Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 61 of 103
Found at i:23145476 original size:42 final size:42
Alignment explanation
Indices: 23145377--23145482 Score: 167
Period size: 42 Copynumber: 2.5 Consensus size: 42
23145367 GATGTGGACT
* * * *
23145377 CGGCTATGTGTGAGTAAGAGTGCACATAAGCTGTTGCTGACC
1 CGGCTATGTGCGAGTGAGAGTGCACATAAGCCGTTGCTGACA
23145419 CGGCTATGTGCGAGTGAGAGTGCACATAAGCCGTTGCTGACA
1 CGGCTATGTGCGAGTGAGAGTGCACATAAGCCGTTGCTGACA
*
23145461 CGGCTATGTGCGAGTGGGAGTG
1 CGGCTATGTGCGAGTGAGAGTG
23145483 ATGAGATGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.24
Consensus pattern (42 bp):
CGGCTATGTGCGAGTGAGAGTGCACATAAGCCGTTGCTGACA
Found at i:23145886 original size:39 final size:39
Alignment explanation
Indices: 23145795--23145886 Score: 114
Period size: 39 Copynumber: 2.4 Consensus size: 39
23145785 CAGTAGCTTC
* *
23145795 TCGCTGCAGCGAGAAACTTTCTATTTTTGGGTTACAATT
1 TCGCTGCAGCGAGAAACTTTCTATTTCTGGGTCACAATT
* * *
23145834 TTGCTGCAACGAGAAA-TATTCTGTTTCTGGGTCACAATT
1 TCGCTGCAGCGAGAAACT-TTCTATTTCTGGGTCACAATT
*
23145873 TCGCTGTAGCGAGA
1 TCGCTGCAGCGAGA
23145887 TTGAATCTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 1 0.02
39 43 0.98
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (39 bp):
TCGCTGCAGCGAGAAACTTTCTATTTCTGGGTCACAATT
Found at i:23158222 original size:20 final size:20
Alignment explanation
Indices: 23158197--23158236 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
23158187 CTATAAATAT
23158197 CTCATTTCTCCAGCAGCTTC
1 CTCATTTCTCCAGCAGCTTC
*
23158217 CTCATTTTTCCAGCAGCTTC
1 CTCATTTCTCCAGCAGCTTC
23158237 TTGTTCTTCT
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:0.15, C:0.38, G:0.10, T:0.38
Consensus pattern (20 bp):
CTCATTTCTCCAGCAGCTTC
Found at i:23158443 original size:2 final size:2
Alignment explanation
Indices: 23158436--23158480 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
23158426 TGGACATTAT
23158436 AG AG AG AG AG AG AG AG 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 AG AG AG AG AG AG AG AG
23158478 AG A
1 AG A
23158481 CTTTCCATGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23159098 original size:17 final size:19
Alignment explanation
Indices: 23159057--23159098 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
23159047 ATTTATATAT
23159057 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTG-A-TG
23159078 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGATG
23159095 ATGA
1 ATGA
23159099 TGTTGAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.40
Consensus pattern (19 bp):
ATGAATATATGTTGTGATG
Found at i:23178796 original size:19 final size:20
Alignment explanation
Indices: 23178768--23178814 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
23178758 TTTAAATTTT
*
23178768 AATATATATAATTTT-TATA
1 AATATTTATAATTTTATATA
*
23178787 AATATTTATAATTTTATATT
1 AATATTTATAATTTTATATA
23178807 AATATTTA
1 AATATTTA
23178815 CTTGTATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATATTTATAATTTTATATA
Found at i:23188478 original size:21 final size:22
Alignment explanation
Indices: 23188452--23188493 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23188442 TAGATGGGGA
23188452 GTGAGAAATGA-AACCAAGAAG
1 GTGAGAAATGAGAACCAAGAAG
* *
23188473 GTGAGAATTGAGAACTAAGAA
1 GTGAGAAATGAGAACCAAGAA
23188494 AGCAACTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.50, C:0.07, G:0.29, T:0.14
Consensus pattern (22 bp):
GTGAGAAATGAGAACCAAGAAG
Found at i:23194477 original size:17 final size:15
Alignment explanation
Indices: 23194437--23194481 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
23194427 GTTCTCTTCC
*
23194437 TTTTTTTTTCTTTGG
1 TTTTTTTTTCTTTGA
23194452 TTGTTTTTTTCTCTTGA
1 TT-TTTTTTTCT-TTGA
*
23194469 TTTTATTTTCTTT
1 TTTTTTTTTCTTT
23194482 TATCCCTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 4 0.15
16 17 0.65
17 5 0.19
ACGTcount: A:0.04, C:0.09, G:0.09, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTCTTTGA
Found at i:23198902 original size:14 final size:14
Alignment explanation
Indices: 23198883--23198917 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
23198873 TGATGATTTC
23198883 AAAAATATAATTAA
1 AAAAATATAATTAA
*
23198897 AAAAATA-AGTTAA
1 AAAAATATAATTAA
23198910 AAAAATAT
1 AAAAATAT
23198918 TTGATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAAATATAATTAA
Found at i:23199932 original size:2 final size:2
Alignment explanation
Indices: 23199915--23199963 Score: 73
Period size: 2 Copynumber: 24.0 Consensus size: 2
23199905 TGGTAAATAG
23199915 TA TA T- TA TA CTA TA TA TA TA GTA 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 TA TA TA TA
23199958 TA TA TA
1 TA TA TA
23199964 ATAGTTGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.02
2 39 0.89
3 4 0.09
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:23199937 original size:21 final size:21
Alignment explanation
Indices: 23199911--23199963 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
23199901 TTGATGGTAA
23199911 ATAGTATAT-TATACTATATAT
1 ATAGTATATATATA-TATATAT
23199932 ATAGTATATATATATATATAT
1 ATAGTATATATATATATATAT
23199953 ATA-TATATATA
1 ATAGTATATATA
23199964 ATAGTTGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.26
21 19 0.61
22 4 0.13
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
ATAGTATATATATATATATAT
Found at i:23203793 original size:13 final size:13
Alignment explanation
Indices: 23203775--23203801 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23203765 TAAGAAATGG
23203775 AATATTTTTATTT
1 AATATTTTTATTT
23203788 AATATTTTTATTT
1 AATATTTTTATTT
23203801 A
1 A
23203802 GTTTGATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AATATTTTTATTT
Found at i:23204731 original size:13 final size:13
Alignment explanation
Indices: 23204713--23204739 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23204703 GAAACTCACC
23204713 AAAAACATGGTGT
1 AAAAACATGGTGT
23204726 AAAAACATGGTGT
1 AAAAACATGGTGT
23204739 A
1 A
23204740 TAATTCTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.22
Consensus pattern (13 bp):
AAAAACATGGTGT
Found at i:23207252 original size:15 final size:15
Alignment explanation
Indices: 23207232--23207277 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
23207222 TTCTTAAAAC
23207232 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
23207247 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
* *
23207262 AGCTTTAAAATCAAA
1 AACTTTAAAACCAAA
23207277 A
1 A
23207278 TCTCTGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 24 0.89
16 2 0.07
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:23209865 original size:19 final size:19
Alignment explanation
Indices: 23209841--23209878 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23209831 TTGCCAAACC
*
23209841 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
23209860 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
23209879 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:23210691 original size:15 final size:17
Alignment explanation
Indices: 23210665--23210697 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
23210655 AAAAATCAAC
23210665 ACATGATGC-AAACAAA
1 ACATGATGCAAAACAAA
23210681 ACATG-TGCAAAACAAA
1 ACATGATGCAAAACAAA
23210697 A
1 A
23210698 TATATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (17 bp):
ACATGATGCAAAACAAA
Found at i:23214690 original size:29 final size:29
Alignment explanation
Indices: 23214657--23214717 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
23214647 AAGTATGTTT
23214657 TGATTCAACTAAGTGTGAAGTGATAGATA
1 TGATTCAACTAAGTGTGAAGTGATAGATA
23214686 TGATTCAACTAAGTGTGAAGTGATAGATA
1 TGATTCAACTAAGTGTGAAGTGATAGATA
23214715 TGA
1 TGA
23214718 GTAAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (29 bp):
TGATTCAACTAAGTGTGAAGTGATAGATA
Found at i:23216894 original size:20 final size:20
Alignment explanation
Indices: 23216869--23216906 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
23216859 GTATATCAAA
23216869 AGCTCTATAGAGGTATGATC
1 AGCTCTATAGAGGTATGATC
23216889 AGCTCTATAGAGGTATGA
1 AGCTCTATAGAGGTATGA
23216907 ATTTTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (20 bp):
AGCTCTATAGAGGTATGATC
Found at i:23217435 original size:592 final size:592
Alignment explanation
Indices: 23216311--23217486 Score: 2235
Period size: 592 Copynumber: 2.0 Consensus size: 592
23216301 TGCATGTTTC
23216311 ATGAATTTTAAACTGTTCCAAATGGATGTAAAAAGTGCATTCTTGAATGGATTAATTCAAGAGGA
1 ATGAATTTTAAACTGTTCCAAATGGATGTAAAAAGTGCATTCTTGAATGGATTAATTCAAGAGGA
* * *
23216376 AGTATATGTAGAACAACCACTTGGTTTTGAAGACTTTGAAAAATCTGATCATGTTTTCAAACTTC
66 AGTATATGTAGAACAACCACCTGATTTTGAAGACTTTGAAAAATCTGATCATATTTTCAAACTTC
23216441 ATAAAGCCTTGTATGGATTGAAACAAACTCCTAGAGCTTGGTATGAGAGGCTTTCAAAATTTCTA
131 ATAAAGCCTTGTATGGATTGAAACAAACTCCTAGAGCTTGGTATGAGAGGCTTTCAAAATTTCTA
* *
23216506 GTTGAAAAGGGTATGATAGAGGCAGTATTGATACTACATTGTTCATTAAGAGATCTCCAAATGAT
196 GTTGAAAAGGGTATGATAGAGGCAGTATTGATACTACATTGTTCATTAAAAGATATCCAAATGAT
* *
23216571 TTAATTGTTGTGCAAATATATGTGGATGACATTGTATTTGGTGCAACTAATGAGGCTTTATGCAA
261 TTAATTGTTGGGAAAATATATGTGGATGACATTGTATTTGGTGCAACTAATGAGGCTTTATGCAA
23216636 GAACTTTGCTAAGGAAATGTAGGGTGAATTTGAGATGAGCATGATGGGAGAGTTGAAGTGCTTCC
326 GAACTTTGCTAAGGAAATGTAGGGTGAATTTGAGATGAGCATGATGGGAGAGTTGAAGTGCTTCC
23216701 TTGGTTTTCAAATTAAACAAAGTGAGGAAGGAATCTTCATCAACCAAGGAAGATACACTCAAGAT
391 TTGGTTTTCAAATTAAACAAAGTGAGGAAGGAATCTTCATCAACCAAGGAAGATACACTCAAGAT
*
23216766 ATACTCAAGAAATTCGATATGCTGAAAGTGAAATCAATTTCCACACCAATGAGTCCATCCACCAA
456 ATACTCAAGAAATTCAATATGCTGAAAGTGAAATCAATTTCCACACCAATGAGTCCATCCACCAA
*
23216831 ACTCGACTTAGATGAAAAAGACAAGGATGTATATCAAAAGCTCTATAGAGGTATGATCAGCTCTA
521 ACTCGACTTAGATGAAAAAGACAAGGATATATATCAAAAGCTCTATAGAGGTATGATCAGCTCTA
23216896 TAGAGGT
586 TAGAGGT
*
23216903 ATGAATTTTAAATTGTTCCAAATGGATGTAAAAAGTGCATTCTTGAATGGATTAATTCAAGAGGA
1 ATGAATTTTAAACTGTTCCAAATGGATGTAAAAAGTGCATTCTTGAATGGATTAATTCAAGAGGA
23216968 AGTATATGTAGAACAACCACCTGATTTTGAAGACTTTGAAAAATCTGATCATATTTTCAAACTTC
66 AGTATATGTAGAACAACCACCTGATTTTGAAGACTTTGAAAAATCTGATCATATTTTCAAACTTC
23217033 ATAAAGCCTTGTATGGATTGAAACAAACTCCTAGAGCTTGGTATGAGAGGCTTTCAAAATTTCTA
131 ATAAAGCCTTGTATGGATTGAAACAAACTCCTAGAGCTTGGTATGAGAGGCTTTCAAAATTTCTA
23217098 GTTGAAAAGGGTATGATAGAGGCAGTATTGATACTACATTGTTCATTAAAAGATATCCAAATGAT
196 GTTGAAAAGGGTATGATAGAGGCAGTATTGATACTACATTGTTCATTAAAAGATATCCAAATGAT
23217163 TTAATTGTTGGGAAAATATATGTGGATGACATTGTATTTGGTGCAACTAATGAGGCTTTATGCAA
261 TTAATTGTTGGGAAAATATATGTGGATGACATTGTATTTGGTGCAACTAATGAGGCTTTATGCAA
23217228 GAACTTTGCTAAGGAAATGTAGGGTGAATTTGAGATGAGCATGATGGGAGAGTTGAAGTGCTTCC
326 GAACTTTGCTAAGGAAATGTAGGGTGAATTTGAGATGAGCATGATGGGAGAGTTGAAGTGCTTCC
23217293 TTGGTTTTCAAATTAAACAAAGTGAGGAAGGAATCTTCATCAACCAAGGAAGATACACTCAAGAT
391 TTGGTTTTCAAATTAAACAAAGTGAGGAAGGAATCTTCATCAACCAAGGAAGATACACTCAAGAT
* *
23217358 ATGCTCAAGAAATTCAATATGCTGAAGGTGAAATCAATTTCCACACCAATGAGTCCATCCACCAA
456 ATACTCAAGAAATTCAATATGCTGAAAGTGAAATCAATTTCCACACCAATGAGTCCATCCACCAA
*
23217423 ACTCGACTTAGATGAAAAAGATAAGGATATATATCAAAAGCTCTATAGAGGTATGATCAGCTCT
521 ACTCGACTTAGATGAAAAAGACAAGGATATATATCAAAAGCTCTATAGAGGTATGATCAGCTCT
23217487 CTTCTCTACT
Statistics
Matches: 571, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
592 571 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (592 bp):
ATGAATTTTAAACTGTTCCAAATGGATGTAAAAAGTGCATTCTTGAATGGATTAATTCAAGAGGA
AGTATATGTAGAACAACCACCTGATTTTGAAGACTTTGAAAAATCTGATCATATTTTCAAACTTC
ATAAAGCCTTGTATGGATTGAAACAAACTCCTAGAGCTTGGTATGAGAGGCTTTCAAAATTTCTA
GTTGAAAAGGGTATGATAGAGGCAGTATTGATACTACATTGTTCATTAAAAGATATCCAAATGAT
TTAATTGTTGGGAAAATATATGTGGATGACATTGTATTTGGTGCAACTAATGAGGCTTTATGCAA
GAACTTTGCTAAGGAAATGTAGGGTGAATTTGAGATGAGCATGATGGGAGAGTTGAAGTGCTTCC
TTGGTTTTCAAATTAAACAAAGTGAGGAAGGAATCTTCATCAACCAAGGAAGATACACTCAAGAT
ATACTCAAGAAATTCAATATGCTGAAAGTGAAATCAATTTCCACACCAATGAGTCCATCCACCAA
ACTCGACTTAGATGAAAAAGACAAGGATATATATCAAAAGCTCTATAGAGGTATGATCAGCTCTA
