Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold872
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: 251851
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
File 1 of 2
Found at i:915 original size:31 final size:31
Alignment explanation
Indices: 887--959 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
877 GTCATTTCGA
*
887 GTTCGAATCATTTTGAGTTTAGGTATTTCAG
1 GTTCGAATCATTTCGAGTTTAGGTATTTCAG
* * *
918 GTTCGAGTCATTTCGAGTTTGAGTTATTTTTAG
1 GTTCGAATCATTTCGAGTTT-AGGTA-TTTCAG
951 GTTCGAATC
1 GTTCGAATC
960 GATCGGTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 18 0.51
32 4 0.11
33 13 0.37
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.45
Consensus pattern (31 bp):
GTTCGAATCATTTCGAGTTTAGGTATTTCAG
Found at i:941 original size:16 final size:16
Alignment explanation
Indices: 871--946 Score: 59
Period size: 16 Copynumber: 4.8 Consensus size: 16
861 CGGGTTAATT
*
871 GTTTGGGTCATTTCGA
1 GTTTGAGTCATTTCGA
* * *
887 GTTCGAATCATTTTGA
1 GTTTGAGTCATTTCGA
903 GTTT-AGGT-ATTTC-A
1 GTTTGA-GTCATTTCGA
*
917 GGTTCGAGTCATTTCGA
1 -GTTTGAGTCATTTCGA
*
934 GTTTGAGTTATTT
1 GTTTGAGTCATTT
947 TTAGGTTCGA
Statistics
Matches: 45, Mismatches: 10, Indels: 10
0.69 0.15 0.15
Matches are distributed among these distances:
14 1 0.02
15 10 0.22
16 33 0.73
17 1 0.02
ACGTcount: A:0.18, C:0.11, G:0.25, T:0.46
Consensus pattern (16 bp):
GTTTGAGTCATTTCGA
Found at i:1471 original size:15 final size:16
Alignment explanation
Indices: 1446--1484 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
1436 TAAACTCAAG
*
1446 AAAAGTTTACAAAA-A
1 AAAACTTTACAAAATA
*
1461 AAGACTTTACAAAATA
1 AAAACTTTACAAAATA
1477 AAAACTTT
1 AAAACTTT
1485 GTATTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (16 bp):
AAAACTTTACAAAATA
Found at i:1803 original size:11 final size:10
Alignment explanation
Indices: 1784--1809 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1774 AAATTTTACA
1784 AAAAATTTTT
1 AAAAATTTTT
1794 AAAAATTTTT
1 AAAAATTTTT
1804 AAAAAT
1 AAAAAT
1810 AAAAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAAATTTTT
Found at i:1879 original size:13 final size:14
Alignment explanation
Indices: 1856--1886 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1846 TTTTAAATTT
1856 TTTTAAAAAAAATA
1 TTTTAAAAAAAATA
1870 TTTT-AAAAAAATA
1 TTTTAAAAAAAATA
1883 TTTT
1 TTTT
1887 TTTCAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTTAAAAAAAATA
Found at i:1887 original size:14 final size:14
Alignment explanation
Indices: 1850--1887 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
1840 ATTAAATTTT
*
1850 AAATTTTTTTAAAA
1 AAATATTTTTAAAA
1864 AAA-ATATTTTAAAA
1 AAATAT-TTTTAAAA
1878 AAATATTTTT
1 AAATATTTTT
1888 TTCAATGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 18 0.86
15 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATATTTTTAAAA
Found at i:2337 original size:3 final size:3
Alignment explanation
Indices: 2329--2369 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2319 ATAAATGCAA
2329 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2370 AGTTTGAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4253 original size:1 final size:1
Alignment explanation
Indices: 4247--4272 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
4237 GAACTCTTCC
4247 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
4273 CAAAGAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4723 original size:23 final size:23
Alignment explanation
Indices: 4692--4737 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4682 ATACTTATTT
*
4692 ATTTGATATTTAAAAATTTAAAA
1 ATTTAATATTTAAAAATTTAAAA
* *
4715 ATTTAATATTTATAATTTTAAAA
1 ATTTAATATTTAAAAATTTAAAA
4738 TTTTTATGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTTAATATTTAAAAATTTAAAA
Found at i:7199 original size:15 final size:16
Alignment explanation
Indices: 7176--7206 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
7166 AGGAAATCTC
7176 ATTCTAACTCTATCAT
1 ATTCTAACTCTATCAT
7192 ATTC-AACTCTATCAT
1 ATTCTAACTCTATCAT
7207 TGATTTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTCTAACTCTATCAT
Found at i:8282 original size:58 final size:58
Alignment explanation
Indices: 8083--8286 Score: 182
Period size: 58 Copynumber: 3.5 Consensus size: 58
8073 TAATTATCTC
* * * * * * * *
8083 TAAAATACATTAAATCGCATAAAAGTCTTCAGATCATAG-AAATGACCTAAATGATAT
1 TAAAATTCATAAAATTGCATAAAAGTCTTTAGACCATGGAAAATGATCTAAATGACAT
* * * * *
8140 TAACATTCATAAAATTGTATCAAAA-TCCTTAG-CTCATGAAAAATGATCTACATGACAT
1 TAAAATTCATAAAATTGCAT-AAAAGTCTTTAGAC-CATGGAAAATGATCTAAATGACAT
** * ***
8198 CGATATTCATAAAATTGCACCCAAGTCTTTAGACCATGGAAAATGATCTAAATGACAT
1 TAAAATTCATAAAATTGCATAAAAGTCTTTAGACCATGGAAAATGATCTAAATGACAT
8256 TAAAATTCATAAAA-TGACATAAAAGTCTTTA
1 TAAAATTCATAAAATTG-CATAAAAGTCTTTA
8287 AGTCATGAAA
Statistics
Matches: 112, Mismatches: 29, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
57 27 0.24
58 84 0.75
59 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (58 bp):
TAAAATTCATAAAATTGCATAAAAGTCTTTAGACCATGGAAAATGATCTAAATGACAT
Found at i:10773 original size:617 final size:617
Alignment explanation
Indices: 9591--10829 Score: 1874
Period size: 617 Copynumber: 2.0 Consensus size: 617
9581 TATGTTTTAA
* **
9591 TGTAAAAATGTTTGTTAAGGACCTCTTGTATGGTTATAAAGTAATCCAAGGTCATTAGGAAGGTG
1 TGTAAAAATGTTTGTTAAGGACCTCTTGTATGATTATAAAGTAATCCAAGGTCATTAAAAAGGTG
* * *
9656 AAATTGAGAAAACTTGGGTAAAAAGCTTAATTCTTGGTGAAAAATTCTATGTAGTATCAATATAT
66 AAATTGAGAAAACTTGGGTAAAAAGCTTAATTCATGGTGAAAAATTCTATGCAATATCAATATAT
* * * * * * * * *
9721 TGGTATTTGTGTCGATATAAGTTATTCCTAGAACCAAATAATCTAGAAATTTTGAATTTGCGAGT
131 TGGTATTTATGTCAATAGAAGTGATTCCTAGAACAAAAAAATATAGAAATTTTGAATTTACGACT
* *
9786 TTCGAGAATATCCCTATTCATAGGTTTGAGATCCATATCTATGAATTAAAAGGTCTGAATGATCA
196 TTCAAAAATATCCCTATTCATAGGTTTGAGATCCATATCTATGAATTAAAAGGTCTGAATGATCA
* * *
9851 ACTTTGTAATTAGTTGTTAGAATTAATAGGTTTTTAAATCATTCATTTGAAAAAATTCAAACCTT
261 ACTTTGCAATTAGTTGTTAAAATTAATAGGTCTTTAAATCATTCATTTGAAAAAATTCAAACCTT
* * **
9916 CTTACTATATTATCATAATACTTCTCAAAAATAAAAAATTTTGATCTATGGAGGAAGAATAACAT
326 CTTACTAGATTATCATAATACTTCTCAAAAATAAAAAATTTTGATCAATAAAGGAAGAATAACAT
* * * *
9981 TATTTTTTTTCAATAAAATACCAAAGTGGATGATTAACTCATTCCATACTAGAAATAATCATAGG
391 TATTTTTGTTCAATAAAATACCAAAATGGATGATTAACTCATTCCATACTAGAAATAATCACAAG
* * *
10046 ATATCTTTTGATAACACAGATCCCTGTTTCTCAATGATATCCCACGATTAAGACAATTGCCTGAA
456 ATATCTTTTGATAACACAGATCCCTATTTATCAATGATATCCCACGATTAAGACAATTGCCTAAA
10111 TCCCGTGAAACCATTTCATAGAAGTTCATTGATAACTTCTTTTTATAAAGCAAATTGATTTTGAT
521 TCCCGTGAAACCATTTCATAGAAGTTCATTGATAACTTCTTTTTATAAAGCAAATTGATTTTGAT
*
10176 TCTTGAATAATCCATATCACTTCTACTTCTAT
586 TCTTGAATAATCCACATCACTTCTACTTCTAT
10208 TGTAAAAATGTTTGTTAAGGACCTCTTGTATGATTATAAAAGTAATCCAAGGTCATTAAAAAGGT
1 TGTAAAAATGTTTGTTAAGGACCTCTTGTATGATTAT-AAAGTAATCCAAGGTCATTAAAAAGGT
* * *
10273 GAAATGTGAGAAAATTTGGGTGAAAAAG-TTTATTCATGGTGAAAAATTCTATGCAATATCGATA
65 GAAAT-TGAGAAAACTTGGGT-AAAAAGCTTAATTCATGGTGAAAAATTCTATGCAATATCAATA
* * * *
10337 TATTGGTATTTATGTCAATAGCAGTGCTTCTTAGAACAAAAAAATATAGAAATTTTGAATTTATG
128 TATTGGTATTTATGTCAATAGAAGTGATTCCTAGAACAAAAAAATATAGAAATTTTGAATTTACG
* * *
10402 ACTTTCAAAAATATCCTTATTCATATGTTTGAGATCCATATCTATGAATTGAAAGGTCTGAATGA
193 ACTTTCAAAAATATCCCTATTCATAGGTTTGAGATCCATATCTATGAATTAAAAGGTCTGAATGA
* *
10467 TCAACTTTGCAATTAGTTGTTAAAATTAATAGGTCTTTAAGTCATTCATTTGAAAAAATTGAAAC
258 TCAACTTTGCAATTAGTTGTTAAAATTAATAGGTCTTTAAATCATTCATTTGAAAAAATTCAAAC
* * * * *
10532 CTTCTTATTGGATTATCATATTACTT-TTAAAAAT-AAAAATTTTGATCAATAAAGGAAGAATAT
323 CTTCTTACTAGATTATCATAATACTTCTCAAAAATAAAAAATTTTGATCAATAAAGGAAGAATAA
* * *
10595 CATTATTTTTGTTCAATAAGATACCAAAATGGATGATTGACTTATTCCATGA-TAGAAATAATCA
388 CATTATTTTTGTTCAATAAAATACCAAAATGGATGATTAACTCATTCCAT-ACTAGAAATAATCA
* * * *
10659 CAAGATATCTTTTGATAACACAGATTCCTATTTATTAATGATATCCCATGATTAAGACAATTGTC
452 CAAGATATCTTTTGATAACACAGATCCCTATTTATCAATGATATCCCACGATTAAGACAATTGCC
* * *
10724 TAAATCCTGTGAAACCATTTCATAGAAGTTCATTGATAATTTTTTTTTATAAAGCAAATTGATTT
517 TAAATCCCGTGAAACCATTTCATAGAAGTTCATTGATAACTTCTTTTTATAAAGCAAATTGATTT
*
10789 TGATTCTTGAATAATCCACATCACTTCTATTTCTAT
582 TGATTCTTGAATAATCCACATCACTTCTACTTCTAT
10825 TGTAA
1 TGTAA
10830 CGAAAGATTC
Statistics
Matches: 558, Mismatches: 60, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
617 275 0.49
618 38 0.07
619 239 0.43
620 6 0.01
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (617 bp):
TGTAAAAATGTTTGTTAAGGACCTCTTGTATGATTATAAAGTAATCCAAGGTCATTAAAAAGGTG
AAATTGAGAAAACTTGGGTAAAAAGCTTAATTCATGGTGAAAAATTCTATGCAATATCAATATAT
TGGTATTTATGTCAATAGAAGTGATTCCTAGAACAAAAAAATATAGAAATTTTGAATTTACGACT
TTCAAAAATATCCCTATTCATAGGTTTGAGATCCATATCTATGAATTAAAAGGTCTGAATGATCA
ACTTTGCAATTAGTTGTTAAAATTAATAGGTCTTTAAATCATTCATTTGAAAAAATTCAAACCTT
CTTACTAGATTATCATAATACTTCTCAAAAATAAAAAATTTTGATCAATAAAGGAAGAATAACAT
TATTTTTGTTCAATAAAATACCAAAATGGATGATTAACTCATTCCATACTAGAAATAATCACAAG
ATATCTTTTGATAACACAGATCCCTATTTATCAATGATATCCCACGATTAAGACAATTGCCTAAA
TCCCGTGAAACCATTTCATAGAAGTTCATTGATAACTTCTTTTTATAAAGCAAATTGATTTTGAT
TCTTGAATAATCCACATCACTTCTACTTCTAT
Found at i:11410 original size:19 final size:20
Alignment explanation
Indices: 11386--11438 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
11376 TGCTTTGTAA
*
11386 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGCTCAAT
* *
11405 TGTATCGATGCATACTCAAT
1 TGTATCGATACATGCTCAAT
11425 TGTATCGATACATG
1 TGTATCGATACATG
11439 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:13124 original size:3 final size:3
Alignment explanation
Indices: 13103--13143 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
13093 AACCATCAAA
