Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 125 of 135
Found at i:45140436 original size:11 final size:11
Alignment explanation
Indices: 45140422--45140446 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45140412 AAAAATTAGA
45140422 AAACTAAAATT
1 AAACTAAAATT
45140433 AAACTAAAATT
1 AAACTAAAATT
45140444 AAA
1 AAA
45140447 AATATAACAA
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
AAACTAAAATT
Found at i:45146352 original size:4 final size:4
Alignment explanation
Indices: 45146343--45146369 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
45146333 GAGATCCTAT
45146343 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
45146370 GTAAATTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:45150689 original size:3 final size:3
Alignment explanation
Indices: 45150681--45150711 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
45150671 TCAATACCTT
45150681 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
45150712 TCCTTTTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:45154355 original size:69 final size:69
Alignment explanation
Indices: 45154224--45154358 Score: 182
Period size: 69 Copynumber: 2.0 Consensus size: 69
45154214 GAATAAATGC
* * * * *
45154224 GAAAAGGAAATTTATTGTGTAGCCTTCGATAGGGCATATATATTGCTAATCGGACAGGTAGATCA
1 GAAAAGGAAATTTATTGTGTAGCATTCGATAGGGCAGATATATTGCTAACCAGACAGATAGATCA
45154289 CTGT
66 CTGT
* * *
45154293 GAAATGGAGATTTATTGTGTAGCATTCGGTAGGGCAGATATATTGCTAACCAGACTA-ATAGATC
1 GAAAAGGAAATTTATTGTGTAGCATTCGATAGGGCAGATATATTGCTAACCAGAC-AGATAGATC
45154357 AC
65 AC
45154359 AAAATAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 56 0.98
70 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (69 bp):
GAAAAGGAAATTTATTGTGTAGCATTCGATAGGGCAGATATATTGCTAACCAGACAGATAGATCA
CTGT
Found at i:45154585 original size:25 final size:25
Alignment explanation
Indices: 45154496--45154587 Score: 76
Period size: 25 Copynumber: 3.7 Consensus size: 25
45154486 CACGAACTTC
* * *
45154496 CTGAAAAGTCTTTTTGGTAAACTCT
1 CTGAAAAGCCTTTGTGGCAAACTCT
* * * * *
45154521 CCGTAAAGTCTTTGCGGCGAACTCT
1 CTGAAAAGCCTTTGTGGCAAACTCT
* *
45154546 CTGTAAAGCCCTTGTGGCAAACTCT
1 CTGAAAAGCCTTTGTGGCAAACTCT
* *
45154571 TTGAAAATCCTTTGTGG
1 CTGAAAAGCCTTTGTGG
45154588 TGTATTATTC
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (25 bp):
CTGAAAAGCCTTTGTGGCAAACTCT
Found at i:45171396 original size:19 final size:19
Alignment explanation
Indices: 45171358--45171396 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
45171348 AAATAGTGAG
*
45171358 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
45171377 AATTATATTTTCT-AGAATA
1 AATT-TATTTTCTAAGAATA
45171396 A
1 A
45171397 CAATTCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:45186426 original size:20 final size:21
Alignment explanation
Indices: 45186391--45186434 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
45186381 AGAACGCTCA
*
45186391 AACTTTTTTGGAAAAATCATT
1 AACTTTTCTGGAAAAATCATT
45186412 AACTTTTCTGGAAAAATCATT
1 AACTTTTCTGGAAAAATCATT
45186433 AA
1 AA
45186435 TAAAAATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (21 bp):
AACTTTTCTGGAAAAATCATT
Found at i:45190778 original size:26 final size:26
Alignment explanation
Indices: 45190746--45190813 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
45190736 CTTAAACTAA
*
45190746 ACTTTTTAAAAGTATTTCTTAAAAGT
1 ACTTTTTAAAAGCATTTCTTAAAAGT
* * * *
45190772 ACTTTTTTACAGCATTTTTTAAAAGC
1 ACTTTTTAAAAGCATTTCTTAAAAGT
* *
45190798 AATTTTCAAAAGCATT
1 ACTTTTTAAAAGCATT
45190814 GTTAAACTAG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (26 bp):
ACTTTTTAAAAGCATTTCTTAAAAGT
Found at i:45190798 original size:13 final size:13
Alignment explanation
Indices: 45190748--45190813 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
45190738 TAAACTAAAC
*
45190748 TTTTTAAAAGTAT
1 TTTTTAAAAGCAT
* *
45190761 TTCTTAAAAGTACT
1 TTTTTAAAAGCA-T
*
45190775 TTTTT-ACAGCAT
1 TTTTTAAAAGCAT
*
45190787 TTTTTAAAAGCAA
1 TTTTTAAAAGCAT
*
45190800 TTTTCAAAAGCAT
1 TTTTTAAAAGCAT
45190813 T
1 T
45190814 GTTAAACTAG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 6 0.14
13 32 0.74
14 5 0.12
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (13 bp):
TTTTTAAAAGCAT
Found at i:45195465 original size:9 final size:9
Alignment explanation
Indices: 45195451--45195514 Score: 92
Period size: 9 Copynumber: 7.1 Consensus size: 9
45195441 GGTTAAAAAG
45195451 TAACCGAAT
1 TAACCGAAT
45195460 TAACCGAAT
1 TAACCGAAT
*
45195469 TACCCGAAT
1 TAACCGAAT
*
45195478 TAACCGGAT
1 TAACCGAAT
*
45195487 TACCCGAAT
1 TAACCGAAT
45195496 TAACCGAAT
1 TAACCGAAT
*
45195505 TAAACGAAT
1 TAACCGAAT
45195514 T
1 T
45195515 GAATCACTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.23
Consensus pattern (9 bp):
TAACCGAAT
Found at i:45195606 original size:20 final size:20
Alignment explanation
Indices: 45195538--45195595 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
45195528 ATTAAATTAT
*
45195538 TTTTAGAATTTTAGACTTTA-
1 TTTTAGAATTTTAG-TTTTAG
* *
45195558 TTTT-TATTTTTAGTTTTAG
1 TTTTAGAATTTTAGTTTTAG
*
45195577 TTTTAGAATTTTATTTTTA
1 TTTTAGAATTTTAGTTTTA
45195596 TTTATTAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 4 0.13
19 11 0.37
20 15 0.50
ACGTcount: A:0.24, C:0.02, G:0.09, T:0.66
Consensus pattern (20 bp):
TTTTAGAATTTTAGTTTTAG
Found at i:45205909 original size:16 final size:16
Alignment explanation
Indices: 45205888--45205923 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
45205878 GATTTGCTAT
45205888 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45205904 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45205920 TACA
1 TACA
45205924 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45206847 original size:11 final size:11
Alignment explanation
Indices: 45206831--45206864 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
45206821 TTTAAAAATA
45206831 AAAAATATTTT
1 AAAAATATTTT
45206842 AAAAATATTTT
1 AAAAATATTTT
45206853 AAAAATATTTT
1 AAAAATATTTT
45206864 A
1 A
45206865 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:45210376 original size:2 final size:2
Alignment explanation
Indices: 45210369--45210394 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45210359 GAAAAAGAAA
45210369 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
45210395 TACTGTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45218400 original size:108 final size:109
Alignment explanation
Indices: 45218211--45218427 Score: 427
Period size: 108 Copynumber: 2.0 Consensus size: 109
45218201 GTAAGTCTAT
45218211 AGTTTCCCTGCATTGAAGATGACAACGTAATTGTTGGCGTAAATCTGCCACAAGAAATAACGCTA
1 AGTTTCCCTGCATTGAAGATGACAACGTAATTGTTGGCGTAAATCTGCCACAAGAAATAACGCTA
45218276 ATTCTATTTATTTTAAATATATTTTTTAATATT-TTGTTTTTTA
66 ATTCTATTTATTTTAAATATATTTTTTAATATTATTGTTTTTTA
45218319 AGTTTCCCTGCATTGAAGATGACAACGTAATTGTTGGCGTAAATCTGCCACAAGAAATAACGCTA
1 AGTTTCCCTGCATTGAAGATGACAACGTAATTGTTGGCGTAAATCTGCCACAAGAAATAACGCTA
45218384 ATTCTATTTATTTTAAATATATTTTTTAATATTATTGTTTTTTA
66 ATTCTATTTATTTTAAATATATTTTTTAATATTATTGTTTTTTA
45218428 CATCAATTTT
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
108 98 0.91
109 10 0.09
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (109 bp):
AGTTTCCCTGCATTGAAGATGACAACGTAATTGTTGGCGTAAATCTGCCACAAGAAATAACGCTA
ATTCTATTTATTTTAAATATATTTTTTAATATTATTGTTTTTTA
Found at i:45221401 original size:21 final size:21
Alignment explanation
Indices: 45221376--45221416 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45221366 GTGTGAAATG
* *
45221376 AGGCATACGATCGTGTGGCTA
1 AGGCACACGACCGTGTGGCTA
*
45221397 AGGCACACGCCCGTGTGGCT
1 AGGCACACGACCGTGTGGCT
45221417 TAGGGACATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.27, G:0.34, T:0.20
Consensus pattern (21 bp):
AGGCACACGACCGTGTGGCTA
Found at i:45221531 original size:21 final size:21
Alignment explanation
Indices: 45221515--45221581 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
45221505 CTCACATGCT
**
45221515 CGTGTGTCCAAAACACACGTT
1 CGTGTGTCCAAAACACACGCC
*
45221536 TGTGTGTCCAAAACACAC-CC
1 CGTGTGTCCAAAACACACGCC
45221556 CGTGTGTCCAAAACACACGCC
1 CGTGTGTCCAAAACACACGCC
45221577 CGTGT
1 CGTGT
45221582 TGGATCCCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 17 0.41
21 24 0.59
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (21 bp):
CGTGTGTCCAAAACACACGCC
Found at i:45222942 original size:27 final size:25
Alignment explanation
Indices: 45222873--45222942 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 25
45222863 CCGTTTAAAA
45222873 AAATTATTTTGAAAATATTTTAAATT
1 AAATTATTTTGAAAAT-TTTTAAATT
45222899 -AA-TATGTTT-AAAA-TTTTAAATT
1 AAATTAT-TTTGAAAATTTTTAAATT
45222921 AAATTATTTTGAAGAATGTTTT
1 AAATTATTTTGAA-AAT-TTTT
45222943 GTACATTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
22 9 0.24
23 5 0.14
24 12 0.32
25 7 0.19
27 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (25 bp):
AAATTATTTTGAAAATTTTTAAATT
Found at i:45224828 original size:126 final size:126
Alignment explanation
Indices: 45223972--45224800 Score: 1622
Period size: 126 Copynumber: 6.6 Consensus size: 126
45223962 ATAGCATTAC
* **
45223972 ACATATAATAATATGTTTGATGTATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
1 ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
45224037 TTGTTATCGTTTGGTGAGTATTGTAATTTTAAAATTTTGAAAATTCCATGGATTAAAAATG
66 TTGTTATCGTTTGGTGAGTATTGTAATTTTAAAATTTTGAAAATTCCATGGATTAAAAATG
45224098 ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
1 ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
45224163 TTGTTATCGTTTGGTGAGTATTGTAATTTTAAAATTTTGAAAATTCCATGGATTAAAAATG
66 TTGTTATCGTTTGGTGAGTATTGTAATTTTAAAATTTTGAAAATTCCATGGATTAAAAATG
45224224 ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
1 ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
45224289 TTGTTATCGTTTGGTGAGTATTGTAATTTTAAAATTTTGAAAATTCCATGGATTAAAAATG
66 TTGTTATCGTTTGGTGAGTATTGTAATTTTAAAATTTTGAAAATTCCATGGATTAAAAATG
45224350 ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
1 ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
45224415 TTGTTATCGTTTGGTGAGTATTGTAATTTTAAAATTTTGAAAATTCCATGGATTAAAAATG
66 TTGTTATCGTTTGGTGAGTATTGTAATTTTAAAATTTTGAAAATTCCATGGATTAAAAATG
45224476 ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
1 ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
45224541 TTGTTATCGTTTGGTGAGTATTGTAATTTTAAAATTTTGAAAATTCCATGGATTAAAAATG
66 TTGTTATCGTTTGGTGAGTATTGTAATTTTAAAATTTTGAAAATTCCATGGATTAAAAATG
45224602 ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
1 ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
45224667 TTGTTATCGTTTGGTGAGTATTGTAATTTTAAAATTTTGAAAATTCCATGGATTAAAAATG