TAGAGGT
Found at i:23228597 original size:61 final size:60
Alignment explanation
Indices: 23228528--23228709 Score: 233
Period size: 61 Copynumber: 3.0 Consensus size: 60
23228518 ACATCATCAT
* * * * *
23228528 CTACTCGTGGGAACTGCCCACGCCATTATATATAAATTGAGGCTTCAGGTCCCCTTTTTAC
1 CTACTCGTGGGAACTACCCACGCCATCATATATGAATCGGGGCTTCAGGTCCCC-TTTTAC
* * *
23228589 CTACTCGTGAGAACTACCCACGCCACTCA-ATATGAATCGGGGCTTTAGGTCCCCCTTTAC
1 CTACTCGTGGGAACTACCCACGCCA-TCATATATGAATCGGGGCTTCAGGTCCCCTTTTAC
*
23228649 CTACTCGTGGGAACTACCCACGCCA-CATAATATGAATCGGGGCTTCATGTCCCCCTTTTAC
1 CTACTCGTGGGAACTACCCACGCCATCAT-ATATGAATCGGGGCTTCAGGT-CCCCTTTTAC
23228710 AATCAAATAA
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
58 2 0.02
60 48 0.46
61 53 0.50
62 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.27
Consensus pattern (60 bp):
CTACTCGTGGGAACTACCCACGCCATCATATATGAATCGGGGCTTCAGGTCCCCTTTTAC
Found at i:23228666 original size:60 final size:59
Alignment explanation
Indices: 23228528--23228706 Score: 241
Period size: 60 Copynumber: 3.0 Consensus size: 59
23228518 ACATCATCAT
* * * * * *
23228528 CTACTCGTGGGAACTGCCCACGCCATTATATATAAATTGAGGCTTCAGGTCCCCTTTTTAC
1 CTACTCGTGGGAACTACCCACGCCACTA-ATATGAATCGGGGCTTCAGGTCCCC-CTTTAC
* *
23228589 CTACTCGTGAGAACTACCCACGCCACTCAATATGAATCGGGGCTTTAGGTCCCCCTTTAC
1 CTACTCGTGGGAACTACCCACGCCACT-AATATGAATCGGGGCTTCAGGTCCCCCTTTAC
*
23228649 CTACTCGTGGGAACTACCCACGCCACATAATATGAATCGGGGCTTCATGTCCCCCTTT
1 CTACTCGTGGGAACTACCCACGCCAC-TAATATGAATCGGGGCTTCAGGTCCCCCTTT
23228707 TACAATCAAA
Statistics
Matches: 105, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
60 58 0.55
61 46 0.44
62 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.27
Consensus pattern (59 bp):
CTACTCGTGGGAACTACCCACGCCACTAATATGAATCGGGGCTTCAGGTCCCCCTTTAC
Found at i:23233496 original size:11 final size:11
Alignment explanation
Indices: 23233463--23233497 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
23233453 CTTAGGGTTC
23233463 TTGTTCTTCCT
1 TTGTTCTTCCT
23233474 TT-TTCTTCCT
1 TTGTTCTTCCT
*
23233484 TTGTTCTTGCT
1 TTGTTCTTCCT
23233495 TTG
1 TTG
23233498 GCCGGCCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.00, C:0.23, G:0.11, T:0.66
Consensus pattern (11 bp):
TTGTTCTTCCT
Found at i:23233764 original size:28 final size:28
Alignment explanation
Indices: 23233705--23233764 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
23233695 TGGGTGGTGT
* * * *
23233705 AAAATTACAATTTTACCCCTAGGGTGGC
1 AAAATGACAATTTTACCCCTAGGCTCGA
* *
23233733 AAAATGACTATTTTACCCCTATGCTCGA
1 AAAATGACAATTTTACCCCTAGGCTCGA
23233761 AAAA
1 AAAA
23233765 ATGTCAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (28 bp):
AAAATGACAATTTTACCCCTAGGCTCGA
Found at i:23234157 original size:2 final size:2
Alignment explanation
Indices: 23234150--23234178 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23234140 ACAGTAATAG
23234150 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23234179 GAATAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23236145 original size:13 final size:13
Alignment explanation
Indices: 23236127--23236156 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23236117 ATGATAGAGT
*
23236127 GTGCGAGTAGGGA
1 GTGCGAGTAAGGA
23236140 GTGCGAGTAAGGA
1 GTGCGAGTAAGGA
23236153 GTGC
1 GTGC
23236157 ACACATGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.50, T:0.17
Consensus pattern (13 bp):
GTGCGAGTAAGGA
Found at i:23236152 original size:50 final size:50
Alignment explanation
Indices: 23236094--23236193 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
23236084 TGAGGTGTGT
23236094 GAGTAAGGAGTGCACACATGACAATGATAGAGTGTGCGAGTAGGGAGTGC
1 GAGTAAGGAGTGCACACATGACAATGATAGAGTGTGCGAGTAGGGAGTGC
** *
23236144 GAGTAAGGAGTGCACACATGATGATGATGGAGTGTGCGAGTAGGGAGTGC
1 GAGTAAGGAGTGCACACATGACAATGATAGAGTGTGCGAGTAGGGAGTGC
23236194 ACACATGATG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.30, C:0.11, G:0.40, T:0.19
Consensus pattern (50 bp):
GAGTAAGGAGTGCACACATGACAATGATAGAGTGTGCGAGTAGGGAGTGC
Found at i:23236726 original size:19 final size:19
Alignment explanation
Indices: 23236702--23236740 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
23236692 GGAGGTTTGG
*
23236702 TAAGAAACCCTCGGCTAGT
1 TAAGAAACCCTCAGCTAGT
23236721 TAAGAAACCCTCAGCTAGT
1 TAAGAAACCCTCAGCTAGT
23236740 T
1 T
23236741 GATAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (19 bp):
TAAGAAACCCTCAGCTAGT
Found at i:23243844 original size:15 final size:18
Alignment explanation
Indices: 23243826--23243865 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
23243816 AAATTTTAAC
23243826 TTAAAATATT-AATA-T-
1 TTAAAATATTCAATACTA
*
23243841 TTAAATTATTCAATACTA
1 TTAAAATATTCAATACTA
23243859 TTAAAAT
1 TTAAAAT
23243866 TAAAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 1 0.05
18 6 0.30
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAAAATATTCAATACTA
Found at i:23245151 original size:13 final size:13
Alignment explanation
Indices: 23245133--23245157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23245123 AGAGAAATTG
23245133 TGATTTTATAAAA
1 TGATTTTATAAAA
23245146 TGATTTTATAAA
1 TGATTTTATAAA
23245158 TTTTCTAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:23250615 original size:17 final size:17
Alignment explanation
Indices: 23250590--23250628 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
23250580 AGAATTTAAG
*
23250590 AAATTAATAAAACAAAA
1 AAATAAATAAAACAAAA
*
23250607 AAATAAATAAAATAAAA
1 AAATAAATAAAACAAAA
*
23250624 TAATA
1 AAATA
23250629 TTATTTTAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAATAAAACAAAA
Found at i:23251634 original size:13 final size:13
Alignment explanation
Indices: 23251616--23251640 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23251606 AGAGAAATTG
23251616 TGATTTTATAAAA
1 TGATTTTATAAAA
23251629 TGATTTTATAAA
1 TGATTTTATAAA
23251641 TTTTCTAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:23253880 original size:26 final size:25
Alignment explanation
Indices: 23253851--23253906 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
23253841 CGCTACGTTA
*
23253851 AAAAAATATTCTTACACATCAT-G-T
1 AAAAAACA-TCTTACACATCATGGTT
*
23253875 ATAAAAACATGTTACACATCATGGTT
1 A-AAAAACATCTTACACATCATGGTT
23253901 AAAAAA
1 AAAAAA
23253907 GGTTTTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 13 0.48
25 12 0.44
26 2 0.07
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (25 bp):
AAAAAACATCTTACACATCATGGTT
Found at i:23254006 original size:31 final size:31
Alignment explanation
Indices: 23253960--23254044 Score: 122
Period size: 29 Copynumber: 2.8 Consensus size: 31
23253950 CACAAAAACA
* *
23253960 TGTTACAAGTTATGTTGAAAAAAAATATTGT
1 TGTTACACGTCATGTTGAAAAAAAATATTGT
23253991 TGTTACACGTCATGTTG--AAAAAATATTGT
1 TGTTACACGTCATGTTGAAAAAAAATATTGT
*
23254020 TATTACACGTCATGTT-AAAAAAAAT
1 TGTTACACGTCATGTTGAAAAAAAAT
23254045 TATTACACTT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
29 27 0.55
30 7 0.14
31 15 0.31
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.36
Consensus pattern (31 bp):
TGTTACACGTCATGTTGAAAAAAAATATTGT
Found at i:23254049 original size:25 final size:28
Alignment explanation
Indices: 23253979--23254052 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 28
23253969 TTATGTTGAA
* *
23253979 AAAAAATATTGTTGTTACACGTCATGTTG
1 AAAAAATA-TATTATTACACGTCATGTTG
*
23254008 AAAAAATATTGTTATTACACGTCATGTT-
1 AAAAAATA-TATTATTACACGTCATGTTG
23254036 AAAAAA-A-ATTATTACAC
1 AAAAAATATATTATTACAC
23254053 TTTAATACTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.21
27 1 0.02
28 6 0.14
29 27 0.63
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (28 bp):
AAAAAATATATTATTACACGTCATGTTG
Found at i:23266255 original size:21 final size:23
Alignment explanation
Indices: 23266231--23266275 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
23266221 ACCACAGTCA
*
23266231 TTTCAA-ATCTATCCA-ATTATT
1 TTTCAATATCAATCCACATTATT
*
23266252 TTTCAATTTCAATCCACATTATT
1 TTTCAATATCAATCCACATTATT
23266275 T
1 T
23266276 CTTCTTATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 7 0.35
23 7 0.35
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTCAATATCAATCCACATTATT
Found at i:23272656 original size:66 final size:66
Alignment explanation
Indices: 23272577--23272763 Score: 200
Period size: 66 Copynumber: 2.8 Consensus size: 66
23272567 GACTTTTCGC
** *
23272577 AGGCTCAGTCACAACCTTTAGTAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTAATTTTT-
1 AGGCTCAACCACAACCTTTA-TAATGGTTTTTCACGGGATAAACCAAAACCCAAAGTAATTTTTC
23272641 TA
65 TA
* * * **
23272643 AGGCTCAACCACAACCTTT-TACACTAGTTTTTCACGGGCTAAACTAAAACCCAAAGTGGTTTTT
1 AGGCTCAACCACAACCTTTATA-A-TGGTTTTTCACGGGATAAACCAAAACCCAAAGTAATTTTT
23272707 CTA
64 CTA
** * *
23272710 AGGCTCAACCACAACCTACAACAATGGTTTTT-ACTAGGATAAACCAAAACCCAA
1 AGGCTCAACCACAACCT-TTATAATGGTTTTTCAC-GGGATAAACCAAAACCCAA
23272764 CAACTAACTT
Statistics
Matches: 100, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
64 2 0.02
65 1 0.01
66 53 0.53
67 42 0.42
68 1 0.01
69 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (66 bp):
AGGCTCAACCACAACCTTTATAATGGTTTTTCACGGGATAAACCAAAACCCAAAGTAATTTTTCT
A
Found at i:23272753 original size:67 final size:66
Alignment explanation
Indices: 23272599--23272763 Score: 206
Period size: 67 Copynumber: 2.5 Consensus size: 66
23272589 AACCTTTAGT
* ***
23272599 AATGGTTTTTCACGGGATCAACCAAAACCCAAAGTAATTTTTTAAGGCTCAACCACAACCTTTTA
1 AATGGTTTTTCACGGGATAAACCAAAACCCAAAGTAATTTTTTAAGGCTCAACCACAACCTACAA
23272664 C
66 C
* * * * **
23272665 ACTAGTTTTTCACGGGCTAAACTAAAACCCAAAGTGGTTTTTCTAAGGCTCAACCACAACCTACA
1 AATGGTTTTTCACGGGATAAACCAAAACCCAAAGTAATTTTT-TAAGGCTCAACCACAACCTACA
23272730 AC
65 AC
*
23272732 AATGGTTTTT-ACTAGGATAAACCAAAACCCAA
1 AATGGTTTTTCAC-GGGATAAACCAAAACCCAA
23272764 CAACTAACTT
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
66 37 0.45
67 45 0.55
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (66 bp):
AATGGTTTTTCACGGGATAAACCAAAACCCAAAGTAATTTTTTAAGGCTCAACCACAACCTACAA
C
Found at i:23278697 original size:12 final size:12
Alignment explanation
Indices: 23278680--23278713 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23278670 AAGACAAGGG
23278680 AGAAAGAGAAAA
1 AGAAAGAGAAAA
*
23278692 AGAAAGAGAATA
1 AGAAAGAGAAAA
*
23278704 GGAAAGAGAA
1 AGAAAGAGAA
23278714 GGAAGGGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (12 bp):
AGAAAGAGAAAA
Found at i:23278762 original size:6 final size:6
Alignment explanation
Indices: 23278738--23278839 Score: 61
Period size: 6 Copynumber: 17.0 Consensus size: 6
23278728 GGCCCGAGGG
* *
23278738 AGAGAA AGGAGAGA AGAGAA AGAGAA A-AAAA AGAGAC AGAG-A AGAAGAA
1 AGAGAA A-GAGA-A AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AG-AGAA
* * * * *
23278787 AGA-AG AGAGAG AGCATGAC AGAG-C AGA-AA AAAGAA AGAGAA AGAGAA
1 AGAGAA AGAGAA AG-A-GAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA
23278834 AGAGAA
1 AGAGAA
23278840 GAAGAAAAGA
Statistics
Matches: 77, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
5 16 0.21
6 42 0.55
7 13 0.17
8 6 0.08
ACGTcount: A:0.63, C:0.04, G:0.32, T:0.01
Consensus pattern (6 bp):
AGAGAA
Found at i:23278786 original size:23 final size:22
Alignment explanation
Indices: 23278747--23278834 Score: 72
Period size: 23 Copynumber: 3.8 Consensus size: 22
23278737 GAGAGAAAGG
23278747 AGAGAAGAGAAAGAGAAAAAAA
1 AGAGAAGAGAAAGAGAAAAAAA
* *
23278769 AGAGACAGAG-AAGAAGAAAGAAG
1 AGAGA-AGAGAAAG-AGAAAAAAA
* *
23278792 AGAGAGAGCATGACAGAGCAGAAAAA
1 AGAGA-AG-A-GAAAGAG-AAAAAAA
23278818 AGA-AAGAGAAAGAGAAA
1 AGAGAAGAGAAAGAGAAA
23278835 GAGAAGAAGA
Statistics
Matches: 51, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
21 2 0.04
22 14 0.27
23 19 0.37
24 3 0.06
25 4 0.08
26 9 0.18
ACGTcount: A:0.64, C:0.05, G:0.31, T:0.01
Consensus pattern (22 bp):
AGAGAAGAGAAAGAGAAAAAAA
Found at i:23278795 original size:17 final size:15