* * *
13103 GAT GAT GAA GAT GAA GAT GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
13144 AGTTGACTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:16199 original size:13 final size:13
Alignment explanation
Indices: 16181--16210 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
16171 ACAATTCTTC
16181 ATGTATCGATACA
1 ATGTATCGATACA
16194 ATGTATCGATACA
1 ATGTATCGATACA
16207 ATGT
1 ATGT
16211 CTTACGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:16298 original size:19 final size:19
Alignment explanation
Indices: 16255--16310 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
16245 CTGCCAGTTT
16255 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
*
16275 TATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
16294 CATGTATCGATACAATG
1 CATGTATCGATACAATG
16311 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 20 0.59
20 14 0.41
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:16313 original size:13 final size:13
Alignment explanation
Indices: 16295--16321 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16285 TACAATGAGC
16295 ATGTATCGATACA
1 ATGTATCGATACA
16308 ATGTATCGATACA
1 ATGTATCGATACA
16321 A
1 A
16322 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:23327 original size:15 final size:15
Alignment explanation
Indices: 23309--23339 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23299 CGAGTCAATC
23309 TCATCATTATCATCA
1 TCATCATTATCATCA
*
23324 TCATCATTTTCATCA
1 TCATCATTATCATCA
23339 T
1 T
23340 ATTTAACGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:25049 original size:19 final size:20
Alignment explanation
Indices: 25006--25137 Score: 216
Period size: 19 Copynumber: 6.8 Consensus size: 20
24996 CTGCCAGTTT
25006 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
*
25026 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
25045 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
*
25065 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
25084 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
*
25104 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
25123 CATGTATCGATACAA
1 CATGTATCGATACAA
25138 AGCATAATGT
Statistics
Matches: 104, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
19 54 0.52
20 50 0.48
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:25148 original size:78 final size:78
Alignment explanation
Indices: 25006--25156 Score: 252
Period size: 78 Copynumber: 1.9 Consensus size: 78
24996 CTGCCAGTTT
*
25006 CATGTATCGATACAATTGAGTATGTATCGATACAATGAGCATGTATCGATACAATTGAGTATGTA
1 CATGTATCGATACAATTGAGTATGTATCGATACAATGAGCATGTATCGATACAATAGAGTATGTA
*
25071 TCGATACAATGAG
66 TCAATACAATGAG
25084 CATGTATCGATACAATTGAGTATGTATCGATACAATGAGCATGTATCGATACAA-AGCA-TAATG
1 CATGTATCGATACAATTGAGTATGTATCGATACAATGAGCATGTATCGATACAATAG-AGT-ATG
25147 TATCAATACA
64 TATCAATACA
25157 CCTAGGTGTA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
77 2 0.03
78 67 0.97
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (78 bp):
CATGTATCGATACAATTGAGTATGTATCGATACAATGAGCATGTATCGATACAATAGAGTATGTA
TCAATACAATGAG
Found at i:25156 original size:39 final size:39
Alignment explanation
Indices: 25006--25137 Score: 264
Period size: 39 Copynumber: 3.4 Consensus size: 39
24996 CTGCCAGTTT
25006 CATGTATCGATACAATTGAGTATGTATCGATACAATGAG
1 CATGTATCGATACAATTGAGTATGTATCGATACAATGAG
25045 CATGTATCGATACAATTGAGTATGTATCGATACAATGAG
1 CATGTATCGATACAATTGAGTATGTATCGATACAATGAG
25084 CATGTATCGATACAATTGAGTATGTATCGATACAATGAG
1 CATGTATCGATACAATTGAGTATGTATCGATACAATGAG
25123 CATGTATCGATACAA
1 CATGTATCGATACAA
25138 AGCATAATGT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (39 bp):
CATGTATCGATACAATTGAGTATGTATCGATACAATGAG
Found at i:25171 original size:59 final size:59
Alignment explanation
Indices: 25006--25175 Score: 166
Period size: 59 Copynumber: 2.9 Consensus size: 59
24996 CTGCCAGTTT
* * * * *
25006 CATGTATCGATACAATTGAGTATGTATCGATACAAT-GAGCATGTATCGATACAATTGAG
1 CATGTATCGATACAA-AGAGAATGTATCAATACAATAGAGTATATATCGATACAATTGAG
* * * * * *
25065 TATGTATCGATACAATGAGCATGTATCGATACAATTGAGTATGTATCGATACAA-TGAG
1 CATGTATCGATACAAAGAGAATGTATCAATACAATAGAGTATATATCGATACAATTGAG
* * *
25123 CATGTATCGATACAAAGCATAATGTATCAATACACCTAG-GTGTATATCGATAC
1 CATGTATCGATACAAAG-AGAATGTATCAATACA-ATAGAGTATATATCGATAC
25176 TTTCTAGGGT
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
58 38 0.40
59 56 0.58
60 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (59 bp):
CATGTATCGATACAAAGAGAATGTATCAATACAATAGAGTATATATCGATACAATTGAG
Found at i:26437 original size:79 final size:79
Alignment explanation
Indices: 26306--26537 Score: 392
Period size: 79 Copynumber: 2.9 Consensus size: 79
26296 TTTTGGAGAT
* *
26306 AATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
26371 AGTATCCCCTCGAA
66 AGTATCCCCTCGAA
*
26385 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
26450 AGTATCCCCTCGAA
66 AGTATCCCCTCGAA
* * * * *
26464 AATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAACCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
26529 AGTATCCCC
66 AGTATCCCC
26538 GATTGTGAAA
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 144 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
AGTATCCCCTCGAA
Found at i:26535 original size:51 final size:50
Alignment explanation
Indices: 26462--26587 Score: 211
Period size: 51 Copynumber: 2.5 Consensus size: 50
26452 TATCCCCTCG
*
26462 AAAAT-AA-CGGGATTGGAGTATCCCCGATTGTGAAAAATTAATATTTTA
1 AAAATAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTA
26510 AAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTA
1 AAAAT-AAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTA
*
26561 GAAATAAACCGGGGTTGGAGTATCCCC
1 AAAATAAACCGGGGTTGGAGTATCCCC
26588 TCGAAAATAA
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
48 5 0.07
50 24 0.33
51 44 0.60
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.28
Consensus pattern (50 bp):
AAAATAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTA
Found at i:26625 original size:129 final size:130
Alignment explanation
Indices: 26390--26666 Score: 448
Period size: 129 Copynumber: 2.1 Consensus size: 130
26380 TCGAAAATAA
** *
26390 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
*
26455 CCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAAC
66 CCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATATTTTAAAAATAAAAC
*
26520 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT-AAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
* * ** * *
26584 CCCCTCGAAAATAACGGGGTTGGAGTATCTCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
66 CCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATATTTTAAAAATAAAAC
26649 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
26667 TCAGAAATAA
Statistics
Matches: 136, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
129 94 0.69
130 42 0.31
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATATTTTAAAAATAAAAC
Found at i:26649 original size:208 final size:209
Alignment explanation
Indices: 26311--26745 Score: 739
Period size: 208 Copynumber: 2.1 Consensus size: 209
26301 GAGATAATAA
* * *
26311 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
26376 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
66 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
* *
26441 CGGGGTTGGAGTATCCCCTC-GAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTAATA
131 CGGGGTTGGAGTATCCCCTCAG-AAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTAATA
26505 TTTTAAAAATAAAAC
195 TTTTAAAAATAAAAC
* *
26520 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT-AAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
*
26584 CCCCTCGAAAATAACGGGGTTGGAGTATCTCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
66 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
* *
26649 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTGATGT
131 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTAATAT
* *
26714 TTTAGAAATAAAGC
196 TTTAAAAATAAAAC
26728 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
26746 TCGAAAATAA
Statistics
Matches: 213, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
208 170 0.80
209 43 0.20
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (209 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
CGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTAATAT
TTTAAAAATAAAAC
Found at i:26690 original size:79 final size:79
Alignment explanation
Indices: 26520--27024 Score: 852
Period size: 79 Copynumber: 6.4 Consensus size: 79
26510 AAAATAAAAC
26520 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT-AAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
26584 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * ** *
26598 CGGGGTTGGAGTATCTCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
26663 CCCCTC-AGAAATAA
66 CCCCTCGA-AAATAA
* * * * * *
26677 CGGGATTGGAGTATCCCAGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
26742 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
26756 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
26821 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * *
26835 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
*
26900 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
26914 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
26979 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
26993 CGGGGTTGGAGTATCCCCGATTGTGAAAAATT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATT
27025 GAGAAACTTA
Statistics