66 TTGTTATCGTTTGGTGAGTATTGTAATTTTAAAATTTTGAAAATTCCATGGATTAAAAATG
45224728 ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
1 ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
*
45224793 TAGTTATC
66 TTGTTATC
45224801 ATTCGGTTAG
Statistics
Matches: 699, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 699 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (126 bp):
ACATATGATAATATGTTTGACATATTAGATTTTGAAAATAACAGAACTTAACTTAATAAATTTAA
TTGTTATCGTTTGGTGAGTATTGTAATTTTAAAATTTTGAAAATTCCATGGATTAAAAATG
Found at i:45225213 original size:21 final size:21
Alignment explanation
Indices: 45225171--45225219 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
45225161 TGACTTTTTA
*
45225171 TTTTAAATATTTTATTTTATT
1 TTTTAAATATTTTATTTGATT
*
45225192 TTTTGAAATTTTTTA-TTGATT
1 TTTT-AAATATTTTATTTGATT
45225213 TATTTAA
1 T-TTTAA
45225220 TTGAACACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTAAATATTTTATTTGATT
Found at i:45225426 original size:16 final size:16
Alignment explanation
Indices: 45225397--45225438 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
45225387 AGTATGAATA
**
45225397 TAATTAAAGTAATTAT
1 TAATTAAAAAAATTAT
45225413 TAATTAAAAAAATTAT
1 TAATTAAAAAAATTAT
*
45225429 GAA-TAAAAAA
1 TAATTAAAAAA
45225439 TAACATGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
TAATTAAAAAAATTAT
Found at i:45231679 original size:21 final size:21
Alignment explanation
Indices: 45231654--45231694 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45231644 GTGTGAAATG
* *
45231654 AGGCATACGATCGTGTGGCTA
1 AGGCACACGACCGTGTGGCTA
*
45231675 AGGCACACGCCCGTGTGGCT
1 AGGCACACGACCGTGTGGCT
45231695 TAGGGACATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.27, G:0.34, T:0.20
Consensus pattern (21 bp):
AGGCACACGACCGTGTGGCTA
Found at i:45231809 original size:21 final size:21
Alignment explanation
Indices: 45231793--45231859 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
45231783 CTCACATGCT
**
45231793 CGTGTGTCCAAAACACACGTT
1 CGTGTGTCCAAAACACACGCC
*
45231814 TGTGTGTCCAAAACACAC-CC
1 CGTGTGTCCAAAACACACGCC
45231834 CGTGTGTCCAAAACACACGCC
1 CGTGTGTCCAAAACACACGCC
45231855 CGTGT
1 CGTGT
45231860 TGGATCCCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 17 0.41
21 24 0.59
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (21 bp):
CGTGTGTCCAAAACACACGCC
Found at i:45242742 original size:25 final size:23
Alignment explanation
Indices: 45242714--45242790 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 23
45242704 ATTCTAAAAA
45242714 TAAAACTATTTTAATATTTTAATAT
1 TAAAA-TATTTTAATA-TTTAATAT
* * *
45242739 TAAATGTAATTTAATATTT-ATCT
1 TAAA-ATATTTTAATATTTAATAT
*
45242762 TAATAATATTTTATTAATTTAATAT
1 TAA-AATATTTTAAT-ATTTAATAT
45242787 TAAA
1 TAAA
45242791 GTGATTATCT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
23 13 0.32
24 9 0.22
25 19 0.46
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (23 bp):
TAAAATATTTTAATATTTAATAT
Found at i:45242816 original size:51 final size:48
Alignment explanation
Indices: 45242720--45242816 Score: 115
Period size: 48 Copynumber: 2.0 Consensus size: 48
45242710 AAAATAAAAC
* *
45242720 TATTTTAATATTTTAATATTAAATGTAATTTAATATTTATCTTAATAA
1 TATTTTAATAATTTAATATTAAATGTAATTTAATATTAATCTTAATAA
* *
45242768 TATTTTATTAATTTAATATTAAAGTGATTATCTTAATATTCAAT-TTAAT
1 TATTTTAATAATTTAATATTAAA-TG-TAAT-TTAATATT-AATCTTAAT
45242817 TTAACATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
48 21 0.51
49 2 0.05
50 3 0.07
51 13 0.32
52 2 0.05
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (48 bp):
TATTTTAATAATTTAATATTAAATGTAATTTAATATTAATCTTAATAA
Found at i:45248360 original size:21 final size:21
Alignment explanation
Indices: 45248336--45248375 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
45248326 CAGCTTATTA
45248336 GCATGATTAAAT-TGTCTTAAT
1 GCATG-TTAAATATGTCTTAAT
*
45248357 GCATGTTTAATATGTCTTA
1 GCATGTTAAATATGTCTTA
45248376 GGGATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (21 bp):
GCATGTTAAATATGTCTTAAT
Found at i:45253961 original size:20 final size:20
Alignment explanation
Indices: 45253936--45253975 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
45253926 CGAAAAATGA
*
45253936 TTTCTGGAAAATTATTTACT
1 TTTCTGGAAAATGATTTACT
45253956 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
45253976 GGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:45253991 original size:14 final size:15
Alignment explanation
Indices: 45253955--45253991 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
45253945 AATTATTTAC
45253955 TTTTCTGGAAAATGA
1 TTTTCTGGAAAATGA
*
45253970 TTTACTGGAAAAT-A
1 TTTTCTGGAAAATGA
45253984 TTTTCTGG
1 TTTTCTGG
45253992 TGTTTGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (15 bp):
TTTTCTGGAAAATGA
Found at i:45256341 original size:25 final size:26
Alignment explanation
Indices: 45256313--45256367 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
45256303 CGTGAAAGTT
*
45256313 CAGAGGAGAGCTTGGAAAATGTC-TA
1 CAGAGGAGAGCTTAGAAAATGTCTTA
45256338 CAGAGGAGAGCTTAGAAAATGTCTTA
1 CAGAGGAGAGCTTAGAAAATGTCTTA
45256364 CAGA
1 CAGA
45256368 AATTGAAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 22 0.79
26 6 0.21
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.20
Consensus pattern (26 bp):
CAGAGGAGAGCTTAGAAAATGTCTTA
Found at i:45265601 original size:27 final size:27
Alignment explanation
Indices: 45265559--45265612 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
45265549 ATTTGTGAGA
45265559 AAGGAACCACAAGCTCTAGTGGTCAGT
1 AAGGAACCACAAGCTCTAGTGGTCAGT
*
45265586 AAGGAACCACAGGCTCTAGTGGTCAGT
1 AAGGAACCACAAGCTCTAGTGGTCAGT
45265613 TTTGATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (27 bp):
AAGGAACCACAAGCTCTAGTGGTCAGT
Found at i:45269722 original size:22 final size:22
Alignment explanation
Indices: 45269682--45269750 Score: 61
Period size: 25 Copynumber: 3.0 Consensus size: 22
45269672 ATTTCTGTTA
*
45269682 TATTAAATTTTAT-TAATAATAT
1 TATTAAATTATATGT-ATAATAT
*
45269704 TATTAAATTATATGTATAAAAATAA
1 TATTAAATTATATGTAT---AATAT
*
45269729 TATTAAATTATAAG-ATAATAT
1 TATTAAATTATATGTATAATAT
45269750 T
1 T
45269751 TTTATTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
21 5 0.13
22 14 0.36
23 1 0.03
24 2 0.05
25 17 0.44
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (22 bp):
TATTAAATTATATGTATAATAT
Found at i:45276302 original size:124 final size:121
Alignment explanation
Indices: 45275846--45276313 Score: 749
Period size: 121 Copynumber: 3.8 Consensus size: 121
45275836 TTATTTCGAG
* *
45275846 TTGACGTTTCTG-GTCAAATAGTATAAAATTGCCTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGT
* * ***
45275910 GAAATCGCGCCCTCGTGGTTTCGATTTTGCTACAGTAGGTCATGTAAGAAATTTTTT
65 GAAATCACGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATTTTTT
*
45275967 TTGACTTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGTG
45276032 AAATCACGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATTTTTT
66 AAATCACGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATTTTTT
*
45276088 TTGACTTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGTG
45276153 AAATCACGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATATTTTTTT
66 AAATCACGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAG-AA-A-TTTTTT
* * *
45276212 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAAGATGCTATTTGGGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGTG
** * *
45276277 AAATCGTGCCCTCGTGGATGCGATTTTGCTACAGTAG
66 AAATCACGCCCTCGTAGACGCGATTTTGCTACAGTAG
45276314 TAAGTTTGGG
Statistics
Matches: 327, Mismatches: 16, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
121 223 0.68
122 3 0.01
123 1 0.00
124 100 0.31
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (121 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGTG
AAATCACGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATTTTTT
Found at i:45288869 original size:23 final size:21
Alignment explanation
Indices: 45288833--45288880 Score: 78
Period size: 23 Copynumber: 2.2 Consensus size: 21
45288823 GATGAAAATA
45288833 TAAAAAAATTTAAAATTATTT
1 TAAAAAAATTTAAAATTATTT
45288854 TAAAAAAATATATAAAATTATTT
1 TAAAAAAAT-T-TAAAATTATTT
45288877 TAAA
1 TAAA
45288881 TTATTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 9 0.36
22 1 0.04
23 15 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAAAATTTAAAATTATTT
Found at i:45288870 original size:33 final size:33
Alignment explanation
Indices: 45288830--45288892 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
45288820 ATTGATGAAA
45288830 ATATAAAAAAATTTAAAATTATTTTAAAAAAAT
1 ATATAAAAAAATTTAAAATTATTTTAAAAAAAT
** *
45288863 ATATAAAATTATTTTAAATTATTTTAAAAA
1 ATATAAAAAAATTTAAAATTATTTTAAAAA
45288893 TAAAATTGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
ATATAAAAAAATTTAAAATTATTTTAAAAAAAT
Found at i:45288957 original size:12 final size:12
Alignment explanation
Indices: 45288925--45288961 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
45288915 TTAAATATGG
45288925 ATTTGAGA-GAA
1 ATTTGAGAGGAA
*
45288936 TTTTGA-AGGAA
1 ATTTGAGAGGAA
45288947 ATTTGAGAGGAA
1 ATTTGAGAGGAA
45288959 ATT
1 ATT
45288962 GAAATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
10 1 0.05
11 13 0.59
12 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:45288960 original size:51 final size:51
Alignment explanation
Indices: 45288895--45289006 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 51
45288885 TTTAAAAATA
* *
45288895 AAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTT-GAAGG
1 AAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTGGAAGG
*
45288945 AAATTTGAGAGGAAATTGAAATTAAATATGGGTTTCAGAGAATTTTGGAAGG
1 AAA-TTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTGGAAGG
45288997 AAATTGAGAG
1 AAATTGAGAG
45289007 AATTTTGGAA
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
50 3 0.05
51 46 0.81
52 8 0.14
ACGTcount: A:0.42, C:0.01, G:0.28, T:0.29
Consensus pattern (51 bp):
AAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTGGAAGG
Found at i:45289006 original size:22 final size:22
Alignment explanation
Indices: 45288981--45289028 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
45288971 TATGGGTTTC
45288981 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
45289003 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
45289025 AGAG
1 AGAG
45289029 GATTAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:45289341 original size:12 final size:13
Alignment explanation
Indices: 45289312--45289342 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
45289302 CAAATTTTTC
45289312 AAAAACACTTCTT
1 AAAAACACTTCTT
*
45289325 AAAAACACTTTTT
1 AAAAACACTTCTT
45289338 AAAAA
1 AAAAA