Alignment explanation
Indices: 23278749--23278849 Score: 53
Period size: 16 Copynumber: 6.2 Consensus size: 15
23278739 GAGAAAGGAG
23278749 AGAAGAGAAAGAGAAA
1 AGAA-AGAAAGAGAAA
*
23278765 AAAAAGAGACAGAGAAGA
1 AGAAAGA-A-AGAGAA-A
*
23278783 AGAAAG-AAGAGAGAG
1 AGAAAGAAAGAGA-AA
* * *
23278798 AGCATGACAGAGCAGAA
1 AGAAAGAAAGAG-A-AA
23278815 A-AAAGAAAGAGAAA
1 AGAAAGAAAGAGAAA
23278829 GAGAAAGAGAAGAAGAAA
1 -AGAAAGA-AAG-AGAAA
23278847 AGA
1 AGA
23278850 GAGAGACAGC
Statistics
Matches: 65, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
14 2 0.03
15 14 0.22
16 22 0.34
17 16 0.25
18 11 0.17
ACGTcount: A:0.64, C:0.04, G:0.31, T:0.01
Consensus pattern (15 bp):
AGAAAGAAAGAGAAA
Found at i:23278807 original size:31 final size:30
Alignment explanation
Indices: 23278767--23278873 Score: 105
Period size: 31 Copynumber: 3.6 Consensus size: 30
23278757 AAGAGAAAAA
23278767 AAAG-AGACAGAGAAGAAGAAAGAAGAGAG
1 AAAGCAGACAGAGAAGAAGAAAGAAGAGAG
* * *
23278796 AGAGCATGACAGAGCAGAAAAAAGAA-AGAG
1 AAAGCA-GACAGAGAAGAAGAAAGAAGAGAG
*
23278826 AAAG-AGAAAGAGAAGAAGAAA-AGAGAGAG
1 AAAGCAGACAGAGAAGAAGAAAGA-AGAGAG
* *
23278855 ACAGCAAGACAGAGTAGAA
1 AAAGC-AGACAGAGAAGAA
23278874 AAAAAAGGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
27 1 0.02
28 14 0.23
29 11 0.18
30 8 0.13
31 28 0.45
ACGTcount: A:0.60, C:0.07, G:0.32, T:0.02
Consensus pattern (30 bp):
AAAGCAGACAGAGAAGAAGAAAGAAGAGAG
Found at i:23278820 original size:28 final size:27
Alignment explanation
Indices: 23278760--23278877 Score: 84
Period size: 28 Copynumber: 4.3 Consensus size: 27
23278750 GAAGAGAAAG
*
23278760 AGAAAAAA-A-AGAGA-CAGAGA-AGA
1 AGAAAAAAGAGAGAGAGCAGACAGAGA
* *
23278783 AGAAAGAAGAGAGAGAGCATGACAGAGC
1 AGAAAAAAGAGAGAGAGCA-GACAGAGA
* *
23278811 AGAAAAAAGAAAGAGAAAG-AGAAAGAGA
1 AGAAAAAAG--AGAGAGAGCAGACAGAGA
*
23278839 AGAAGAAAAGAGAGAGACAGCAAGACAGAGT
1 AGAA-AAAAGAGAGAG--AGC-AGACAGAGA
23278870 AGAAAAAA
1 AGAAAAAA
23278878 AAGGAAAAAG
Statistics
Matches: 73, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
23 7 0.10
24 1 0.01
25 5 0.07
26 2 0.03
27 8 0.11
28 20 0.27
29 8 0.11
30 11 0.15
31 11 0.15
ACGTcount: A:0.63, C:0.06, G:0.30, T:0.02
Consensus pattern (27 bp):
AGAAAAAAGAGAGAGAGCAGACAGAGA
Found at i:23278838 original size:59 final size:56
Alignment explanation
Indices: 23278767--23278906 Score: 171
Period size: 59 Copynumber: 2.5 Consensus size: 56
23278757 AAGAGAAAAA
* * *
23278767 AAAGAGACAGAGAAGAAG-AAAGAAGAGAGAGAGCATGACAGAGCAGAAAAAAGAAAGAG
1 AAAGAGAAAGAGAAGAAGAAAAG-AGAGAGACAGCAAGACAGAGCAG-AAAAA-AAAG-G
*
23278826 AAAGAGAAAGAGAAGAAGAAAAGAGAGAGACAGCAAGACAGAGTAGAAAAAAAAGG
1 AAAGAGAAAGAGAAGAAGAAAAGAGAGAGACAGCAAGACAGAGCAGAAAAAAAAGG
*
23278882 AAAAAGAAAGAGAA-AA-AAAAG-GAGA
1 AAAGAGAAAGAGAAGAAGAAAAGAGAGA
23278907 AAGGGAGCAC
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
53 4 0.05
54 5 0.07
55 2 0.03
56 14 0.19
57 4 0.05
58 5 0.07
59 37 0.49
60 4 0.05
ACGTcount: A:0.64, C:0.05, G:0.30, T:0.01
Consensus pattern (56 bp):
AAAGAGAAAGAGAAGAAGAAAAGAGAGAGACAGCAAGACAGAGCAGAAAAAAAAGG
Found at i:23278863 original size:19 final size:18
Alignment explanation
Indices: 23278751--23278855 Score: 65
Period size: 17 Copynumber: 5.7 Consensus size: 18
23278741 GAAAGGAGAG
*
23278751 AAGAGAAAGAGAA-AAAA
1 AAGAGAAAGAGAAGAAGA
*
23278768 AAGAGACAGAGAAGAAGA
1 AAGAGAAAGAGAAGAAGA
* *
23278786 AAGA-AGAGAGAGAGCATGA
1 AAGAGAAAGAGA-AG-AAGA
*
23278805 CAGAGCAGAAAAAAGAA-AGAGA
1 -A-AG-AG-AAAGAGAAGA-AGA
23278827 AAGAGAAAGAGAAGAAGA
1 AAGAGAAAGAGAAGAAGA
*
23278845 AA-AGAGAGAGA
1 AAGAGAAAGAGA
23278856 CAGCAAGACA
Statistics
Matches: 69, Mismatches: 9, Indels: 20
0.70 0.09 0.20
Matches are distributed among these distances:
17 26 0.38
18 21 0.30
19 6 0.09
20 3 0.04
21 4 0.06
22 3 0.04
23 1 0.01
24 5 0.07
ACGTcount: A:0.64, C:0.04, G:0.31, T:0.01
Consensus pattern (18 bp):
AAGAGAAAGAGAAGAAGA
Found at i:23278891 original size:11 final size:10
Alignment explanation
Indices: 23278871--23278904 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
23278861 AGACAGAGTA
23278871 GAAAAAAAAG
1 GAAAAAAAAG
23278881 GAAAAAGAAAG
1 GAAAAA-AAAG
23278892 AGAAAAAAAAG
1 -GAAAAAAAAG
23278903 GA
1 GA
23278905 GAAAGGGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 8 0.36
11 8 0.36
12 6 0.27
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAG
Found at i:23278898 original size:12 final size:12
Alignment explanation
Indices: 23278814--23278908 Score: 52
Period size: 12 Copynumber: 7.2 Consensus size: 12
23278804 ACAGAGCAGA
23278814 AAAAAGAAAGAG
1 AAAAAGAAAGAG
*
23278826 AAAGAGAAAGAG
1 AAAAAGAAAGAG
*
23278838 AAGAAGAAAAGAGAG
1 AA-AA-AGAA-AGAG
23278853 AGACAGCAAGACAGAGTAG
1 A-A-A--AAGA-A-AG-AG
23278872 AAAAA-AAAG-G
1 AAAAAGAAAGAG
23278882 AAAAAGAAAGAG
1 AAAAAGAAAGAG
23278894 AAAAA-AAAGGAG
1 AAAAAGAAA-GAG
23278906 AAA
1 AAA
23278909 GGGAGCACGA
Statistics
Matches: 67, Mismatches: 5, Indels: 22
0.71 0.05 0.23
Matches are distributed among these distances:
10 6 0.09
11 7 0.10
12 27 0.40
13 2 0.03
14 4 0.06
15 7 0.10
16 2 0.03
17 3 0.04
18 6 0.09
19 3 0.04
ACGTcount: A:0.68, C:0.03, G:0.27, T:0.01
Consensus pattern (12 bp):
AAAAAGAAAGAG
Found at i:23278961 original size:16 final size:16
Alignment explanation
Indices: 23278930--23278972 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
23278920 GACGAGGGAG
**
23278930 AAGAAAGAGAGGGAAA
1 AAGAAAGAGAAAGAAA
23278946 AA-ATAAGAGAAAGAAA
1 AAGA-AAGAGAAAGAAA
23278962 AAGAAAGAGAA
1 AAGAAAGAGAA
23278973 GGAGAGAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (16 bp):
AAGAAAGAGAAAGAAA
Found at i:23278999 original size:71 final size:71
Alignment explanation
Indices: 23278871--23279030 Score: 173
Period size: 71 Copynumber: 2.3 Consensus size: 71
23278861 AGACAGAGTA
* * *
23278871 GAAAAAAAAGGAAAAAGAAAGAGAAAAAAAAGGAGAAAGGGAGCACGATGACGAGGGAGAAGAAA
1 GAAAAAAAAGGAAAAAGAAAAAGAAAAAAAAGGAGAAAGGGAGCACGACGACAAGGGAGAAGAAA
23278936 GAGAGG
66 GAGAGG
* * * * * * *
23278942 GAAAAAATAA-GAGAAAGAAAAAGAAAGAGAAGGAGAGAGGGAGCATGGCGACAAGGGAGGAGAA
1 GAAAAAA-AAGGAAAAAGAAAAAGAAAAAAAAGGAGAAAGGGAGCACGACGACAAGGGAGAAGAA
*
23279006 AGA-AGA
65 AGAGAGG
*
23279012 GAAAGAAAAA-GAAGAAGAA
1 GAAA-AAAAAGGAAAAAGAA
23279031 GGAGAGAAGG
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
70 15 0.20
71 57 0.77
72 2 0.03
ACGTcount: A:0.59, C:0.04, G:0.35, T:0.02
Consensus pattern (71 bp):
GAAAAAAAAGGAAAAAGAAAAAGAAAAAAAAGGAGAAAGGGAGCACGACGACAAGGGAGAAGAAA
GAGAGG
Found at i:23279943 original size:60 final size:60
Alignment explanation
Indices: 23279851--23280032 Score: 244
Period size: 60 Copynumber: 3.0 Consensus size: 60
23279841 TTGTTTATAA
* * * *
23279851 AAAGGGG-ACCTAAAGCCCCGATTTATAATTGGTGGCATGGGCAGCTCCCACAAGTAGGT
1 AAAGGGGAACCTAAAGCCCCGATTTATATTTGGTGACGTGGGTAGCTCCCACAAGTAGGT
* * *
23279910 AAAGGGGAACCTAAAGCCCCGATTTATATTTGGTGATGTGGGTAGGTCCCACGAGTAGGT
1 AAAGGGGAACCTAAAGCCCCGATTTATATTTGGTGACGTGGGTAGCTCCCACAAGTAGGT
* *
23279970 AACA-GGGAACCTGAAGCCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAA-TAGGT
1 AA-AGGGGAACCTAAAGCCCCGATTTATATTTGGTGACGTGGGTAGCTCCCAC-AAGTAGGT
23280030 AAA
1 AAA
23280033 AAGGGCGATT
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
59 8 0.07
60 99 0.91
61 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (60 bp):
AAAGGGGAACCTAAAGCCCCGATTTATATTTGGTGACGTGGGTAGCTCCCACAAGTAGGT
Found at i:23293084 original size:15 final size:15
Alignment explanation
Indices: 23293061--23293090 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23293051 TGGTGTGCTC
*
23293061 TCACCTTTGGTACAT
1 TCACATTTGGTACAT
23293076 TCACATTTGGTACAT
1 TCACATTTGGTACAT
23293091 CGCTTCATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.40
Consensus pattern (15 bp):
TCACATTTGGTACAT
Found at i:23293304 original size:16 final size:17
Alignment explanation
Indices: 23293283--23293315 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23293273 TTAGTAGTTT
23293283 GTCACT-ATTGACCTTG
1 GTCACTCATTGACCTTG
*
23293299 GTCACTCCTTGACCTTG
1 GTCACTCATTGACCTTG
23293316 TGACACTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.36
Consensus pattern (17 bp):
GTCACTCATTGACCTTG
Found at i:23302535 original size:72 final size:73
Alignment explanation
Indices: 23302450--23302699 Score: 249
Period size: 72 Copynumber: 3.4 Consensus size: 73
23302440 CATGTAAGGT
* ** *
23302450 TGGTGGATATATGAGCTCCT-GGCTATGATGTTAATGAATGACTATGACATGTATGAATATGATG
1 TGGTGGATGTATGAG-TCCTCACCTATGATGTTAATGAATGACTATGACATATATGAATATGATG
* *
23302514 T-GATGTGT
65 TCGATATGA
* ** *
23302522 TTGTGGATGTATGAGTTTTCACCTATGATGTTAATGAATGACTATGTCATATATGAATATGATGT
1 TGGTGGATGTATGAGTCCTCACCTATGATGTTAATGAATGACTATGACATATATGAATATGATGT
23302587 CGATATGA
66 CGATATGA
* * * ** * *
23302595 TGGTGGATGTATGAGTTCC-CACTTATGA-GATAATGAATGATTATGATGTATATGTACATGATG
1 TGGTGGATGTATGAG-TCCTCACCTATGATGTTAATGAATGACTATGACATATATGAATATGATG
* *
23302658 TCAATATGTT
65 TCGATATG-A
*
23302668 TGGAGGATGTATGAGTTCC-CACCTATGATGTT
1 TGGTGGATGTATGAG-TCCTCACCTATGATGTT
23302700 TTAAGATAAG
Statistics
Matches: 147, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
71 2 0.01
72 89 0.61
73 53 0.36
74 3 0.02
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (73 bp):
TGGTGGATGTATGAGTCCTCACCTATGATGTTAATGAATGACTATGACATATATGAATATGATGT
CGATATGA
Found at i:23304528 original size:252 final size:252
Alignment explanation
Indices: 23304076--23305596 Score: 2264
Period size: 252 Copynumber: 6.0 Consensus size: 252
23304066 TAACATGATA
* * * *
23304076 TATCGTTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAACTCAAGAA
1 TATCCTTATTATTCTTTATTTAAAAATTAAAATTTATACATCGTTAAACACTTTTAACTCGAGAA
* * * *
23304141 TATAAATTTAAATCTTTATTTTTCATTAAATTGAGATTGTTTTTATTTAATTGACTTGTTACGTT
66 TATAAATTTAAATATTTATTTTTCATCAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* *
23304206 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATT-CTACCTTTATAAGTTTTTACGTC
131 AACTCTCACACACTTACGTTAAGATTTAAAATTTAGTTATTAC-ACCTTTACAAGTTTTTACGTC
* * *
23304270 AATTCTTACCGTTTTACGTCAAAGCTTTTCCATGCCAACTTTGAATTAGAATTTTTTT
195 AATTCTTACAGTTTTACGTCAAGGCTTTTCCATGCCAACTTTGAATTAGAATTATTTT
*
23304328 TATCCTTATTATTCTTTATTTAAAAATTAAAATTTATACATCGTTAAACATTTTTAA-TCCGAGA
1 TATCCTTATTATTCTTTATTTAAAAATTAAAATTTATACATCGTTAAACACTTTTAACT-CGAGA
*
23304392 ATATAAATTTAAATATTTATTTTTCATCAAATTGAAATTGTTTTTACTTAATTGACTTATTACGT
65 ATATAAATTTAAATATTTATTTTTCATCAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGT
* * * *
23304457 TAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTGCACCTTTACAAGTTTTTACATA
130 TAACTCTCACACACTTACGTTAAGATTTAAAATTTAGTTATTACACCTTTACAAGTTTTTACGTC
* * * ** * *
23304522 AATTCTTACAGTTTTATGTCAAGGCTTTTACGTGTTAACTTTGAACTATAATTATTTT
195 AATTCTTACAGTTTTACGTCAAGGCTTTTCCATGCCAACTTTGAATTAGAATTATTTT
* * * * *
23304580 TATCCTTATTATTCGTTATTTAAAAATTAAAATTTGTATATCATTAAACACTTTTAACTAGAGAA
1 TATCCTTATTATTCTTTATTTAAAAATTAAAATTTATACATCGTTAAACACTTTTAACTCGAGAA
* * * *
23304645 TATAAATTTAAATATTTATTTTTCATTAACTTGAGATTGTTTTTACTTAATTGGCTTGTTACGTT
66 TATAAATTTAAATATTTATTTTTCATCAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* * *
23304710 AACTCTTACACACTTACGTTAAGATTTAAAATTTAATTATTCCACCTTTACAAGTTTTTACGTCA
131 AACTCTCACACACTTACGTTAAGATTTAAAATTTAGTTATTACACCTTTACAAGTTTTTACGTCA
* * * *
23304775 ATTCTTACAATTTTATGTCAAGGCTTTTCCATGCCAACTTTGAATTAAAATTTTTTTT
196 ATTCTTACAGTTTTACGTCAAGGCTTTTCCATGCCAACTTTGAATTAGAA-TTATTTT
* * *
23304833 TATCGTTATTATTCTTTATTTAAAAATT-AAATTTACACATCGTTAAACATTTTTAA-TCCGAGA
1 TATCCTTATTATTCTTTATTTAAAAATTAAAATTTATACATCGTTAAACACTTTTAACT-CGAGA
23304896 ATATAAATTTAAATATTTATTTTTCATCAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGT
65 ATATAAATTTAAATATTTATTTTTCATCAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGT
* * *
23304961 TAACTCTCACATATTTACGTTAAGATTTAAAATTTAGTTATTACACCTTTACAAGTTTTTGCGTC
130 TAACTCTCACACACTTACGTTAAGATTTAAAATTTAGTTATTACACCTTTACAAGTTTTTACGTC
* * ** *