Matches: 400, Mismatches: 24, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
78 42 0.10
79 357 0.89
80 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:26822 original size:287 final size:287
Alignment explanation
Indices: 26306--26824 Score: 932
Period size: 287 Copynumber: 1.8 Consensus size: 287
26296 TTTTGGAGAT
26306 AATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGG
1 AATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGG
* * *
26371 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAAT
66 AGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTGATGTTTTAGAAAT
26436 AAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATT
131 AAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATT
26501 AATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT
196 AATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT
26566 AAACCGGGGTTGGAGTATCCCCTCGAA
261 AAACCGGGGTTGGAGTATCCCCTCGAA
* * * *
26593 AATAACGGGGTTGGAGTATCTCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGG
1 AATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGG
26658 AGTATCCCCTC-AGAAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTGATGTTTTAGAAA
66 AGTATCCCCTCGA-AAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTGATGTTTTAGAAA
* *
26722 TAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAT
130 TAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAAT
*
26787 TAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
195 TAATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCC
26825 TCGAAAATAA
Statistics
Matches: 221, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
286 1 0.00
287 220 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (287 bp):
AATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGG
AGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTGATGTTTTAGAAAT
AAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATT
AATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT
AAACCGGGGTTGGAGTATCCCCTCGAA
Found at i:28020 original size:18 final size:18
Alignment explanation
Indices: 27946--28020 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 18
27936 AATTGCTACC
* *
27946 TGCTGAAGTTGCTGCTCT
1 TGCTGGAGTTGCTGCTGT
* * * *
27964 CGCTGGAGCTGCTGTTGCG
1 TGCTGGAGTTGCTGCTG-T
*
27983 TGCTGGAGTTGCAG-TCGT
1 TGCTGGAGTTGCTGCT-GT
28001 TGCTGGAGTTGCTGCTGT
1 TGCTGGAGTTGCTGCTGT
28019 TG
1 TG
28021 TTGCATGCTG
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
18 30 0.70
19 13 0.30
ACGTcount: A:0.08, C:0.20, G:0.37, T:0.35
Consensus pattern (18 bp):
TGCTGGAGTTGCTGCTGT
Found at i:28077 original size:47 final size:43
Alignment explanation
Indices: 27971--28069 Score: 126
Period size: 43 Copynumber: 2.2 Consensus size: 43
27961 TCTCGCTGGA
* * *
27971 GCTGCTGTTGCGTGCTGGAGTTGCAGTCGTTGCTGGAGTTGCT
1 GCTGTTGTTGCATGCTGGAGTTGCAGTCGTTGCTGGAGCTGCT
*
28014 GCTGTTGTTGCATGCTGGAGTTGCAGTCGTTGGCTACTGGAGCTGTT
1 GCTGTTGTTGCATGCTGGAGTTGCAGTCGTT-G---CTGGAGCTGCT
28061 GCTGTTGTT
1 GCTGTTGTT
28070 TTTTGCTGCT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
43 29 0.60
44 1 0.02
47 18 0.38
ACGTcount: A:0.08, C:0.17, G:0.37, T:0.37
Consensus pattern (43 bp):
GCTGTTGTTGCATGCTGGAGTTGCAGTCGTTGCTGGAGCTGCT
Found at i:28634 original size:50 final size:50
Alignment explanation
Indices: 28574--28736 Score: 265
Period size: 50 Copynumber: 3.3 Consensus size: 50
28564 GCTTTTTTCA
*
28574 TTTCCCATGCATGTCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
* * * *
28624 TTTCCCATGCATGCCTCCGCATGCTTTGTCTCCAATTGCAA-TTTTGTGT
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
*
28673 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATCTTTATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
28723 TTTCCCATGCATGC
1 TTTCCCATGCATGC
28737 ATTTTCTATT
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 45 0.44
50 57 0.56
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.42
Consensus pattern (50 bp):
TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
Found at i:28893 original size:6 final size:6
Alignment explanation
Indices: 28859--28885 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
28849 ATTATTATTT
28859 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1 TTTGAA TTTGAA TTTGAA TTTGAA TTT
28886 TTAATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGAA
Found at i:31442 original size:13 final size:13
Alignment explanation
Indices: 31424--31458 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
31414 TGTTCTAAGT
31424 ATCGATACATTGC
1 ATCGATACATTGC
* *
31437 ATCGATACCTTGT
1 ATCGATACATTGC
31450 ATCGATACA
1 ATCGATACA
31459 AGGTTACTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (13 bp):
ATCGATACATTGC
Found at i:33986 original size:33 final size:32
Alignment explanation
Indices: 33944--34008 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
33934 ACATATCCAG
*
33944 ATGTATCGATACAT-TATGCTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
*
33977 ATGTATCGATATATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTTCATTGTATCGATACA
34009 TGAAACTGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:34129 original size:20 final size:20
Alignment explanation
Indices: 34104--34158 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
34094 TCAAATGCAT
34104 GTATCGATACATGGTGAAAA
1 GTATCGATACATGGTGAAAA
**
34124 GTATCGATACATTATGAAAA
1 GTATCGATACATGGTGAAAA
34144 GTATCGATACATGGT
1 GTATCGATACATGGT
34159 AACAGGAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (20 bp):
GTATCGATACATGGTGAAAA
Found at i:35948 original size:14 final size:14
Alignment explanation
Indices: 35929--35958 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35919 CTTAAAGGAC
35929 ATGAAAATGAAGCT
1 ATGAAAATGAAGCT
*
35943 ATGAAAGTGAAGCT
1 ATGAAAATGAAGCT
35957 AT
1 AT
35959 CCTAAATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.23, T:0.23
Consensus pattern (14 bp):
ATGAAAATGAAGCT
Found at i:38558 original size:5 final size:5
Alignment explanation
Indices: 38548--38572 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
38538 TGAAACTAGT
38548 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
38573 AGAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:38578 original size:11 final size:11
Alignment explanation
Indices: 38549--38590 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
38539 GAAACTAGTT
38549 AAAATAAAAT-
1 AAAATAAAATA
38559 AAAATAAAATA
1 AAAATAAAATA
* *
38570 AAAAGAAAATT
1 AAAATAAAATA
*
38581 AAAATTAAAT
1 AAAATAAAAT
38591 TTGAAATTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:38584 original size:6 final size:6
Alignment explanation
Indices: 38547--38618 Score: 53
Period size: 6 Copynumber: 12.7 Consensus size: 6
38537 ATGAAACTAG
** *
38547 TTAAAA -TAAAA -TAAAA -TAAAA -TAAAA AGAAAA TTAAAA TTAAAT
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
* * * *
38591 TTGAAA TTGAAA TTGAAA TTGAAA TTAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAA
38619 TAATCATAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
5 20 0.34
6 38 0.66
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (6 bp):
TTAAAA
Found at i:38597 original size:18 final size:18
Alignment explanation
Indices: 38576--38618 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
38566 AATAAAAAGA
38576 AAATTAAAATT-AAATTTG
1 AAATTAAAATTGAAA-TTG
*
38594 AAATTGAAATTGAAATTG
1 AAATTAAAATTGAAATTG
38612 AAATTAA
1 AAATTAA
38619 TAATCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (18 bp):
AAATTAAAATTGAAATTG
Found at i:39747 original size:15 final size:15
Alignment explanation
Indices: 39727--39756 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39717 AGTTGATTGT
39727 TTATTATTAGTTTTA
1 TTATTATTAGTTTTA
*
39742 TTATTATTATTTTTA
1 TTATTATTAGTTTTA
39757 GCTTTCTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTATTATTAGTTTTA
Found at i:44555 original size:153 final size:153
Alignment explanation
Indices: 44305--44802 Score: 395
Period size: 153 Copynumber: 3.2 Consensus size: 153
44295 AAGGTTACCA
* * * * *
44305 GATACTTTCACATCGAAAG-CATACC-TAAGGGCATTTTGGTAATTTTATTAGAATCGAATCTTA
1 GATACTTTCATATC-AAAGATATACCTTAAGGGCATTTTGGTAATTTT-TTAAAATTGAGTCTTA
* * * * ** * *
44368 GGTAGTCACTGAGTCGCTTTTATATTAAAGGTGTGCATTTAGAATAGGTTCATCGTTTTCTTAT-
64 AGTAGTCACTGAGTCGCTTTTATATCAAAAGTGTGCATTTAGAATAAGTTCATCCATTTATGATC
44432 TTTTTGGTGTCTTTTAAGGTTATCGG
129 TTTTT-GTGTCTTTTAAGGTTATCGG
* * *
44458 GATACTTTCGTGTCAAAGATATA-CTGTAAGGGCATTTTGGTAATTTTTTAAAATTGAGTTTTAA
1 GATACTTTCATATCAAAGATATACCT-TAAGGGCATTTTGGTAATTTTTTAAAATTGAGTCTTAA
* * * ** * * *
44522 GTAGTTATTGGGTCTTTTTTATGTCAAAAGTGTGCATTTAGGATAAGTTTATCCATTTATGATCT
65 GTAGTCACTGAGTCGCTTTTATATCAAAAGTGTGCATTTAGAATAAGTTCATCCATTTATGATCT
*
44587 TTTTGTGTCTTTTAAGGTTATTGG
130 TTTTGTGTCTTTTAAGGTTATCGG
* * * * ** *
44611 GATATTTTCATATCGAAGATATACCTTAAGGGTATGTTAATAATTTCTCTAAAATTGAGTCTT-A
1 GATACTTTCATATCAAAGATATACCTTAAGGGCATTTTGGTAATTT-TTTAAAATTGAGTCTTAA
* ** * * * * * *
44675 GATAATCACTGAGTTC-C-TTTATGCCAAAAGTGTGCGTTTAGTATAGGTTCA-CTCTTTTACGT
65 G-TAGTCACTGAG-TCGCTTTTATATCAAAAGTGTGCATTTAGAATAAGTTCATC-CATTTATGA
* * * *
44737 TCATTTTAGAGT-TTTTTAGAGTTATCGA
127 TC-TTTTTGTGTCTTTTAAG-GTTATCGG
* **
44765 GATACTTTCATATCGAAAG-CATACCTCGAGGGCATTTT
1 GATACTTTCATATC-AAAGATATACCTTAAGGGCATTTT
44803 TAGAATTTTG
Statistics
Matches: 273, Mismatches: 60, Indels: 23
0.77 0.17 0.06
Matches are distributed among these distances:
152 6 0.02
153 173 0.63
154 89 0.33
155 5 0.02
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (153 bp):
GATACTTTCATATCAAAGATATACCTTAAGGGCATTTTGGTAATTTTTTAAAATTGAGTCTTAAG
