCACTGACTTTGAGTTGA
64 TATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGA
* * *
40122 GTTATAATAATTTCTT
129 GTCAAAATAATTTCTC
* * * *
40138 TGGTTCAATCCCTGC-TCTCATAGGAAACTTGACCGGCCTATCCACTCTCTACCTTCATCAAAAT
1 TGGTTCAATCCCTGCTTC-CATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAAT
40202 ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAG
65 ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAG
40267 TCAAAATAATTTCTC
130 TCAAAATAATTTCTC
* *
40282 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTCATCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
* * *
40347 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATATCTCACTGATTTTGAGTT-AGT
66 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
40411 -AAAATAATTTCTC
131 CAAAATAATTTCTC
40424 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCT-TCCACCCTCTACCTTTATC-AAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
40487 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
66 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
40552 CAAAATAATTTCTC
131 CAAAATAATTTCTC
40566 TGGTTCAATCCCTGCTTCCATA-GAAA-TTGACCAGTCTATCCACCCTCTAACCTTTATCAAAAT
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCT-ACCTTTATCAAAAT
* * *
40629 ATGTTTCCTGGGTCGATACCTCAAGAGATAGGCATGCTTAAATCTCTCACTGACATGGAGTTGAG
65 ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAG
40694 TC-AAATAATTTCTC
130 TCAAAATAATTTCTC
40708 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACC-TTATCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
* * * *
40772 TGTTTTCTGGGTCGATACCTCAAGAGATAGGCATGCTTAAATCTCTCACTGATTTTGAGTTGACT
66 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
40837 CAAAATAATTTCTC
131 CAAAATAATTTCTC
*
40851 TGGTTCAATCCCTGCTTCCATAAGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
40916 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
66 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
*
40981 CATAATAATTTCTC
131 CAAAATAATTTCTC
40995 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCTCTCTACC-TTATCAAAAT
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACC-CTCTACCTTTATCAAAAT
41059 ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAA--TCT---TGACTTGGAGTTGAG
65 ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAG
41119 TCAAAATAATTTCTC
130 TCAAAATAATTTCTC
41134 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
* * * *
41199 TGCTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTATATCTCTCACTGACTTTGCGTTGAGT
66 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
*
41264 CAAAATAATTTCTT
131 CAAAATAATTTCTC
41278 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
41343 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
66 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
41408 CAAAATAATTTCTC
131 CAAAATAATTTCTC
41422 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
41487 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
66 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
*
41552 CAAAATAATTTCTT
131 CAAAATAATTTCTC
41566 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
*
41631 TGTTTTCTGGGTCAATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
66 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
41696 CAAAATAATTTCTC
131 CAAAATAATTTCTC
*
41710 TGGTTCAATCCCCGCTTCCATAGGAA
1 TGGTTCAATCCCTGCTTCCATAGGAA
41736 GCATGTCGAA
Statistics
Matches: 1524, Mismatches: 54, Indels: 40
0.94 0.03 0.02
Matches are distributed among these distances:
138 7 0.00
139 125 0.08
140 74 0.05
141 37 0.02
142 205 0.13
143 145 0.10
144 921 0.60
145 10 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (144 bp):
TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
CAAAATAATTTCTC
Found at i:41452 original size:571 final size:572
Alignment explanation
Indices: 39994--41735 Score: 2945
Period size: 571 Copynumber: 3.0 Consensus size: 572
39984 ACTATCTACG
* * **** *
39994 TGGTTCTATCCCTACTTCCATAGGAAACTTGACCAG-CTTATCTGTTCTAC-ACCTCTATCAAAA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTC-TATCCACCCT-CTACCTTTATCAAAA
*
40057 TATGTTTTCTGGATCGATACCTCAAGAGATAGGAATGCTTAAATCTCTCACTGACTTTGAGTTGA
64 TATG-TTTCTGGGTCGATACCTCAAGAGATAGGAATGCTTAAATCTCTCACTGACTTTGAGTTGA
* * * * *
40122 GTTATAATAATTTCTTTGGTTCAATCCCTGC-TCTCATAGGAAACTTGACCGGCCTATCCACTCT
128 GTCAAAATAATTTCTTTGGTTCAATCCCTGCTTC-CATAGGAAACTTGACCAGTCTATCCACCCT
*
40186 CTACCTTCATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCA
192 CTACCTTTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCA
40251 CTGACTTGGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACTTGACC
257 CTGACTTGGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACTTGACC
* *
40316 AGTCTATCCACTCTCTACCTTCATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGAT
322 AGTCTATCCACCCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGAT
* * *
40381 GCTTAAATATCTCACTGATTTTGAGTT-AGT-AAAATAATTTCTCTGGTTCAATCCCTGCTTCCA
387 GCTTAAATCTCTCACTGACTTGGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCA
40444 TAGGAAACTTGACCAGTCT-TCCACCCTCTACCTTTATC-AAATATGTTTTCTGGGTCGATACCT
452 TAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATACCT
40507 CAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGTCAAAATAATTTCTC
517 CAAGAGATAGGGATGCTTAAA-CTCT--CTGACTTGGAGTTGAGTCAAAATAATTTCTC
40566 TGGTTCAATCCCTGCTTCCATA-GAAA-TTGACCAGTCTATCCACCCTCTAACCTTTATCAAAAT
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCT-ACCTTTATCAAAAT
* * *
40629 ATGTTTCCTGGGTCGATACCTCAAGAGATAGGCATGCTTAAATCTCTCACTGACATGGAGTTGAG
65 ATGTTT-CTGGGTCGATACCTCAAGAGATAGGAATGCTTAAATCTCTCACTGACTTTGAGTTGAG
*
40694 TC-AAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCT
129 TCAAAATAATTTCTTTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCT
*
40758 ACC-TTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGCATGCTTAAATCTCTCACT
194 ACCTTTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACT
* * * *
40822 GATTTTGAGTTGACTCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAAGAAACTTGACCAG
259 GACTTGGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAG
40887 TCTATCCACCCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGC
324 TCTATCCACCCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGC
*
40952 TTAAATCTCTCACTGACTTGGAGTTGAGTCATAATAATTTCTCTGGTTCAATCCCTGCTTCCATA
389 TTAAATCTCTCACTGACTTGGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATA
41017 GGAAACTTGACCAGTCTATCCACCTCTCTACC-TTATCAAAATATGTTTTCTGGGTCGATACCTC
454 GGAAACTTGACCAGTCTATCCACC-CTCTACCTTTATCAAAATATGTTTTCTGGGTCGATACCTC
41081 AAGAGATAGGGATGCTTAAA-TCT-TGACTTGGAGTTGAGTCAAAATAATTTCTC
518 AAGAGATAGGGATGCTTAAACTCTCTGACTTGGAGTTGAGTCAAAATAATTTCTC
41134 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
* * *
41199 TGCTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTATATCTCTCACTGACTTTGCGTTGAGT
66 TG-TTTCTGGGTCGATACCTCAAGAGATAGGAATGCTTAAATCTCTCACTGACTTTGAGTTGAGT
41264 CAAAATAATTTCTTTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTA
130 CAAAATAATTTCTTTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTA
41329 CCTTTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTG
195 CCTTTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTG
41394 ACTTGGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGT
260 ACTTGGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGT
41459 CTATCCACCCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCT
325 CTATCCACCCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCT
*
41524 TAAATCTCTCACTGACTTGGAGTTGAGTCAAAATAATTTCTTTGGTTCAATCCCTGCTTCCATAG
390 TAAATCTCTCACTGACTTGGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAG
*
41589 GAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATATGTTTTCTGGGTCAATACCTCAA
455 GAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATACCTCAA
41654 GAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGTCAAAATAATTTCTC
520 GAGATAGGGATGCTTAAA-CTCT--CTGACTTGGAGTTGAGTCAAAATAATTTCTC
*
41710 TGGTTCAATCCCCGCTTCCATAGGAA
1 TGGTTCAATCCCTGCTTCCATAGGAA
41736 GCATGTCGAA
Statistics
Matches: 1105, Mismatches: 44, Indels: 38
0.93 0.04 0.03
Matches are distributed among these distances:
568 52 0.05
569 282 0.26
570 173 0.16
571 456 0.41
572 31 0.03
573 56 0.05
576 55 0.05
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (572 bp):
TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATA
TGTTTCTGGGTCGATACCTCAAGAGATAGGAATGCTTAAATCTCTCACTGACTTTGAGTTGAGTC
AAAATAATTTCTTTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACCCTCTAC
CTTTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGA
CTTGGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTC
TATCCACCCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTT
AAATCTCTCACTGACTTGGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGG
AAACTTGACCAGTCTATCCACCCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATACCTCAAG
AGATAGGGATGCTTAAACTCTCTGACTTGGAGTTGAGTCAAAATAATTTCTC
Found at i:41699 original size:72 final size:72
Alignment explanation
Indices: 41335--41702 Score: 203
Period size: 72 Copynumber: 5.1 Consensus size: 72
41325 TCTACCTTTA
*
41335 TCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGG
1 TCAAAATATGTTTTCTGGGTCAATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGG
41400 AGTTGAG
66 AGTTGAG
* * * **** ** * *
41407 TCAAAATAAT-TTCTCTGGTTCAATCCCTGC-TTCCATA-GGAAACTTGACCAGTCTATCCAC--
1 TCAAAAT-ATGTTTTCTGGGTCAATACCT-CAAGAGATAGGGATGCTT-A--AATCTCT-CACTG
* * *
41467 CCTCT--ACCTTTA-
60 ACT-TGGA-GTTGAG
*
41479 TCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGG
1 TCAAAATATGTTTTCTGGGTCAATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGG
41544 AGTTGAG
66 AGTTGAG
* * **** ** * *
41551 TCAAAATAAT-TTCTT-TGGTTCAATCCCTGC-TTCCATA-GGAAACTTGACCAGTCTATCCAC-
1 TCAAAAT-ATGTT-TTCTGGGTCAATACCT-CAAGAGATAGGGATGCTT-A--AATCTCT-CACT
* * *
41611 -CCTCT--ACCTTTA-
59 GACT-TGGA-GTTGAG
41623 TCAAAATATGTTTTCTGGGTCAATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGG
1 TCAAAATATGTTTTCTGGGTCAATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGG
41688 AGTTGAG
66 AGTTGAG
41695 TCAAAATA
1 TCAAAATA
41703 ATTTCTCTGG
Statistics
Matches: 205, Mismatches: 57, Indels: 68
0.62 0.17 0.21
Matches are distributed among these distances:
69 6 0.03
70 12 0.06
71 30 0.15
72 109 0.53
73 30 0.15
74 12 0.06
75 6 0.03
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (72 bp):
TCAAAATATGTTTTCTGGGTCAATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGG
AGTTGAG
Found at i:47497 original size:16 final size:16
Alignment explanation
Indices: 47476--47527 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
47466 GAGTTATTTG
47476 AGTTCAAATAATTTCA
1 AGTTCAAATAATTTCA
*
47492 AGTTCATATTAA-TTCA
1 AGTTCA-AATAATTTCA
* * *
47508 AGTTTAAGTAATTTTA
1 AGTTCAAATAATTTCA
47524 AGTT
1 AGTT
47528 TGAGTTGAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 4 0.13
16 22 0.73
17 4 0.13
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (16 bp):
AGTTCAAATAATTTCA
Found at i:51071 original size:6 final size:7
Alignment explanation
Indices: 51055--51079 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51045 TTGGTCAATG
51055 AAAAATA
1 AAAAATA
51062 AAAAATA
1 AAAAATA
51069 AAAAATA
1 AAAAATA
51076 AAAA
1 AAAA
51080 CATTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:51092 original size:6 final size:6
Alignment explanation
Indices: 51083--51132 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
51073 ATAAAAACAT
* * * *
51083 TTTTCA TTTTCA TTTTCA TTTTTA -TTT-A TTTTTA TTTTTA TTTTAA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
51129 TTTT
1 TTTT
51133 TTTGATAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 1 0.03
5 6 0.15
6 33 0.82
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTCA
Found at i:51100 original size:12 final size:12
Alignment explanation
Indices: 51083--51132 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
51073 ATAAAAACAT
*
51083 TTTTCATTTTCA
1 TTTTCATTTTTA
51095 TTTTCATTTTTA
1 TTTTCATTTTTA
51107 -TTT-ATTTTTA
1 TTTTCATTTTTA
* *
51117 TTTTTATTTTAA
1 TTTTCATTTTTA
51129 TTTT
1 TTTT
51133 TTTGATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 7 0.21
11 6 0.18
12 21 0.62
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCATTTTTA
Found at i:51119 original size:16 final size:16
Alignment explanation
Indices: 51080--51125 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
51070 AAAATAAAAA
51080 CATTTTTCATTTTCATTTT
1 CATTTTT-A-TTT-ATTTT
51099 CATTTTTATTTATTTT
1 CATTTTTATTTATTTT
*
51115 TATTTTTATTT
1 CATTTTTATTT
51126 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 15 0.58
17 3 0.12
18 1 0.04
19 7 0.27
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (16 bp):
CATTTTTATTTATTTT
Found at i:51119 original size:22 final size:22
Alignment explanation
Indices: 51088--51135 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
51078 AACATTTTTC
*
51088 ATTTTCATTTTCATTTTTATTT
1 ATTTTCATTTTCATTTTAATTT
* *
51110 ATTTTTATTTTTATTTTAATTT
1 ATTTTCATTTTCATTTTAATTT
51132 -TTTT
1 ATTTT
51136 GATAAATGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (22 bp):
ATTTTCATTTTCATTTTAATTT
Found at i:53032 original size:31 final size:31
Alignment explanation
Indices: 52996--53065 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 31
52986 AATTTTAATT
*
52996 AAATCAATGTGCATTAATATTTTATC-AAATG
1 AAATCAACGTGCATTAATATTTTA-CAAAATG
*
53027 AAATCAAACGTGTATTAATATTTTACAAAATG
1 AAATC-AACGTGCATTAATATTTTACAAAATG
53059 AAATCAA
1 AAATCAA
53066 ATGAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 8 0.23
32 27 0.77
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (31 bp):
AAATCAACGTGCATTAATATTTTACAAAATG
Found at i:53479 original size:21 final size:21
Alignment explanation
Indices: 53436--53483 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
53426 AGATAATTTT
* *
53436 AAATTATAAAAATTAATATTG
1 AAATAATAAAAATTAATAGTG
53457 AAATAATAAAAATT-ATGAGTG
1 AAATAATAAAAATTAAT-AGTG
53478 -AATAAT
1 AAATAAT
53484 GGTTTAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
AAATAATAAAAATTAATAGTG
Found at i:53847 original size:12 final size:12
Alignment explanation
Indices: 53826--53856 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
53816 TTTATATATT
53826 TACA-CATGAAA
1 TACATCATGAAA
53837 TACATCATGAAA
1 TACATCATGAAA
53849 TACATCAT
1 TACATCAT
53857 TTACTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.26
Consensus pattern (12 bp):
TACATCATGAAA
Found at i:54297 original size:269 final size:262
Alignment explanation
Indices: 53866--54355 Score: 734
Period size: 269 Copynumber: 1.8 Consensus size: 262
53856 TTTACTCAAA
* *
53866 TGGATACTATATTTAATCAAATATAAATGTATCAAATAATTAATTAGAGAATCAACTATTTTATA
1 TGGATACTATATTTAATCAAATATAAATATATCAAATAAGTAATTAGAGAATCAACTATTTTATA
* *
53931 CTTGTAATTGTATTATTTATTAATTATTTATTGATTGATTTAATTTGTCAACATAAGAAACTTTC
66 ATTGTAATTGTATTATTTATTAATTATTTATTGATTGATTCAATTTGTCAACATAAGAAACTTTC
* * *
53996 AAAATTTTAATAGTTTTAATATGAATTGAATTGAGAGTGATTTAAAAT-CATAATAAAAATATAA