23305026 AATTTTTACAATTTTACGTCGAA-ATTTTTCCATGTCAACTTTGAATTAGAATTATTTT
195 AATTCTTACAGTTTTACGTC-AAGGCTTTTCCATGCCAACTTTGAATTAGAATTATTTT
* * * *
23305084 TATCGTTATTATTCTTTATTTAAAAATTAAAATTTACACATCGTTAAATATTTTTAA-TCTGAGA
1 TATCCTTATTATTCTTTATTTAAAAATTAAAATTTATACATCGTTAAACACTTTTAACTC-GAGA
* *
23305148 ATATAAATTTAAATACTTATTTTTCATCAAATTGAAATTGTTTTTACTTAATTGACTTGTTACAT
65 ATATAAATTTAAATATTTATTTTTCATCAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGT
* * *
23305213 TAACTCTCACACATTTAGGTTAAGATTTAAAATTTTGTTATTACACCTTTACAAGTTTTTACGTC
130 TAACTCTCACACACTTACGTTAAGATTTAAAATTTAGTTATTACACCTTTACAAGTTTTTACGTC
23305278 AATTCTTACAGTTTTACGTCAAGGCTTTTCCATGCCAACTTTGAATTAGAATTATTTT
195 AATTCTTACAGTTTTACGTCAAGGCTTTTCCATGCCAACTTTGAATTAGAATTATTTT
* * * * *
23305336 TATCCTTATTATTCTTTATGTAAAAATTAAAATTTGTATATCGTTGAACACTTTTAACTTGAGAA
1 TATCCTTATTATTCTTTATTTAAAAATTAAAATTTATACATCGTTAAACACTTTTAACTCGAGAA
* * *
23305401 TATAAATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTATTACGTT
66 TATAAATTTAAATATTTATTTTTCATCAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* * *
23305466 AACTTTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
131 AACTCTCACACACTTACGTTAAGATTTAAAATTTAGTTATTACACCTTTACAAGTTTTTACGTCA
* *
23305531 ATTCTTACTGTTTTACGTCAAGGCTTTTTCATGCCAACTTTGAATTAGAATT-TTTT
196 ATTCTTACAGTTTTACGTCAAGGCTTTTCCATGCCAACTTTGAATTAGAATTATTTT
23305587 TATCCTTATT
1 TATCCTTATT
23305597 TGTCACGACC
Statistics
Matches: 1150, Mismatches: 109, Indels: 21
0.90 0.09 0.02
Matches are distributed among these distances:
251 53 0.05
252 1060 0.92
253 37 0.03
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (252 bp):
TATCCTTATTATTCTTTATTTAAAAATTAAAATTTATACATCGTTAAACACTTTTAACTCGAGAA
TATAAATTTAAATATTTATTTTTCATCAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
AACTCTCACACACTTACGTTAAGATTTAAAATTTAGTTATTACACCTTTACAAGTTTTTACGTCA
ATTCTTACAGTTTTACGTCAAGGCTTTTCCATGCCAACTTTGAATTAGAATTATTTT
Found at i:23307882 original size:20 final size:20
Alignment explanation
Indices: 23307856--23307901 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
23307846 AATCTTACAT
* *
23307856 TTTTTCACTTGTTTCCTTGAA
1 TTTTACACTT-TTCCCTTGAA
23307877 TTTTCACACTTTTCCCTTGAA
1 TTTT-ACACTTTTCCCTTGAA
23307898 TTTT
1 TTTT
23307902 TCCACCTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTCCCTTGAA
Found at i:23307903 original size:22 final size:22
Alignment explanation
Indices: 23307861--23307901 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23307851 TACATTTTTT
*
23307861 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
23307883 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
23307902 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:23308953 original size:21 final size:20
Alignment explanation
Indices: 23308919--23308957 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
23308909 ATTTAAATAT
23308919 TTATTTTTCATTAAATTGAGA
1 TTATTTTTCATT-AATTGAGA
23308940 TTATTTTT-ACTTAATTGA
1 TTATTTTTCA-TTAATTGA
23308958 CTTGTTACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (20 bp):
TTATTTTTCATTAATTGAGA
Found at i:23309161 original size:252 final size:251
Alignment explanation
Indices: 23308593--23310552 Score: 2697
Period size: 252 Copynumber: 7.8 Consensus size: 251
23308583 GGGCTTGACA
* * * *
23308593 TTATTATTCTTTATTTAAAAATTAAAACTTGTTCATCGTTAAACACTTTTAATCCAAAAATATAA
1 TTATTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAGAATATAA
*
23308658 ATATAAATATTTATTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACGTTAACTC
66 ATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACGTTAACTC
* * * * *
23308723 TTACGCACTTACGTTAAGATTTCAAATTTAGTTATTCTAACTTTA-TAGTTTTTACGCCAATTCT
131 TTACACACTTACGTTAAGATTTAAAATTTAGTTATTC-CACTTTACAAGTTTTTACGTCAATTCT
* * * * * **
23308787 TATAGTTTTATGTCAAGACTTTTCCGTGTTAACTTTGAGCTATAATTATTTTTATCC
195 TACAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTATAATTATTTTTATCC
* * *
23308844 TTATTATTCATTT-TTTATAAATTAAAATTTGTATATCGTTAAACACTTTTAA-CTTGAGAATAT
1 TTATTATTC-TTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATC-CGAGAATAT
*
23308907 AAATTTAAATATTTATTTTTCATTAAATTGAGATTATTTTTACTTAATTGACTTGTTACGTTAAC
64 AAATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACGTTAAC
* *
23308972 TCTTACATATTTACGTTAAGATTTAAAATTTAGTTATTCCACTATTACAAGTTTTTACGTCAATT
129 TCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACT-TTACAAGTTTTTACGTCAATT
* * * *
23309037 CTTATAG-TTTACGTTAAGGGCTTTTTCATGTCAACTTTGTATTATAATTATTTTTATCC
193 CTTACAGTTTTACGTCAA-GGCTTTTCCATGTCAACTTTGAATTATAATTATTTTTATCC
* * *
23309096 TTATTATTCGTTATTTAAAAATTAAAATTTATACATCGTTAAACACTTTTAATCCAAGAATATAA
1 TTATTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAGAATATAA
*
23309161 ATTTAAATATTTAGTTTTT-ATTAAATTGAGATTATTTTTACTTAATTGACTTGTTACGTTAACT
66 ATTTAAATATTTA-TTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACGTTAACT
*
23309225 CTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGCTTTTACGTCAATTC
130 CTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCA-CTTTACAAGTTTTTACGTCAATTC
* * * *
23309290 TTACCGTTTTACATCAAGGCTTTTCCATG-CTAACTTTGAATTAGAATTTTTTTTATCC
194 TTACAGTTTTACGTCAAGGCTTTTCCATGTC-AACTTTGAATTATAATTATTTTTATCC
* *
23309348 TTATTATTCTTTATTTAAAAATTAAAATTT-TCACATCGTTAAACATTTTTAATCTGAGAATATA
1 TTATTATTCTTTATTTAAAAATTAAAATTTGT-ACATCGTTAAACACTTTTAATCCGAGAATATA
* *
23309412 AATTTAAATATTTATTTTTCATCAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTTAACT
65 AATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACGTTAACT
* * * * *
23309477 CTCACACATTTAGGTTAAGATTTAAAATTTTGTTATTGCACCTTTACAAGTTTTTACGTCAATTC
130 CTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCA-CTTTACAAGTTTTTACGTCAATTC
* *
23309542 TTACAGTTTTACGTCAAGGCTTTTCCATG-CTAACTTTTAATTAGAATTATTTTTATCC
194 TTACAGTTTTACGTCAAGGCTTTTCCATGTC-AACTTTGAATTATAATTATTTTTATCC
* * *
23309600 TTACTATTCTTTATTTAAAAATTAAATTTTGTATATCGTTAAACACTTTTAA-CTCGAGAATATA
1 TTATTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATC-CGAGAATATA
* * * **
23309664 AATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTATTTAATTAACTTATTACGTTAGTT
65 AATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACGTTAACT
* * ** *
23309729 CTTACACACTTACGTTAAGATTAAAAATTTAGTTATTCTACCTTTACAAACTTTTACGTCAGTTC
130 CTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCA-CTTTACAAGTTTTTACGTCAATTC
* * *
23309794 TTACCA-TTTTACGTCAAGGCTTTTCCATGCCAACTTTGAATTAGAATTCTTTTTATCC
194 TTA-CAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTATAATTATTTTTATCC
* * * *
23309852 TTATTATTCTTTATTTAAAAATTAAAATTTATTCATCGTTAAACACTTTTAATCCAAAAATATAA
1 TTATTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAGAATATAA
*
23309917 ATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACATTAACTC
66 ATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACGTTAACTC
* *
23309982 TTACACACTTACGTTAAGATTTAAAATTTAGTTATTCTAACTTTATAAGTTTTTACGTCAATTCT
131 TTACACACTTACGTTAAGATTTAAAATTTAGTTATTC-CACTTTACAAGTTTTTACGTCAATTCT
* * * * **
23310047 TATAGTTTTATGTCAAGGCTTTTCCGTGTTAACTTTGAGCTATAATTATTTTTATCC
195 TACAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTATAATTATTTTTATCC
* * *
23310104 TTATTATTCATTT-TTTATAAATTAAAATTTGTATATCGTTAAACACTTTTAA-CTTGAGAATAT
1 TTATTATTC-TTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATC-CGAGAATAT
* * *
23310167 AAATTTAAATATTTATTTTTCATTAAATTGAGATTATTTTTACTTAATTGACTTGTTATGCTAAC
64 AAATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACGTTAAC
* * *
23310232 TCTCA-ACATTTACGTTAAGATTTAAAATTTAGTTATTCCACCATTACAAGTTTTTACGTCAATT
129 TCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCA-CTTTACAAGTTTTTACGTCAATT
* * *
23310296 CTTACAGTTTTACGTTAAGGGCTTTTCCACGTCAACTTTGAATTATAATTATTTTTATCT
193 CTTACAGTTTTACGTCAA-GGCTTTTCCATGTCAACTTTGAATTATAATTATTTTTATCC
* * * ** *
23310356 TTATTATTTTTTATTTAAAAGTTAAAATTTGTACATCGTTAAACACTTTTAGTTTGAGAACATAA
1 TTATTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAGAATATAA
* * *
23310421 ATTTAAATATTTATTTTTCATCAAATTTAAATTGTTTTTACTTAATTGACTTGTTACGTTAACT-
66 ATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACGTTAACTC
* * * * * **
23310485 TTCACACATTTATGTTAAGATTTAAAATTTAATTATTTCTCTTTTATGAGTTTTTACGTCAATTC
131 TT-ACACACTTACGTTAAGATTTAAAATTTAGTTATTCCAC-TTTACAAGTTTTTACGTCAATTC
23310550 TTA
194 TTA
23310553 TTACTTTATG
Statistics
Matches: 1523, Mismatches: 157, Indels: 56
0.88 0.09 0.03
Matches are distributed among these distances:
250 5 0.00
251 243 0.16
252 1196 0.79
253 79 0.05
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.47
Consensus pattern (251 bp):
TTATTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAGAATATAA
ATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACGTTAACTC
TTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACTTTACAAGTTTTTACGTCAATTCTT
ACAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTATAATTATTTTTATCC
Found at i:23310213 original size:21 final size:20
Alignment explanation
Indices: 23310179--23310217 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
23310169 ATTTAAATAT
23310179 TTATTTTTCATTAAATTGAGA
1 TTATTTTTCATT-AATTGAGA
23310200 TTATTTTT-ACTTAATTGA
1 TTATTTTTCA-TTAATTGA
23310218 CTTGTTATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (20 bp):
TTATTTTTCATTAATTGAGA
Found at i:23321183 original size:37 final size:37
Alignment explanation
Indices: 23321142--23321256 Score: 203
Period size: 37 Copynumber: 3.1 Consensus size: 37
23321132 CATATGCATT
23321142 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
*
23321179 CATCATCATGTATGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
* *
23321216 CATCATTATGTGTGCACTCCCTACTCGTACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
23321253 CATC
1 CATC
23321257 TTCACACAAC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.29
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:23324867 original size:19 final size:19
Alignment explanation
Indices: 23324843--23324880 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23324833 TTATTTAACT
*
23324843 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
23324862 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
23324881 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:23331196 original size:37 final size:37
Alignment explanation
Indices: 23331155--23331232 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
23331145 CATATGCATT
23331155 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
23331192 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
23331229 CATC
1 CATC
23331233 CTCACACAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.24, C:0.38, G:0.10, T:0.27
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:23335112 original size:23 final size:23
Alignment explanation
Indices: 23335082--23335126 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
23335072 TATACGTATA
23335082 CCCATCATCATCATGCA-CACCAT
1 CCCATCATCATCAT-CATCACCAT
23335105 CCCATCATCATCATCATCACCA
1 CCCATCATCATCATCATCACCA
23335127 GCTCATGCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.31, C:0.44, G:0.02, T:0.22
Consensus pattern (23 bp):
CCCATCATCATCATCATCACCAT
Found at i:23336833 original size:13 final size:13
Alignment explanation
Indices: 23336815--23336839 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23336805 AGAGAAATTG
23336815 TGATTTTATAAAA
1 TGATTTTATAAAA
23336828 TGATTTTATAAA
1 TGATTTTATAAA
23336840 TTTTTTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:23341521 original size:94 final size:95
Alignment explanation
Indices: 23341260--23341636 Score: 528
Period size: 96 Copynumber: 3.9 Consensus size: 95
23341250 AAAAACCTTG
* *
23341260 TACTCCCGTTACTTCTCTTTTTCTTTCAACTTTTGATTATTTTTTTCATACTCC-ACTAATTCCT
1 TACT-CCGTTGCTTCTCTTTTTCTTTCAACTTTTGATTATTTTTATCATACTCCAAC-AATTCCT
23341324 TCAACTTTTCAATTTCACACTTCAAACTCTCA
64 TCAACTTTTCAATTTCACACTTCAAACTCTCA