TAGTCACTGAGTCGCTTTTATATCAAAAGTGTGCATTTAGAATAAGTTCATCCATTTATGATCTT
TTTGTGTCTTTTAAGGTTATCGG
Found at i:45080 original size:25 final size:25
Alignment explanation
Indices: 45052--45100 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
45042 TTCTTCAAAA
45052 TGGGAATTTCAAATTTCATGAAACG
1 TGGGAATTTCAAATTTCATGAAACG
45077 TGGGAATTTCAAATTTCATGAAAC
1 TGGGAATTTCAAATTTCATGAAAC
45101 AAAACCTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (25 bp):
TGGGAATTTCAAATTTCATGAAACG
Found at i:54554 original size:97 final size:97
Alignment explanation
Indices: 54386--54650 Score: 354
Period size: 97 Copynumber: 2.7 Consensus size: 97
54376 TTTAATTTTT
* * ** * * * *
54386 AGTTAAAAAACGAGGTTGGAGTAT-CCCTCGGAGGAATGGGGTTAGAGTATTCCT-GATGATGAT
1 AGTTTAAAAACAAGGTTGGAGTATCCCCTAAGAAGAATGGGGTTGGAGTA-TCCTCGATGATAAA
*
54449 AATTTAAGCAAAAATAAGGTTTAAATATAGATG
65 AATTTAAGCAAAAATAAGATTTAAATATAGATG
* *
54482 AGTTTAAAAATAAGGTTGGAGTATCCCCTAAGAAGAATGGGGTTGGAGTACCCTCGATGATAAAA
1 AGTTTAAAAACAAGGTTGGAGTATCCCCTAAGAAGAATGGGGTTGGAGTATCCTCGATGATAAAA
* *
54547 ATTTAAGCAAAAATGAGATTTAAATCTAGATG
66 ATTTAAGCAAAAATAAGATTTAAATATAGATG
* * *
54579 AGTTTAAAAACAGGGTTGGAGTTTCCCCTTAGAAGAATGGGGTTGGAGTATCCTCGATGATAAAA
1 AGTTTAAAAACAAGGTTGGAGTATCCCCTAAGAAGAATGGGGTTGGAGTATCCTCGATGAT-AAA
54644 AATTTAA
65 AATTTAA
54651 TACTTTTTTT
Statistics
Matches: 148, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
96 24 0.16
97 114 0.77
98 10 0.07
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (97 bp):
AGTTTAAAAACAAGGTTGGAGTATCCCCTAAGAAGAATGGGGTTGGAGTATCCTCGATGATAAAA
ATTTAAGCAAAAATAAGATTTAAATATAGATG
Found at i:57170 original size:20 final size:21
Alignment explanation
Indices: 57142--57196 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
57132 ATGTTTTAGG
57142 TATGTATCGATACATTCACT-
1 TATGTATCGATACATTCACTA
* * *
57162 TATGCATCGATATATTTACTA
1 TATGTATCGATACATTCACTA
*
57183 TTTGTATCGATACA
1 TATGTATCGATACA
57197 AATTGTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (21 bp):
TATGTATCGATACATTCACTA
Found at i:57951 original size:52 final size:53
Alignment explanation
Indices: 57866--58215 Score: 272
Period size: 52 Copynumber: 6.8 Consensus size: 53
57856 ACGAGAAGAG
* * * *
57866 TGCCAATGAGCTGATTCAAGGCCAA-TGATATTGGACTTGAAGATAAGAAAAA
1 TGCCAATGTGCTGATTCAAGGCCAAGCGACATTGGACTTAAAGATAAGAAAAA
* * *
57918 TGCCAATGTGCTGATTCAAGGCCAAG-GACATTGGGCTTAAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAAGCGACATTGGACTTAAAGATAAGAAAAA
* * * ** * * ***
57970 TGCTAATGTGCTAATTTAAGGCCAA-CGACATTGGACTTAAACTTGATAATGG
1 TGCCAATGTGCTGATTCAAGGCCAAGCGACATTGGACTTAAAGATAAGAAAAA
* * * * *
58022 TGCTAATGTGTTGATTCAAGGCC-AGCAACATTAGG-CTTAAA-A-ATGATAAAG
1 TGCCAATGTGCTGATTCAAGGCCAAGCGACATT-GGACTTAAAGATAAGA-AAAA
* * * * * * * *
58073 GGCCAATATGCTGATTCAAGG-CTAGCGACATTAGATTTAAAGATGATAAAAG
1 TGCCAATGTGCTGATTCAAGGCCAAGCGACATTGGACTTAAAGATAAGAAAAA
* *
58125 TGCCAATGTGCTGATTCAAGGCC-AGTGACATTGGACTTAAAGATGAA-AAGAA
1 TGCCAATGTGCTGATTCAAGGCCAAGCGACATTGGACTTAAAGAT-AAGAAAAA
* * * *
58177 TACCAATGTGTTGATTCAAGGCC-AGCAACATTAGACTTA
1 TGCCAATGTGCTGATTCAAGGCCAAGCGACATTGGACTTA
58216 GAAAGAGATG
Statistics
Matches: 238, Mismatches: 49, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
50 3 0.01
51 33 0.14
52 197 0.83
53 5 0.02
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (53 bp):
TGCCAATGTGCTGATTCAAGGCCAAGCGACATTGGACTTAAAGATAAGAAAAA
Found at i:58201 original size:155 final size:155
Alignment explanation
Indices: 57919--58215 Score: 384
Period size: 155 Copynumber: 1.9 Consensus size: 155
57909 TAAGAAAAAT
* * * *
57919 GCCAATGTGCTGATTCAAGGCCAAGGACATTGGGCTTAAAGATGAGAAGAATGCTAATGTGCTAA
1 GCCAATATGCTGATTCAAGGCCAAGGACATTAGACTTAAAGATGAGAAGAATGCCAATGTGCTAA
* * * * * *
57984 TTTAAGGCCAACGACATTGGACTTAAACTTGATAATGGTGCTAATGTGTTGATTCAAGGCCAGCA
66 TTCAAGGCCAACGACATTGGACTTAAACATGATAAAGATACCAATGTGTTGATTCAAGGCCAGCA
*
58049 ACATTAGGCTTAAAAATGATAAAGG
131 ACATTAGACTTAAAAATGATAAAGG
* * *
58074 GCCAATATGCTGATTCAAGG-CTAGCGACATTAGATTTAAAGATGATAA-AAGTGCCAATGTGCT
1 GCCAATATGCTGATTCAAGGCCAAG-GACATTAGACTTAAAGATGAGAAGAA-TGCCAATGTGCT
* ** *
58137 GATTCAAGGCCAGTGACATTGGACTTAAAGATGA-AAAGAATACCAATGTGTTGATTCAAGGCCA
64 AATTCAAGGCCAACGACATTGGACTTAAACATGATAAAG-ATACCAATGTGTTGATTCAAGGCCA
58201 GCAACATTAGACTTA
128 GCAACATTAGACTTA
58216 GAAAGAGATG
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
154 8 0.07
155 113 0.93
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (155 bp):
GCCAATATGCTGATTCAAGGCCAAGGACATTAGACTTAAAGATGAGAAGAATGCCAATGTGCTAA
TTCAAGGCCAACGACATTGGACTTAAACATGATAAAGATACCAATGTGTTGATTCAAGGCCAGCA
ACATTAGACTTAAAAATGATAAAGG
Found at i:58357 original size:33 final size:34
Alignment explanation
Indices: 58283--58376 Score: 117
Period size: 32 Copynumber: 2.9 Consensus size: 34
58273 TAAAAGGAGA
* *
58283 TGCCACCAACTTGTGTGGGCTTTT--AAGAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGT
**
58315 TGCCACCAACTCATGTGGGCTTTTGAAAAAAGG-
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGT
58348 TGCCACCAACTTGTGTGGGC--TTGAAAAAA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAAA
58377 AAAGATGCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
31 9 0.17
32 22 0.41
33 18 0.33
34 5 0.09
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (34 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGT
Found at i:58377 original size:33 final size:31
Alignment explanation
Indices: 58283--58395 Score: 91
Period size: 34 Copynumber: 3.5 Consensus size: 31
58273 TAAAAGGAGA
** * *
58283 TGCCACCAACTTGTGTGGGCTTTTAAGAGGG
1 TGCCACCAACTTGTGTGGGCTTAAAAAAAGG
** *
58314 TTGCCACCAACTCATGTGGGCTTTTGAAAAAAGG
1 -TGCCACCAACTTGTGTGGGC--TTAAAAAAAGG
*
58348 TGCCACCAACTTGTGTGGGCTTGAAAAAAAAAGA
1 TGCCACCAACTTGTGTGGGCTT---AAAAAAAGG
*
58382 TGCCACTAACTTGT
1 TGCCACCAACTTGT
58396 AAAGGATGCC
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
31 2 0.03
32 18 0.28
33 18 0.28
34 27 0.42
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTAAAAAAAGG
Found at i:58438 original size:31 final size:29
Alignment explanation
Indices: 58400--58461 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 29
58390 ACTTGTAAAG
*
58400 GATGCCACC-GACTTGTATGGGCTTTGAAAAA
1 GATGCCACCAG-CTTATATGGGC-TT-AAAAA
58431 GATGCCACCAGCTTATATGGGCTTAAAAA
1 GATGCCACCAGCTTATATGGGCTTAAAAA
58460 GA
1 GA
58462 GGTCACCACC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 7 0.24
30 2 0.07
31 19 0.66
32 1 0.03
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (29 bp):
GATGCCACCAGCTTATATGGGCTTAAAAA
Found at i:59073 original size:14 final size:14
Alignment explanation
Indices: 59050--59101 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
59040 ATGGTAATGT
59050 GAATGCATGATATG
1 GAATGCATGATATG
* *
59064 GAATGTATGATGTG
1 GAATGCATGATATG
* *
59078 GAATGCATGATGTT
1 GAATGCATGATATG
59092 GAATGCATGA
1 GAATGCATGA
59102 CATGAAGTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.33, C:0.06, G:0.31, T:0.31
Consensus pattern (14 bp):
GAATGCATGATATG
Found at i:59095 original size:28 final size:27
Alignment explanation
Indices: 59046--59101 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
59036 TGTGATGGTA
*
59046 ATGTGAATGCATGATATGGAATGTATG
1 ATGTGAATGCATGATATGGAATGCATG
* *
59073 ATGTGGAATGCATGATGTTGAATGCATG
1 ATGT-GAATGCATGATATGGAATGCATG
59101 A
1 A
59102 CATGAAGTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.32
Consensus pattern (27 bp):
ATGTGAATGCATGATATGGAATGCATG
Found at i:59839 original size:25 final size:29
Alignment explanation
Indices: 59806--59862 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 29
59796 TAATAAGTAG
*
59806 AAATCAAAAATTAA-A-AAAT-ATATAAA
1 AAATCAAAAATTAATAGAAATCAAATAAA
59832 AAAT-AAAAATTAATAGAAATCAAATAAA
1 AAATCAAAAATTAATAGAAATCAAATAAA
59860 AAA
1 AAA
59863 AACATCATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 9 0.33
26 5 0.19
27 4 0.15
28 9 0.33
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (29 bp):
AAATCAAAAATTAATAGAAATCAAATAAA
Found at i:59864 original size:42 final size:42
Alignment explanation
Indices: 59783--59864 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
59773 GATTTATTCG
* * *
59783 ATATAAAATATAATAATAAGTAGAAATCAAAAATTAAAAAAT
1 ATATAAAAAATAAAAATAAGTAGAAATCAAAAATAAAAAAAT
*
59825 ATATAAAAAATAAAAATTAA-TAGAAATCAAATA-AAAAAAA
1 ATATAAAAAATAAAAA-TAAGTAGAAATCAAAAATAAAAAAA
59865 CATCATGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 6 0.17
42 26 0.74
43 3 0.09
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (42 bp):
ATATAAAAAATAAAAATAAGTAGAAATCAAAAATAAAAAAAT
Found at i:60686 original size:82 final size:82
Alignment explanation
Indices: 60410--60663 Score: 359
Period size: 82 Copynumber: 3.1 Consensus size: 82
60400 CAATCGAAAA
* * * *
60410 CTCCAGTAGCTTCAAGCAGCAGCGGCATCCATCAATACCGGTA-CTAGCTCGAGCCTCTTCCAGC
1 CTCCAGCAGCTTCAGGCAGCAGCAGCATCCATCAATACCGGTAGC-AGCTCGAGCCTTTTCCAGC
* *
60474 CCACGAACATGGCAACAA
65 CCACGAACATGGCAGCAG
* * *
60492 CTCTAGCAGCTTCAGGCAACAGCAGCATCCATCAATACCCGTAGCAGCTCGAGCCTTTTCCAGCC
1 CTCCAGCAGCTTCAGGCAGCAGCAGCATCCATCAATACCGGTAGCAGCTCGAGCCTTTTCCAGCC
*
60557 CATGAACATGGCAGCAG
66 CACGAACATGGCAGCAG
* * *
60574 CTCCAGCAGCTTCAGGCAGCAGCAGCATCCATCAATACCGGCAGCAG-TGAGAGCCTTTTCCATC
1 CTCCAGCAGCTTCAGGCAGCAGCAGCATCCATCAATACCGGTAGCAGCT-CGAGCCTTTTCCAGC
60638 CCACGAACATGGCAGCAG
65 CCACGAACATGGCAGCAG
60656 CTCCAGCA
1 CTCCAGCA
60664 ATTTCCAGTA
Statistics
Matches: 153, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
81 1 0.01
82 151 0.99
83 1 0.01
ACGTcount: A:0.27, C:0.35, G:0.21, T:0.17
Consensus pattern (82 bp):