131 AAAATTTTAATACTTTTAATATGAATTGAATTGAGAGTGATTTAAAATAAATAATAAAAACATAA
* *
54060 ATATAATCAATTTAGTTTTTTGAATTATATTTGCTTTATATATTTACATATGAAATATATCAATT
196 ATACAATCAATTTAGTTTTTTCAATTATATTTGCTTTATATATTTACATATGAAATATATCAATT
54125 AC
261 AC
* * *
54127 TGGATACTATATTTAATTAAATATAAATATATTAAATAAGTGATTAGAGAATCAACTATTTTATA
1 TGGATACTATATTTAATCAAATATAAATATATCAAATAAGTAATTAGAGAATCAACTATTTTATA
54192 ATTGTAATTGTAGGATTTATTAATTTATTAATTATATT-TTGATTGATTCAATTTGTCAA-ATTA
66 ATTGTAA-T-T--G---TATT-ATTTATTAATTAT-TTATTGATTGATTCAATTTGTCAACA-TA
* * *
54255 AGAAATTTTTAAAATTTTAATACTTTTAATATGAATTGAATTGAGAGTGATTTAAAGTAAATAAT
121 AGAAACTTTCAAAATTTTAATACTTTTAATATGAATTGAATTGAGAGTGATTTAAAATAAATAAT
54320 AAAAACATAAATACAATCAATTTAGTTTTTTCAATT
186 AAAAACATAAATACAATCAATTTAGTTTTTTCAATT
54356 TTTTTAAATT
Statistics
Matches: 203, Mismatches: 15, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
261 66 0.33
262 1 0.00
263 1 0.00
265 1 0.00
268 5 0.02
269 89 0.44
270 40 0.20
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (262 bp):
TGGATACTATATTTAATCAAATATAAATATATCAAATAAGTAATTAGAGAATCAACTATTTTATA
ATTGTAATTGTATTATTTATTAATTATTTATTGATTGATTCAATTTGTCAACATAAGAAACTTTC
AAAATTTTAATACTTTTAATATGAATTGAATTGAGAGTGATTTAAAATAAATAATAAAAACATAA
ATACAATCAATTTAGTTTTTTCAATTATATTTGCTTTATATATTTACATATGAAATATATCAATT
AC
Found at i:55448 original size:40 final size:37
Alignment explanation
Indices: 55403--55481 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
55393 AATAAAAAAT
55403 AATTATTTTAAAAATAAAATAATT-ATTTTAAATAATTAAA
1 AATTA-TTT-AAAAT-AAAT-ATTAATTTTAAATAATTAAA
* *
55443 AATTATTTAAAATATATTTTAATTTTAAATAATTAAA
1 AATTATTTAAAATAAATATTAATTTTAAATAATTAAA
55480 AA
1 AA
55482 AATTAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
36 2 0.06
37 21 0.58
38 5 0.14
39 3 0.08
40 5 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (37 bp):
AATTATTTAAAATAAATATTAATTTTAAATAATTAAA
Found at i:55455 original size:20 final size:21
Alignment explanation
Indices: 55387--55456 Score: 90
Period size: 20 Copynumber: 3.3 Consensus size: 21
55377 ATTAAATATA
55387 TTAAATAATAAAAAATAATTATT
1 TTAAATAAT--AAAATAATTATT
55410 TTAAA-AATAAAATAATTATT
1 TTAAATAATAAAATAATTATT
*
55430 TTAAATAATTAAA-AATTATT
1 TTAAATAATAAAATAATTATT
*
55450 TAAAATA
1 TTAAATA
55457 TATTTTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
20 30 0.68
21 6 0.14
22 3 0.07
23 5 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAATAATAAAATAATTATT
Found at i:57970 original size:194 final size:194
Alignment explanation
Indices: 57641--58017 Score: 650
Period size: 194 Copynumber: 1.9 Consensus size: 194
57631 TTTATTTATT
*
57641 AAAAAAAATATTCTCGAGAAAAAATAAATCAAATCCTTTTTATTGAAATAATTCTTAAAATGTTC
1 AAAAAAAATATTCTCGAGAAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTC
57706 CAGTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCG
66 CAGTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCG
* * *
57771 GAATACTTTTAGAATCTCATCTTTGGAGG-CTCGAATTTATTTTTCGTAAGAAAATGTCATGTTA
131 GAATACTTTTAGAATCTCATCTTCGGAGGTCT-AAATTTACTTTTCGTAAGAAAATGTCATGTTA
*
57835 AAAAAAAATTATTCTCGAG-AAAAATAAATTAAAACCTTTTTATTGAAATAATTCTTAAAATGTT
1 AAAAAAAA-TATTCTCGAGAAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTT
* * *
57899 CCAGTACGTTGGTAATATTAGAAGAACTCTTTCTCACCTAGAGATTTTTTAAAGCATCTCTACTC
65 CCAGTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTC
57964 GGAATACTTTTAGAATCTCATCTTCGGAGGTCTAAATTTACTTTTCGTAAGAAA
130 GGAATACTTTTAGAATCTCATCTTCGGAGGTCTAAATTTACTTTTCGTAAGAAA
58018 TTATATCATG
Statistics
Matches: 173, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
194 161 0.93
195 12 0.07
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (194 bp):
AAAAAAAATATTCTCGAGAAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTC
CAGTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCG
GAATACTTTTAGAATCTCATCTTCGGAGGTCTAAATTTACTTTTCGTAAGAAAATGTCATGTTA
Found at i:58343 original size:23 final size:22
Alignment explanation
Indices: 58317--58371 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
58307 ATCAATTTTT
58317 ATTTATTATTAAAAAAAATGAAA
1 ATTTATTATTAAAAAAAATG-AA
* *
58340 ATTTTATT-TGAAGAAAAATGAA
1 A-TTTATTATTAAAAAAAATGAA
58362 ATTT-TTATTA
1 ATTTATTATTA
58372 TATTGAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 2 0.07
21 5 0.19
22 3 0.11
23 11 0.41
24 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (22 bp):
ATTTATTATTAAAAAAAATGAA
Found at i:58550 original size:26 final size:27
Alignment explanation
Indices: 58520--58570 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
58510 TTTGTTAGTT
58520 TATTATTATTATCAAA-TTTATTTTTA
1 TATTATTATTATCAAAGTTTATTTTTA
* * *
58546 TATTATTGTTTTTAAAGTTTATTTT
1 TATTATTATTATCAAAGTTTATTTT
58571 AAAAATTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (27 bp):
TATTATTATTATCAAAGTTTATTTTTA
Found at i:59742 original size:20 final size:20
Alignment explanation
Indices: 59717--59766 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
59707 TTTTTTTCGA