** * * *
23341356 TACTTTTGTTGCTTCTCTTTTTCTTTCAGCTTTTGATTATTTTTATCATATTCCAACAATTCTTT
1 TAC-TCCGTTGCTTCTCTTTTTCTTTCAACTTTTGATTATTTTTATCATACTCCAACAATTCCTT
* *
23341421 CTACTTTTCAATATCACACTTCAAACTCTCA
65 CAACTTTTCAATTTCACACTTCAAACTCTCA
* * * * *
23341452 TAC-CCGTTGTTTCTCTTTTTCTTTCAAGC-TTTGACTATTTTTATCATACTCTAATAGTTCCTT
1 TACTCCGTTGCTTCTCTTTTTCTTTCAA-CTTTTGATTATTTTTATCATACTCCAACAATTCCTT
23341515 CAACTTTTCAATTTCACACTTCAAACTCTCA
65 CAACTTTTCAATTTCACACTTCAAACTCTCA
*
23341546 TACTCCTGTTGCTTCTCTTTTTCTTTCAACTTTTGATTATTGTTATCATACTCCAACAA-TCCTT
1 TACTCC-GTTGCTTCTCTTTTTCTTTCAACTTTTGATTATTTTTATCATACTCCAACAATTCC-T
*
23341610 TCAACTTTTCAATTTCATACTTCAAAC
64 TCAACTTTTCAATTTCACACTTCAAAC
23341637 CCTTAATTTC
Statistics
Matches: 246, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
94 80 0.33
95 7 0.03
96 156 0.63
97 3 0.01
ACGTcount: A:0.22, C:0.25, G:0.04, T:0.48
Consensus pattern (95 bp):
TACTCCGTTGCTTCTCTTTTTCTTTCAACTTTTGATTATTTTTATCATACTCCAACAATTCCTTC
AACTTTTCAATTTCACACTTCAAACTCTCA
Found at i:23341595 original size:190 final size:190
Alignment explanation
Indices: 23341272--23341636 Score: 588
Period size: 190 Copynumber: 1.9 Consensus size: 190
23341262 CTCCCGTTAC
* * *
23341272 TTCTCTTTTTCTTTCAACTTTTGATTATTTTTTTCATACTCCACTAATTCCTTCAACTTTTCAAT
1 TTCTCTTTTTCTTTCAACTTTTGACTATTTTTATCATACTCCAATAATTCCTTCAACTTTTCAAT
** * *
23341337 TTCACACTTCAAACTCTCATACTTTTGTTGCTTCTCTTTTTCTTTCAGCTTTTGATTATTTTTAT
66 TTCACACTTCAAACTCTCATACTCCTGTTGCTTCTCTTTTTCTTTCAACTTTTGATTATTGTTAT
* * *
23341402 CATATTCCAACAATTCTTTCTACTTTTCAATATCACACTTCAAACTCTCATACCCGTTGT
131 CATACTCCAACAATCCTTTCAACTTTTCAATATCACACTTCAAACTCTCATACCCGTTGT
* *
23341462 TTCTCTTTTTCTTTCAAGC-TTTGACTATTTTTATCATACTCTAATAGTTCCTTCAACTTTTCAA
1 TTCTCTTTTTCTTTCAA-CTTTTGACTATTTTTATCATACTCCAATAATTCCTTCAACTTTTCAA
23341526 TTTCACACTTCAAACTCTCATACTCCTGTTGCTTCTCTTTTTCTTTCAACTTTTGATTATTGTTA
65 TTTCACACTTCAAACTCTCATACTCCTGTTGCTTCTCTTTTTCTTTCAACTTTTGATTATTGTTA
* *
23341591 TCATACTCCAACAATCCTTTCAACTTTTCAATTTCATACTTCAAAC
130 TCATACTCCAACAATCCTTTCAACTTTTCAATATCACACTTCAAAC
23341637 CCTTAATTTC
Statistics
Matches: 160, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
190 159 0.99
191 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.04, T:0.49
Consensus pattern (190 bp):
TTCTCTTTTTCTTTCAACTTTTGACTATTTTTATCATACTCCAATAATTCCTTCAACTTTTCAAT
TTCACACTTCAAACTCTCATACTCCTGTTGCTTCTCTTTTTCTTTCAACTTTTGATTATTGTTAT
CATACTCCAACAATCCTTTCAACTTTTCAATATCACACTTCAAACTCTCATACCCGTTGT
Found at i:23353886 original size:28 final size:27
Alignment explanation
Indices: 23353850--23353902 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
23353840 ATATCCTGGT
*
23353850 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
23353877 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
23353903 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:23353970 original size:20 final size:20
Alignment explanation
Indices: 23353947--23353992 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
23353937 CTTCTAAACC
23353947 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
23353967 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
23353987 TCAAAT
1 TCAAAT
23353993 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:23355977 original size:40 final size:40
Alignment explanation
Indices: 23355884--23356021 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
23355874 ACCCATGTGC
** * * *
23355884 ACGATGTTAGGGGATGCACACGATGGCAT-TAACTATG-C-
1 ACGATGTGGGGGGATGCACACGATGAC-TCCAGCTATGTCG
23355922 ACGATGTGGGGGGATGCACACGATGACTCCAGCTATGTCG
1 ACGATGTGGGGGGATGCACACGATGACTCCAGCTATGTCG
*
23355962 ACGATGTGGGGGGATGCACACGATGACTCCGGCTATGT-G
1 ACGATGTGGGGGGATGCACACGATGACTCCAGCTATGTCG
23356001 CACGATGTGGGGGGATGCACA
1 -ACGATGTGGGGGGATGCACA
23356022 TGTCACGACC
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
37 1 0.01
38 30 0.33
39 2 0.02
40 57 0.63
ACGTcount: A:0.24, C:0.20, G:0.36, T:0.20
Consensus pattern (40 bp):
ACGATGTGGGGGGATGCACACGATGACTCCAGCTATGTCG
Found at i:23360061 original size:38 final size:38
Alignment explanation
Indices: 23359988--23360062 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
23359978 CATTACCCTA
* *
23359988 AAACAAATTGAAGGAACAACAATTTTTATATATAATTC
1 AAACAAATTGAAGGAACAACAATTTCTATACATAATTC
*
23360026 AAACAAATTGAAGGAATAACAATCTTCT-TACATAATT
1 AAACAAATTGAAGGAACAACAAT-TTCTATACATAATT
23360063 TTAAGATCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 30 0.91
39 3 0.09
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.31
Consensus pattern (38 bp):
AAACAAATTGAAGGAACAACAATTTCTATACATAATTC
Found at i:23360803 original size:12 final size:12
Alignment explanation
Indices: 23360786--23360810 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23360776 TAGCTTACAC
23360786 TTATAAATGCAT
1 TTATAAATGCAT
23360798 TTATAAATGCAT
1 TTATAAATGCAT
23360810 T
1 T
23360811 CACTTACCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTATAAATGCAT
Found at i:23362744 original size:19 final size:19
Alignment explanation
Indices: 23362716--23362757 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23362706 TAGCCAACTT
* *
23362716 AAATCCAAACCCAAATAGA
1 AAATCAAAACCCAAATACA
*
23362735 AAATCAAAACCCTAATACA
1 AAATCAAAACCCAAATACA
23362754 AAAT
1 AAAT
23362758 AAATCAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.24, G:0.02, T:0.14
Consensus pattern (19 bp):
AAATCAAAACCCAAATACA
Found at i:23362827 original size:14 final size:13
Alignment explanation
Indices: 23362791--23362835 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
23362781 ACTCAAAACC
**
23362791 AAAACTAAATAGG
1 AAAACTAAATAAA
*
23362804 AAAACGAAATAACA
1 AAAACTAAATAA-A
23362818 AAAACTAAATAAA
1 AAAACTAAATAAA
23362831 AAAAC
1 AAAAC
23362836 CAACAGATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.71, C:0.11, G:0.07, T:0.11
Consensus pattern (13 bp):
AAAACTAAATAAA
Found at i:23363473 original size:78 final size:78
Alignment explanation
Indices: 23363338--23363487 Score: 228
Period size: 78 Copynumber: 1.9 Consensus size: 78
23363328 ATTAGAATAG
* * * * * * *
23363338 CCAATGGATACTTGGACTGAAGATTGCTTTGGATACTAAAGAGACACTTACAGAATGCACTCAAT
1 CCAATGGATACTTAGACTGAAGACTACTTTGAACACTAAAGAGACACATACAAAATGCACTCAAT
23363403 TGCCAACATTTAA
66 TGCCAACATTTAA
*
23363416 CCAATGGATACTTAGACTGAAGACTACTTTGAACACTGAAGAGACACATACAAAATGCACTCAAT
1 CCAATGGATACTTAGACTGAAGACTACTTTGAACACTAAAGAGACACATACAAAATGCACTCAAT
23363481 TGCCAAC
66 TGCCAAC
23363488 CTTTTAAGCC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (78 bp):
CCAATGGATACTTAGACTGAAGACTACTTTGAACACTAAAGAGACACATACAAAATGCACTCAAT
TGCCAACATTTAA
Found at i:23369591 original size:17 final size:17
Alignment explanation
Indices: 23369571--23369606 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
23369561 TTAGGAGGCT
23369571 GTGGGATTTAGAATTAG
1 GTGGGATTTAGAATTAG
23369588 GTGGGATTTAGAATTAG
1 GTGGGATTTAGAATTAG
23369605 GT
1 GT
23369607 TAAAGCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (17 bp):
GTGGGATTTAGAATTAG
Found at i:23374592 original size:71 final size:71
Alignment explanation
Indices: 23374509--23374640 Score: 237
Period size: 71 Copynumber: 1.9 Consensus size: 71
23374499 CAAAATAGTA
*
23374509 TACATAATAAATGGAGTTAGAAGAGTAAATATTGAATGATATTAAGGCAATATGATGAGATCATT
1 TACATAATAAATGGAGTTAGAAGAGTAAAAATTGAATGATATTAAGGCAATATGATGAGATCATT
23374574 ATTATG
66 ATTATG
* *
23374580 TACATAATAAATGGAGTTAGAAGAGTAAAAATTGATTGATATTAAGGTAATATGATGAGAT
1 TACATAATAAATGGAGTTAGAAGAGTAAAAATTGAATGATATTAAGGCAATATGATGAGAT
23374641 TTCAATTTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (71 bp):
TACATAATAAATGGAGTTAGAAGAGTAAAAATTGAATGATATTAAGGCAATATGATGAGATCATT
ATTATG
Found at i:23376861 original size:153 final size:153
Alignment explanation
Indices: 23376583--23376888 Score: 567
Period size: 153 Copynumber: 2.0 Consensus size: 153
23376573 GGTTTAGTAA
*
23376583 TTTTACATTTCTTTGCCGAGAAAACTTAAAATATTTATTATCATATTCCTGTATAGGCATAGGTA
1 TTTTACATTTCTTTGCCGAGAAAACTTAAAATATTTATTATCACATTCCTGTATAGGCATAGGTA
23376648 TAATCAGATTCTTCAAGGTGACTTAATAAAGCTCAAAAATGGAGAATGAAATAGTGCAGGATATG
66 TAATCAGATTCTTCAAGGTGACTTAATAAAGCTCAAAAATGGAGAATGAAATAGTGCAGGATATG
23376713 AGAATACTACATCTAATTTTGTT
131 AGAATACTACATCTAATTTTGTT
* *
23376736 TTTTACATTTCTTTGCTGAGAAAACTTAAAATATTTATTATCACATTCCTGTATGGGCATAGGTA
1 TTTTACATTTCTTTGCCGAGAAAACTTAAAATATTTATTATCACATTCCTGTATAGGCATAGGTA
23376801 TAATCAGATTCTTCAAGGTGACTTAATAAAGCTCAAAAATGGAGAATGAAATAGTGCAGGATATG
66 TAATCAGATTCTTCAAGGTGACTTAATAAAGCTCAAAAATGGAGAATGAAATAGTGCAGGATATG
* *
23376866 GGGATACTACATCTAATTTTGTT
131 AGAATACTACATCTAATTTTGTT
23376889 ACCCCTTTCA
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
153 148 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (153 bp):
TTTTACATTTCTTTGCCGAGAAAACTTAAAATATTTATTATCACATTCCTGTATAGGCATAGGTA
TAATCAGATTCTTCAAGGTGACTTAATAAAGCTCAAAAATGGAGAATGAAATAGTGCAGGATATG
AGAATACTACATCTAATTTTGTT
Found at i:23377130 original size:25 final size:25
Alignment explanation
Indices: 23377096--23377157 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
23377086 AAGAAAATAA
23377096 AATCCCTATAATTATGATGATTCCC
1 AATCCCTATAATTATGATGATTCCC
* * *
23377121 AATCCCTATAATTATGGTGATTTCT
1 AATCCCTATAATTATGATGATTCCC
*
23377146 AATTCCTATAAT
1 AATCCCTATAAT
23377158 CACGTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.40
Consensus pattern (25 bp):
AATCCCTATAATTATGATGATTCCC
Found at i:23381609 original size:15 final size:15
Alignment explanation
Indices: 23381589--23381620 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
23381579 AGAATAAAGA
23381589 AAATAAAATTCCTAT
1 AAATAAAATTCCTAT
23381604 AAATAAAATTCCTAT
1 AAATAAAATTCCTAT
23381619 AA
1 AA
23381621 TTATGATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATAAAATTCCTAT
Found at i:23381667 original size:25 final size:25
Alignment explanation
Indices: 23381610--23381671 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
23381600 CTATAAATAA
23381610 AATTCCTATAATTATGATGATTCCC
1 AATTCCTATAATTATGATGATTCCC
* * ***
23381635 AATCCCTATAATTATGGTGATTTTT
1 AATTCCTATAATTATGATGATTCCC
23381660 AATTCCTATAAT
1 AATTCCTATAAT
23381672 CACGTTTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (25 bp):
AATTCCTATAATTATGATGATTCCC
Found at i:23389375 original size:21 final size:21
Alignment explanation
Indices: 23389351--23389411 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
23389341 TAGTTATAGA
23389351 ATCAATTGAATCATACGATAC
1 ATCAATTGAATCATACGATAC
*
23389372 ATCAATTGAACCATACGATAC
1 ATCAATTGAATCATACGATAC
* *
23389393 AT-ATTATGTATCATACGAT
1 ATCAAT-TGAATCATACGAT
23389412 TTTAATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 2 0.06
21 33 0.94
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (21 bp):
ATCAATTGAATCATACGATAC
Found at i:23406005 original size:23 final size:23
Alignment explanation
Indices: 23405971--23406018 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
23405961 AATGGAATCC
*
23405971 GAGCAATGAAATTTAAATG-AAAT
1 GAGCAATGAAA-TGAAATGCAAAT
23405994 GAGC-ATGTAAATGAAATGCAAAT
1 GAGCAATG-AAATGAAATGCAAAT
23406017 GA
1 GA
23406019 AAATGCAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.50, C:0.06, G:0.21, T:0.23
Consensus pattern (23 bp):
GAGCAATGAAATGAAATGCAAAT
Found at i:23410990 original size:14 final size:14
Alignment explanation
Indices: 23410971--23410997 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23410961 GGTAAATTTT
23410971 TTTTTTATAAGTTC
1 TTTTTTATAAGTTC
23410985 TTTTTTATAAGTT
1 TTTTTTATAAGTT
23410998 ATAATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTTTATAAGTTC
Found at i:23411497 original size:22 final size:22
Alignment explanation
Indices: 23411469--23411512 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23411459 CATTTTTTTC
*
23411469 GGTCACTTGGCTTTGATACCAA
1 GGTCACTTGGCTCTGATACCAA
*
23411491 GGTCACTTGTCTCTGATACCAA
1 GGTCACTTGGCTCTGATACCAA
23411513 ATAGATGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