45289343 TAATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAACACTTCTT
Found at i:45289836 original size:19 final size:19
Alignment explanation
Indices: 45289812--45289848 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
45289802 TAAATTCAAG
45289812 TTAATTACATCTTTTTTTT
1 TTAATTACATCTTTTTTTT
45289831 TTAATTACATCTTTTTTT
1 TTAATTACATCTTTTTTT
45289849 CAAAATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.68
Consensus pattern (19 bp):
TTAATTACATCTTTTTTTT
Found at i:45303355 original size:20 final size:20
Alignment explanation
Indices: 45303330--45303383 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
45303320 GTTTTGATTA
* *
45303330 AGCCTTTGTAGTATTTTGTT
1 AGCCTTTGTAGCATTCTGTT
* *
45303350 AGCCTTTATGGCATTCTGTT
1 AGCCTTTGTAGCATTCTGTT
*
45303370 AGCCTTTGTGGCAT
1 AGCCTTTGTAGCAT
45303384 ATTTTGTATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (20 bp):
AGCCTTTGTAGCATTCTGTT
Found at i:45307854 original size:218 final size:218
Alignment explanation
Indices: 45307455--45308208 Score: 1159
Period size: 218 Copynumber: 3.5 Consensus size: 218
45307445 AGTGTAAAGA
* *
45307455 AGCAGATTTAAGCCACA-AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAGTAGAT
1 AGCAGATTGAAGCCA-ATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGAT
* * *
45307519 CTTATCTCTCTGGAGTTGCAGTAGAGTTGATCGCATCAGGTCTTATCTCCCTGAGGTTGTAGCAG
65 CTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGTAGCAG
* * * * **
45307584 AGTAGACTGGGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGACAGATCGAAGATGGCAAAT
130 AGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAAT
*
45307649 CTTATCTCCCTAAGGTTGCAGTAG
195 CTTATCTCCCTAAGGTTGCAGTGG
*
45307673 AGTAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
1 AGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* *
45307738 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCTCTGAGGTTGTTGCAGA
66 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGTAGCAGA
*
45307803 GCAGACTGAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGAGGGGCAGATCGAAGATGATAAATC
131 GCAGACTGAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATC
* *
45307868 TTATCTCCTTGAGGTTGCAGTGG
196 TTATCTCCCTAAGGTTGCAGTGG
* * * * * *
45307891 AGCAAATTGAAGTCGATAATCCTATCTCTCTGAGGTTGTAGTGGAGAGGATTAAAGTAATAGATC
1 AGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* * * *
45307956 TTATCTATCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGGGGTTGCAGCCGA
66 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGTAGCAGA
* *
45308021 GCAGACTGAGTAAACATGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATC
131 GCAGACTGAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATC
45308086 TTATCTCCCTAAGGTTGCAGTGG
196 TTATCTCCCTAAGGTTGCAGTGG
** *
45308109 AGCAGATTGAAGCTGATAATCCTATCTCCCTGAAGTTGTAGCGGAGCGGATTAAAGTAATAGATC
1 AGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* * **
45308174 CTATCTCTTTGAAGTTGCAGTAGAGCAGATCGCAT
66 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAT
45308209 CAAGTCTTGC
Statistics
Matches: 487, Mismatches: 48, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
217 1 0.00
218 486 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (218 bp):
AGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGTAGCAGA
GCAGACTGAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATC
TTATCTCCCTAAGGTTGCAGTGG
Found at i:45307909 original size:45 final size:44
Alignment explanation
Indices: 45307821--45307936 Score: 119
Period size: 45 Copynumber: 2.6 Consensus size: 44
45307811 AGTAAGCAGG
* * * * *
45307821 TCTTATCCCCCTGAGGTTGCAGAGGGGCAGATCGAAGATGATAAA
1 TCTTATCTCCTTGAGGTTGCAGTGGAGCAAATCGAAGATGAT-AA
*
45307866 TCTTATCTCCTTGAGGTTGCAGTGGAGCAAATTGAAG-TCGATAA
1 TCTTATCTCCTTGAGGTTGCAGTGGAGCAAATCGAAGAT-GATAA
* *
45307910 TCCTATCT-CTCTGAGGTTGTAGTGGAG
1 TCTTATCTCCT-TGAGGTTGCAGTGGAG
45307937 AGGATTAAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
43 2 0.03
44 25 0.41
45 34 0.56
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCTTGAGGTTGCAGTGGAGCAAATCGAAGATGATAA
Found at i:45307961 original size:44 final size:44
Alignment explanation
Indices: 45307647--45308194 Score: 211
Period size: 44 Copynumber: 12.5 Consensus size: 44
45307637 AAGATGGCAA
* * * *
45307647 ATCTTATCTCCCTAAGGTTGCAGTAGAGTA-GATTGAAGCCAATA-
1 ATCTTATCTCTCTGAGGTTGCAGTGGAG-AGGATTGAAG-TAATAG
* * * * * *
45307691 ATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAG
1 ATCTTATCTCTCTGAGGTTGCAGTGGAGAGGATTGAAGTAATAG
* * * * *
45307735 ATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCA-T--TAG
1 ATCTTATCTCTCTGAGGTTGCAGTGGAGAGGATTGAAGTAATAG
* * * * *
45307776 GTCTTATCTCTCTGAGGTTG--TTGCAGAGCAGACTG-AGTAAGCAG
1 ATCTTATCTCTCTGAGGTTGCAGTGGAGAG--GATTGAAGTAA-TAG
* * * * * * * *
45307820 GTCTTATCCCCCTGAGGTTGCAGAGGGGCA-GATCGAAGATGATAA
1 ATCTTATCTCTCTGAGGTTGCAGTGGAG-AGGATTGAAG-TAATAG
* *
45307865 ATCTTATCTC-CTTGAGGTTGCAGTGGAGCA-AATTGAAGTCGATA-
1 ATCTTATCTCTC-TGAGGTTGCAGTGGAG-AGGATTGAAGT-AATAG
* * *
45307909 ATCCTATCTCTCTGAGGTTGTAGTGGAGAGGATTAAAGTAATAG
1 ATCTTATCTCTCTGAGGTTGCAGTGGAGAGGATTGAAGTAATAG
* * * * * *
45307953 ATCTTATCTATCTGAAGTTGCAGTAGAGTGGATCGCA-T--TAG
1 ATCTTATCTCTCTGAGGTTGCAGTGGAGAGGATTGAAGTAATAG
* * * ** * *
45307994 GTCTTATCTCCCTGGGGTTGCAGCCGAGCA-GACTG-AGTAA-AC
1 ATCTTATCTCTCTGAGGTTGCAGTGGAG-AGGATTGAAGTAATAG
* * * * * *
45308036 ATGTCTTATCCCCCTGAGGTTGCAGTGGGGCA-GATCGAAGATGATAA
1 A--TCTTATCTCTCTGAGGTTGCAGTGGAG-AGGATTGAAG-TAATAG
* * *
45308083 ATCTTATCTCCCTAAGGTTGCAGTGGAGCA-GATTGAAGCTGATA-
1 ATCTTATCTCTCTGAGGTTGCAGTGGAG-AGGATTGAAG-TAATAG
* * * * * * *
45308127 ATCCTATCTCCCTGAAGTTGTAGCGGAGCGGATTAAAGTAATAG
1 ATCTTATCTCTCTGAGGTTGCAGTGGAGAGGATTGAAGTAATAG
* * *
45308171 ATCCTATCTCTTTGAAGTTGCAGT
1 ATCTTATCTCTCTGAGGTTGCAGT
45308195 AGAGCAGATC
Statistics
Matches: 381, Mismatches: 94, Indels: 58
0.71 0.18 0.11
Matches are distributed among these distances:
39 4 0.01
40 2 0.01
41 53 0.14
42 1 0.00
43 14 0.04
44 220 0.58
45 78 0.20
46 6 0.02
47 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCTCTGAGGTTGCAGTGGAGAGGATTGAAGTAATAG
Found at i:45309426 original size:30 final size:30
Alignment explanation
Indices: 45309392--45309460 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
45309382 TCGGTCCCTT
45309392 GATCCGCGCGGTGACTCGACCCGAAGGGAG
1 GATCCGCGCGGTGACTCGACCCGAAGGGAG
45309422 GATCCGCGCGGTGACTCGACCCGAAGGGAG
1 GATCCGCGCGGTGACTCGACCCGAAGGGAG
45309452 GATCCGCGC
1 GATCCGCGC
45309461 TTTTTTAGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.19, C:0.32, G:0.39, T:0.10
Consensus pattern (30 bp):
GATCCGCGCGGTGACTCGACCCGAAGGGAG
Found at i:45315728 original size:18 final size:18
Alignment explanation
Indices: 45315702--45315738 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45315692 AGGGTTAATG
* *
45315702 TTTTTCATTGTATATATA
1 TTTTGCATTATATATATA
45315720 TTTTGCATTATATATATA
1 TTTTGCATTATATATATA
45315738 T
1 T
45315739 ATATATATAT
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:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTGCATTATATATATA
Found at i:45315772 original size:2 final size:2
Alignment explanation
Indices: 45315728--45315761 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
45315718 TATTTTGCAT
45315728 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45315762 AATGGTATAT
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):
TA
Found at i:45320247 original size:14 final size:14
Alignment explanation
Indices: 45320230--45320278 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
45320220 TTTCATTTTT
45320230 ATATATTTTTTAAA
1 ATATATTTTTTAAA
*
45320244 ATATAATTTTTAAA
1 ATATATTTTTTAAA
*
45320258 ATTTTATGTTGTTTAAA
1 A-TATAT-TT-TTTAAA
45320275 ATAT
1 ATAT
45320279 GAATTTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 14 0.50
15 3 0.11
16 4 0.14
17 7 0.25
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (14 bp):
ATATATTTTTTAAA
Found at i:45327739 original size:21 final size:22
Alignment explanation
Indices: 45327698--45327740 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
45327688 TTCTTGAAAG
*
45327698 TGCCTATTGGGATCATGGACTT
1 TGCCTATTGGGATCATCGACTT
45327720 TGCC-ATTGGGATTC-TCGACTT
1 TGCCTATTGGGA-TCATCGACTT
45327741 CCTTGTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (22 bp):
TGCCTATTGGGATCATCGACTT
Found at i:45335195 original size:41 final size:41
Alignment explanation
Indices: 45335150--45335314 Score: 276
Period size: 41 Copynumber: 4.0 Consensus size: 41
45335140 AGACTATCTA
* *
45335150 CCTAGCAGGCTTAATGCCAGTGTACCATATCAGGCTTTACG
1 CCTAGTAGGCTTAATGCCGGTGTACCATATCAGGCTTTACG
* *
45335191 CCTAGTAGGATTAATGCTGGTGTACCATATCAGGCTTTACG
1 CCTAGTAGGCTTAATGCCGGTGTACCATATCAGGCTTTACG
*
45335232 CCTAGTAGGCTTAATGCTGGTGTACCATATCAGGCTTTACG
1 CCTAGTAGGCTTAATGCCGGTGTACCATATCAGGCTTTACG
*
45335273 CCTAGTAGGCTTAATGCCGGTGTACCATATTAGGCTTTACG
1 CCTAGTAGGCTTAATGCCGGTGTACCATATCAGGCTTTACG
45335314 C
1 C
45335315 TTAGCAGACT
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 117 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (41 bp):
CCTAGTAGGCTTAATGCCGGTGTACCATATCAGGCTTTACG
Found at i:45335274 original size:82 final size:82
Alignment explanation
Indices: 45335150--45335343 Score: 289
Period size: 82 Copynumber: 2.4 Consensus size: 82
45335140 AGACTATCTA
*
45335150 CCTAGCAGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCCTAGTAGGATTAATGCTGGTGTA
1 CCTAGCAGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCCTAGTAGGATTAATGCCGGTGTA
45335215 CCATATCAGGCTTTACG
66 CCATATCAGGCTTTACG
* ** *
45335232 CCTAGTAGGCTTAATGCTGGTGTACCATATCAGGCTTTACGCCTAGTAGGCTTAATGCCGGTGTA
1 CCTAGCAGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCCTAGTAGGATTAATGCCGGTGTA
*
45335297 CCATATTAGGCTTTACG
66 CCATATCAGGCTTTACG
* * ** *
45335314 CTTAGCAGACTTCGTGCCAGTGTATCATAT
1 CCTAGCAGGCTTAATGCCAGTGTACCATAT
45335344 TAAGATTTGT
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 98 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (82 bp):
CCTAGCAGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCCTAGTAGGATTAATGCCGGTGTA
CCATATCAGGCTTTACG
Found at i:45335345 original size:41 final size:41
Alignment explanation
Indices: 45335150--45335343 Score: 246
Period size: 41 Copynumber: 4.7 Consensus size: 41
45335140 AGACTATCTA
* * *
45335150 CCTAGCAGGCTTAATGCCAGTGTACCATATCAGGCTTTACG
1 CCTAGTAGACTTAATGCCGGTGTACCATATCAGGCTTTACG
*
45335191 CCTAGTAGGA-TTAATGCTGGTGTACCATATCAGGCTTTACG
1 CCTAGTA-GACTTAATGCCGGTGTACCATATCAGGCTTTACG
* *
45335232 CCTAGTAGGCTTAATGCTGGTGTACCATATCAGGCTTTACG
1 CCTAGTAGACTTAATGCCGGTGTACCATATCAGGCTTTACG
* *
45335273 CCTAGTAGGCTTAATGCCGGTGTACCATATTAGGCTTTACG
1 CCTAGTAGACTTAATGCCGGTGTACCATATCAGGCTTTACG
* * ** * *