59717 TGTATTTTTTCATATTTT-TT
1 TGTATTTTTTCAT-TTTTATT
*
59737 TGTATTATTTCATTTTTATT
1 TGTATTTTTTCATTTTTATT
59757 T-TCATTTTTT
1 TGT-ATTTTTT
59767 TTGTATTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (20 bp):
TGTATTTTTTCATTTTTATT
Found at i:60171 original size:49 final size:48
Alignment explanation
Indices: 59910--60666 Score: 890
Period size: 49 Copynumber: 16.0 Consensus size: 48
59900 ATGATTTTTT
* * *
59910 TTGAAAATGCTCCTCTC-ACTTGAGGCTCGACAACTTTAAAA----ATC
1 TTGAAAAAGCTCCTCTCAAC-AGAGGCTCCACAACTTTAAAATCTCATC
* * *
59954 TTGGAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAA----ATC
1 TT-GAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATC
* *
59998 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT-
1 TTGAAAAA-GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATC
* *
60046 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCCCTTC-TC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAAT--C-TCATC
*
60096 TTGAAAAAGCTCCTCTCAACAAAGGCTCCACAACTTTAAAATTCTCATC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TCTCATC
*
60145 TTGGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCCCTTC-TC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAAT--C-TCATC
* *
60195 TTGAAAAAGCTTCTCTCAACAGAGGCTCCACAACTTTAAAATTTCATC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATC
*
60243 TT-AGAAAGGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATC
1 TTGA-AAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATC
*
60291 -TGAAAAAGTTCCTCTCAACAGAGGCTCCACAACTTT-AAA----ATC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATC
*
60333 TTGAAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TCTCATC
* * *
60382 TTGGAAAAGCTTCTCTCAACAAAGGCTCCACAACTTTAAAATCTCAT-
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATC
60429 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTT-AAA----ATC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATC
** *
60472 TTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATCTCAT-
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATC
* *
60519 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TCTCATC
* *
60568 -TGAAAAGGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATC
1 TTGAAAA-AGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TCTCATC
* *
60617 -TGAAAAGGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTC-TC
1 TTGAAAA-AGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TCTCATC
60665 TT
1 TT
60667 CTTTTTCAAA
Statistics
Matches: 643, Mismatches: 33, Indels: 69
0.86 0.04 0.09
Matches are distributed among these distances:
42 5 0.01
43 73 0.11
44 45 0.07
45 32 0.05
46 7 0.01
47 143 0.22
48 79 0.12
49 173 0.27
50 83 0.13
51 3 0.00
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (48 bp):
TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATC
Found at i:60263 original size:186 final size:185
Alignment explanation
Indices: 60091--60650 Score: 685
Period size: 186 Copynumber: 3.0 Consensus size: 185
60081 TTAAAATCCC
* *
60091 TTCTCTTGAAAAAGCTCCTCTCAACAAAGGCTCCACAACTTTAAAATTCTCATCTTGGAAAAGCT
1 TTCTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TCTCATCTTGAAAAAGCT
* *
60156 CCTCTCAACAGAGGCTCCACAACTTTAAAATCCCTTC-TCTTGAAAAAGCTTCTCTCAACAGAGG
65 CCTCTCAGCAGAGGCTCCACAACTTTAAAAT-TC-TCATCTTGAAAAAGCTTCTCTCAACAGAGG
*
60220 CTCCACAACTTTAAAATTTCATCTTAGAAAGGCTCCTCTCAACAGAGGCTCCACAACTT
128 CTCCACAACTTTAAAATTTCATCTTAGAAAGGCTCCTCTCAACAGA-GCTCCACAACCT
*
60279 TAAAATCTCATCTGAAAAAGTTCCTCTCAACAGAGGCTCCACAACTTT-AAA----ATCTTGAAA
1 T----TCTC-T-TGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATCTTGAAA
* *
60339 AAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGGAAAAGCTTCTCTCAACAA
60 AAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGAAAAAGCTTCTCTCAACAG
* *
60404 AGGCTCCACAACTTTAAAATCTCAT-TT-GAAAAAGCTCCTCTCAACAGAGGCTCCACAA-CT
125 AGGCTCCACAACTTTAAAATTTCATCTTAG-AAAGGCTCCTCTCAACAGA-GCTCCACAACCT
* ** *
60464 TTAAAATCTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATCTCAT-TTGAAAAAG
1 TT---CTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATCTTGAAAAAG
* * *
60528 CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATC-TGAAAAGGGCTCCTCTCAACAGAG
63 CTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGAAAA-AGCTTCTCTCAACAGAG
* * *
60592 GCTCAACAACTTTAAAATTCTCATCTGA-AAAGGGCTCCTCTCAACAGAGGCTCAACAAC
127 GCTCCACAACTTTAAAATT-TCATCTTAGAAA-GGCTCCTCTCAACAGA-GCTCCACAAC
60651 TTTAAAATTC
Statistics
Matches: 325, Mismatches: 25, Indels: 43
0.83 0.06 0.11
Matches are distributed among these distances:
181 1 0.00
182 32 0.10
183 4 0.01
184 2 0.01
185 8 0.02
186 111 0.34
187 56 0.17
188 69 0.21
192 4 0.01
193 4 0.01
194 34 0.10
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.26
Consensus pattern (185 bp):
TTCTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATCTTGAAAAAGCTC
CTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGAAAAAGCTTCTCTCAACAGAGGCTC
CACAACTTTAAAATTTCATCTTAGAAAGGCTCCTCTCAACAGAGCTCCACAACCT