GGTCACTTGGCTCTGATACCAA
Found at i:23412829 original size:27 final size:27
Alignment explanation
Indices: 23412792--23412866 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
23412782 TTTCGAAACA
*
23412792 TAGGGGTAAAA-TGATAATTTTGCCACC
1 TAGGGGTAAAATTG-TAATTTTACCACC
*
23412819 TAGGGGCAAAATTGTAATTTTACCACC
1 TAGGGGTAAAATTGTAATTTTACCACC
*
23412846 TATGGGTAAAATTGTAATTTT
1 TAGGGGTAAAATTGTAATTTT
23412867 CACCCAACAC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 41 0.95
28 2 0.05
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (27 bp):
TAGGGGTAAAATTGTAATTTTACCACC
Found at i:23418565 original size:2 final size:2
Alignment explanation
Indices: 23418558--23418588 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23418548 GGATGTTTTC
23418558 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23418589 AGGTAGTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23419351 original size:34 final size:34
Alignment explanation
Indices: 23419311--23419412 Score: 132
Period size: 34 Copynumber: 3.0 Consensus size: 34
23419301 GGAAGAAGGA
*
23419311 AGCTTTGGTGTGTAATATTTGGTGTTAAAGCTTT
1 AGCTTTGGCGTGTAATATTTGGTGTTAAAGCTTT
* *
23419345 AGCTTTGGCGTGTAACATTTGGTGTTAAAGTTTT
1 AGCTTTGGCGTGTAATATTTGGTGTTAAAGCTTT
* * * * *
23419379 GGCTTTGGCATATAATATCTGGTGCTAAAGCTTT
1 AGCTTTGGCGTGTAATATTTGGTGTTAAAGCTTT
23419413 GACCTTGGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (34 bp):
AGCTTTGGCGTGTAATATTTGGTGTTAAAGCTTT
Found at i:23420395 original size:103 final size:103
Alignment explanation
Indices: 23420264--23420465 Score: 377
Period size: 103 Copynumber: 2.0 Consensus size: 103
23420254 AGCACAAAAT
* *
23420264 GTAAGAATCTATATTGATAATATATAATATTAATACTGAGAATTATGTAAAACAATATTGGAAAA
1 GTAAGAATCTATACTGATAATATATAATATTAATACTGAGAATTATGTAAAACAATATTAGAAAA
*
23420329 TATTAAAGAGCATGTAAAATTATAGATGAACATGAAAC
66 CATTAAAGAGCATGTAAAATTATAGATGAACATGAAAC
23420367 GTAAGAATCTATACTGATAATATATAATATTAATACTGAGAATTATGTAAAACAATATTAGAAAA
1 GTAAGAATCTATACTGATAATATATAATATTAATACTGAGAATTATGTAAAACAATATTAGAAAA
23420432 CATTAAAGAGCATGTAAAATTATAGATGAACATG
66 CATTAAAGAGCATGTAAAATTATAGATGAACATG
23420466 CCATTTTCTT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.50, C:0.06, G:0.13, T:0.31
Consensus pattern (103 bp):
GTAAGAATCTATACTGATAATATATAATATTAATACTGAGAATTATGTAAAACAATATTAGAAAA
CATTAAAGAGCATGTAAAATTATAGATGAACATGAAAC
Found at i:23421150 original size:145 final size:144
Alignment explanation
Indices: 23420885--23421151 Score: 403
Period size: 144 Copynumber: 1.8 Consensus size: 144
23420875 GTTATAGAGT
* * * * * * * *
23420885 ATTTCATACATGTTGATAATCCCATATAGTTCTTGAACAAAATTAAGATTACTGTTTGCTAGTAT
1 ATTTCAAACATATTGATAATCCCATACAATCCTTGAACAAAATTAAGATGACTATATGCTAGTAT
23420950 GCATTTATAGATATCTGTGATGGTCAAGGCAATTGTTATATACAAAAGCTAACATCAAATAATTG
66 GCATTTATAGATATCTGTGATGGTCAAGGCAATTGTTATATACAAAAGCTAACATCAAATAATTG
23421015 GAATTGGCAAGCTG
131 GAATTGGCAAGCTG
*
23421029 ATTTCAAACATATTGATAATCCCATACAATCCTTGAACAAAATTAAGATGACTATATG-TTGTTA
1 ATTTCAAACATATTGATAATCCCATACAATCCTTGAACAAAATTAAGATGACTATATGCTAG-TA
*
23421093 TGCATTTGATAGATATCTGTGATGGT-AGAGGCAATTGTTATATACAAAAGTTAACATCA
65 TGCATTT-ATAGATATCTGTGATGGTCA-AGGCAATTGTTATATACAAAAGCTAACATCA
23421152 GATGGTTGAA
Statistics
Matches: 110, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
143 2 0.02
144 60 0.55
145 48 0.44
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (144 bp):
ATTTCAAACATATTGATAATCCCATACAATCCTTGAACAAAATTAAGATGACTATATGCTAGTAT
GCATTTATAGATATCTGTGATGGTCAAGGCAATTGTTATATACAAAAGCTAACATCAAATAATTG
GAATTGGCAAGCTG
Found at i:23422997 original size:17 final size:17
Alignment explanation
Indices: 23422961--23423007 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
23422951 AAAGAATGAA
* *
23422961 AAACAAATGAAT-ATAG
1 AAACAAATAAATCACAG
**
23422977 AAACCCATAAATCACAG
1 AAACAAATAAATCACAG
23422994 AAACAAATAAATCA
1 AAACAAATAAATCA
23423008 TTTATGATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.62, C:0.17, G:0.06, T:0.15
Consensus pattern (17 bp):
AAACAAATAAATCACAG
Found at i:23424951 original size:13 final size:14
Alignment explanation
Indices: 23424933--23424982 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
23424923 TCACAAACTT
23424933 TTTTTTCC-CTTTC
1 TTTTTTCCTCTTTC
23424946 TTTTTTCCTCTTT-
1 TTTTTTCCTCTTTC
*
23424959 TGTCTTTCTCTCTTTC
1 T-TTTTTC-CTCTTTC
*
23424975 TTTCTTCC
1 TTTTTTCC
23424983 AATCGTTGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
13 9 0.30
14 10 0.33
15 10 0.33
16 1 0.03
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTTTTCCTCTTTC
Found at i:23427952 original size:252 final size:250
Alignment explanation
Indices: 23427305--23428561 Score: 1224
Period size: 252 Copynumber: 5.1 Consensus size: 250
23427295 TTTAACAATA
* ** * * *
23427305 ATTATTATTTATTTTTAAATTAAAATTTATAAAAGGTTAAATACCTTCAGCTCAAGAATATAAAT
1 ATTATTATTTATTTTTAAATTAAAATTTGTAAATCGTTAAATACTTTTAGCCCAAGAATATAAAT
* * ** *
23427370 TTAGATATTGGTTTTTCATTAAAATTAGACTTTTTTGA--T-A-T---AT-TACGTTAACTCTCA
66 TTAAATGTTTATTTTTCATTAAAATTAGAATTTTTTGACTTAATTAACATATACGTTAACTCTCA
** * ** ** * *
23427427 TACATTTACATTAAGATTTTAAATATATTTGTTTTACTTTTATAAGTTTTTACATCAATTCTTAC
131 TACATTTATGTTAAAATTTTAAATATGCTTGTTCCACCTTTATGAGTTTTTACATCAATTCTTAC
* * * * * * *
23427492 AATTTTATGTTAAAGCTTTTT-AATAGTAATTTTTAATTATAATTATTTTTATTCTT
196 AATTTT-CG-TCAAGATTTTTCAATAGCAACTTTTAACTATAATTATTTTTATCCTT
* * * * * * *
23427548 GTTATTATTTATTTTAAAATTAAAGTTTGT-AATTGTTAAATTCTTTTAACCCAAGAATATCAAT
1 ATTATTATTTATTTTTAAATTAAAATTTGTAAATCGTTAAATACTTTTAGCCCAAGAATATAAAT
* ** * * * * * *
23427612 TTAAATGTTTAGTTTTCACAAAAATTAGAGTTTTGTGACTTAATTGACCTATTACATCAACTCTC
66 TTAAATGTTTATTTTTCATTAAAATTAGAATTTTTTGACTTAATTAACATA-TACGTTAACTCTC
** * * * * * * * * *
23427677 ATACATTTATGTTAGCATTTTAAATTTGCTTATTCCATCGTTATAAGATTTTACGTTAAATCTTA
130 ATACATTTATGTTAAAATTTTAAATATGCTTGTTCCACCTTTATGAGTTTTTACATCAATTCTTA
* * *
23427742 CAATTTTCTGTCAAGGTTTTTCAATAGCAACTTTTAACTATAATTAATTTTATCTTT
195 CAATTTTC-GTCAAGATTTTTCAATAGCAACTTTTAACTATAATTATTTTTATCCTT
* * *
23427799 ATTAGTATTTATTTTAAAATTAAAATTTGTAAATCGATAAATACTTTTAGCCCAAGAATATAAAT
1 ATTATTATTTATTTTTAAATTAAAATTTGTAAATCGTTAAATACTTTTAGCCCAAGAATATAAAT
* *
23427864 TTAAATGTTTATTTTTCATTAAAATTAAAATTTTTTTACTTAATTAACATGATACGTTAACTCTC
66 TTAAATGTTTATTTTTCATTAAAATTAGAATTTTTTGACTTAATTAACAT-ATACGTTAACTCTC
* * * * * * *
23427929 AAATATTTACGTTAAAATTTTAAATACGATTATTCCACCTTTATGAGTTTTTATATCAATTCTTA
130 ATACATTTATGTTAAAATTTTAAATATGCTTGTTCCACCTTTATGAGTTTTTACATCAATTCTTA
* * * * *
23427994 CAACTTTACATCAAGACTTTTCAATAGCAATTTTTAACTATAATTATTTTTATCCAT
195 CAA-TTTTCGTCAAGATTTTTCAATAGCAACTTTTAACTATAATTATTTTTATCCTT
* * *
23428051 ATTATTATTTATTTTTAAATTAAAATTTGTAAATCATTAAATATTTTTACCCCAAGAATATAAAT
1 ATTATTATTTATTTTTAAATTAAAATTTGTAAATCGTTAAATACTTTTAGCCCAAGAATATAAAT
* * *
23428116 TTAAA----TATTTTTTATTAAAATTA-AATTTTTGTGACTTAATTAACTTATTACGTTAATTCT
66 TTAAATGTTTATTTTTCATTAAAATTAGAATTTTT-TGACTTAATTAACATA-TACGTTAACTCT
* *
23428176 CATACATTTATGTTAAAATTTTAAATAT-CTTTGTTTCACCTTTATGAGTTTTTACTTCAATTTC
129 CATACATTTATGTTAAAATTTTAAATATGC-TTGTTCCACCTTTATGAGTTTTTACATCAA-TTC
* * * ** * *
23428240 TATA-ACTTTACGTCAAGACTTTTCAATAATAACTGTTAACAATAATTATTTTTATCCTT
192 T-TACAATTTTCGTCAAGATTTTTCAATAGCAACTTTTAACTATAATTATTTTTATCCTT
* *** *
23428299 ATTATTATTTATTTTTAAATTAAAATTTATAAATCGTTAAATACTCCGAGCCCGAGAATATAAAT
1 ATTATTATTTATTTTTAAATTAAAATTTGTAAATCGTTAAATACTTTTAGCCCAAGAATATAAAT
* * * * * **
23428364 TTAAATGTTTGTTTTCTACA--AAAATTAGATTTTTTTTACTTAATTTACATGTTATATTAACTC
66 TTAAATGTTTATTTT-T-CATTAAAATTAGAATTTTTTGACTTAATTAACAT-ATACGTTAACTC
* *** * *
23428427 ACAT--ATTTATGTTTGGATTTTAAATTTGCTTGTTCCACCTTTATGAGTTTTTACGTCAATTCT
128 TCATACATTTATGTTAAAATTTTAAATATGCTTGTTCCACCTTTATGAGTTTTTACATCAATTCT
* * * * *
23428490 TACAATTTTACGTTAAGTTTTTTCAATGGCAACTTTTAACCATAATTATTTTTATCATT
193 TACAATTTT-CGTCAAGATTTTTCAATAGCAACTTTTAACTATAATTATTTTTATCCTT
23428549 ATTATTATTTATT
1 ATTATTATTTATT
23428562 AGATAGTCCT
Statistics
Matches: 828, Mismatches: 156, Indels: 53
0.80 0.15 0.05
Matches are distributed among these distances:
242 55 0.07
243 26 0.03
244 1 0.00
245 1 0.00
246 1 0.00
247 8 0.01
248 201 0.24
249 14 0.02
250 111 0.13
251 124 0.15
252 273 0.33
253 12 0.01
254 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (250 bp):
ATTATTATTTATTTTTAAATTAAAATTTGTAAATCGTTAAATACTTTTAGCCCAAGAATATAAAT
TTAAATGTTTATTTTTCATTAAAATTAGAATTTTTTGACTTAATTAACATATACGTTAACTCTCA
TACATTTATGTTAAAATTTTAAATATGCTTGTTCCACCTTTATGAGTTTTTACATCAATTCTTAC
AATTTTCGTCAAGATTTTTCAATAGCAACTTTTAACTATAATTATTTTTATCCTT
Found at i:23428321 original size:500 final size:498
Alignment explanation
Indices: 23427305--23428561 Score: 1384
Period size: 500 Copynumber: 2.5 Consensus size: 498
23427295 TTTAACAATA
** * *
23427305 ATTATTATTTATTTTTAAATTAAAATTTATAAAAGGTTAAATACCTTCAGCTCAAGAATATAAAT
1 ATTATTATTTATTTTTAAATTAAAATTTATAAATCGTTAAATACTTTCAGCCCAAGAATATAAAT
* * * * * *
23427370 TTAGATATTGGTTTTTCATTAAAATTAGACTTTTTTGA--T-A-T--AT-TACGTTAACTCTCAT
66 TTAAATGTTTGTTTTTCATTAAAATTAGAATTTTTTTACTTAATTACATGTACGTTAACTCTCAA
* * * ** * *
23427428 ACATTTACATTAAGATTTTAAATATATTTGTTTTACTTTTATAAGTTTTTACATCAATTCTTACA
131 ATATTTACGTTAAGATTTTAAATAGA-TTGTTCCACCTTTATGAGTTTTTACATCAATTCTTACA
* * * * * *
23427493 ATTTTATGTTAA-AGCTTTTTAATAGTAATTTTTAATTATAATTATTTTTATTCTTGTTATTATT
195 ATTTTACGTTAAGA-CTTTTCAATAGCAATTTTTAACTATAATTATTTTTA-TCATATTATTATT
* ** * *
23427557 TATTTTAAAATTAAAGTTTGTAATTGTTAAATTCTTTTAACCCAAGAATATCAATTTAAATGTTT
258 TATTTTAAAATTAAAATTTGTAATCATTAAATTCTTTTAACCCAAGAATATAAATTTAAATGATT
* *
23427622 AGTTTTCACAAAAATTAGAGTTTTGTGACTTAATTGACCTATTACATCAACTCTCATACATTTAT
323 A-TTTTCACAAAAATTAAAGTTTTGTGACTTAATTAACCTATTACATCAACTCTCATACATTTAT
** * * *
23427687 GTTAGCATTTTAAATTTGCTTATTCCATCGTTATAAGATTTTACGTTAAATCTTACAATTTTCTG
387 GTTAAAATTTTAAATATGCTTATTCCACCGTTATAAGATTTTACGTTAAATCTTACAATTTACTG
** * * * *
23427752 TCAAGGTTTTTCAATAGCAACTTTTAACTATAATTAATTTTATCTTT
452 TCAAGACTTTTCAATAACAACTGTTAACAATAATTAATTTTATCCTT
* * * * *
23427799 ATTAGTATTTATTTTAAAATTAAAATTTGTAAATCGATAAATACTTTTAGCCCAAGAATATAAAT
1 ATTATTATTTATTTTTAAATTAAAATTTATAAATCGTTAAATACTTTCAGCCCAAGAATATAAAT
* *
23427864 TTAAATGTTTATTTTTCATTAAAATTAAAATTTTTTTACTTAATTAACATGATACGTTAACTCTC
66 TTAAATGTTTGTTTTTCATTAAAATTAGAATTTTTTTACTTAATT-ACATG-TACGTTAACTCTC
* * *
23427929 AAATATTTACGTTAAAATTTTAAATACGATTATTCCACCTTTATGAGTTTTTATATCAATTCTTA
129 AAATATTTACGTTAAGATTTTAAATA-GATTGTTCCACCTTTATGAGTTTTTACATCAATTCTTA
* * *
23427994 CAACTTTACATCAAGACTTTTCAATAGCAATTTTTAACTATAATTATTTTTATCCATATTATTAT
193 CAATTTTACGTTAAGACTTTTCAATAGCAATTTTTAACTATAATTATTTTTAT-CATATTATTAT
* *
23428059 TTATTTTTAAATTAAAATTTGTAAATCATTAAATAT-TTTTACCCCAAGAATATAAATTTAAAT-
257 TTATTTTAAAATTAAAATTTGT-AATCATTAAAT-TCTTTTAACCCAAGAATATAAATTTAAATG
** * * * * *
23428122 ATT-TTTT-ATTAAAATTAAATTTTTGTGACTTAATTAACTTATTACGTTAATTCTCATACATTT
320 ATTATTTTCACAAAAATTAAAGTTTTGTGACTTAATTAACCTATTACATCAACTCTCATACATTT
* * * * * * * *
23428185 ATGTTAAAATTTTAAATAT-CTTTGTTTCACCTTTATGAGTTTTTAC-TTCAATTTCTATAACTT
385 ATGTTAAAATTTTAAATATGC-TTATTCCACCGTTATAAGATTTTACGTTAAATCT-TACAA-TT
* *
23428248 TAC-GTCAAGACTTTTCAATAATAACTGTTAACAATAATTATTTTTATCCTT
447 TACTGTCAAGACTTTTCAATAACAACTGTTAACAATAATTAATTTTATCCTT
* *
23428299 ATTATTATTTATTTTTAAATTAAAATTTATAAATCGTTAAATAC-TCCGAGCCCGAGAATATAAA
1 ATTATTATTTATTTTTAAATTAAAATTTATAAATCGTTAAATACTTTC-AGCCCAAGAATATAAA
* **
23428363 TTTAAATGTTTGTTTTCTACA--AAAATTAGATTTTTTTTACTTAATTTACATGTTATATTAA--
65 TTTAAATGTTTGTTTT-T-CATTAAAATTAGAATTTTTTTACTTAA-TTACATG-TACGTTAACT
* * ** * * *
23428424 CTCACATATTTATGTTTGGATTTTAAATTTGCTTGTTCCACCTTTATGAGTTTTTACGTCAATTC
126 CTCAAATATTTACGTTAAGATTTTAAA-TAGATTGTTCCACCTTTATGAGTTTTTACATCAATTC
** * * *
23428489 TTACAATTTTACGTTAAGTTTTTTCAATGGCAACTTTTAACCATAATTATTTTTATCATTATTAT
190 TTACAATTTTACGTTAAGACTTTTCAATAGCAATTTTTAACTATAATTATTTTTATCA-TATTAT
23428554 TATTTATT
254 TATTTATT