45335314 CTTAGCAGACTTCGTGCCAGTGTATCATAT
1 CCTAGTAGACTTAATGCCGGTGTACCATAT
45335344 TAAGATTTGT
Statistics
Matches: 137, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 135 0.99
42 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (41 bp):
CCTAGTAGACTTAATGCCGGTGTACCATATCAGGCTTTACG
Found at i:45338749 original size:45 final size:45
Alignment explanation
Indices: 45338638--45338750 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
45338628 TTTTTTTGGT
* * *
45338638 GTCTTTTAGCTATGGTATTAATCGTTTGAATCGTGATGCCATAAC
1 GTCTTTCAGCTATGGTATTACTCATTTGAATCGTGATGCCATAAC
* * * *
45338683 GTCTTTCAGCTATGGTATTACTCATTTGATTTGTGGTGCCATAGC
1 GTCTTTCAGCTATGGTATTACTCATTTGAATCGTGATGCCATAAC
* *
45338728 GTCTTTCAACTATGGTCTTACTC
1 GTCTTTCAGCTATGGTATTACTC
45338751 TTTTTTTTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (45 bp):
GTCTTTCAGCTATGGTATTACTCATTTGAATCGTGATGCCATAAC
Found at i:45345788 original size:18 final size:18
Alignment explanation
Indices: 45345754--45345791 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45345744 TTTAATAAAG
*
45345754 TATTTAATATTATAATTT
1 TATTTAATAATATAATTT
45345772 TATTATAATAATA-AATTT
1 TATT-TAATAATATAATTT
45345790 TA
1 TA
45345792 AATAATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTAATAATATAATTT
Found at i:45348281 original size:21 final size:21
Alignment explanation
Indices: 45348257--45348300 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
45348247 AAATACTTGA
45348257 AGCAAACTCTAGACATAGAGC
1 AGCAAACTCTAGACATAGAGC
*
45348278 AGCAAACTTTAGACATAGAGC
1 AGCAAACTCTAGACATAGAGC
45348299 AG
1 AG
45348301 TGTTTCTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.16
Consensus pattern (21 bp):
AGCAAACTCTAGACATAGAGC
Found at i:45352966 original size:91 final size:90
Alignment explanation
Indices: 45352785--45352966 Score: 211
Period size: 91 Copynumber: 2.0 Consensus size: 90
45352775 AACTGCTAGT
* * * * * * * *
45352785 AGGTTATGAATGCACAACGTATTTGCATATAAGAGATGCCAGAATATTTGTGGATGAACCACCAG
1 AGGTTACGAAAGCACAACGTATTTGCAGATAAGAGATGCCAAAAAAATTATGGATGAACCACCAA
*
45352850 AGTTGCAAATTATTAGACTGCCAAA
66 AGTTGCAAATTATTAAACTGCCAAA
* * * *
45352875 AGGTTACGAAAGCACAACGTATTTGGAGATAAGAGCTTCCAAAAAAAATTATGGATGAACCACTA
1 AGGTTACGAAAGCACAACGTATTTGCAGATAAGAGATGCC-AAAAAAATTATGGATGAACCACCA
* * *
45352940 AAGTTGTAGATTATTAAACTGTCAAA
65 AAGTTGCAAATTATTAAACTGCCAAA
45352966 A
1 A
45352967 CTTCCTCATT
Statistics
Matches: 75, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
90 34 0.45
91 41 0.55
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (90 bp):
AGGTTACGAAAGCACAACGTATTTGCAGATAAGAGATGCCAAAAAAATTATGGATGAACCACCAA
AGTTGCAAATTATTAAACTGCCAAA
Found at i:45354562 original size:42 final size:43
Alignment explanation
Indices: 45354450--45354566 Score: 132
Period size: 43 Copynumber: 2.7 Consensus size: 43
45354440 TTTTTACTAA
45354450 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTATCAC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTATCAC
* **** *
45354493 AAACGCCGCTGAAGAATAAGA-CTTTTAGCGGCGCTT-TAGT-AG
1 AAACGCCGCTAAAGACCCTGATC-TTTAGCGGCGCTTCTA-TCAC
*
45354535 AAGCGCCGCTAAAGACCCTGATCTTTAGCGGC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGC
45354567 NNNNNNNNNN
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
42 28 0.47
43 31 0.53
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTATCAC
Found at i:45355329 original size:21 final size:21
Alignment explanation
Indices: 45355299--45355378 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
45355289 TTTGACGCTA
*
45355299 CTCTGCTTCCCTCGCTGTAGC
1 CTCTACTTCCCTCGCTGTAGC
* * *
45355320 CTCTATTTCCCTCACTTTAGC
1 CTCTACTTCCCTCGCTGTAGC
* *
45355341 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGTAGC
* *
45355362 CTGTACTTCTCTCGCTG
1 CTCTACTTCCCTCGCTG
45355379 CCGCCTCTGC
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.07, C:0.41, G:0.15, T:0.36
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGTAGC
Found at i:45355379 original size:21 final size:21
Alignment explanation
Indices: 45355299--45355394 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 21
45355289 TTTGACGCTA
* * *
45355299 CTCTGCTTCCCTCGCTGTAGC
1 CTCTACTTCTCTCGCTGCAGC
* * * **
45355320 CTCTATTTCCCTCACTTTAGC
1 CTCTACTTCTCTCGCTGCAGC
* *
45355341 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCTCTCGCTGCAGC
* *
45355362 CTGTACTTCTCTCGCTGCCGC
1 CTCTACTTCTCTCGCTGCAGC
*
45355383 CTCTGCTTCTCT
1 CTCTACTTCTCT
45355395 TATCGCCGCA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.06, C:0.43, G:0.15, T:0.36
Consensus pattern (21 bp):
CTCTACTTCTCTCGCTGCAGC
Found at i:45355385 original size:42 final size:42
Alignment explanation
Indices: 45355299--45355391 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
45355289 TTTGACGCTA
* * **
45355299 CTCTGCTTCCCTCGCTGTAGCCTCTATTTCCCTCACTTTAGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCACTGCAGC
* * * *
45355341 CTCTGCTTCCCTCGCTGCAGCCTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCACTGCAGC
45355383 CTCTGCTTC
1 CTCTGCTTC
45355392 TCTTATCGCC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.06, C:0.43, G:0.15, T:0.35
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCACTGCAGC
Found at i:45369734 original size:113 final size:112
Alignment explanation
Indices: 45369535--45369843 Score: 422
Period size: 113 Copynumber: 2.7 Consensus size: 112
45369525 NNNNNAAAAT
* * * *
45369535 GCCGCGAAAGACCCCCAAAAACTCAGAAAACGGTGCTGTTGGGTTTAGGCTTGTTGCGGCGCATT
1 GCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTACCGTTGGGTTTAGGCTTTTTGCGGCGC-TT
* *
45369600 TAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCAGTGCAGAAAC
65 T-AAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCAGTACAGAAAC
* *
45369649 GCCGCTAAAGA-CCCCAAAAACTTAGTAAACGGTACCGTTGGGTTTAGGCTTTTTGCGGCGCTGT
1 GCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTACCGTTGGGTTTAGGCTTTTTGCGGCGCT-T
* ** *
45369713 TAAAAAACCGCCGCTACAGACCTGAGAATTAGCGGCGCTTTATAGAAAC
65 TAAAAAA-CGCCGCTAAAGACCTGAGAATTAGCGGCGCAGTACAGAAAC
* * *
45369762 GCCACTAAAGACCCCCAAAAACTCAGAAAACGGTACCGTTTGGCTTAGGCTTTTTGCGGCGCTTT
1 GCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTACCGTTGGGTTTAGGCTTTTTGCGGCGCTTT
45369827 CAAATAAACGCCGCTAA
66 -AAA-AAACGCCGCTAA
45369844 TGCTTATTTT
Statistics
Matches: 172, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
112 7 0.04
113 94 0.55
114 68 0.40
115 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (112 bp):
GCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTACCGTTGGGTTTAGGCTTTTTGCGGCGCTTT
AAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCAGTACAGAAAC
Found at i:45374426 original size:1 final size:1
Alignment explanation
Indices: 45374420--45374466 Score: 76
Period size: 1 Copynumber: 47.0 Consensus size: 1
45374410 CCAAATTTAC
* *
45374420 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
45374467 GAACTACTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:45379666 original size:22 final size:22
Alignment explanation
Indices: 45379641--45380858 Score: 1367
Period size: 22 Copynumber: 56.0 Consensus size: 22
45379631 TTTAATTGAC
45379641 AAACCCTAAACCCTTAACTTAAAAA
1 AAACCCTAAACCCTTAACTT---AA
45379666 CTATAACCCT-AACCCTTAACTTAA
1 --A-AACCCTAAACCCTTAACTTAA
* * *
45379690 AAATCCT-AGCCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
45379711 AAACCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
45379733 AAACTCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * * * *
45379755 AAACCC-CAATCATTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
45379776 AAACCCTAAACTCGTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
* **
45379797 AAACCCTAAACCCTTGACTTTT
1 AAACCCTAAACCCTTAACTTAA
**
45379819 AAACCCTAAACCCTTAACTTTT
1 AAACCCTAAACCCTTAACTTAA
*
45379841 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
45379862 AAACCTTAAACCCCTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
45379884 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
45379906 AAACACT-AACCATTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
45379927 AACCCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
45379948 AAACCCTAAA-CCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
45379968 AAACACTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
45379990 AAACCCT-AACCCTTGAGTTTA
1 AAACCCTAAACCCTTAACTTAA
45380011 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
45380033 AAACCCT-AACCCTTAACATAA
1 AAACCCTAAACCCTTAACTTAA
*
45380054 AAACCCT-AACCCTTAACTGAA
1 AAACCCTAAACCCTTAACTTAA
*
45380075 AAACCTTAACACTAACCCTTAACTTAA
1 AAACCCT---A--AACCCTTAACTTAA
*
45380102 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
45380123 AAACCCTAAACTCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
45380145 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
45380167 AAACCCT-AACCCTTGAGTTTA
1 AAACCCTAAACCCTTAACTTAA
45380188 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
**
45380210 AAACTTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
45380232 AAACCCT-AACCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
* **
45380253 AAACCTTAAATTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
45380275 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
45380297 AAACCCT-AACTCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
45380318 AAACCCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
45380339 AAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
45380361 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
45380383 AAA-CCTTAACCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
45380404 AAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
45380426 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
45380448 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
45380470 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
45380492 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
45380514 AAACCCT-AACCTTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
45380535 AAACCCTAATCCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
45380557 AAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
45380579 AAATCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
45380601 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
45380622 AAAGCCCT-AACCCTTAACTTTA
1 AAA-CCCTAAACCCTTAACTTAA
* *
45380644 AAATCCTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
45380665 AAACCCTAAACTCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
45380687 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
45380709 AAACCCT-AACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
45380730 AAACCCT-AACCCTTAAATTTA
1 AAACCCTAAACCCTTAACTTAA