CTCCAGCAGCTTCAGGCAGCAGCAGCATCCATCAATACCGGTAGCAGCTCGAGCCTTTTCCAGCC
CACGAACATGGCAGCAG
Found at i:73211 original size:19 final size:19
Alignment explanation
Indices: 73187--73254 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
73177 AATTCAACAA
73187 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
73206 TTTGTATCGATAC---A--
1 TTTGTATCGATACATAAGT
73220 -TTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
73238 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
73255 TTAGCTATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 12 0.28
16 2 0.05
19 29 0.67
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:73224 original size:32 final size:32
Alignment explanation
Indices: 73188--73252 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
73178 ATTCAACAAT
*
73188 TTGTATCGATACATAAGTTTTGTATCGATACA
1 TTGTATCGATACATAAGTATTGTATCGATACA
73220 TTGTATCGATACATAAGTATTGTATCGATACA
1 TTGTATCGATACATAAGTATTGTATCGATACA
73252 T
1 T
73253 AATTAGCTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.40
Consensus pattern (32 bp):
TTGTATCGATACATAAGTATTGTATCGATACA
Found at i:73225 original size:13 final size:13
Alignment explanation
Indices: 73207--73233 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
73197 TACATAAGTT
73207 TTGTATCGATACA
1 TTGTATCGATACA
73220 TTGTATCGATACA
1 TTGTATCGATACA
73233 T
1 T
73234 AAGTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:73312 original size:13 final size:13
Alignment explanation
Indices: 73294--73319 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73284 CATTTTTCTG
73294 TGTATCGATACAT
1 TGTATCGATACAT
73307 TGTATCGATACAT
1 TGTATCGATACAT
73320 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:73316 original size:33 final size:33
Alignment explanation
Indices: 73274--73340 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
73264 GCCAAGGAAA
***
73274 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
73307 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
73340 T
1 T
73341 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:75739 original size:79 final size:78
Alignment explanation
Indices: 75644--75847 Score: 248
Period size: 79 Copynumber: 2.6 Consensus size: 78
75634 CGTTAATCAT
*
75644 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGGCTTTATTCCCAA-AATA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGACTTTATTCCCAATAAT-
* *
75708 CTGATTTCTCATAAT
65 C-GATTTCTCACAAC
* * * * * * * *
75723 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTCTAATCATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGACTTTATTCCCAATAATC
75788 GATTTCTCACAAC
66 GATTTCTCACAAC
* * * *
75801 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCTAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCG
75848 TTATTATCTC
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
78 51 0.48
79 53 0.50
80 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGACTTTATTCCCAATAATC
GATTTCTCACAAC
Found at i:79594 original size:20 final size:20
Alignment explanation
Indices: 79569--79702 Score: 105
Period size: 20 Copynumber: 6.8 Consensus size: 20
79559 AAAATGCTTG
*
79569 AATGTATCGATACATTGTTA
1 AATGTATCGATACATTGTAA
79589 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
* *
79609 AATGTATCGATA-AATG-AGC
1 AATGTATCGATACATTGTA-A
* * *
79628 AATGTATCGATAGAATG-AGC
1 AATGTATCGATACATTGTA-A
* * *
79648 AATGTATCGATACA-AGGAGC
1 AATGTATCGATACATTGTA-A
* * *
79668 AATGTATCGATATAATGCAA
1 AATGTATCGATACATTGTAA
79688 AATGTATCGATACAT
1 AATGTATCGATACAT
79703 CTGGGTAAAC
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
18 1 0.01
19 16 0.16
20 80 0.81
21 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATTGTAA
Found at i:79678 original size:40 final size:40
Alignment explanation
Indices: 79589--79701 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
79579 TACATTGTTA
* * * *
79589 AATGTATCGATACATTGTAAAATGTATCGATA-AATGAGC
1 AATGTATCGATAGAATGCAAAATGTATCGATACAAGGAGC
*
79628 AATGTATCGATAGAATG-AGCAATGTATCGATACAAGGAGC
1 AATGTATCGATAGAATGCA-AAATGTATCGATACAAGGAGC
*
79668 AATGTATCGATATAATGCAAAATGTATCGATACA
1 AATGTATCGATAGAATGCAAAATGTATCGATACA
79702 TCTGGGTAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
38 1 0.02
39 27 0.42
40 36 0.55
41 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (40 bp):
AATGTATCGATAGAATGCAAAATGTATCGATACAAGGAGC
Found at i:80480 original size:38 final size:38
Alignment explanation
Indices: 80431--80510 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
80421 AGGATAAAGG
* * * *
80431 AAAAAAGGAAAACGAAATGCGTCCTGCTCTTTGAGGAA
1 AAAAAAAGAAAAAGAAATACGTCATGCTCTTTGAGGAA
*
80469 AAAAAAAGAAAAAGAAATACGTCATGCTCTTTGAGGAC
1 AAAAAAAGAAAAAGAAATACGTCATGCTCTTTGAGGAA
80507 AAAA
1 AAAA
80511 GGGAAAAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.17
Consensus pattern (38 bp):
AAAAAAAGAAAAAGAAATACGTCATGCTCTTTGAGGAA
Found at i:80661 original size:61 final size:61
Alignment explanation
Indices: 80558--80796 Score: 298
Period size: 61 Copynumber: 4.0 Consensus size: 61
80548 GGACAAAGGA
** * * * *
80558 GAAAATGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCATCAACTCGTGTGAGCTTT
1 GAAAA-GAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
80620 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
80681 GCAAAGAGAAA-GCATCCTGCTCTTTGAAGACGGGAA-GTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGA-AAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
80741 ------AAAAGGCAGTCCTGCTCTTTGAGGACT-GAAGGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGGCA-TCCTGCTCTTTGAGGACTGGAA-GGTGCCACCAACTTGTGTGGGCTTT
80797 AAAGACGTCT
Statistics
Matches: 161, Mismatches: 11, Indels: 16
0.86 0.06 0.09
Matches are distributed among these distances:
53 3 0.02
54 7 0.04
55 16 0.10
56 24 0.15
60 24 0.15
61 79 0.49
62 8 0.05
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (61 bp):
GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:80891 original size:149 final size:154
Alignment explanation
Indices: 80683--80983 Score: 407
Period size: 149 Copynumber: 2.0 Consensus size: 154
80673 TGGGCTTTGC
**
80683 AAAGAGAAAGCATCCTGCTCTTTGAAGACGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G-
1 AAAGAGAAAGCATCCTGCTCTTTGAAGACAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * ***
80746 G-CAG-TCCTGCTCTTTGAGGACT-GAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAGACGTCT
66 GAAAGATCCTACTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGACGTCT
*
80807 TGCTCTTTGAGGACTAAAGGGCGA
131 TGCTCTTTAAGGACTAAAGGGCGA
* * *
80831 AAAGAGAGAGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAAGAGAAAGCATCCTGCTCTTTGAAGAC-AAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
80896 AGAAAGCATCCTACTTTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGT
65 AGAAAG-ATCCTACTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGACGT
*
80961 CTTGCTCTTTAAGGACTGAAGGG
129 CTTGCTCTTTAAGGACTAAAGGG
80984 TGCCACCAAC
Statistics
Matches: 130, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
148 26 0.20
149 31 0.24
150 1 0.01
151 1 0.01
152 2 0.02
154 16 0.12
155 25 0.19
156 28 0.22
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (154 bp):
AAAGAGAAAGCATCCTGCTCTTTGAAGACAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
GAAAGATCCTACTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGACGTCT
TGCTCTTTAAGGACTAAAGGGCGA
Found at i:81027 original size:210 final size:208
Alignment explanation
Indices: 80634--81166 Score: 831
Period size: 210 Copynumber: 2.5 Consensus size: 208
80624 AGAAAAGGCA
* *
80634 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA-GAGAAAGCATCC
1 TCCTGCTCTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAAGCATCC
* ** * * *
80698 TGCTCTTTGAAGAC-GGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCAGTCCTGCTCTTTG
64 T-CTTTTTGAAGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCAGTCCTGCTCTTTA
80762 AGGACTGAAGGGTGCCACCAACTTGTGTGGGCTTTAAAGACGTCTTGCTCTTTGAGGACTAAAGG
128 AGGACTGAAGGGTGCCACCAACTTGTGTGGGCTTTAAAGACGTCTTGCTCTTTGAGGACTAAAGG
80827 GCGAAAAGAGAGAGCG
193 GCGAAAAGAGAGAGCG
80843 TCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCCT
1 TCCTGCTCTTTGAGGACT-AGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCCT
* * *
80908 ACTTTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC-GTCTTGCTCTTTA
65 -CTTTTTGAAGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCAGTCCTGCTCTTTA
80972 AGGACTGAAGGGTGCCACCAACTTGTGTGGGCTTTAAA-AGCGTCTTGCTCTTTGAGGACTAAAG
128 AGGACTGAAGGGTGCCACCAACTTGTGTGGGCTTTAAAGA-CGTCTTGCTCTTTGAGGACTAAAG
*
81036 GGCGAAAGGAGAGAGCG
192 GGCGAAAAGAGAGAGCG
81053 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCCT
1 TCCTGCTCTTTGAGGACTAG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCCT
* *
81118 GTTCTTTGACGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
65 CTT-TTTGAAGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
81167 AAAAGGCAAC
Statistics
Matches: 301, Mismatches: 16, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
208 3 0.01
209 104 0.35
210 163 0.54
211 31 0.10
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (208 bp):
TCCTGCTCTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCCTC
TTTTTGAAGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCAGTCCTGCTCTTTAAGG
ACTGAAGGGTGCCACCAACTTGTGTGGGCTTTAAAGACGTCTTGCTCTTTGAGGACTAAAGGGCG
AAAAGAGAGAGCG
Found at i:81037 original size:54 final size:55
Alignment explanation
Indices: 80839--81037 Score: 186
Period size: 54 Copynumber: 3.5 Consensus size: 55
80829 GAAAAGAGAG
* * *