23428562 AGATAGTCCT
Statistics
Matches: 636, Mismatches: 104, Indels: 42
0.81 0.13 0.05
Matches are distributed among these distances:
494 87 0.14
496 1 0.00
497 3 0.00
498 116 0.18
499 9 0.01
500 228 0.36
501 13 0.02
502 3 0.00
503 139 0.22
504 36 0.06
505 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (498 bp):
ATTATTATTTATTTTTAAATTAAAATTTATAAATCGTTAAATACTTTCAGCCCAAGAATATAAAT
TTAAATGTTTGTTTTTCATTAAAATTAGAATTTTTTTACTTAATTACATGTACGTTAACTCTCAA
ATATTTACGTTAAGATTTTAAATAGATTGTTCCACCTTTATGAGTTTTTACATCAATTCTTACAA
TTTTACGTTAAGACTTTTCAATAGCAATTTTTAACTATAATTATTTTTATCATATTATTATTTAT
TTTAAAATTAAAATTTGTAATCATTAAATTCTTTTAACCCAAGAATATAAATTTAAATGATTATT
TTCACAAAAATTAAAGTTTTGTGACTTAATTAACCTATTACATCAACTCTCATACATTTATGTTA
AAATTTTAAATATGCTTATTCCACCGTTATAAGATTTTACGTTAAATCTTACAATTTACTGTCAA
GACTTTTCAATAACAACTGTTAACAATAATTAATTTTATCCTT
Found at i:23440235 original size:24 final size:24
Alignment explanation
Indices: 23440200--23440256 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
23440190 GTAAGACAAA
23440200 ACAATTTCAGCCATTCATGCTACC
1 ACAATTTCAGCCATTCATGCTACC
*
23440224 ACAATTTTAGCCATTCATGCTACC
1 ACAATTTCAGCCATTCATGCTACC
23440248 ACAATTTCA
1 ACAATTTCA
23440257 TAAGCCATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.32, C:0.30, G:0.07, T:0.32
Consensus pattern (24 bp):
ACAATTTCAGCCATTCATGCTACC
Found at i:23459517 original size:47 final size:46
Alignment explanation
Indices: 23459459--23459692 Score: 215
Period size: 47 Copynumber: 5.0 Consensus size: 46
23459449 ACGTCATATT
* * *
23459459 GGGAATGTGTGACACGATACCGCTT-AGAGTTGGTGAGACGCCATTGA
1 GGGAATCTGTGACACGATA-CG-TTCAGAGTTGGTGACACGCCATGGA
* * * *
23459506 GAGAATCTGTGAGGCACCAGA-GTTAAGAGTTGGTGACACGCCATGGA
1 GGGAATCTGTGA--CACGATACGTTCAGAGTTGGTGACACGCCATGGA
* *
23459553 GGGAATCTGTGACACGCCA-ACGTTCAAAGTTGGTGAGACGCCATGGA
1 GGGAATCTGTGACACG--ATACGTTCAGAGTTGGTGACACGCCATGGA
* *
23459600 GGGAATCTGTGACAC-ACTAGAGTTCAGAGTTGGTGACATGCCATGGA
1 GGGAATCTGTGACACGA-TA-CGTTCAGAGTTGGTGACACGCCATGGA
* * * * *
23459647 GGGAAGCTGTGACACGCTAGAGTTCATAGTTGGTGACACACCATGG
1 GGGAATCTGTGACACGATA-CGTTCAGAGTTGGTGACACGCCATGG
23459693 TCATGTTTAG
Statistics
Matches: 157, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 4 0.03
47 144 0.92
49 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.21
Consensus pattern (46 bp):
GGGAATCTGTGACACGATACGTTCAGAGTTGGTGACACGCCATGGA
Found at i:23459606 original size:94 final size:94
Alignment explanation
Indices: 23459486--23459692 Score: 290
Period size: 94 Copynumber: 2.2 Consensus size: 94
23459476 TACCGCTTAG
* **
23459486 AGTTGGTGAGACGCCATTGAGAGAATCTGTGAGGCACCAGAGTTAAGAGTTGGTGACACGCCATG
1 AGTTGGTGAGACGCCATGGAGAGAATCTGTGACACACCAGAGTTAAGAGTTGGTGACACGCCATG
*
23459551 GAGGGAATCTGTGACACGCCA-ACGTTCAA
66 GAGGGAAGCTGTGACACGCCAGA-GTTCAA
* * * *
23459580 AGTTGGTGAGACGCCATGGAGGGAATCTGTGACACACTAGAGTTCAGAGTTGGTGACATGCCATG
1 AGTTGGTGAGACGCCATGGAGAGAATCTGTGACACACCAGAGTTAAGAGTTGGTGACACGCCATG
* *
23459645 GAGGGAAGCTGTGACACGCTAGAGTTCAT
66 GAGGGAAGCTGTGACACGCCAGAGTTCAA
* *
23459674 AGTTGGTGACACACCATGG
1 AGTTGGTGAGACGCCATGG
23459693 TCATGTTTAG
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
94 99 0.99
95 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.21
Consensus pattern (94 bp):
AGTTGGTGAGACGCCATGGAGAGAATCTGTGACACACCAGAGTTAAGAGTTGGTGACACGCCATG
GAGGGAAGCTGTGACACGCCAGAGTTCAA
Found at i:23459798 original size:53 final size:52
Alignment explanation
Indices: 23459680--23459779 Score: 139
Period size: 53 Copynumber: 1.9 Consensus size: 52
23459670 TCATAGTTGG
* *
23459680 TGACACACCATGGTCATGTTTAGAGTGTGTGACACGACATTGCTTGAAAAGA
1 TGACACACCATGGTCATGTTTAGAGTGTGTGACACGACAGTACTTGAAAAGA
**
23459732 TGACATGCCATGGTCATGGTTTAGAGTGTGTGACAC-AGCAGTACTTGA
1 TGACACACCATGGTCAT-GTTTAGAGTGTGTGACACGA-CAGTACTTGA
23459780 GCAACTGACA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
52 16 0.38
53 26 0.62
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (52 bp):
TGACACACCATGGTCATGTTTAGAGTGTGTGACACGACAGTACTTGAAAAGA
Found at i:23460305 original size:31 final size:31
Alignment explanation
Indices: 23460266--23460489 Score: 288
Period size: 31 Copynumber: 7.3 Consensus size: 31
23460256 AGTTAGTTAT
23460266 TGGCGTGTGACAGCATTTTACTTGATATGCA
1 TGGCGTGTGACAGCATTTTACTTGATATGCA
**
23460297 CAGCGTGTGACAGCATTTTACTTGATATGCA
1 TGGCGTGTGACAGCATTTTACTTGATATGCA
*
23460328 TGGCGTGTGACAGCA-TTTACTTGATCTGCA
1 TGGCGTGTGACAGCATTTTACTTGATATGCA
* * *
23460358 TGGCGTGTCACAGAATTTTACTTGTTATGCA
1 TGGCGTGTGACAGCATTTTACTTGATATGCA
*
23460389 TGGCTTGTGACAGCATTTTACTTGATATGCA
1 TGGCGTGTGACAGCATTTTACTTGATATGCA
* * * * * *
23460420 TGGCGTGTCATAACGTTTAACTTGTTATGCA
1 TGGCGTGTGACAGCATTTTACTTGATATGCA
* * * *
23460451 TGACGTGTCACAACATTTTACTTGTTATGCA
1 TGGCGTGTGACAGCATTTTACTTGATATGCA
23460482 TGGCGTGT
1 TGGCGTGT
23460490 CATAACATTT
Statistics
Matches: 167, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
30 27 0.16
31 140 0.84
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (31 bp):
TGGCGTGTGACAGCATTTTACTTGATATGCA
Found at i:23460423 original size:92 final size:93
Alignment explanation
Indices: 23460266--23460489 Score: 308
Period size: 92 Copynumber: 2.4 Consensus size: 93
23460256 AGTTAGTTAT
* * * **
23460266 TGGCGTGTGACAGCATTTTACTTGATATGCACAGCGTGTGACAGCATTTTACTTGATATGCATGG
1 TGGCGTGTCACAGAATTTTACTTGTTATGCATGGCGTGTGACAGCATTTTACTTGATATGCATGG
* * *
23460331 CGTGTGACAGCATTT-ACTTGATCTGCA
66 CGTGTCACAACATTTAACTTGATATGCA
*
23460358 TGGCGTGTCACAGAATTTTACTTGTTATGCATGGCTTGTGACAGCATTTTACTTGATATGCATGG
1 TGGCGTGTCACAGAATTTTACTTGTTATGCATGGCGTGTGACAGCATTTTACTTGATATGCATGG
* * *
23460423 CGTGTCATAACGTTTAACTTGTTATGCA
66 CGTGTCACAACATTTAACTTGATATGCA
*
23460451 TGACGTGTCACA-ACATTTTACTTGTTATGCATGGCGTGT
1 TGGCGTGTCACAGA-ATTTTACTTGTTATGCATGGCGTGT
23460490 CATAACATTT
Statistics
Matches: 116, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
92 71 0.61
93 45 0.39
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (93 bp):
TGGCGTGTCACAGAATTTTACTTGTTATGCATGGCGTGTGACAGCATTTTACTTGATATGCATGG
CGTGTCACAACATTTAACTTGATATGCA
Found at i:23462421 original size:156 final size:156
Alignment explanation
Indices: 23462130--23462738 Score: 818
Period size: 156 Copynumber: 3.9 Consensus size: 156
23462120 ATGTTTATGG
* * * * * *
23462130 AAGCGACGACAAGTCCTCAAGCACCGATCGGTTCGACT-CAATCGCAAACAGTTAAAGAGCCGGC
1 AAGCGACGACAAGTCCTCAAGCACCGATCGGTTCGGCTCCACTCGCAGACTGCTAACGAGCCGGC
* *
23462194 GATAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCACACATGATTATTGAATAACAC
66 GGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACATGATTATTGAATAACAC
*
23462259 AGTTATATATGTAATTACAGTTTGCAA
131 AGTTATATATGTAATT-CAGTTTGCGA
* *
23462286 AAGTGACGACAGGTCCTCAAGCACCGATCGGTTCGGCTCCACT-GCAGACTGCTAACGAGCCGGC
1 AAGCGACGACAAGTCCTCAAGCACCGATCGGTTCGGCTCCACTCGCAGACTGCTAACGAGCCGGC
* *
23462350 GGTAAGGATATTAAAGTTGTAATGGTTAATGTTCAACAATTTCATACATGATTATTGAATAACAC
66 GGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACATGATTATTGAATAACAC
* *
23462415 AATTATATATGTAATTCTGGTTTGCGA
131 AGTTATATATGTAATTC-AGTTTGCGA
* * * *
23462442 AAGCGACGACAAGTCCTCAAGCACCGATCAGTCCGGCTCCA-TCGCAGACTGCTAACGAGCTGTC
1 AAGCGACGACAAGTCCTCAAGCACCGATCGGTTCGGCTCCACTCGCAGACTGCTAACGAGCCGGC
* * * *
23462506 GGTTAGGATATTAAAGTTGTAGCGGTCAATGTTCAACAATTTCATACATGATTATTGAATAACAC
66 GGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACATGATTATTGAATAACAC
* * * *
23462571 AGTTACATATGTAATTGCAATTTACGG
131 AGTTATATATGTAATT-CAGTTTGCGA
* * *
23462598 AAGCGACGACAGGTCCTCAAGCACCGATCGG-TCTAGCTCCAC-CGCAGA-TCGCTAACAAGCC-
1 AAGCGACGACAAGTCCTCAAGCACCGATCGGTTC-GGCTCCACTCGCAGACT-GCTAACGAGCCG
* * *
23462659 GCTGGTTAGGATATTAAAGTTGTAACGGTTAATGTTCAATAATTCCATATATGATTATTGAATAA
64 GC-GGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACATGATTATTGAATAA
23462724 CACAGTTATATATGT
128 CACAGTTATATATGT
23462739 TATTGTAGTT
Statistics
Matches: 401, Mismatches: 44, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
155 5 0.01
156 392 0.98
157 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (156 bp):
AAGCGACGACAAGTCCTCAAGCACCGATCGGTTCGGCTCCACTCGCAGACTGCTAACGAGCCGGC
GGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACATGATTATTGAATAACAC
AGTTATATATGTAATTCAGTTTGCGA
Found at i:23463142 original size:31 final size:31
Alignment explanation
Indices: 23463104--23463401 Score: 316
Period size: 31 Copynumber: 9.6 Consensus size: 31
23463094 TCAGCCTTAA
*
23463104 CGTGTCACAACATTTTACTTGTTATTCATGG
1 CGTGTCACAACATTTTACTTGTTATGCATGG
* * *
23463135 CGTGTCACAAC-GTTTGCTTTGATATGCATGG
1 CGTGTCACAACATTTTAC-TTGTTATGCATGG
* * *
23463166 CGTGTCACAACATTTTGCTTGTTATCCTTGG
1 CGTGTCACAACATTTTACTTGTTATGCATGG
* *
23463197 CGTGTCACCA-AGTTTATCTTGTTATGCATGG
1 CGTGTCACAACATTTTA-CTTGTTATGCATGG
* *
23463228 CGTGTCACAACATTTTACTTGTTTTGCATGA
1 CGTGTCACAACATTTTACTTGTTATGCATGG
* * * * *
23463259 CGTGTCACAATATTTTGCTCGTTATCCTTGG
1 CGTGTCACAACATTTTACTTGTTATGCATGG
* * *
23463290 CGTGTCACCA-AGTTTATCTTGTTATGCATGA
1 CGTGTCACAACATTTTA-CTTGTTATGCATGG
* *
23463321 CGTGTCACAACATTTTACTTATTTTGCATGG
1 CGTGTCACAACATTTTACTTGTTATGCATGG
* *
23463352 CGTGTGACAACATTTTACTTGGTATGCACT-G
1 CGTGTCACAACATTTTACTTGTTATGCA-TGG
*
23463383 CGTGTCAGAACATTTTACT
1 CGTGTCACAACATTTTACT
23463402 GTTTATGATT
Statistics
Matches: 218, Mismatches: 42, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
30 12 0.06
31 190 0.87
32 16 0.07
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (31 bp):
CGTGTCACAACATTTTACTTGTTATGCATGG
Found at i:23463263 original size:93 final size:93
Alignment explanation
Indices: 23463117--23463372 Score: 381
Period size: 93 Copynumber: 2.8 Consensus size: 93
23463107 GTCACAACAT
* * * * *
23463117 TTTA-CTTGTTATTCATGGCGTGTCACAAC-GTTTGCTTTGATATGCATGGCGTGTCACAACATT
1 TTTATCTTGTTATGCATGGCGTGTCACAACATTTTAC-TTGTTTTGCATGGCGTGTCACAACATT
23463180 TTGCTTGTTATCCTTGGCGTGTCACCAAG
65 TTGCTTGTTATCCTTGGCGTGTCACCAAG
* *
23463209 TTTATCTTGTTATGCATGGCGTGTCACAACATTTTACTTGTTTTGCATGACGTGTCACAATATTT
1 TTTATCTTGTTATGCATGGCGTGTCACAACATTTTACTTGTTTTGCATGGCGTGTCACAACATTT
*
23463274 TGCTCGTTATCCTTGGCGTGTCACCAAG
66 TGCTTGTTATCCTTGGCGTGTCACCAAG
* * *
23463302 TTTATCTTGTTATGCATGACGTGTCACAACATTTTACTTATTTTGCATGGCGTGTGACAACATTT
1 TTTATCTTGTTATGCATGGCGTGTCACAACATTTTACTTGTTTTGCATGGCGTGTCACAACATTT
*
23463367 TACTTG
66 TGCTTG
23463373 GTATGCACTG
Statistics
Matches: 147, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
92 4 0.03
93 139 0.95
94 4 0.03
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (93 bp):
TTTATCTTGTTATGCATGGCGTGTCACAACATTTTACTTGTTTTGCATGGCGTGTCACAACATTT
TGCTTGTTATCCTTGGCGTGTCACCAAG
Found at i:23464885 original size:16 final size:15
Alignment explanation
Indices: 23464855--23464933 Score: 70
Period size: 16 Copynumber: 5.1 Consensus size: 15
23464845 TTGTTTGTAT
23464855 AATTTTTTTGGTATACA
1 AATTTTTTT--TATACA
23464872 GAATTTTTTTTATAC-
1 -AATTTTTTTTATACA
**
23464887 AATTCATTTTATACA
1 AATTTTTTTTATACA
* *
23464902 TATTTTTTGTATACA
1 AATTTTTTTTATACA
*
23464917 CAATTTATTTTATACA
1 -AATTTTTTTTATACA
23464933 A
1 A
23464934 TTCATTGCAA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
14 12 0.24
15 12 0.24
16 17 0.34
18 9 0.18
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (15 bp):
AATTTTTTTTATACA
Found at i:23464896 original size:14 final size:14
Alignment explanation
Indices: 23464879--23464939 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 14
23464869 ACAGAATTTT
23464879 TTTTATACAATTCA
1 TTTTATACAATTCA
*
23464893 TTTTATACATATT-T
1 TTTTATACA-ATTCA
*
23464907 TTTGTATACACAATTTA
1 TTT-TAT--ACAATTCA
23464924 TTTTATACAATTCA
1 TTTTATACAATTCA
23464938 TT
1 TT
23464940 GCAAACAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 21 0.54
15 6 0.15
16 6 0.15
17 6 0.15
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.54
Consensus pattern (14 bp):
TTTTATACAATTCA
Found at i:23466074 original size:31 final size:31
Alignment explanation