* *
45380751 AAACCTTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
45380773 AAA-CCTCAAACCCTTAACTTAA
1 AAACCCT-AAACCCTTAACTTAA
* *
45380795 AAA-CCTTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
45380816 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
45380837 AAATCCT-AACACTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
45380858 A
1 A
45380859 TATAATTTGA
Statistics
Matches: 1028, Mismatches: 135, Indels: 62
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.01
21 442 0.43
22 536 0.52
24 2 0.00
27 32 0.03
28 6 0.01
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.26
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:45379728 original size:43 final size:43
Alignment explanation
Indices: 45379670--45380858 Score: 1283
Period size: 43 Copynumber: 27.5 Consensus size: 43
45379660 TAAAAACTAT
* *
45379670 AACCCT-AACCCTTAACTTAAAAATCCTAGCCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* * * *
45379712 AACCCTAAACCTTTAACTTAAAAACTCTAAACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* * * * * * *
45379756 AACCC-CAATCATTGACTTTAAAACCCTAAACTCGTAAC-TTAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* ** *
45379798 AACCCTAAACCCTTGACTTTTAAACCCTAAACCCTTAACTTTTA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* * * *
45379842 AACCCT-AACCCTTAACTTTAAAACCTTAAACCCCTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* *
45379885 AACCCTAAACCCTTAACTTAAAAACACTAACCATTAAC-TTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* *
45379927 AACCCCT-AACCCTTAACTTTAAAACCCTAAACCTTAAC-TTAA
1 AA-CCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* * *
45379969 AACACTAAACCCTTAACTTAAAAACCCTAACCCTTGAGTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* *
45380012 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACATAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* *
45380055 AACCCT-AACCCTTAACTGAAAAACCTTAACACTAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAA-C----C-CTAACCCTTAACTTTAA
* *
45380103 AACCCT-AACCCTTAACTTTAAAACCCTAAACTCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* *
45380146 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTGAGTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
** *
45380189 AACCCTAAACCCTTAACTTAAAAACTTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* * * ** *
45380233 AACCCT-AACCCTTGACTTTAAAACCTTAAATTCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* * *
45380276 AACCATAAACCCTTAACCTAAAAACCCTAACTCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* *
45380319 AACCCTAAACCCTTAACTT-AAAACCCTAAACTCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* * *
45380362 AACCTTAAACCCTTAACTTAAAAACCTTAACCCTTGACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* * * *
45380405 AACCCTAAACTCTTAACTTAAAAACCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* * * * *
45380449 AACCATAAACCCTTAACCTAAAAACCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* * * *
45380493 AACCATAAACCCTTAACCTAAAAACCCTAACCTTTGACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* * *
45380536 AACCCTAATCCCTTAACTTAAAAACCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* *
45380580 AATCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* * *
45380623 AAGCCCT-AACCCTTAACTTTAAAATCCTAAACCTTAACTTTAA
1 AA-CCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* * * *
45380666 AACCCTAAACTCTTAAATTAAAAACCTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* *
45380710 AACCCT-AACCTTTAACTTAAAAACCCTAACCCTTAAATTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* * *
45380752 AACCTTAAACCCTTAACCTAAAAACCTCAAACCCTTAAC-TTAA
1 AACCCTAAACCCTTAACTTAAAAACC-CTAACCCTTAACTTTAA
* * * *
45380795 AAACCTTAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* *
45380838 AATCCT-AACACTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
45380859 TATAATTTGA
Statistics
Matches: 978, Mismatches: 141, Indels: 56
0.83 0.12 0.05
Matches are distributed among these distances:
41 3 0.00
42 151 0.15
43 530 0.54
44 255 0.26
47 2 0.00
48 37 0.04
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.26
Consensus pattern (43 bp):
AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
Found at i:45379785 original size:65 final size:65
Alignment explanation
Indices: 45379641--45380858 Score: 1258
Period size: 65 Copynumber: 18.7 Consensus size: 65
45379631 TTTAATTGAC
* * *
45379641 AAACCCTAAACCCTTAACTTAAAAACTATAACCCT-AACCCTTAACTTAAAAATCCTAGCCCTTA
1 AAACCCTAAACCCTTAACTT---AA--A-AACCCTAAACCCTTAACTTAAAAACCCAAACCCTTA
*
45379705 ACTTTA
60 ACTTAA
* * * * * * * *
45379711 AAACCCTAAACCTTTAACTTAAAAACTCTAAACCTTTAACTTAAAAACCCCAATCATTGACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCAAACCCTTAACTTAA
* * * ** *
45379776 AAACCCTAAACTCGTAACTT-AAAACCCTAAACCCTTGACTTTTAAACCCTAAACCCTTAACTTT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
*
45379840 T
65 A
* * *
45379841 AAACCCT-AACCCTTAACTTTAAAACCTTAAACCCCTAACTTAAAAACCCTAAACCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
45379905 A
65 A
* * * *
45379906 AAACACT-AACCATTAACTTAAAACCCCT-AACCCTTAACTTTAAAACCCTAAA-CCTTAACTT-
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
45379967 A
65 A
* * * *
45379968 AAACACTAAACCCTTAACTTAAAAACCCT-AACCCTTGAGTTTAAAACCCTAAACCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
45380032 A
65 A
* *
45380033 AAACCCT-AACCCTTAACATAAAAACCCT-AACCCTTAACTGAAAAACCTTAACACTAACCCTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC----CA--AACCCTTA
45380096 ACTTAA
60 ACTTAA
* * *
45380102 AAACCCT-AACCCTTAACTTTAAAACCCTAAACTCTTAACTTTAAAACCCTAAACCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
45380166 A
65 A
* * * **
45380167 AAACCCT-AACCCTTGAGTTTAAAACCCTAAACCCTTAACTTAAAAACTTTAAACCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAAC-CCAAACCCTTAACTTA
45380231 A
65 A
* * * ** * *
45380232 AAACCCT-AACCCTTGACTTTAAAACCTTAAATTCTTAACTTAAAAACCATAAACCCTTAACCTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC-CAAACCCTTAACTTA
45380296 A
65 A
* * *
45380297 AAACCCT-AACTCTTAACTTTAAAACCCTAAACCCTTAACTT-AAAACCCTAAACTCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
45380360 A
65 A
* * * * *
45380361 AAACCTTAAACCCTTAACTTAAAAA-CCTTAACCCTTGACTTTAAAACCCTAAACTCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
45380425 A
65 A
* * * * * *
45380426 AAACCATAAACCCTTAACCTAAAAACCATAAACCCTTAACCTAAAAACCATAAACCCTTAACCTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC-CAAACCCTTAACTTA
45380491 A
65 A
* * * * * *
45380492 AAACCATAAACCCTTAACCTAAAAACCCT-AACCTTTGACTTTAAAACCCTAATCCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
45380556 A
65 A
* * *
45380557 AAACCATAAACCCTTAACTTAAAAATCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCAAACCCTTAACTTAA
* * * * *
45380622 AAAGCCCT-AACCCTTAACTTTAAAATCCTAAA-CCTTAACTTTAAAACCCTAAACTCTTAAATT
1 AAA-CCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTT
45380685 AA
64 AA
* * * * *
45380687 AAACCTTAAACCCTTAACTTAAAAACCCT-AACCTTTAACTTAAAAACCCTAACCCTTAAATTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCAAACCCTTAACTTAA
* * ** *
45380751 AAACCTTAAACCCTTAACCTAAAAA-CCTCAAACCCTTAACTTAAAAACCTTAACCCTTAACTTT
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AAACCCTTAACTTAAAAACCCAAACCCTTAACTTA
45380815 A
65 A
* *
45380816 AAACCCT-AACCCTTAACTTAAAAATCCT-AACACTTAACTTAAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
45380859 TATAATTTGA
Statistics
Matches: 994, Mismatches: 124, Indels: 67
0.84 0.10 0.06
Matches are distributed among these distances:
62 8 0.01
63 67 0.07
64 217 0.22
65 542 0.55
66 80 0.08
67 4 0.00
68 1 0.00
69 40 0.04
70 35 0.04
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.26
Consensus pattern (65 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCAAACCCTTAACTTAA
Found at i:45380066 original size:27 final size:25
Alignment explanation
Indices: 45380034--45380114 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 25
45380024 TTAACTTAAA
*
45380034 AACCCTAACCCTTAAC-ATAAA---
1 AACCCTAACCCTTAACTAAAAACCT
45380055 AACCCTAACCCTTAACTGAAAAACCTT
1 AACCCTAACCCTTAACT-AAAAACC-T
*
45380082 AACACTAACCCTTAACTTAAAAACCCT
1 AACCCTAACCCTTAAC-TAAAAA-CCT
45380109 AACCCT
1 AACCCT
45380115 TAACTTTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
21 16 0.33
23 4 0.08
27 26 0.53
28 3 0.06
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.21
Consensus pattern (25 bp):
AACCCTAACCCTTAACTAAAAACCT
Found at i:45380123 original size:27 final size:27
Alignment explanation
Indices: 45380059--45380111 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
45380049 CATAAAAACC
*
45380059 CTAACCCTTAACTGAAAAACCTTAACA
1 CTAACCCTTAACTGAAAAACCCTAACA
*
45380086 CTAACCCTTAACTTAAAAACCCTAAC
1 CTAACCCTTAACTGAAAAACCCTAAC
45380112 CCTTAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (27 bp):
CTAACCCTTAACTGAAAAACCCTAACA
Found at i:45380993 original size:37 final size:38
Alignment explanation
Indices: 45380952--45381119 Score: 105
Period size: 37 Copynumber: 4.4 Consensus size: 38
45380942 TTTTGACTGG
45380952 TACTAACAATTAATA-ATTTGATATAATTTGATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
* * ** *
45380989 TACTAACCATTAATACAATT-AT-CGA-TTAATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
* * ** * * * * * **
45381024 TACATTCACATAATGTTAGATTTGAAAAAATGTT-TTGACTGG
1 TAC--TAACA-ATTAATACATTTGATATAAT-TTGAT-AATTT
45381066 TACTAACAATTAATA-ATTTGATATAATTTGATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
45381103 TACTAACAATTAATACA
1 TACTAACAATTAATACA
45381120 ATTATCAATT
Statistics
Matches: 91, Mismatches: 29, Indels: 21
0.65 0.21 0.15
Matches are distributed among these distances:
35 12 0.13
36 1 0.01
37 38 0.42
38 22 0.24
39 5 0.05
40 5 0.05
41 1 0.01
42 7 0.08
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (38 bp):
TACTAACAATTAATACATTTGATATAATTTGATAATTT
Found at i:45381058 original size:114 final size:114
Alignment explanation
Indices: 45380858--45381136 Score: 522
Period size: 114 Copynumber: 2.4 Consensus size: 114
45380848 CTTAACTTAA
45380858 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
45380923 TGCTAGATTTAAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
66 TGCTAGATTTAAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
*
45380972 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCGATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
* *
45381037 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
66 TGCTAGATTTAAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
*
45381086 ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATT
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATT
45381137 GAAAAAAATA