Found at i:61470 original size:12 final size:11
Alignment explanation
Indices: 61451--61481 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
61441 TAAGTCATCA
61451 TTTTTTTTTCT
1 TTTTTTTTTCT
*
61462 TTGTTTTTTCT
1 TTTTTTTTTCT
61473 TTTTTTTTT
1 TTTTTTTTT
61482 TTTACCCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:70733 original size:26 final size:27
Alignment explanation
Indices: 70703--70753 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
70693 TTTGTTAGTT
70703 TATTATTATTATTAAA-TTTATTTTTA
1 TATTATTATTATTAAAGTTTATTTTTA
* *
70729 TATTATTGTTTTTAAAGTTTATTTT
1 TATTATTATTATTAAAGTTTATTTT
70754 AAAAATTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (27 bp):
TATTATTATTATTAAAGTTTATTTTTA
Found at i:70870 original size:9 final size:8
Alignment explanation
Indices: 70840--70892 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 8
70830 CATAAATATT
70840 AATAAAATA
1 AATAAAA-A
70849 ATATATAAAA
1 A-ATA-AAAA
70859 AATAAGAAA
1 AATAA-AAA
70868 AATAAAAA
1 AATAAAAA
70876 AA-AAAAA
1 AATAAAAA
70883 AA-AAAAA
1 AATAAAAA
70890 AAT
1 AAT
70893 TTTTTACCTG
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
7 14 0.35
8 6 0.15
9 12 0.30
10 5 0.12
11 3 0.08
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (8 bp):
AATAAAAA
Found at i:70872 original size:16 final size:16
Alignment explanation
Indices: 70853--70892 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
70843 AAAATAATAT
*
70853 ATAAAAAATAAGAAAA
1 ATAAAAAATAAAAAAA
70869 ATAAAAAA-AAAAAAA
1 ATAAAAAATAAAAAAA
*
70884 AAAAAAAAT
1 ATAAAAAAT
70893 TTTTTACCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.10
Consensus pattern (16 bp):
ATAAAAAATAAAAAAA
Found at i:70952 original size:13 final size:13
Alignment explanation
Indices: 70934--70972 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
70924 GGTCAACGTA
70934 CGGTTCGGTTCGG
1 CGGTTCGGTTCGG
70947 CGGTTCGG-TCTGG
1 CGGTTCGGTTC-GG
*
70960 CGGTTTGGTTCGG
1 CGGTTCGGTTCGG
70973 TCTGGCAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 2 0.09
13 19 0.83
14 2 0.09
ACGTcount: A:0.00, C:0.21, G:0.46, T:0.33
Consensus pattern (13 bp):
CGGTTCGGTTCGG
Found at i:71921 original size:20 final size:20
Alignment explanation
Indices: 71896--71945 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
71886 TTTTTTTCGA
71896 TGTATTTTTTCATATTTT-TT
1 TGTATTTTTTCAT-TTTTATT
*
71916 TGTATTATTTCATTTTTATT
1 TGTATTTTTTCATTTTTATT
71936 T-TCATTTTTT
1 TGT-ATTTTTT
71946 TTGTATTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (20 bp):
TGTATTTTTTCATTTTTATT
Found at i:72174 original size:26 final size:27
Alignment explanation
Indices: 72134--72185 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
72124 TCTAGTTTTG
*
72134 TTTATTATTTCTTTTATCTAATTAATA
1 TTTATTATATCTTTTATCTAATTAATA
* *
72161 TTTATTATAT-TTTTATTTTATTAAT
1 TTTATTATATCTTTTATCTAATTAAT
72186 TAATAACTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTATTATATCTTTTATCTAATTAATA
Found at i:73456 original size:2 final size:2
Alignment explanation
Indices: 73449--73478 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
73439 GTTTTAATCA
73449 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73479 GCATAAACCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73871 original size:48 final size:49
Alignment explanation
Indices: 73819--73911 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
73809 CCTTATCTCA
*
73819 TTTTTAAATTT-AAAAATGTCATTATCAATATATAAAATTATAGCATCG
1 TTTTTAAATTTCAAAAATGTCATTAGCAATATATAAAATTATAGCATCG
* * *
73867 TTTTTAAATTTCAAAATTTTTATTAGCAATATATAAAATTATAGC
1 TTTTTAAATTTCAAAAATGTCATTAGCAATATATAAAATTATAGC
73912 TGATGCATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 11 0.28
49 29 0.73
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (49 bp):
TTTTTAAATTTCAAAAATGTCATTAGCAATATATAAAATTATAGCATCG
Found at i:74058 original size:13 final size:14
Alignment explanation
Indices: 74040--74070 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
74030 GGTAACATAT
74040 AAATAAAGTTT-TA
1 AAATAAAGTTTGTA
74053 AAATAAAGTTTGTA
1 AAATAAAGTTTGTA
74067 AAAT
1 AAAT
74071 TTTTTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (14 bp):
AAATAAAGTTTGTA
Found at i:75681 original size:25 final size:26
Alignment explanation
Indices: 75616--75682 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
75606 AGATTTTTTT
* *
75616 TAATTTAATTA-ATAA-ATTATGAAA
1 TAATTTTATTATATAATATAATGAAA
*
75640 TAATTTT-TTAATTTAATATAATGAAA
1 TAATTTTATT-ATATAATATAATGAAA
75666 -AATTTTATTATATAATA
1 TAATTTTATTATATAATA
75683 AACTTATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
23 2 0.06
24 7 0.20
25 16 0.46
26 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (26 bp):
TAATTTTATTATATAATATAATGAAA
Found at i:77617 original size:19 final size:18
Alignment explanation
Indices: 77595--77652 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
77585 AATTGTAATC
77595 TTTTTAATATTAAACTATA
1 TTTTTAATA-TAAACTATA
**
77614 TTTTTCGTACTAAAC--TA