80839 AGCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
1 AGCGTCTTGCTCTTTAAGGACTAAAG-GGTGCCACCAACTTGTGTGGGCTTT-----GA-AA
* * * * * ***
80900 AGCATCCTACTTTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAA
1 AGCGTCTTGCTCTTTAAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTGAAA
* *
80956 GGCGTCTTGCTCTTTAAGGACTGAAGGGTGCCACCAACTTGTGTGGGCTTT-AAA
1 AGCGTCTTGCTCTTTAAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAA
*
81010 AGCGTCTTGCTCTTTGAGGACTAAAGGG
1 AGCGTCTTGCTCTTTAAGGACTAAAGGG
81038 CGAAAGGAGA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
54 28 0.24
55 25 0.21
56 18 0.15
57 2 0.02
61 19 0.16
62 24 0.20
63 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (55 bp):
AGCGTCTTGCTCTTTAAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAA
Found at i:81142 original size:61 final size:61
Alignment explanation
Indices: 81040--81198 Score: 196
Period size: 61 Copynumber: 2.6 Consensus size: 61
81030 CTAAAGGGCG
* * * *
81040 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAGAAAGCATCCTGCTCTTTGACGACTAGAAAATGCCACCAACTTGTGTGGGCTTTA
* *
81101 AAAGGAGAAAGCATCCTGTTCTTTGACGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTG
1 AAAGGAGAAAGCATCCTGCTCTTTGACGACTAG-AAAATGCCACCAACTTGTGTGGGCTTTA
* * * *
81162 AAAGGA-AAAGGCAACCTGCTTTTTGAGGACAAGAAAA
1 AAAGGAGAAA-GCATCCTGCTCTTTGACGACTAGAAAA
81199 GTGAAAGGAG
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
60 4 0.05
61 79 0.94
62 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.23
Consensus pattern (61 bp):
AAAGGAGAAAGCATCCTGCTCTTTGACGACTAGAAAATGCCACCAACTTGTGTGGGCTTTA
Found at i:82191 original size:1 final size:1
Alignment explanation
Indices: 82180--82261 Score: 83
Period size: 1 Copynumber: 82.0 Consensus size: 1
82170 ATTTTCTCTC
* * * * ** * *
82180 TTTTTTCTTTTTTTTGTTTTTTGTTTTTTTTTTTTGTTTTTTTCGTTTTTTTTTGTTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
82245 TTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTT
82262 AAAAAGAATG
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:82192 original size:9 final size:9
Alignment explanation
Indices: 82163--82259 Score: 81
Period size: 9 Copynumber: 10.2 Consensus size: 9
82153 CTTAAGCAGG
82163 TTCTTTTATT
1 TTCTTTT-TT
82173 TTCTCTCTTTT
1 TTCT-T-TTTT
82184 TTCTTTTTT
1 TTCTTTTTT
*
82193 TTGTTTTTT
1 TTCTTTTTT
82202 GTT-TTTTTT
1 -TTCTTTTTT
*
82211 TTTTGTTTTT
1 TTCT-TTTTT
82221 TTCGTTTTTT
1 TTC-TTTTTT
82231 TT-TGTTTTT
1 TTCT-TTTTT
*
82240 TTGTTTTTT
1 TTCTTTTTT
*
82249 TTGTTTTTT
1 TTCTTTTTT
82258 TT
1 TT
82260 TTAAAAAGAA
Statistics
Matches: 77, Mismatches: 2, Indels: 17
0.80 0.02 0.18
Matches are distributed among these distances:
8 3 0.04
9 42 0.55
10 22 0.29
11 8 0.10
12 2 0.03
ACGTcount: A:0.01, C:0.06, G:0.07, T:0.86
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:82210 original size:27 final size:26
Alignment explanation
Indices: 82181--82261 Score: 108
Period size: 28 Copynumber: 3.0 Consensus size: 26
82171 TTTTCTCTCT
82181 TTTTTCTTTTTTTTGTTTTTTGTTTTT
1 TTTTTCTTTTTTTTGTTTTTT-TTTTT
*
82208 TTTTTTTGTTTTTTTCGTTTTTTTTTGTT
1 TTTTTCT-TTTTTTT-GTTTTTTTTT-TT
*
82237 TTTTTGTTTTTTTTGTTTTTTTTTT
1 TTTTTCTTTTTTTTGTTTTTTTTTT
82262 AAAAAGAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
26 1 0.02
27 16 0.33
28 17 0.35
29 15 0.31
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (26 bp):
TTTTTCTTTTTTTTGTTTTTTTTTTT
Found at i:85746 original size:2 final size:2
Alignment explanation
Indices: 85735--85798 Score: 64
Period size: 2 Copynumber: 34.0 Consensus size: 2
85725 ACAATAATTT
85735 TA TA -A TA TA TA TA TA TA TA T- TA TA T- TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
85773 TA CA CA CA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
85799 CATACATAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
1 4 0.07
2 50 0.93
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:87047 original size:16 final size:16
Alignment explanation
Indices: 87028--87112 Score: 50
Period size: 16 Copynumber: 5.3 Consensus size: 16
87018 ATATTGTAAT
*
87028 AATAAATTATTTAAAA
1 AATAAATTATATAAAA
**
87044 AATATTTTATATAAAA
1 AATAAATTATATAAAA
*
87060 AATTAATTTTATATATAAA
1 AA-TAA-ATTATATA-AAA
* * *
87079 TATAGATT-T-TAATA
1 AATAAATTATATAAAA
*
87093 AATAAA-TATATTAAA
1 AATAAATTATATAAAA
87108 AATAA
1 AATAA
87113 CATATTATAA
Statistics
Matches: 52, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
13 1 0.02
14 7 0.13
15 10 0.19
16 16 0.31
17 4 0.08
18 10 0.19
19 4 0.08
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (16 bp):
AATAAATTATATAAAA
Found at i:87068 original size:18 final size:16
Alignment explanation
Indices: 87034--87101 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 16
87024 TAATAATAAA
*
87034 TTATTTAAAAAATATT
1 TTATATAAAAAATATT
87050 TTATATAAAAAATTAATT
1 TTATATAAAAAA-T-ATT
*
87068 TTATATATAAATATAGATT
1 TTATATA-AAA-A-ATATT
87087 TTA-ATAAATAAATAT
1 TTATATAAA-AAATAT
87102 ATTAAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
16 14 0.33
17 4 0.09
18 14 0.33
19 9 0.21
20 1 0.02
21 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (16 bp):
TTATATAAAAAATATT
Found at i:87097 original size:20 final size:19
Alignment explanation
Indices: 87047--87102 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
87037 TTTAAAAAAT
87047 ATTTTATATAAA-AAAT-TA
1 ATTTTA-ATAAATAAATATA
*
87065 ATTTT-ATATATAAATATA
1 ATTTTAATAAATAAATATA
87083 GATTTTAATAAATAAATATA
1 -ATTTTAATAAATAAATATA
87103 TTAAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 4 0.12
17 4 0.12
18 7 0.22
19 5 0.16
20 12 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTTTAATAAATAAATATA
Found at i:87142 original size:18 final size:17
Alignment explanation
Indices: 87121--87154 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
87111 AACATATTAT
87121 AATAAAAATTTACTTAAA
1 AATAAAAATTTA-TTAAA
*
87139 AATAATAATTTATTAA
1 AATAAAAATTTATTAA
87155 TTTATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAAAAATTTATTAAA
Found at i:87332 original size:16 final size:16
Alignment explanation
Indices: 87311--87381 Score: 65
Period size: 16 Copynumber: 4.5 Consensus size: 16
87301 ATTCATACTC
*
87311 AAATAAATCCGAATCT
1 AAATAAATCCAAATCT
*
87327 AAATAAA-CTCAAACCT
1 AAATAAATC-CAAATCT
*
87343 AAATAAATTCAAATCT
1 AAATAAATCCAAATCT
* **
87359 AAATATATTTAAATCT
1 AAATAAATCCAAATCT
87375 AAA-AAAT
1 AAATAAAT
87382 TTTTATAACT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
15 4 0.09
16 42 0.91
ACGTcount: A:0.56, C:0.14, G:0.01, T:0.28
Consensus pattern (16 bp):
AAATAAATCCAAATCT
Found at i:87905 original size:26 final size:26
Alignment explanation
Indices: 87866--87935 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 26
87856 ATTTAATTTA
*
87866 ATAATATAATTATATTTAAAATTAAT
1 ATAATATAAATATATTTAAAATTAAT
**
87892 ATAATATAAATATATATTTTAAAATTTTT
1 ATAATAT-AA-ATATA-TTTAAAATTAAT
87921 ATAATATAAAT-TATT
1 ATAATATAAATATATT
87936 AATATTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
25 2 0.05
26 9 0.24
27 4 0.11
28 6 0.16
29 17 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
ATAATATAAATATATTTAAAATTAAT
Found at i:88600 original size:19 final size:20
Alignment explanation
Indices: 88554--88600 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
88544 ATGCCTCCTT
* *
88554 TTTATTTTTGACAATTAATA
1 TTTATTTTTAAAAATTAATA
*
88574 TTCA-TTTTAAAAATTAA-A
1 TTTATTTTTAAAAATTAATA
88592 TTTATTTTT
1 TTTATTTTT
88601 CATAAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 4 0.18
19 15 0.68
20 3 0.14
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTATTTTTAAAAATTAATA
Found at i:88737 original size:11 final size:11
Alignment explanation
Indices: 88721--88745 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
88711 TATATATAGG
88721 TTAAAATTATA
1 TTAAAATTATA
88732 TTAAAATTATA
1 TTAAAATTATA
88743 TTA
1 TTA
88746 TATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAAAATTATA
Found at i:93924 original size:18 final size:19
Alignment explanation
Indices: 93879--93925 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
93869 ATAATTTTAA
93879 ATAATATATATTTAATAAAT
1 ATAATATA-ATTTAATAAAT
*
93899 ATAA-ATAATTTAATAATT
1 ATAATATAATTTAATAAAT
93917 A-AATATAAT
1 ATAATATAAT
93926 ATGATATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 3 0.12
20 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAATATAATTTAATAAAT
Found at i:95950 original size:2 final size:2
Alignment explanation
Indices: 95943--95976 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
95933 TAAACATCAC
95943 AT AT 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 AT AT
95977 TTGTAGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98052 original size:73 final size:73
Alignment explanation
Indices: 97924--98071 Score: 215
Period size: 73 Copynumber: 2.0 Consensus size: 73
97914 AGAATAGTAA
*
97924 TGTTCAACATTGATTAAACATTAAATAATTCATTAAAAACAGTAAAATTTAATCATTGATAAAAT
1 TGTTCAACAGTGATTAAACATTAAATAATTCATTAAAAACAGTAAAATTTAATCATTGATAAAAT
97989 GTTACATT
66 GTTACATT
* * * * * * *
97997 TGTTCATCAGTGATTAAATATTAAATAGTTTATTAAAAATAGTAATATTTGATCATTGATAAAAT
1 TGTTCAACAGTGATTAAACATTAAATAATTCATTAAAAACAGTAAAATTTAATCATTGATAAAAT
*
98062 GTTTCATT
66 GTTACATT
98070 TG
1 TG
98072 AAAGATTTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (73 bp):
TGTTCAACAGTGATTAAACATTAAATAATTCATTAAAAACAGTAAAATTTAATCATTGATAAAAT
GTTACATT
Found at i:98912 original size:2 final size:2
Alignment explanation
Indices: 98905--98929 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
98895 CTTATTACTT
98905 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