Statistics
Matches: 160, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 160 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (114 bp):
ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
TGCTAGATTTAAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
Found at i:45384280 original size:126 final size:126
Alignment explanation
Indices: 45384055--45384422 Score: 592
Period size: 126 Copynumber: 2.9 Consensus size: 126
45384045 CCCAAACATG
* * **
45384055 CTACTGTAGCAAAAGCGTATCCACGAGGGCGCGATTTCACAATTTATTTTCAAATAGCATCTTGC
1 CTACTATAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAATTTATTTTCAAATAGCATCTTGC
* * *
45384120 TTGAAGCATTTTTTAAACTATTTTCTTAAAAACGTCAACTCGAAATTATTTCTTTCAGGAC
66 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTTCAGGAC
* * * * **
45384181 CTACTATAGTAAAAGCGCGTCCACGAGAGCGCGATTTCACAAATTCTTCTCAAATAGCATCCGGC
1 CTACTATAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAATTTATTTTCAAATAGCATCTTGC
*
45384246 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTTCAGGAC
66 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTTCAGGAC
45384307 CTACTATAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAATTTATTTTCAAATAGCATCTTGC
1 CTACTATAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAATTTATTTTCAAATAGCATCTTGC
* *
45384372 TTGAAGCATTTTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTT
66 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT
45384423 TTCCATAACC
Statistics
Matches: 219, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 219 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (126 bp):
CTACTATAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAATTTATTTTCAAATAGCATCTTGC
TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTTCAGGAC
Found at i:45393210 original size:136 final size:136
Alignment explanation
Indices: 45392966--45393214 Score: 498
Period size: 136 Copynumber: 1.8 Consensus size: 136
45392956 ATTGTCCACA
45392966 ATTATCTACTGGTGTGATTTGGTTGGACAAGTTCTGGGGAAGTCTATTTGGTATTTAGCAGAATT
1 ATTATCTACTGGTGTGATTTGGTTGGACAAGTTCTGGGGAAGTCTATTTGGTATTTAGCAGAATT
45393031 GGGTAGGAAGTTTTTGAAAAATCTGTAATTATAGTGGCTTGACCACATTTCTATCTAGCAGCTTG
66 GGGTAGGAAGTTTTTGAAAAATCTGTAATTATAGTGGCTTGACCACATTTCTATCTAGCAGCTTG
45393096 ACTGTG
131 ACTGTG
45393102 ATTATCTACTGGTGTGATTTGGTTGGACAAGTTCTGGGGAAGTCTATTTGGTATTTAGCAGAATT
1 ATTATCTACTGGTGTGATTTGGTTGGACAAGTTCTGGGGAAGTCTATTTGGTATTTAGCAGAATT
45393167 GGGTAGGAAGTTTTTGAAAAATCTGTAATTATAGTGGCTTGACCACAT
66 GGGTAGGAAGTTTTTGAAAAATCTGTAATTATAGTGGCTTGACCACAT
45393215 ATATCTATTC
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 113 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (136 bp):
ATTATCTACTGGTGTGATTTGGTTGGACAAGTTCTGGGGAAGTCTATTTGGTATTTAGCAGAATT
GGGTAGGAAGTTTTTGAAAAATCTGTAATTATAGTGGCTTGACCACATTTCTATCTAGCAGCTTG
ACTGTG
Found at i:45397843 original size:22 final size:22
Alignment explanation
Indices: 45397818--45397876 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
45397808 CGCATCAATA
*
45397818 TATGAGAGCCCTTTATGGGACG
1 TATGAGAGCCCTTTATGAGACG
45397840 TATGAGAG-CCTTATATGAGACG
1 TATGAGAGCCCTT-TATGAGACG
*
45397862 TATGAAAGCCCTTTA
1 TATGAGAGCCCTTTA
45397877 AGAGTGTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 4 0.12
22 25 0.76
23 4 0.12
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (22 bp):
TATGAGAGCCCTTTATGAGACG
Found at i:45403142 original size:18 final size:18
Alignment explanation
Indices: 45403121--45403158 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45403111 TTAAAAAAAA
45403121 TATAAAT-TTTGAAATTTT
1 TATAAATATTT-AAATTTT
*
45403139 TATAAATATTTTAATTTT
1 TATAAATATTTAAATTTT
45403157 TA
1 TA
45403159 ATTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TATAAATATTTAAATTTT
Found at i:45403159 original size:7 final size:7
Alignment explanation
Indices: 45403147--45403178 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
45403137 TTTATAAATA
45403147 TTTTAAT
1 TTTTAAT
45403154 TTTTAAT
1 TTTTAAT
45403161 TTTT--T
1 TTTTAAT
45403166 TTTTAAT
1 TTTTAAT
45403173 TTTTAA
1 TTTTAA
45403179 AATTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.22
7 18 0.78
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTAAT
Found at i:45403188 original size:19 final size:19
Alignment explanation
Indices: 45403133--45403193 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
45403123 TAAATTTTGA
45403133 AATTTTTATAAA--TATTTT
1 AATTTTTA-AAATTTATTTT
** *
45403151 AATTTTTAATTTTTTTTTT
1 AATTTTTAAAATTTATTTT
45403170 AATTTTTAAAATTTATTTT
1 AATTTTTAAAATTTATTTT
45403189 GAATT
1 -AATT
45403194 ATTTTGTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 1 0.03
18 8 0.24
19 21 0.62
20 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
AATTTTTAAAATTTATTTT
Found at i:45403188 original size:20 final size:19
Alignment explanation
Indices: 45403147--45403193 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
45403137 TTTATAAATA
* *
45403147 TTTTAATTTTTAATTTTTT
1 TTTTAATTTTTAAATTTAT
45403166 TTTTAATTTTTAAAATTTAT
1 TTTTAATTTTT-AAATTTAT
*
45403186 TTTGAATT
1 TTTTAATT
45403194 ATTTTGTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTAATTTTTAAATTTAT
Found at i:45404562 original size:18 final size:19
Alignment explanation
Indices: 45404539--45404578 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
45404529 ATGAATCAAT
*
45404539 TTTTTTAGTTTTTTTA-TG
1 TTTTTTAGTTTCTTTACTG
45404557 TTTTTTAGTTTCTTTACTG
1 TTTTTTAGTTTCTTTACTG
45404576 TTT
1 TTT
45404579 GATTCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.10, C:0.05, G:0.10, T:0.75
Consensus pattern (19 bp):
TTTTTTAGTTTCTTTACTG
Found at i:45404881 original size:135 final size:131
Alignment explanation
Indices: 45404621--45404881 Score: 335
Period size: 135 Copynumber: 2.0 Consensus size: 131
45404611 TTAAACTACG
* *
45404621 GTCTTCGCTTTTGTGCTCTTTCAGTTCAATTAAAATGGGTTTGTTTGTTTTTACTTTTTTTTGTA
1 GTCTTCGCTTTTGTGCTCTTTCAGTTAAATTAAAATGGGTTTGTCTGTTTTTACTTTTTTTTGTA
* * * ** * * *
45404686 CTATTTGATTCTTTATTGATTGCCCCTTTTGTTGATTTTGTTGTTCTTGGCTCTTTGCAAATTAC
66 CTATTTGATTCTTTATTGATTGCCACTTTTATTAATTTTACTGTTCTTAGCTATTGGCAAATTAC
45404751 A
131 A
* * *
45404752 GTCTTTGCTTTTGTGCTCTTTCAGTTAAAATTTAATTGGGTTTGTCTGTTTTTACTTTTTTTCTT
1 GTCTTCGCTTTTGTGCTCTTTCAGTT-AAATTAAAATGGGTTTGTCTGTTTTTAC---TTTT-TT
* *
45404817 TTGTACTGTTTGATTC-TTATTGATTGCTACTTTTATTAATTTTACTGTTCTTAGCTATTGGCAA
61 TTGTACTATTTGATTCTTTATTGATTGCCACTTTTATTAATTTTACTGTTCTTAGCTATTGGCAA
45404881 A
126 A
45404882 CTGCGCAACA
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
131 25 0.23
132 24 0.22
135 44 0.40
136 17 0.15
ACGTcount: A:0.16, C:0.13, G:0.15, T:0.56
Consensus pattern (131 bp):
GTCTTCGCTTTTGTGCTCTTTCAGTTAAATTAAAATGGGTTTGTCTGTTTTTACTTTTTTTTGTA
CTATTTGATTCTTTATTGATTGCCACTTTTATTAATTTTACTGTTCTTAGCTATTGGCAAATTAC
A
Found at i:45406469 original size:65 final size:65
Alignment explanation
Indices: 45406364--45406494 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
45406354 GATGGAGTAG
* *
45406364 AGGAAAGCATTCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTGTTGTA
1 AGGAAAGCATCCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTCTTGTA
*
45406429 AGGAAAGCATCCACTATTGTAGTTTTCCTCAATAATAAGGAAAGGTATTCTTCATCTTTCTTGTA
1 AGGAAAGCATCCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTCTTGTA
45406494 A
1 A
45406495 TTATTCATCA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (65 bp):
AGGAAAGCATCCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTCTTGTA
Found at i:45409516 original size:2 final size:2
Alignment explanation
Indices: 45409509--45409554 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
45409499 TTAAGAAAAT
*
45409509 CA CA CA CA CA CA CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
45409551 CA CA
1 CA CA
45409555 TATATATACT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:45410377 original size:5 final size:5
Alignment explanation
Indices: 45410367--45410405 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
45410357 AAACATGCCA
45410367 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
45410406 AAAAGGCTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:45410499 original size:20 final size:20
Alignment explanation
Indices: 45410474--45410513 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
45410464 AAGATAATCT
*
45410474 AGCCTTTATTGGAATTTTAG
1 AGCCTTTAGTGGAATTTTAG
45410494 AGCCTTTAGTGGAATTTTAG
1 AGCCTTTAGTGGAATTTTAG
45410514 GGGCAGTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (20 bp):
AGCCTTTAGTGGAATTTTAG
Found at i:45410670 original size:30 final size:30
Alignment explanation
Indices: 45410634--45410698 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
45410624 CAAGAACTCT
*
45410634 TCTTTATCCCATACAATTAGTACTCTTACA
1 TCTTTATCCCATACAATTAGAACTCTTACA
*
45410664 TCTTTATCCCATACAATTAGAACTCTTGCA
1 TCTTTATCCCATACAATTAGAACTCTTACA
45410694 TCTTT
1 TCTTT
45410699 CCTTTTCTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.26, G:0.05, T:0.42
Consensus pattern (30 bp):
TCTTTATCCCATACAATTAGAACTCTTACA
Found at i:45413096 original size:13 final size:15
Alignment explanation
Indices: 45413076--45413108 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
45413066 AAATCCTCCC
*
45413076 ATTTTTTAGTTTT-T
1 ATTTTTAAGTTTTAT
45413090 ATTTTTAAGTTTTAT
1 ATTTTTAAGTTTTAT
45413105 ATTT
1 ATTT
45413109 CTTCCTGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (15 bp):
ATTTTTAAGTTTTAT
Found at i:45419704 original size:26 final size:26
Alignment explanation
Indices: 45419675--45419725 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
45419665 ACAAAGAGAA
*
45419675 GGGATTGCATGAAACTGTGATTCCAG
1 GGGATTGCATGAAACTCTGATTCCAG
*
45419701 GGGATTGTATGAAACTCTGATTCCA
1 GGGATTGCATGAAACTCTGATTCCA
45419726 TTTCATCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (26 bp):
GGGATTGCATGAAACTCTGATTCCAG
Found at i:45420581 original size:60 final size:61
Alignment explanation
Indices: 45420420--45420593 Score: 201
Period size: 60 Copynumber: 2.9 Consensus size: 61
45420410 TTTTTTTAAC
* * * * * *
45420420 TTTTAGAAATAGAATTAAATTGATGAATTTTATAAATGTTTAGGGCTAAATTTATTGAACT
1 TTTTAGAATTAGAATTAAATTGATAAAATTTATAAATATTGAGGGCTAAATTTATCGAACT
* *
45420481 TTTTAGAATTAGAATTAAA-TGAAAAAATTTGA-AAATATTGAGGGTTAAATTTATCGAA-T
1 TTTTAGAATTAGAATTAAATTGATAAAATTT-ATAAATATTGAGGGCTAAATTTATCGAACT
* * * *
45420540 TTTTAGATTTAGAATTAAATTGATAAAATGTATAAACATTGAAGAGCTAAATTT
1 TTTTAGAATTAGAATTAAATTGATAAAATTTATAAATATTG-AGGGCTAAATTT
45420594 GTAATAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
59 20 0.21
60 46 0.48
61 29 0.31
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (61 bp):
TTTTAGAATTAGAATTAAATTGATAAAATTTATAAATATTGAGGGCTAAATTTATCGAACT