1 TTTTTAATA-TAAACTATA
77631 -TTTT-ATATAAACTATA
1 TTTTTAATATAAACTATA
77647 TTTTTA
1 TTTTTA
77653 TCTATCTGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 5 0.16
15 2 0.06
16 6 0.19
17 6 0.19
19 12 0.39
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTTTAATATAAACTATA
Found at i:77759 original size:13 final size:13
Alignment explanation
Indices: 77741--77798 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
77731 GAATAAAATT
77741 AATTAAATAATAA
1 AATTAAATAATAA
* *
77754 AATTAATTATTTAA
1 AATTAAATA-ATAA
*
77768 AATAAAATAATAA
1 AATTAAATAATAA
**
77781 TTTTAAATAATTAA
1 AATTAAATAA-TAA
77795 AATT
1 AATT
77799 TGTTTAACAT
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
13 18 0.55
14 15 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTAAATAATAA
Found at i:77777 original size:41 final size:41
Alignment explanation
Indices: 77712--77798 Score: 110
Period size: 41 Copynumber: 2.1 Consensus size: 41
77702 TAAATTTATC
77712 AAATTATTTTTAAAAATAAGAATAA-AATTAATTAAATAA-TA
1 AAATTATTTTTAAAAATAAGAATAATAATT--TTAAATAATTA
77753 AAATTAATTATTT-AAAATAA-AATAATAATTTTAAATAATTA
1 AAATT-ATT-TTTAAAAATAAGAATAATAATTTTAAATAATTA
77794 AAATT
1 AAATT
77799 TGTTTAACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
40 8 0.19
41 17 0.40
42 14 0.33
43 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (41 bp):
AAATTATTTTTAAAAATAAGAATAATAATTTTAAATAATTA
Found at i:77786 original size:27 final size:27
Alignment explanation
Indices: 77745--77797 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
77735 AAAATTAATT
* *
77745 AAATAATAAAATTAATTATTTAAAATA
1 AAATAATAAAATTAAATAATTAAAATA
**
77772 AAATAATAATTTTAAATAATTAAAAT
1 AAATAATAAAATTAAATAATTAAAAT
77798 TTGTTTAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
AAATAATAAAATTAAATAATTAAAATA
Found at i:81051 original size:917 final size:912
Alignment explanation
Indices: 79187--81647 Score: 3023
Period size: 917 Copynumber: 2.7 Consensus size: 912
79177 TGGAGAAAGT
* *
79187 ATTGTTAGGAATAATGACTCAAAT-TCCATAAAAAATTTGTTTCG-GATTTGTTAGATATTGCTT
1 ATTGTTAGGAATAATGACTCAAATCT-CATAAAAGATTTGTTT-GAGATTAGTTAGATATTGCTT
*
79250 GATGGGCAAGAAGACTTGCAAAAGAAGAATTATGAGAGAAAGGGGATT-TTAATAGGTAAGTTTA
64 GATGGACAAGAAGACTTGCAAAAGAAGAATTATGAGAGAAA-GGGATTCTTAATAGGTAAGTTTA
* * * *
79314 TCTTGCAAAAGAAGAATTTTGAGAGG-AAAAGAATTCTTAATAGGCAAGTATGTATGC-TATAAA
128 ACTTGCAGAAGAA-AA-TTTAAGAGGAAAAAG-ATTCTTAATAGGCAAGTTTGTATGCTTATAAA
* * *
79377 TAGATAAAGTCTCTATAAGGTTGGGTATGAGAAAAAAAATGTCAAG-AGTTAAAGGATTTTGTAG
190 TAGATGAAGTCTCTATAAGGTTGGGTATGAG-AAAAAAGTGT-AAGAAGTTTAA-GATTTTGTAG
* *
79441 GATAGATA-CCTATAAGAGTATTAAAGATTTACGTCTTATAAAGTGTGTATGTTTTATTTGTGAG
252 GATAGATACCCTATAAGAGTA-TGAAGATTTACGTCTTAT-AGGTGTGTATG-TTTATTTGTGAG
* *
79505 TGGACTAGAA-GAGACTGAGAGGGTCCACATAGATATGAGGTATGGGTGCATAT-GGTATATGTT
314 TGGACTA-AAGGAGACTGAGAGGGTCCACATAGGTATGAGGTATGGGTGCATATGGGTATGTGTT
* * * * *
79568 TAGTTGTGTTGAAATGGTGCATATGGGTACGTTGTTTATTTGGGTTAGACATACTCCATAGAACT
378 TAGTTGTGTTGAAA-GGTGCACATGAGTAC-ATGTTTGTTTGGGTTA-AAATACTCCATAG-ACT
* * *
79633 AGAGGAGATTGAAAGTGTCTTATGAGTATGTGATTGTTAAGCGAGGTAGATGATTTGATTTGTAT
439 AGAAGAGATTGAGAGTGTCTTATGAGTAT-TGATTGTTAAGTGAGGTAGATGATTTGATTTGTAT
* * * *
79698 ATTTGTAATTCTCTACAAGTAGTAGATCTTATTTCCCTCATCATGGATGTAGGTTAGTTAGACCA
503 GTTTGTAATTCTCTACAACTAGTGGATCTTATTT--CTCATCCTGGATGTAGGTTAGTT-GACCA
79763 AACCACATTAAATTATTGTCTCTTATGTGTTTGATTAATTGTTTGATTTCCACTTCCACTAGTTG
565 AACCACATTAAA-TATTGTCTCTTATGTGTTTGATTAATTGTTTGATTTCCACTTCCACTAGTTG
*
79828 GATTGGATTGAGGCTTTTTAGCCTAACAAGTGGTATTAGAGTTGTAGTGATCACTAACAAGTGGT
629 GATTGGATTGAGGCTTTTTAGCCTAACAAGTGGTATCAGAGTTG-AGTGATCACTAACAAGTGGT
* *
79893 ATTCAGAGCTGAAAGTTTGAAACATAGGGAAAAGCTAAAGTTTGAGCCATGGGAAAGGTAAGTCC
693 ATTCAGAGCTGAAAGTTCGAAAC--AGGGAAAAACTAAAGTTTGAGCCATGGGAAAGGTAAGTCC
* *
79958 AGAGGAGCTCATTCAAGAGAAGAGTTCAAGTTCATATTTTAAGGATTGATGATCAGTAACATACA
756 AGAGGAGCTCATTCAAGAAAAGAGTTCAAGTTCATATTTTAAGGATTGATGATAAGTAACATACA
* * * *
80023 AGAGAAGATGATTGTGAGACTTTCATTACAGGTGGAGCCAAGCATATCTAGCATAAAGATAAATT
821 AGAGAAGATGATTGTGAGACTTTCATTACAAGTGAAGCCAAGCATATCTAGCATAAAGACAAATG
*
80088 ATTGATGGAATTTGAGTCAAGGTGAAA
886 ATTGATGGAATTTGAATCAAGGTGAAA
* *
80115 ATTGTTAGGAATAATGACTCAAATCTCATAAGAGATTTGTTTGAGATTAGTTAGATATTGCTTCA
1 ATTGTTAGGAATAATGACTCAAATCTCATAAAAGATTTGTTTGAGATTAGTTAGATATTGCTTGA
* * * *
80180 TGGACAAGAAGACTTGCAAAAAAAAAAATT-TTAGAGAAAAGTGGATTCTTAATAGGCAAGTTTA
66 TGGACAAGAAGACTTGC-AAAAGAAGAATTATGAGAG-AAAG-GGATTCTTAATAGGTAAGTTTA
80244 ACTTGCAGAAGAAAATTCTAAGAGGAAAAAGATTCTTAATAGGCAAGTTTGTATGCTTATAAATA
128 ACTTGCAGAAGAAAATT-TAAGAGGAAAAAGATTCTTAATAGGCAAGTTTGTATGCTTATAAATA
* * * *
80309 GATGAAGTCTCTATAAGATTGGGTTTGAGAAAAAAGTATAAGAAAGTTGTAAGATTTTGTAGAAT
192 GATGAAGTCTCTATAAGGTTGGGTATGAGAAAAAAGTGTAAG-AAGTT-TAAGATTTTGTAGGAT
* * * * * *
80374 AGACACCCTATAAGAGTACTGAAGATTTATGTCTTATAGGTATATATGTTTATTTGTGAGTAGAT
255 AGATACCCTATAAGAGTA-TGAAGATTTACGTCTTATAGGTGTGTATGTTTATTTGTGAGTGGAC
* * *
80439 TAAAGGAGACTGAAAGGATCCACAGAGGTATGAGGTATGGGTGCATATGGGTATGTGTTTAGTT-