98930 GCTTTCGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:103541 original size:13 final size:13
Alignment explanation
Indices: 103523--103600 Score: 52
Period size: 13 Copynumber: 5.8 Consensus size: 13
103513 ATTTTATCAC
103523 TAAATATTAATTT
1 TAAATATTAATTT
**
103536 TAAATAGTTTGAAGAT
1 TAAATA--TT-AATTT
103552 TAAAT-TTAATTT
1 TAAATATTAATTT
*
103564 TAAATGATT-TTTT
1 TAAAT-ATTAATTT
*
103577 TAAATATTTCATTT
1 TAAATA-TTAATTT
*
103591 TAAAAATTAA
1 TAAATATTAA
103601 CAATAATAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
12 9 0.18
13 21 0.42
14 10 0.20
15 2 0.04
16 8 0.16
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (13 bp):
TAAATATTAATTT
Found at i:104171 original size:28 final size:27
Alignment explanation
Indices: 104139--104221 Score: 91
Period size: 26 Copynumber: 3.1 Consensus size: 27
104129 TGTTCACACA
*
104139 AAAAAATATAAATAAAAATTATGTTTTT
1 AAAAAATATAAA-AAAAATTATATTTTT
*
104167 -AAAAATACAAAAAATAA--ATATTTTT
1 AAAAAATATAAAAAA-AATTATATTTTT
*
104192 AAAAAATATAAAAAATATATATATTTTT
1 AAAAAATATAAAAAAAAT-TATATTTTT
104220 AA
1 AA
104222 TTTAAAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
25 8 0.17
26 16 0.35
27 12 0.26
28 10 0.22
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (27 bp):
AAAAAATATAAAAAAAATTATATTTTT
Found at i:104228 original size:22 final size:24
Alignment explanation
Indices: 104203--104248 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
104193 AAAAATATAA
104203 AAAATATATA-TAT-TTTTAATTT
1 AAAATATATAGTATGTTTTAATTT
*
104225 AAAATTTATAGTATGTTTTAATTT
1 AAAATATATAGTATGTTTTAATTT
104249 TTTATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 3 0.14
24 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
AAAATATATAGTATGTTTTAATTT
Found at i:104559 original size:18 final size:18
Alignment explanation
Indices: 104531--104565 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
104521 GGGTTTCTCA
104531 CCTCTTGCCCCTGTCCCTG
1 CCTCTTGCCCCTG-CCCTG
104550 CCTC-TGCCCCTGCCCT
1 CCTCTTGCCCCTGCCCT
104566 TGTCCCCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.00, C:0.57, G:0.14, T:0.29
Consensus pattern (18 bp):
CCTCTTGCCCCTGCCCTG
Found at i:105576 original size:30 final size:29
Alignment explanation
Indices: 105520--105576 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
105510 TTTTATTTAA
* *
105520 ATTATAAATTTTTAATTTTATCAAATTGT
1 ATTATAAATTTTTAAATTAATCAAATTGT
105549 ATTATTAAATTTTTAAAATTAAT-AAATT
1 ATTA-TAAATTTTT-AAATTAATCAAATT
105577 AAATCACTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 4 0.17
30 14 0.58
31 6 0.25
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
ATTATAAATTTTTAAATTAATCAAATTGT
Found at i:106360 original size:13 final size:13
Alignment explanation
Indices: 106344--106393 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
106334 TACTACATAG
106344 TTTTTTAAAAATA
1 TTTTTTAAAAATA
106357 TTTTTTAATTAAAT-
1 TTTTTTAA--AAATA
*
106371 TTATTTAAAAATA
1 TTTTTTAAAAATA
*
106384 ATTTTTAAAA
1 TTTTTTAAAA
106394 TAAAATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 4 0.13
13 16 0.52
14 7 0.23
15 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTTTAAAAATA
Found at i:106531 original size:15 final size:13
Alignment explanation
Indices: 106500--106533 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
106490 TATTTATTTC
106500 ATATAAAAATAAA
1 ATATAAAAATAAA
106513 ATATAATAAATATAA
1 ATATAA-AAATA-AA
106528 ATATAA
1 ATATAA
106534 CACCTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 5 0.26
15 8 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
ATATAAAAATAAA
Found at i:106879 original size:27 final size:27
Alignment explanation
Indices: 106805--106879 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
106795 ATAGTATCAT
106805 ATATGAATATGAAATAAAAAATAACTAAA
1 ATAT-AATATGAAAT-AAAAATAACTAAA
* * * * * *
106834 AAATGATATTATATGAAAATAATTAAA
1 ATATAATATGAAATAAAAATAACTAAA
*
106861 ATATAATATGACATAAAAA
1 ATATAATATGAAATAAAAA
106880 AATAACATGA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
27 25 0.71
28 7 0.20
29 3 0.09
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.28
Consensus pattern (27 bp):
ATATAATATGAAATAAAAATAACTAAA
Found at i:106931 original size:42 final size:43
Alignment explanation
Indices: 106866--106946 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 43
106856 TTAAAATATA
*
106866 ATATGACATAAAAAAATAACATGACACTACTAGAAAAAAGCTT
1 ATATGACATAAAAAAATAACATGACACTACTAAAAAAAAGCTT
* *
106909 ATATGGCAT-AAAAAATAACATGACACTATTAAAAAAAA
1 ATATGACATAAAAAAATAACATGACACTACTAAAAAAAA
106947 AACTTATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 27 0.77
43 8 0.23
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (43 bp):
ATATGACATAAAAAAATAACATGACACTACTAAAAAAAAGCTT
Found at i:110510 original size:18 final size:19
Alignment explanation
Indices: 110486--110538 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 19
110476 ATAAATAACC
110486 AAAAATAATAC-AATATGA
1 AAAAATAATACGAATATGA
* * *
110504 AATAATAATACTAACATGA
1 AAAAATAATACGAATATGA
110523 AAAAAT-ATACGAATAT
1 AAAAATAATACGAATAT
110539 ATCTAAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 18 0.62
19 11 0.38
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.25
Consensus pattern (19 bp):
AAAAATAATACGAATATGA
Found at i:110524 original size:19 final size:18
Alignment explanation
Indices: 110486--110529 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
110476 ATAAATAACC
*
110486 AAAAATAATACAATATGA
1 AAAAATAATACAACATGA
*
110504 AATAATAATACTAACATGA
1 AAAAATAATAC-AACATGA
110523 AAAAATA
1 AAAAATA
110530 TACGAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (18 bp):
AAAAATAATACAACATGA
Found at i:115993 original size:97 final size:97
Alignment explanation
Indices: 115794--116030 Score: 264
Period size: 97 Copynumber: 2.5 Consensus size: 97
115784 ATTTTATTTT
* * *
115794 TCGGAGATACTCCAACCAC-ATTCTTCTAA-GGGATATTCTAACCTCGCTTTTAAACTCTTCAAA
1 TCGGGGATACTCCAACC-CTATTATTCTAAGGGGATACTCTAACCTCGCTTTTAAACTCTTCAAA
115857 ATTTAAATCTTATCTTTACTTAAACTATCATCA
65 ATTTAAATCTTATCTTTACTTAAACTATCATCA
* * * * * ** * *
115890 TTGGGGATACTCTAACCCTATTATTTTGAGGGGATACTCTAATCTCTTTTTTCAACTTTTCAAAA
1 TCGGGGATACTCCAACCCTATTATTCTAAGGGGATACTCTAACCTCGCTTTTAAACTCTTCAAAA
** * *
115955 TTTAAATCTTAT-TTTTGTCTAAATTATCATCG
66 TTTAAATCTTATCTTTACT-TAAACTATCATCA
* * *
115987 TCGGGGATACTCCAATCCTATTATTCTAAGAGGATACTCCAACC
1 TCGGGGATACTCCAACCCTATTATTCTAAGGGGATACTCTAACC
116031 CCATCTTTCA
Statistics
Matches: 114, Mismatches: 24, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
95 1 0.01
96 25 0.22
97 88 0.77
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.38
Consensus pattern (97 bp):
TCGGGGATACTCCAACCCTATTATTCTAAGGGGATACTCTAACCTCGCTTTTAAACTCTTCAAAA
TTTAAATCTTATCTTTACTTAAACTATCATCA
Found at i:118114 original size:40 final size:40
Alignment explanation
Indices: 118050--118131 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
118040 TAGTAGGGTT
* * ** * *
118050 ATAAGGGTCTGTTTAGATGGGTGGTAGATTAAAAATAGTG
1 ATAAAGGTATGTTTAGATAAGTGGTAAATTAAAAATAATG
118090 ATAAAGGTATGTTTAGATAAGTGGTAAATTAAAAATAATG
1 ATAAAGGTATGTTTAGATAAGTGGTAAATTAAAAATAATG
118130 AT
1 AT
118132 GATGGTGGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.40, C:0.01, G:0.26, T:0.33
Consensus pattern (40 bp):
ATAAAGGTATGTTTAGATAAGTGGTAAATTAAAAATAATG
Found at i:118412 original size:32 final size:32
Alignment explanation
Indices: 118296--118462 Score: 126
Period size: 33 Copynumber: 5.0 Consensus size: 32
118286 AGCAAATATT
* *
118296 AAATTATATTTGTATTAAATAATACGATATAAATAA
1 AAATTATATTTATATTAAA-AATA--A-ATAATTAA
* *
118332 AAAAT-TA-TT-TATGAAAAAT-AATAATTAAAA
1 AAATTATATTTATATTAAAAATAAATAATT--AA
*
118362 AAATTATATTTATATTAAAAATAAATGATTAA
1 AAATTATATTTATATTAAAAATAAATAATTAA
* * * *
118394 AAATTAAACTTATCTTAAATAATAAAAAATTATTA
1 AAATTATATTTATATTAAA-AATAAATAATTA--A
*
118429 AAATTATATTTATTTTTAAAAATAAATAATTAA
1 AAATTATATTTA-TATTAAAAATAAATAATTAA
118462 A
1 A
118463 TTAAAAAATA
Statistics
Matches: 106, Mismatches: 15, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
28 5 0.05
29 1 0.01
30 6 0.06
31 2 0.02
32 23 0.22
33 27 0.25
34 8 0.08
35 24 0.23
36 10 0.09
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (32 bp):
AAATTATATTTATATTAAAAATAAATAATTAA
Found at i:118434 original size:35 final size:36
Alignment explanation
Indices: 118384--118469 Score: 86
Period size: 35 Copynumber: 2.4 Consensus size: 36
118374 TATTAAAAAT
*
118384 AAATGATTAAAAATTAAACTTA-TCTTAAATAATAAA
1 AAATTATTAAAAATTAAACTTATTCTTAAA-AATAAA
* * *
118420 AAATTATT-AAAATTATATTTATTTTTAAAAATAAA
1 AAATTATTAAAAATTAAACTTATTCTTAAAAATAAA
*
118455 TAATTAAATTAAAAA
1 AAATT--ATTAAAAA
118470 ATAGTTGAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
35 21 0.51
36 13 0.32
37 3 0.07
38 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (36 bp):
AAATTATTAAAAATTAAACTTATTCTTAAAAATAAA
Found at i:119277 original size:21 final size:20
Alignment explanation
Indices: 119244--119291 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
119234 GTCTTATTAC
* *
119244 TATTTACAGTATAATATAAAA
1 TATTTATAGTATAAGA-AAAA
* *
119265 TATTTATATTATAAGAAAAT
1 TATTTATAGTATAAGAAAAA
119285 TATTTAT
1 TATTTAT
119292 TTACAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (20 bp):
TATTTATAGTATAAGAAAAA
Found at i:120286 original size:23 final size:20
Alignment explanation
Indices: 120256--120297 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 20
120246 CTAATTAAAT
120256 TAAATTAATGAGAGAAAAAAAAC
1 TAAATTAA-GA-A-AAAAAAAAC
120279 TAAATTAAGAAAAAAAAAA