Found at i:45421380 original size:22 final size:22
Alignment explanation
Indices: 45421355--45421401 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
45421345 AATGGTGAGA
45421355 TTAGCGATAGAAAATGGTTGGT
1 TTAGCGATAGAAAATGGTTGGT
45421377 TTAGCGATAGAAAATGGTTGGT
1 TTAGCGATAGAAAATGGTTGGT
45421399 TTA
1 TTA
45421402 TTCCAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (22 bp):
TTAGCGATAGAAAATGGTTGGT
Found at i:45422882 original size:39 final size:39
Alignment explanation
Indices: 45422828--45422906 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
45422818 AGCTACAAAA
45422828 TTCCAAATTAAGATCCGCTTGATGTTTTCGAAACTAGAC
1 TTCCAAATTAAGATCCGCTTGATGTTTTCGAAACTAGAC
45422867 TTCCAAATTAAGATCCGCTTGATGTTTTCGAAACTAGAC
1 TTCCAAATTAAGATCCGCTTGATGTTTTCGAAACTAGAC
45422906 T
1 T
45422907 CAAATAACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (39 bp):
TTCCAAATTAAGATCCGCTTGATGTTTTCGAAACTAGAC
Found at i:45427017 original size:20 final size:20
Alignment explanation
Indices: 45426983--45427024 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
45426973 AGCTATTTAA
** *
45426983 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
45427003 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
45427023 AT
1 AT
45427025 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:45432115 original size:20 final size:20
Alignment explanation
Indices: 45432081--45432122 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
45432071 AGCTATTTAA
** *
45432081 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
45432101 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
45432121 AT
1 AT
45432123 TTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:45434639 original size:18 final size:17
Alignment explanation
Indices: 45434600--45434653 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
45434590 ACAATAGTGG
* * *
45434600 AGAAAAAAAGAGGGAGA
1 AGAAAAAAATAAGGATA
45434617 AGAAAGAAAGA-AAGGATA
1 AGAAA-AAA-ATAAGGATA
45434635 AGAAAAAAATAAGGATA
1 AGAAAAAAATAAGGATA
45434652 AG
1 AG
45434654 GTGTTTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 1 0.03
17 17 0.53
18 13 0.41
19 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.06
Consensus pattern (17 bp):
AGAAAAAAATAAGGATA
Found at i:45439417 original size:30 final size:30
Alignment explanation
Indices: 45439381--45439442 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
45439371 CATCTTGTGG
45439381 TTAAAATTGACTCTTAGAAAGAGAGTCTCA
1 TTAAAATTGACTCTTAGAAAGAGAGTCTCA
*
45439411 TTAAAATTGACTCTTAGAAAGAGAGTTTCA
1 TTAAAATTGACTCTTAGAAAGAGAGTCTCA
45439441 TT
1 TT
45439443 GTTCATGGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (30 bp):
TTAAAATTGACTCTTAGAAAGAGAGTCTCA
Found at i:45443518 original size:23 final size:22
Alignment explanation
Indices: 45443474--45443526 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
45443464 AATAAATCAA
*
45443474 AAACAAAAAAAAATTAACATTT
1 AAACAAAAAAAAACTAACATTT
*
45443496 ATAACAAAAAAACCACTAA-ATTT
1 A-AACAAAAAAA-AACTAACATTT
45443519 AAA-AAAAA
1 AAACAAAAA
45443527 TACATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 5 0.19
22 3 0.11
23 15 0.56
24 4 0.15
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (22 bp):
AAACAAAAAAAAACTAACATTT
Found at i:45443737 original size:54 final size:54
Alignment explanation
Indices: 45443659--45443832 Score: 255
Period size: 54 Copynumber: 3.2 Consensus size: 54
45443649 TACTCTTCTA
*
45443659 TTTTTTTTCCCTTCT-CTTTCTCCTCTCGTACCTATTCTGCTTCTCTTTTTTTTTC
1 TTTTTTTT-CCTTCTCCTTT-TCCTCTCGTACCTATTATGCTTCTCTTTTTTTTTC
45443714 TTTTTTTTCCTTCTCCTTTTCCTCTCGTACCTATTATGCTTCTCTCTTTTTTTTC
1 TTTTTTTTCCTTCTCCTTTTCCTCTCGTACCTATTATGCTTCTCT-TTTTTTTTC
* *
45443769 -TTTTTTTCCTTCTCCTTCTCCTCTCATACCTATTATGCTTCTC-TTTTTTTTC
1 TTTTTTTTCCTTCTCCTTTTCCTCTCGTACCTATTATGCTTCTCTTTTTTTTTC
45443821 ATTCTTTTTTCC
1 -TT-TTTTTTCC
45443833 CTTCCTTCCC
Statistics
Matches: 111, Mismatches: 3, Indels: 10
0.90 0.02 0.08
Matches are distributed among these distances:
52 9 0.08
54 73 0.66
55 29 0.26
ACGTcount: A:0.06, C:0.30, G:0.03, T:0.61
Consensus pattern (54 bp):
TTTTTTTTCCTTCTCCTTTTCCTCTCGTACCTATTATGCTTCTCTTTTTTTTTC
Found at i:45443841 original size:9 final size:10
Alignment explanation
Indices: 45443828--45443856 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
45443818 TTCATTCTTT
45443828 TTTCCCTTCC
1 TTTCCCTTCC
45443838 -TTCCCTTCC
1 TTTCCCTTCC
45443847 TTTCCCTTCC
1 TTTCCCTTCC
45443857 CGTTCTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (10 bp):
TTTCCCTTCC
Found at i:45445378 original size:43 final size:42
Alignment explanation
Indices: 45445277--45445389 Score: 106
Period size: 43 Copynumber: 2.6 Consensus size: 42
45445267 AAATTTACGC
* * * *
45445277 GTAATACCATGTCTAGGACATTGGCATCGTATATGATTTACGT
1 GTAAGACCA-GTCTGGGACAGTGGCATCGTATATGATTTACAT
*
45445320 GTAAGACTCTA-TCTGGGACAGTGGCATCGATATTTGA-TTACAT
1 GTAAGAC-C-AGTCTGGGACAGTGGCATCG-TATATGATTTACAT
45445363 GTAAGACCACGTCTGGGAC-GATGGCAT
1 GTAAGACCA-GTCTGGGACAG-TGGCAT
45445390 TTTATGAGCT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
41 1 0.02
42 2 0.03
43 48 0.81
44 7 0.12
45 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
GTAAGACCAGTCTGGGACAGTGGCATCGTATATGATTTACAT
Found at i:45446874 original size:23 final size:23
Alignment explanation
Indices: 45446843--45447140 Score: 267
Period size: 23 Copynumber: 12.6 Consensus size: 23
45446833 TAATTTGATA
*
45446843 TATATATGCTGCCCAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
*
45446866 TATGA-ATGCTGTCCAATTTGGTG
1 TAT-ATATGCTGTCCAATTTAGTG
*
45446889 TATATATGCTGT-CAATTTTTGGTG
1 TATATATGCTGTCCAA--TTTAGTG
* * *
45446913 TATAAATGCTGTCCAAATTAGTATATATA
1 TATATATGCTGTCC-AA-T--T-TA-GTG
** * *
45446942 TATATATATTGCCCAATTTAGCG
1 TATATATGCTGTCCAATTTAGTG
*
45446965 TATAAATGCTGTCCAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
*
45446988 TATATATGCTGTCAAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
* * * *
45447011 TATAAATGCTGTCCAAATTGGTA
1 TATATATGCTGTCCAATTTAGTG
*
45447034 TATATATGCTGCCCAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
* *
45447057 TATAAATGCTGTCCAATTTGGTG
1 TATATATGCTGTCCAATTTAGTG
* * *
45447080 TATATATGCTGTCAAATTTTGGTC
1 TATATATGCTGTCCAA-TTTAGTG
*
45447104 TATATATGCTGTCCAATTTTGGTG
1 TATATATGCTGTCCAA-TTTAGTG
*
45447128 TATAAATGCTGTC
1 TATATATGCTGTC
45447141 TGATTTGATG
Statistics
Matches: 225, Mismatches: 39, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
22 4 0.02
23 138 0.61
24 61 0.27
25 4 0.02
26 2 0.01
27 2 0.01
28 3 0.01
29 11 0.05
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (23 bp):
TATATATGCTGTCCAATTTAGTG
Found at i:45447073 original size:92 final size:94
Alignment explanation
Indices: 45446841--45447138 Score: 375
Period size: 92 Copynumber: 3.1 Consensus size: 94
45446831 GATAATTTGA
* * * *
45446841 TATATATATGCTGCCCAATTTAGTGTATGAATGCTGTCCAATTTGGTGTATATATGCTGTCAATT
1 TATATATATGCTGCCCAATTTAGCGTATAAATGCTGTCCAATTTAGTGTATATATGCTGTCAAAT
* * **
45446906 TTTGGTGTATAAATGCTGTCCAAATTAGTATATA
66 TTTAGTCTATAAATGCTGTCC-AA-TA-T-T-GG
**
45446940 TATATATATATTGCCCAATTTAGCGTATAAATGCTGTCCAATTTAGTGTATATATGCTGTCAAA-
1 TATATATATGCTGCCCAATTTAGCGTATAAATGCTGTCCAATTTAGTGTATATATGCTGTCAAAT
*
45447004 TTTAGTGTATAAATGCTGTCCAA-ATTGG
66 TTTAGTCTATAAATGCTGTCCAATATTGG
* *
45447032 TATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCAAAT
1 TATATATATGCTGCCCAATTTAGCGTATAAATGCTGTCCAATTTAGTGTATATATGCTGTCAAAT
* * *
45447097 TTTGGTCTATATATGCTGTCCAATTTTGG
66 TTTAGTCTATAAATGCTGTCCAATATTGG
* *
45447126 TGTATAAATGCTG
1 TATATATATGCTG
45447139 TCTGATTTGA
Statistics
Matches: 178, Mismatches: 19, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
92 60 0.34
93 21 0.12
94 16 0.09
95 1 0.01
97 2 0.01
98 20 0.11
99 58 0.33
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.41
Consensus pattern (94 bp):
TATATATATGCTGCCCAATTTAGCGTATAAATGCTGTCCAATTTAGTGTATATATGCTGTCAAAT
TTTAGTCTATAAATGCTGTCCAATATTGG
Found at i:45447152 original size:23 final size:23
Alignment explanation
Indices: 45447039--45447155 Score: 110
Period size: 24 Copynumber: 5.0 Consensus size: 23
45447029 TGGTATATAT
*
45447039 ATGCTGCCCAATTT-AGTGTATAA
1 ATGCTGTCCAATTTGA-TGTATAA
* *
45447062 ATGCTGTCCAATTTGGTGTATAT
1 ATGCTGTCCAATTTGATGTATAA
* * * *
45447085 ATGCTGTCAAATTTTGGTCTATAT
1 ATGCTGTCCAA-TTTGATGTATAA
*
45447109 ATGCTGTCCAATTTTGGTGTATAA
1 ATGCTGTCCAA-TTTGATGTATAA
**
45447133 ATGCTGTCTGATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
45447156 GAGTGGTCCA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
23 40 0.49
24 41 0.51
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.42
Consensus pattern (23 bp):
ATGCTGTCCAATTTGATGTATAA
Found at i:45450101 original size:2 final size:2
Alignment explanation
Indices: 45450094--45450126 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
45450084 GTTATGTGCT
45450094 TA TA TA TA 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 TA TA TA TA T
45450127 GAGATGACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45450381 original size:9 final size:9
Alignment explanation
Indices: 45450352--45450388 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
45450342 TGAGTTTTCG
45450352 AATTCGAAT
1 AATTCGAAT
*
45450361 AACTCGAAT
1 AATTCGAAT
45450370 AATTCGAAT
1 AATTCGAAT
*
45450379 AATTTGAAT
1 AATTCGAAT
45450388 A
1 A
45450389 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:45451308 original size:5 final size:5
Alignment explanation
Indices: 45451298--45451324 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
45451288 AAAAATTTTT
45451298 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
45451325 CGAATGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:45458145 original size:23 final size:23
Alignment explanation
Indices: 45458119--45458340 Score: 91
Period size: 23 Copynumber: 9.4 Consensus size: 23
45458109 TGGACAACTA
45458119 TTATACATCAATTTGGACAGCAT
1 TTATACATCAATTTGGACAGCAT
* * ** * *
45458142 TTATATACCAAACTAGATAGCAT
1 TTATACATCAATTTGGACAGCAT
*
45458165 TT-TCACACCAAAATTTGGACAGCAT
1 TTAT-ACATC--AATTTGGACAGCAT
* * *
45458190 ATATACAGCAATTTGGGCAGCAT
1 TTATACATCAATTTGGACAGCAT
* *
45458213 ATATACAACAATTT-GAGCAGCATTTT
1 TTATACATCAATTTGGA-CAGCA---T
* * * *
45458239 TTTTTCACCAAAATTGGACAGCAT
1 TTATACATC-AATTTGGACAGCAT
* * *
45458263 ATATACA--AAATTGGACTGCAT
1 TTATACATCAATTTGGACAGCAT
45458284 TTATACATCAAAATTT-GACAGCA-
1 TTATACATC--AATTTGGACAGCAT
*
45458307 -TATACAT-ATATAATTGGACTGCAT
1 TTATACATCA-AT--TTGGACAGCAT
45458331 TTATACATCA
1 TTATACATCA
45458341 CAATATAATT
Statistics
Matches: 149, Mismatches: 29, Indels: 39
0.69 0.13 0.18
Matches are distributed among these distances:
19 1 0.01
20 2 0.01
21 19 0.13
22 11 0.07
23 60 0.40
24 11 0.07
25 26 0.17
26 8 0.05
27 9 0.06
28 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (23 bp):
TTATACATCAATTTGGACAGCAT
Found at i:45458299 original size:73 final size:72
Alignment explanation
Indices: 45458170--45458307 Score: 181
Period size: 73 Copynumber: 1.9 Consensus size: 72
45458160 AGCATTTTCA
* * *
45458170 CACCAAAATTTGGACAGCATATATACAGCAATTTGGGCAGCATATATACAACAATTTGAGCAGCA
1 CACCAAAATTTGGACAGCATATATACA-CAAATTGGACAGCATATATACAAAAATTTGA-CAGCA
45458235 TTTTTTTTT
64 TTTTTTTTT
* *
45458244 CACCAAAA-TTGGACAGCATATATACA-AAATTGGACTGCATTTATACATCAAAATTTGACAGCA
1 CACCAAAATTTGGACAGCATATATACACAAATTGGACAGCATATATACA--AAAATTTGACAGCA
45458307 T
64 T
45458308 ATACATATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
71 17 0.30
72 6 0.11
73 26 0.46
74 8 0.14
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (72 bp):
CACCAAAATTTGGACAGCATATATACACAAATTGGACAGCATATATACAAAAATTTGACAGCATT
TTTTTTT
Found at i:45458335 original size:47 final size:45
Alignment explanation
Indices: 45458247--45458340 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 45
45458237 TTTTTTTCAC
45458247 CAAAATTGGACAGCATATATACAAAATTGGACTGCATTTATACAT
1 CAAAATTGGACAGCATATATACAAAATTGGACTGCATTTATACAT
* * *
45458292 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
1 CAAAATTGGACAGCATAT--ATACAAAATTGGACTGCATTTATACAT
45458339 CA
1 CA
45458341 CAATATAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 17 0.39
47 27 0.61
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (45 bp):
CAAAATTGGACAGCATATATACAAAATTGGACTGCATTTATACAT
Found at i:45458354 original size:76 final size:74
Alignment explanation
Indices: 45458271--45458414 Score: 243
Period size: 76 Copynumber: 1.9 Consensus size: 74
45458261 ATATATACAA
* * *
45458271 AATTGGACTGCATTTATACATCAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATA
1 AATTGGACTGCAATTATACATCAAAATTTGACAGCATAT--ATATAAAATTGAACTGCATTTATA
45458336 CATCACAATAT
64 CATCACAATAT
45458347 AATTGGACTGCAATTATACATCAAAATTTGACAGCATATATATAAAATTGAACTGCATTTATACA
1 AATTGGACTGCAATTATACATCAAAATTTGACAGCATATATATAAAATTGAACTGCATTTATACA
45458412 TCA
66 TCA
45458415 AAATTTGACA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
74 27 0.42
76 38 0.58
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (74 bp):
AATTGGACTGCAATTATACATCAAAATTTGACAGCATATATATAAAATTGAACTGCATTTATACA
TCACAATAT
Found at i:45458356 original size:29 final size:29
Alignment explanation
Indices: 45458314--45458369 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
45458304 GCATATACAT
*
45458314 ATATAATTGGACTGCATTTATACATCACA
1 ATATAATTGGACTGCAATTATACATCACA
45458343 ATATAATTGGACTGCAATTATACATCA
1 ATATAATTGGACTGCAATTATACATCA
45458370 AAATTTGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (29 bp):
ATATAATTGGACTGCAATTATACATCACA
Found at i:45458395 original size:21 final size:21
Alignment explanation
Indices: 45458369--45458453 Score: 66
Period size: 21 Copynumber: 3.9 Consensus size: 21
45458359 ATTATACATC
45458369 AAAATTTG-ACAGCATATATAT
1 AAAA-TTGAACAGCATATATAT
* *
45458390 AAAATTGAACTGCATTTATACAT
1 AAAATTGAACAGCA--TATATAT
* *
45458413 CAAAATTTG-ACAGCATATGTAC
1 -AAAA-TTGAACAGCATATATAT
*
45458435 AAAATTGAACAGCACATAT
1 AAAATTGAACAGCATATAT
45458454 TCAATTTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
20 6 0.12
21 22 0.44
22 4 0.08
23 6 0.12
24 9 0.18
25 3 0.06
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (21 bp):
AAAATTGAACAGCATATATAT
Found at i:45458403 original size:45 final size:45
Alignment explanation
Indices: 45458347--45458444 Score: 160
Period size: 45 Copynumber: 2.2 Consensus size: 45
45458337 ATCACAATAT
* *
45458347 AATTGGACTGCAATTATACATCAAAATTTGACAGCATATATATAA
1 AATTGAACTGCAATTATACATCAAAATTTGACAGCATATATACAA
* *
45458392 AATTGAACTGCATTTATACATCAAAATTTGACAGCATATGTACAA
1 AATTGAACTGCAATTATACATCAAAATTTGACAGCATATATACAA
45458437 AATTGAAC
1 AATTGAAC
45458445 AGCACATATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (45 bp):
AATTGAACTGCAATTATACATCAAAATTTGACAGCATATATACAA
Found at i:45459371 original size:43 final size:42
Alignment explanation
Indices: 45459305--45459434 Score: 176
Period size: 43 Copynumber: 3.0 Consensus size: 42
45459295 AACTCGTACA
*
45459305 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATATCG
45459348 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGT-AACACATA-TCG
45459391 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATATCG
45459434 A
1 A
45459435 AAATCCTATG
Statistics
Matches: 78, Mismatches: 1, Indels: 16
0.82 0.01 0.17
Matches are distributed among these distances:
42 4 0.05
43 67 0.86
44 7 0.09
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATATCG
Found at i:45462504 original size:20 final size:20
Alignment explanation
Indices: 45462476--45462513 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45462466 TATTTTCTAG
*
45462476 TAAATCATTTTACAGAAAAA
1 TAAAACATTTTACAGAAAAA
*
45462496 TAAAACATTTTCCAGAAA
1 TAAAACATTTTACAGAAA
45462514 TCATTTTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAA
Found at i:45462520 original size:14 final size:14
Alignment explanation
Indices: 45462497--45462536 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
45462487 ACAGAAAAAT
*
45462497 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
45462511 AAATCATTTTACGG
1 AAAACATTTTACAG
45462525 AAAACATTTTAC
1 AAAACATTTTAC
45462537 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:45469145 original size:21 final size:21
Alignment explanation
Indices: 45469121--45469167 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
45469111 CATAAAAATA
*
45469121 TTTTTAT-ATTTAATGTTTAAT
1 TTTTTATAATTT-ATATTTAAT
45469142 TTTTTATAATTTATATTTAAT
1 TTTTTATAATTTATATTTAAT
45469163 TTTTT
1 TTTTT
45469168 TCTCATCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTTATAATTTATATTTAAT
Found at i:45470134 original size:21 final size:21
Alignment explanation
Indices: 45470110--45470150 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45470100 TCTCTTAAAT
*
45470110 AGATATAAATATTAAAGTAAG
1 AGATACAAATATTAAAGTAAG
* *
45470131 AGATACAACTATTCAAGTAA
1 AGATACAAATATTAAAGTAA
45470151 CATCTTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (21 bp):
AGATACAAATATTAAAGTAAG
Found at i:45476924 original size:83 final size:83
Alignment explanation
Indices: 45476782--45476949 Score: 282
Period size: 83 Copynumber: 2.0 Consensus size: 83
45476772 GGTATCTGTC
* * *
45476782 TGAAACTATGGAAGATGGGATTCCACGCGGGCTCAATATATCAGAAACATAGCTTTCAGGTAACC
1 TGAAACTATGGAAGATGGGATTCCACGCAGGCGCAATATATCAGAAACATAGCTATCAGGTAACC
45476847 TTTCCAAAGAATAAGTAG
66 TTTCCAAAGAATAAGTAG
* * *
45476865 TGAAACTATGGAAGATGGGATTCCATGCAGGCGCAATTTATTAGAAACATAGCTATCAGGTAACC
1 TGAAACTATGGAAGATGGGATTCCACGCAGGCGCAATATATCAGAAACATAGCTATCAGGTAACC
45476930 TTTCCAAAGAATAAGTAG
66 TTTCCAAAGAATAAGTAG
45476948 TG
1 TG
45476950 TACATTGGCA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (83 bp):
TGAAACTATGGAAGATGGGATTCCACGCAGGCGCAATATATCAGAAACATAGCTATCAGGTAACC
TTTCCAAAGAATAAGTAG
Found at i:45479553 original size:18 final size:18
Alignment explanation
Indices: 45479530--45479567 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
45479520 ATTCGGGTAA
45479530 AACCGAAAAAATTCGGTT
1 AACCGAAAAAATTCGGTT
**
45479548 AACCGACCAAATTCGGTT
1 AACCGAAAAAATTCGGTT
45479566 AA
1 AA
45479568 TCGGTCGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (18 bp):
AACCGAAAAAATTCGGTT
Found at i:45479899 original size:9 final size:9
Alignment explanation
Indices: 45479887--45479963 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
45479877 AAAAATAAAA
45479887 AATTCGGGT
1 AATTCGGGT
45479896 AATTCGGGT
1 AATTCGGGT
* *
45479905 ATTTTTC-GAT
1 A--ATTCGGGT
*
45479915 AATTCGGTT
1 AATTCGGGT
*
45479924 AATTCGGTT
1 AATTCGGGT
45479933 AATTCGGGT
1 AATTCGGGT
*
45479942 AATTCAGGT
1 AATTCGGGT
45479951 AATTCGGGT
1 AATTCGGGT
45479960 AATT
1 AATT
45479964 TTTAACCAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
8 3 0.05
9 49 0.84
10 3 0.05
11 3 0.05
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:45483413 original size:23 final size:22
Alignment explanation
Indices: 45483383--45483432 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
45483373 AATCTTAGAG
*
45483383 GATTTAT-AATCTTAAAAGATTT
1 GATTTATAAATCCT-AAAGATTT
*
45483405 GATTCTATAAATCCTAGAGATTT
1 GATT-TATAAATCCTAAAGATTT
45483428 GATTT
1 GATTT
45483433 TGTAGATAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 5 0.21
23 14 0.58
24 5 0.21
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (22 bp):
GATTTATAAATCCTAAAGATTT
Found at i:45491110 original size:21 final size:21
Alignment explanation
Indices: 45491086--45491125 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45491076 CGGCCGTATA
45491086 TCTCAGCCACATGGTCGTGCC
1 TCTCAGCCACATGGTCGTGCC
***
45491107 TCTCATTTACATGGTCGTG
1 TCTCAGCCACATGGTCGTG
45491126 TACCCCTGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.30, G:0.23, T:0.33
Consensus pattern (21 bp):
TCTCAGCCACATGGTCGTGCC
Found at i:45501439 original size:131 final size:131
Alignment explanation
Indices: 45501273--45501524 Score: 371
Period size: 131 Copynumber: 1.9 Consensus size: 131
45501263 TAATTACCTA
* *
45501273 AAACTTAAATTCGTAAAAACAACGGAGATTGCACCACCCACCAACCGCAATAAATAAATAGAATC
1 AAACTTAAATTCGTAAAAACAACAGAGATTGCACCACCCACCAACCACAATAAATAAATAGAATC
**
45501338 AATAAGAACAAAATCAAAATTCGAGTGAAAATAAAAAAGATCAGAGAAAGGGAAAACTCAATTTT
66 AATAAGAACAAAATCAAAAGCCGAGTGAAAATAAAAAAGATCAGAGAAAGGGAAAACTCAATTTT
45501403 G
131 G
* * *
45501404 AAACTTAAA-TCTGTAAAAACAACAGAGATTGCACCACCTAGCAACCACAATAAATGAATAGAAT
1 AAACTTAAATTC-GTAAAAACAACAGAGATTGCACCACCCACCAACCACAATAAATAAATAGAAT
* * ** * *
45501468 GAATAAGAACAAAATCAATAGCCGAGTGAAAATAGCAAAGATTATAGAAAGGGAAAA
65 CAATAAGAACAAAATCAAAAGCCGAGTGAAAATAAAAAAGATCAGAGAAAGGGAAAA
45501525 AAAGAGAACG
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
130 2 0.02
131 105 0.98
ACGTcount: A:0.52, C:0.16, G:0.15, T:0.17
Consensus pattern (131 bp):
AAACTTAAATTCGTAAAAACAACAGAGATTGCACCACCCACCAACCACAATAAATAAATAGAATC
AATAAGAACAAAATCAAAAGCCGAGTGAAAATAAAAAAGATCAGAGAAAGGGAAAACTCAATTTT
G
Found at i:45516052 original size:15 final size:14
Alignment explanation
Indices: 45516024--45516064 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
45516014 CATACCAAAG
45516024 GAATAAAAAAACAC
1 GAATAAAAAAACAC
45516038 GAATAAAAGAAACAC
1 GAATAAAA-AAACAC
*
45516053 AAATAGAAAAAA
1 GAATA-AAAAAA
45516065 AAATTAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 13 0.54
16 3 0.12
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (14 bp):
GAATAAAAAAACAC
Done.