319 TAAAGGAGACTGAGAGGGTCCACATAGGTATGAGGTATGGGTGCATATGGGTATGTGTTTAGTTG
* * **
80503 TGTTGAAAGGTGCACATGAGTACATATTTGTTTGGGTTAAAATATTTTATAGACTAGAAGAGATT
384 TGTTGAAAGGTGCACATGAGTACATGTTTGTTTGGGTTAAAATACTCCATAGACTAGAAGAGATT
*
80568 GAGAGTGTCTTATGAGTATT-ATTATTAAGTGAGGTAGATGATTTGATTTGTATGTTTGTAATTC
449 GAGAGTGTCTTATGAGTATTGATTGTTAAGTGAGGTAGATGATTTGATTTGTATGTTTGTAATTC
* * **
80632 TCTACAACTAGTGGATCTTGTTTCTCATCCTGGATATAGGTTAGTTGACCAAACCATGTT-AA-A
514 TCTACAACTAGTGGATCTTATTTCTCATCCTGGATGTAGGTTAGTTGACCAAACCACATTAAATA
*** * *
80695 TTGTCT-TT-TGTTGTTTGATTAATTGTTTGATTT-TGGTTCTACTGGTAT-GATTGGATTGAGG
579 TTGTCTCTTATG-TGTTTGATTAATTGTTTGATTTCCACTTCCACTAGT-TGGATTGGATTGAGG
*
80756 CTTTTTAGCCTAACAAGTGGTATCA-AGTATG-GTGATC-CTTAACAAGTGGTA-T-A-AG-TTA
642 CTTTTTAGCCTAACAAGTGGTATCAGAGT-TGAGTGATCAC-TAACAAGTGGTATTCAGAGCTGA
* *
80814 AAGGTTCGAGAC-GTGAAAAACTGAAAGTTT-AGCCATGGGAAGAGGTAAGT-CAGAGGAGCTCG
705 AA-GTTCGAAACAGGGAAAAACT-AAAGTTTGAGCCATGGGAA-AGGTAAGTCCAGAGGAGCTC-
*
80876 ATTCAA-AAAAGAGTTCGAGTTCATATTTTAAGGATTAGATTGGTTTTCATGAAATGTGAAACAT
766 ATTCAAGAAAAGAGTTCAAGTTCATATTTTAAGGATT-GA-T-G-----AT--AA-GT--AACAT
* * * *
80940 ATAAGAGAAGAT-ATTGT-A-ACTTTCATTGCAAGTGAAGCCAAGCATATCTAGCATGAAGACAG
818 ACAAGAGAAGATGATTGTGAGACTTTCATTACAAGTGAAGCCAAGCATATCTAGCATAAAGACAA
* *
81002 ATGATTGATGGAATTTGAATCAAGGTGGAG
883 ATGATTGATGGAATTTGAATCAAGGTGAAA
* *
81032 ATTGTTAGGAATAATGACTCAAATCCCATAAAAGATTTGTTTGAGATTTA-TTAGTTATTGCTTG
1 ATTGTTAGGAATAATGACTCAAATCTCATAAAAGATTTGTTTGAGA-TTAGTTAGATATTGCTTG
* * * * *
81096 ATGTACAAGAAGACTTGCAAAAGAAGAATTCTGAAAGAAAGAGATTCTTAATAGATAAGTTTAAC
65 ATGGACAAGAAGACTTGCAAAAGAAGAATTATGAGAGAAAGGGATTCTTAATAGGTAAGTTTAAC
*
81161 TTGCAGAAGAAAAATTTAA-A-GAAAATGATTCTTAATAGGCAAGTTTGTATGCTTATAAATAGA
130 TTGCAGAAG-AAAATTTAAGAGGAAAAAGATTCTTAATAGGCAAGTTTGTATGCTTATAAATAGA
* * *
81224 TGAAATCTCTATAGGGTTGGGTATGAG-AAAAAGATGTAAGAGAG-TTAAGATTTTGTGGGATAG
194 TGAAGTCTCTATAAGGTTGGGTATGAGAAAAAAG-TGTAAGA-AGTTTAAGATTTTGTAGGATAG
* * * * * *
81287 ATACCCCATAAGAGTATG-AGATTTACATCTTATGGGTGTGTATGTTTGTTTGTGAATGGACTAG
257 ATACCCTATAAGAGTATGAAGATTTACGTCTTATAGGTGTGTATGTTTATTTGTGAGTGGACTAA
* * * * * *
81351 AGGAGACTGAGAGGGTCCATATAGGTAT-ACGTAT--GTGTATATGAGTATGTATTTAGTTGTAT
322 AGGAGACTGAGAGGGTCCACATAGGTATGAGGTATGGGTGCATATGGGTATGTGTTTAGTTGTGT
* ** *
81413 TGAAGGGGTGCACAT-AGGTACGCGTTTGTTT-GGTTAATAATACTCCATAAACTAGAAGAGATT
387 TGAA-AGGTGCACATGA-GTACATGTTTGTTTGGGTTAA-AATACTCCATAGACTAGAAGAGATT
*
81476 G-GAGTGTCTTATGAGTATTGATTGTTAAGTGAGGTAGATGATCTGATTTGTATGTTTGTAATTC
449 GAGAGTGTCTTATGAGTATTGATTGTTAAGTGAGGTAGATGATTTGATTTGTATGTTTGTAATTC
* * * *
81540 TCTACAACTAGTGGATATTATTTATCATCCATGGACGTAGGTTAGTTGTACCAAATCACATTAAA
514 TCTACAACTAGTGGATCTTATTTCTCATCC-TGGATGTAGGTTAGTTG-ACCAAACCACATTAAA
* *
81605 TTATTATCTCTTATGTGTTTGATTAATTATTTGATTT-CACTTC
577 -TATTGTCTCTTATGTGTTTGATTAATTGTTTGATTTCCACTTC
81648 TGTTGATGTG
Statistics
Matches: 1336, Mismatches: 144, Indels: 120
0.83 0.09 0.08
Matches are distributed among these distances:
906 21 0.02
907 89 0.07
908 139 0.10
909 80 0.06
910 22 0.02
911 33 0.02
912 10 0.01
913 96 0.07
914 30 0.02
915 86 0.06
916 45 0.03
917 149 0.11
918 6 0.00
919 7 0.01
920 28 0.02
921 21 0.02
923 61 0.05
924 1 0.00
925 30 0.02
926 9 0.01
927 14 0.01
928 99 0.07
929 123 0.09
930 107 0.08
931 30 0.02
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (912 bp):
ATTGTTAGGAATAATGACTCAAATCTCATAAAAGATTTGTTTGAGATTAGTTAGATATTGCTTGA
TGGACAAGAAGACTTGCAAAAGAAGAATTATGAGAGAAAGGGATTCTTAATAGGTAAGTTTAACT
TGCAGAAGAAAATTTAAGAGGAAAAAGATTCTTAATAGGCAAGTTTGTATGCTTATAAATAGATG
AAGTCTCTATAAGGTTGGGTATGAGAAAAAAGTGTAAGAAGTTTAAGATTTTGTAGGATAGATAC
CCTATAAGAGTATGAAGATTTACGTCTTATAGGTGTGTATGTTTATTTGTGAGTGGACTAAAGGA
GACTGAGAGGGTCCACATAGGTATGAGGTATGGGTGCATATGGGTATGTGTTTAGTTGTGTTGAA
AGGTGCACATGAGTACATGTTTGTTTGGGTTAAAATACTCCATAGACTAGAAGAGATTGAGAGTG
TCTTATGAGTATTGATTGTTAAGTGAGGTAGATGATTTGATTTGTATGTTTGTAATTCTCTACAA
CTAGTGGATCTTATTTCTCATCCTGGATGTAGGTTAGTTGACCAAACCACATTAAATATTGTCTC
TTATGTGTTTGATTAATTGTTTGATTTCCACTTCCACTAGTTGGATTGGATTGAGGCTTTTTAGC
CTAACAAGTGGTATCAGAGTTGAGTGATCACTAACAAGTGGTATTCAGAGCTGAAAGTTCGAAAC
AGGGAAAAACTAAAGTTTGAGCCATGGGAAAGGTAAGTCCAGAGGAGCTCATTCAAGAAAAGAGT
TCAAGTTCATATTTTAAGGATTGATGATAAGTAACATACAAGAGAAGATGATTGTGAGACTTTCA
TTACAAGTGAAGCCAAGCATATCTAGCATAAAGACAAATGATTGATGGAATTTGAATCAAGGTGA
AA
Found at i:81205 original size:49 final size:51
Alignment explanation
Indices: 81108--81206 Score: 132
Period size: 49 Copynumber: 2.0 Consensus size: 51
81098 GTACAAGAAG
* *
81108 ACTTGCAAAAGAAGAATTCTGAAAGAAAGAGATTCTTAATAGATAAGTTTA
1 ACTTGCAAAAGAAAAATTCTGAAAGAAAGAGATTCTTAATAGACAAGTTTA
* *
81159 ACTTGCAGAAGAAAAATT-T-AAAGAAA-ATGATTCTTAATAGGCAAGTTT
1 ACTTGCAAAAGAAAAATTCTGAAAGAAAGA-GATTCTTAATAGACAAGTTT
81207 GTATGCTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 1 0.02
49 25 0.58
50 1 0.02
51 16 0.37
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.28
Consensus pattern (51 bp):
ACTTGCAAAAGAAAAATTCTGAAAGAAAGAGATTCTTAATAGACAAGTTTA
Done.