1 TAAATTAAGAAAAAAAAAA
120298 GTAGAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 2 0.11
23 8 0.42
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (20 bp):
TAAATTAAGAAAAAAAAAAC
Found at i:120308 original size:21 final size:20
Alignment explanation
Indices: 120270--120309 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
120260 TTAATGAGAG
*
120270 AAAAAAAACTAAATTAAGAA
1 AAAAAAAACTAAAATAAGAA
*
120290 AAAAAAAAGTAGAAATAAGA
1 AAAAAAAACTA-AAATAAGA
120310 TCTTTGCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.75, C:0.03, G:0.10, T:0.12
Consensus pattern (20 bp):
AAAAAAAACTAAAATAAGAA
Found at i:120633 original size:2 final size:2
Alignment explanation
Indices: 120615--120655 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
120605 GTTTTAAAGA
* *
120615 AT AT GAT AT AC AT AT AT AT AC 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 AT AT AT AT AT
120656 GTCCCTGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:120655 original size:10 final size:10
Alignment explanation
Indices: 120615--120654 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
120605 GTTTTAAAGA
120615 ATATGATATAC
1 ATAT-ATATAC
120626 ATATATATAC
1 ATATATATAC
*
120636 ATATATATAT
1 ATATATATAC
120646 ATATATATA
1 ATATATATA
120655 TGTCCCTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 24 0.86
11 4 0.14
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (10 bp):
ATATATATAC
Found at i:125750 original size:9 final size:10
Alignment explanation
Indices: 125717--125759 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
125707 TTTAACGTAC
*
125717 ATATTTAATT
1 ATATTTATTT
125727 AT-TTTATTT
1 ATATTTATTT
*
125736 AGATTTATTT
1 ATATTTATTT
125746 -TATTTATTT
1 ATATTTATTT
125755 ATATT
1 ATATT
125760 GAGTCATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 15 0.54
10 13 0.46
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
ATATTTATTT
Found at i:132166 original size:22 final size:21
Alignment explanation
Indices: 132141--132181 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
132131 TATGTTTTAT
*
132141 ATTTATTTGTGATGATAAAATG
1 ATTTATATGTGA-GATAAAATG
*
132163 ATTTATATGTTAGATAAAA
1 ATTTATATGTGAGATAAAA
132182 ATATGCGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (21 bp):
ATTTATATGTGAGATAAAATG
Found at i:132435 original size:16 final size:16
Alignment explanation
Indices: 132414--132449 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
132404 CTTAAATTTT
132414 TTTATTTATTATTTGC
1 TTTATTTATTATTTGC
* *
132430 TTTATTTATTTTTTGT
1 TTTATTTATTATTTGC
132446 TTTA
1 TTTA
132450 ATCTATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.75
Consensus pattern (16 bp):
TTTATTTATTATTTGC
Found at i:133264 original size:117 final size:117
Alignment explanation
Indices: 133058--133290 Score: 394
Period size: 117 Copynumber: 2.0 Consensus size: 117
133048 CTAGTGCACT
* *
133058 TGGGGTGTAACACTAGCAAAATGGCACAATCCCGCTCGTGGCAAGTTGCCAGAAACTTGACCGCG
1 TGGGGTGTAACACTAACAAAATGGCACAATCCCGCTCATGGCAAGTTGCCAGAAACTTGACCGCG
*
133123 ACAAAATTAAGCATCTCACCGGTGCACCAAACATAGTCTAAATTAATGAAAA
66 ACAAAATTAAGCATCTCACCGGTGCACCAAACATAGTCTAAATTAACGAAAA
*
133175 TGGGGTGTAACACTAACAAAATGGCACAATCCTGCTCATGGCAAGTTGCCAGAAACTTGACCGCG
1 TGGGGTGTAACACTAACAAAATGGCACAATCCCGCTCATGGCAAGTTGCCAGAAACTTGACCGCG
* * * *
133240 ACACAGTTAAGCATCTCGCTGGTGCACCAAACATAGTCTAAATTAACGAAA
66 ACAAAATTAAGCATCTCACCGGTGCACCAAACATAGTCTAAATTAACGAAA
133291 TTTGATTATT
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 108 1.00
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (117 bp):
TGGGGTGTAACACTAACAAAATGGCACAATCCCGCTCATGGCAAGTTGCCAGAAACTTGACCGCG
ACAAAATTAAGCATCTCACCGGTGCACCAAACATAGTCTAAATTAACGAAAA
Found at i:135312 original size:91 final size:96
Alignment explanation
Indices: 135200--135456 Score: 434
Period size: 96 Copynumber: 2.7 Consensus size: 96
135190 AATTTATAAC
135200 ATATTCATTAATGAAATTTGAATTACATATAAAGTTTGTTTAATGTGAAAATTATATC-AATTAA
1 ATATTCATTAATGAAATTTGAATTACATATAAAGTTTGTTTAATGTGAAAATTATATCAAATTAA
135264 TATAAAATTTATTACTTTTAATATGAATGT-
66 TATAAAATTTATTACTTTTAATATGAATGTA
*
135294 A-A-T-ATTAATGAAATTTGAATTACATATAAAGTTTCTTTAATGTGAAAATTATATCAAATTAA
1 ATATTCATTAATGAAATTTGAATTACATATAAAGTTTGTTTAATGTGAAAATTATATCAAATTAA
*
135356 TATAAAATTTATTACTTTTAATATTAATGTA
66 TATAAAATTTATTACTTTTAATATGAATGTA
* * *
135387 ATATTCATTAATGAAATATGAATTACATATAAAGTTTGTTTAATGTAAAAATTATACCAAATTAA
1 ATATTCATTAATGAAATTTGAATTACATATAAAGTTTGTTTAATGTGAAAATTATATCAAATTAA
135452 TATAA
66 TATAA
135457 TCTTTTTAAT
Statistics
Matches: 152, Mismatches: 6, Indels: 8
0.92 0.04 0.05
Matches are distributed among these distances:
91 51 0.34
92 36 0.24
93 2 0.01
94 2 0.01
95 1 0.01
96 60 0.39
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (96 bp):
ATATTCATTAATGAAATTTGAATTACATATAAAGTTTGTTTAATGTGAAAATTATATCAAATTAA
TATAAAATTTATTACTTTTAATATGAATGTA
Found at i:139685 original size:20 final size:21
Alignment explanation
Indices: 139647--139686 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
139637 TAAGAGAAAT
* *
139647 AATTTAATTATTTTCTTTTAC
1 AATTTAATTATTATATTTTAC
139668 AATTT-ATTATTATATTTTA
1 AATTTAATTATTATATTTTA
139687 TTTTAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTTAATTATTATATTTTAC
Found at i:142652 original size:20 final size:21
Alignment explanation
Indices: 142613--142652 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
142603 TAATTTAAAA
*
142613 ATATATTTTGATAACGTATTAT
1 ATATATTTTAATAAC-TATTAT
142635 ATATATTTTAATAA-TATT
1 ATATATTTTAATAACTATT
142653 TTTAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
22 13 0.76
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (21 bp):
ATATATTTTAATAACTATTAT
Found at i:143048 original size:21 final size:21
Alignment explanation
Indices: 143024--143064 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
143014 TTTAAGAAAG
*
143024 TTAAAATATTATTTATTATTT
1 TTAAAATATTAATTATTATTT
*
143045 TTAATATATTAATTATTATT
1 TTAAAATATTAATTATTATT
143065 ATTGTGAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTAAAATATTAATTATTATTT
Found at i:143386 original size:18 final size:18
Alignment explanation
Indices: 143365--143401 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
143355 TTAAAATTTA
* *
143365 AATATAAAATTAAATAAT
1 AATAAAAAAATAAATAAT
143383 AATAAAAAAATAAATAAT
1 AATAAAAAAATAAATAAT
143401 A
1 A
143402 TCATATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AATAAAAAAATAAATAAT
Found at i:143462 original size:48 final size:45
Alignment explanation
Indices: 143378--143471 Score: 102
Period size: 48 Copynumber: 2.0 Consensus size: 45
143368 ATAAAATTAA
* * *
143378 ATAATAATAAAAAAATAAATAATATCATATTTAAA-TTTATAATTT
1 ATAAAAATAAAAAAATAAATAATATAATATTAAAATTTTAT-ATTT
143423 ATAAAAATAAAATAAATTTAAATAATA-AATATTAAAAATTTTATATTT
1 ATAAAAATAAAA-AAA--TAAATAATATAATATT-AAAATTTTATATTT
143471 A
1 A
143472 AATTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
45 11 0.27
46 3 0.07
47 5 0.12
48 17 0.41
49 5 0.12
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (45 bp):
ATAAAAATAAAAAAATAAATAATATAATATTAAAATTTTATATTT
Found at i:149532 original size:3 final size:3
Alignment explanation
Indices: 149524--149551 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
149514 TTTCCTTTCC
149524 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
149552 GAGAATGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:150324 original size:16 final size:16
Alignment explanation
Indices: 150303--150334 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
150293 ATTTCCTCTG
*
150303 CTTTTAAAGTAGTGAA
1 CTTTTAAAGAAGTGAA
150319 CTTTTAAAGAAGTGAA
1 CTTTTAAAGAAGTGAA
150335 GGTTTTGTTC
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:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (16 bp):
CTTTTAAAGAAGTGAA
Found at i:151761 original size:33 final size:37
Alignment explanation
Indices: 151724--151806 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 37
151714 AACCTAAAAA
* *
151724 TTATAATAAATAATTGAAA-AT-T-TT-AAATTATAT
1 TTATATTAAATAATTAAAATATATATTAAAATTATAT
151757 TTATATTAAATAA-TAAAATATATATTAAAATTATAT
1 TTATATTAAATAATTAAAATATATATTAAAATTATAT
*
151793 TTATGTTAAATAAT
1 TTATATTAAATAAT
151807 AATTAAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.10
33 14 0.33
34 1 0.02
35 2 0.05
36 21 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (37 bp):
TTATATTAAATAATTAAAATATATATTAAAATTATAT
Found at i:151772 original size:36 final size:38
Alignment explanation
Indices: 151748--151820 Score: 107
Period size: 36 Copynumber: 2.0 Consensus size: 38
151738 TGAAAATTTT
151748 AAATTATATTTATATTAAATAATAA--AATATATATTA
1 AAATTATATTTATATTAAATAATAATTAATATATATTA
*
151784 AAATTATATTTATGTTAAATAATAATTAA-ATTATATT
1 AAATTATATTTATATTAAATAATAATTAATA-TATATT
151821 TATATTAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 24 0.73
37 1 0.03
38 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (38 bp):
AAATTATATTTATATTAAATAATAATTAATATATATTA
Found at i:151793 original size:30 final size:33
Alignment explanation
Indices: 151720--151793 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 33
151710 TTAAAACCTA
* *
151720 AAAATTATAATAAATAATTGAAAATTTTAAATT
1 AAAATTATATTAAATAATTGAAAATTATAAATT
* * *
151753 ATATTTATATTAAATAA-T-AAAA-TATATATT
1 AAAATTATATTAAATAATTGAAAATTATAAATT
151783 AAAATTATATT
1 AAAATTATATT
151794 TATGTTAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
30 15 0.44
31 4 0.12
32 1 0.03
33 14 0.41
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (33 bp):
AAAATTATATTAAATAATTGAAAATTATAAATT
Done.