Indices: 23466036--23466356 Score: 380
Period size: 31 Copynumber: 10.4 Consensus size: 31
23466026 ACACCAGAAC
*
23466036 TTGTTATGCATGGCGGGTCAGAACAATTTAA
1 TTGTTATGCATGGCGTGTCAGAACAATTTAA
* * *
23466067 TTATTATGCATGGCGTGTCACAAC-GTTTAA
1 TTGTTATGCATGGCGTGTCAGAACAATTTAA
* * * *
23466097 CTTATTATGCATGGTGTGTCAGCACAATTTAC
1 -TTGTTATGCATGGCGTGTCAGAACAATTTAA
*
23466129 TTGTTATGCATGGCAG-GTCAAAACAATTTAA
1 TTGTTATGCATGGC-GTGTCAGAACAATTTAA
* *
23466160 TTGTTATGCATGGCGTGTCACAAC-GTTTAA
1 TTGTTATGCATGGCGTGTCAGAACAATTTAA
* *
23466190 CTTGTTATGCATGGCGTGTCAGCACAATTTAC
1 -TTGTTATGCATGGCGTGTCAGAACAATTTAA
* *
23466222 TTGTTATGCATGGCGGGTCAGAACAGTTTAA
1 TTGTTATGCATGGCGTGTCAGAACAATTTAA
* * *
23466253 TTGTTATGCATGGCGTGTTACAAC-GTTTAA
1 TTGTTATGCATGGCGTGTCAGAACAATTTAA
* *
23466283 CTTGTTATGCATGGCGTGTCAGCACAATTTAC
1 -TTGTTATGCATGGCGTGTCAGAACAATTTAA
* *
23466315 TTGTTATGTATGGCGGGTCAGAACAATTTAA
1 TTGTTATGCATGGCGTGTCAGAACAATTTAA
23466346 TTGTTATGCAT
1 TTGTTATGCAT
23466357 TTAATTGTTA
Statistics
Matches: 245, Mismatches: 37, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
30 17 0.07
31 215 0.88
32 13 0.05
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (31 bp):
TTGTTATGCATGGCGTGTCAGAACAATTTAA
Found at i:23466198 original size:93 final size:93
Alignment explanation
Indices: 23466034--23466356 Score: 574
Period size: 93 Copynumber: 3.5 Consensus size: 93
23466024 ACACACCAGA
*
23466034 ACTTGTTATGCATGGCGGGTCAGAACAATTTAATTATTATGCATGGCGTGTCACAACGTTTAACT
1 ACTTGTTATGCATGGCGGGTCAGAACAATTTAATTGTTATGCATGGCGTGTCACAACGTTTAACT
* *
23466099 TATTATGCATGGTGTGTCAGCACAATTT
66 TGTTATGCATGGCGTGTCAGCACAATTT
* *
23466127 ACTTGTTATGCATGGCAGGTCAAAACAATTTAATTGTTATGCATGGCGTGTCACAACGTTTAACT
1 ACTTGTTATGCATGGCGGGTCAGAACAATTTAATTGTTATGCATGGCGTGTCACAACGTTTAACT
23466192 TGTTATGCATGGCGTGTCAGCACAATTT
66 TGTTATGCATGGCGTGTCAGCACAATTT
* *
23466220 ACTTGTTATGCATGGCGGGTCAGAACAGTTTAATTGTTATGCATGGCGTGTTACAACGTTTAACT
1 ACTTGTTATGCATGGCGGGTCAGAACAATTTAATTGTTATGCATGGCGTGTCACAACGTTTAACT
23466285 TGTTATGCATGGCGTGTCAGCACAATTT
66 TGTTATGCATGGCGTGTCAGCACAATTT
*
23466313 ACTTGTTATGTATGGCGGGTCAGAACAATTTAATTGTTATGCAT
1 ACTTGTTATGCATGGCGGGTCAGAACAATTTAATTGTTATGCAT
23466357 TTAATTGTTA
Statistics
Matches: 219, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 219 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (93 bp):
ACTTGTTATGCATGGCGGGTCAGAACAATTTAATTGTTATGCATGGCGTGTCACAACGTTTAACT
TGTTATGCATGGCGTGTCAGCACAATTT
Found at i:23466360 original size:15 final size:15
Alignment explanation
Indices: 23466340--23466371 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
23466330 GGTCAGAACA
23466340 ATTTAATTGTTATGC
1 ATTTAATTGTTATGC
23466355 ATTTAATTGTTATGC
1 ATTTAATTGTTATGC
23466370 AT
1 AT
23466372 GGGGTGTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTTAATTGTTATGC
Found at i:23466365 original size:46 final size:46
Alignment explanation
Indices: 23466309--23466402 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 46
23466299 TGTCAGCACA
* * *
23466309 ATTTACTTGTTATGTATGGCGG-GTCAGAACAATTTAA-TTGTTATGC
1 ATTTAATTGTTATGCATGG-GGTGTCACAAC-ATTTAACTTGTTATGC
*
23466355 ATTTAATTGTTATGCATGGGGTGTCACAACGTTTAACTTGTTATGC
1 ATTTAATTGTTATGCATGGGGTGTCACAACATTTAACTTGTTATGC
23466401 AT
1 AT
23466403 GGCATGTCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 7 0.17
46 35 0.83
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (46 bp):
ATTTAATTGTTATGCATGGGGTGTCACAACATTTAACTTGTTATGC
Found at i:23466396 original size:31 final size:31
Alignment explanation
Indices: 23466354--23466565 Score: 225
Period size: 31 Copynumber: 6.9 Consensus size: 31
23466344 AATTGTTATG
*
23466354 CATTTAA-TTGTTATGCATGGGGTGTCACAA
1 CATTTAACTTGTTATGCATGGCGTGTCACAA
* *
23466384 CGTTTAACTTGTTATGCATGGCATGTCAGC-A
1 CATTTAACTTGTTATGCATGGCGTGTCA-CAA
*
23466415 CAATTT-ACTTGTTATGCATGGTGTGTCACAA
1 C-ATTTAACTTGTTATGCATGGCGTGTCACAA
*
23466446 CGA-TTAACTTGTTATGCATGGCGTGTCATAA
1 C-ATTTAACTTGTTATGCATGGCGTGTCACAA
* ** *
23466477 AATTTTTCTTGTTATGCATGGCATGTCACAA
1 CATTTAACTTGTTATGCATGGCGTGTCACAA
* * * * *
23466508 TATTTTATTTGATATGCACGGCGTGTCACAA
1 CATTTAACTTGTTATGCATGGCGTGTCACAA
* *
23466539 CATTTTACTTATTATGCATGGCGTGTC
1 CATTTAACTTGTTATGCATGGCGTGTC
23466566 TCACATTATT
Statistics
Matches: 151, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
30 10 0.07
31 137 0.91
32 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (31 bp):
CATTTAACTTGTTATGCATGGCGTGTCACAA
Found at i:23466412 original size:77 final size:78
Alignment explanation
Indices: 23466278--23466433 Score: 210
Period size: 77 Copynumber: 2.0 Consensus size: 78
23466268 TGTTACAACG
* *
23466278 TTTAACTTGTTATGCATGGCGTGTCAGCACAATTTACTTGTTATGTATGGCGGGTCAGAACAATT
1 TTTAACTTGTTATGCATGGCGTGTCAGCACAATTTACTTGTTATGCATGGCAGGTCAGAACAATT
23466343 TAATTGTTATGCA
66 TAATTGTTATGCA
* * * *
23466356 TTTAA-TTGTTATGCATGGGGTGTCA-CA-ACGTTTAACTTGTTATGCATGGCATGTCAGCACAA
1 TTTAACTTGTTATGCATGGCGTGTCAGCACA-ATTT-ACTTGTTATGCATGGCAGGTCAGAACAA
*
23466418 TTTACTTGTTATGCA
64 TTTAATTGTTATGCA
23466433 T
1 T
23466434 GGTGTGTCAC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
75 1 0.01
76 5 0.07
77 58 0.84
78 5 0.07
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (78 bp):
TTTAACTTGTTATGCATGGCGTGTCAGCACAATTTACTTGTTATGCATGGCAGGTCAGAACAATT
TAATTGTTATGCA
Found at i:23466458 original size:108 final size:108
Alignment explanation
Indices: 23466248--23466464 Score: 346
Period size: 108 Copynumber: 2.0 Consensus size: 108
23466238 GTCAGAACAG
* *
23466248 TTTAATTGTTATGCATGGCGTGTTACAACGTTTAACTTGTTATGCATGGCGTGTCAGCACAATTT
1 TTTAATTGTTATGCATGGCGTGTCACAACGTTTAACTTGTTATGCATGGCATGTCAGCACAATTT
* *
23466313 ACTTGTTATGTATGGCGGGTCAGAACAATTTAATTGTTATGCA
66 ACTTGTTATGCATGGCGGGTCACAACAATTTAATTGTTATGCA
*
23466356 TTTAATTGTTATGCATGGGGTGTCACAACGTTTAACTTGTTATGCATGGCATGTCAGCACAATTT
1 TTTAATTGTTATGCATGGCGTGTCACAACGTTTAACTTGTTATGCATGGCATGTCAGCACAATTT
* * *
23466421 ACTTGTTATGCATGGTGTGTCACAACGA-TTAACTTGTTATGCA
66 ACTTGTTATGCATGGCGGGTCACAACAATTTAA-TTGTTATGCA
23466464 T
1 T
23466465 GGCGTGTCAT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
107 4 0.04
108 96 0.96
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (108 bp):
TTTAATTGTTATGCATGGCGTGTCACAACGTTTAACTTGTTATGCATGGCATGTCAGCACAATTT
ACTTGTTATGCATGGCGGGTCACAACAATTTAATTGTTATGCA
Found at i:23466467 original size:139 final size:139
Alignment explanation
Indices: 23466216--23466495 Score: 347
Period size: 139 Copynumber: 2.0 Consensus size: 139
23466206 TGTCAGCACA
* * * * *
23466216 ATTTACTTGTTATGCATGGCGGGTCAGAACAGTTTAATTGTTATGCATGGCGTGTTACAACGTTT
1 ATTTAATTGTTATGCATGGCGGGTCACAACAGTTTAATTGTTATGCATGGCATGTCACAACATTT
* *
23466281 AACTTGTTATGCATGGCGTGTCAGCACAATTTACTTGTTATGTATGGCGGGTCAGAACAA-TTTA
66 AACTTGTTATGCATGGCGTGTCAGCACAATTAACTTGTTATGCATGGCGGGTCAGAA-AATTTTA
23466345 ATTGTTATGC
130 ATTGTTATGC
23466355 ATTTAATTGTTATGCATGG-GGTGTCACAAC-GTTTAACTTGTTATGCATGGCATGTCAGC-ACA
1 ATTTAATTGTTATGCATGGCGG-GTCACAACAGTTTAA-TTGTTATGCATGGCATGTCA-CAAC-
* * * *
23466417 ATTT-ACTTGTTATGCATGGTGTGTCA-CAACGATTAACTTGTTATGCATGGCGTGTCATAAAAT
62 ATTTAACTTGTTATGCATGGCGTGTCAGC-ACAATTAACTTGTTATGCATGGCGGGTCAGAAAAT
**
23466480 TTTTCTTGTTATGC
126 TTTAATTGTTATGC
23466494 AT
1 AT
23466496 GGCATGTCAC
Statistics
Matches: 122, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
138 11 0.09
139 107 0.88
140 4 0.03
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (139 bp):
ATTTAATTGTTATGCATGGCGGGTCACAACAGTTTAATTGTTATGCATGGCATGTCACAACATTT
AACTTGTTATGCATGGCGTGTCAGCACAATTAACTTGTTATGCATGGCGGGTCAGAAAATTTTAA
TTGTTATGC
Found at i:23466524 original size:93 final size:93
Alignment explanation
Indices: 23466354--23466565 Score: 261
Period size: 93 Copynumber: 2.3 Consensus size: 93
23466344 AATTGTTATG
* **
23466354 CATTTAA-TTGTTATGCATGGGGTGTCACAACGTTTAACTTGTTATGCATGGCATGTCAGCACAA
1 CATTTAACTTGTTATGCATGGCGTGTCACAAAATTTAACTTGTTATGCATGGCATGTCAGCACAA
* * *
23466418 TTTACTTGTTATGCATGGTGTGTCACAA
66 TTTACTTGATATGCACGGCGTGTCACAA
* **
23466446 CGA-TTAACTTGTTATGCATGGCGTGTCATAAAATTTTTCTTGTTATGCATGGCATGTCA-CA-A
1 C-ATTTAACTTGTTATGCATGGCGTGTCACAAAATTTAACTTGTTATGCATGGCATGTCAGCACA
*
23466508 TATTTTATTTGATATGCACGGCGTGTCACAA
65 -A-TTTACTTGATATGCACGGCGTGTCACAA
* *
23466539 CATTTTACTTATTATGCATGGCGTGTC
1 CATTTAACTTGTTATGCATGGCGTGTC
23466566 TCACATTATT
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
91 1 0.01
92 9 0.09
93 93 0.90
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (93 bp):
CATTTAACTTGTTATGCATGGCGTGTCACAAAATTTAACTTGTTATGCATGGCATGTCAGCACAA
TTTACTTGATATGCACGGCGTGTCACAA
Found at i:23470107 original size:31 final size:31
Alignment explanation
Indices: 23470043--23470125 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 31
23470033 TTTGTCAGTC
*
23470043 ATGTTGTTACACGCCATGCATATAACATAAA
1 ATGTTGTAACACGCCATGCATATAACATAAA
* * *
23470074 ATGTTGTAACACACCATGCATATCAA-GTCAA
1 ATGTTGTAACACGCCATGCATAT-AACATAAA
* *
23470105 ATGTCGTGACACGCCATGCAT
1 ATGTTGTAACACGCCATGCAT
23470126 CAGTATCATT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 42 0.95
32 2 0.05
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (31 bp):
ATGTTGTAACACGCCATGCATATAACATAAA
Found at i:23470162 original size:23 final size:23
Alignment explanation
Indices: 23470106--23470192 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
23470096 TCAAGTCAAA
*
23470106 TGTCGTGACACGCCATGCATCAG
1 TGTCGTGACACGCCATGCATCAC
* * * *
23470129 TATCATTACACGTCATGCATCAC
1 TGTCGTGACACGCCATGCATCAC
*
23470152 TGTCGTGACACGCCATGTTGCATCAT
1 TGTCGTGACACGCCA---TGCATCAC
*
23470178 TGTCGTGACATGCCA
1 TGTCGTGACACGCCA
23470193 ATCACTGTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
23 29 0.58
26 21 0.42
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (23 bp):
TGTCGTGACACGCCATGCATCAC
Found at i:23470312 original size:55 final size:54
Alignment explanation
Indices: 23470221--23470395 Score: 197
Period size: 55 Copynumber: 3.2 Consensus size: 54
23470211 TAGTTACACC
* * * * *
23470221 AACAGCCGTGACACGCTAAAAACCCAAAGAACCAGTTAACCTACGACAAGCCAGG
1 AACAGCCGTGATACGCTAAAAACCCAAA-AAACAGTTAACCCACAACACGCCAGG
* * ** * *
23470276 AACAGCCGTGATACCCCAAAAACCCATAAATTCAGTTAACCCACCACACCCCAGG
1 AACAGCCGTGATACGCTAAAAACCCA-AAAAACAGTTAACCCACAACACGCCAGG
* * *
23470331 AACAACCGTGATACGCTAACAACCCAAAAAACTAGTTAACCCACAACACGCCAGA
1 AACAGCCGTGATACGCTAAAAACCCAAAAAAC-AGTTAACCCACAACACGCCAGG
23470386 AACAGCCGTG
1 AACAGCCGTG
23470396 TCACACTAAA
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
54 4 0.04
55 93 0.94
56 2 0.02
ACGTcount: A:0.41, C:0.34, G:0.14, T:0.11
Consensus pattern (54 bp):
AACAGCCGTGATACGCTAAAAACCCAAAAAACAGTTAACCCACAACACGCCAGG
Found at i:23472656 original size:82 final size:81
Alignment explanation
Indices: 23472484--23472658 Score: 192
Period size: 82 Copynumber: 2.2 Consensus size: 81
23472474 TTTTCATTTT
* * * * *
23472484 AAAA-ATTTTATTATAAATATCAATAAGATTTATGCAATTTGCAAAAACAATTCTAATTGCATCA
1 AAAATATTTTATAAAAAATATCAATAAGATTTATCCAATTTACAAAAAAAATTCTAATTGCATCA
23472548 AATGATTATCACTAAA
66 AATGATTATCACTAAA
* * * * * * *
23472564 ACATTCTTTTATAAAAAATATTAATAAGATTTATCCATTTTATAAATAAAAATTCTAATTGCATT
1 AAAATATTTTATAAAAAATATCAATAAGATTTATCCAATTTACAAA-AAAAATTCTAATTGCATC
* *
23472629 AATTGACTT-TCATTAAA
65 AAATGA-TTATCACTAAA
23472646 AAAATATTTTATA
1 AAAATATTTTATA
23472659 CTTCAAGTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
80 2 0.03
81 33 0.44
82 38 0.51
83 2 0.03
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (81 bp):
AAAATATTTTATAAAAAATATCAATAAGATTTATCCAATTTACAAAAAAAATTCTAATTGCATCA
AATGATTATCACTAAA
Found at i:23478486 original size:2 final size:2
Alignment explanation
Indices: 23478481--23478513 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
23478471 ATATATATAT
23478481 AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23478514 NATTTATTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23478551 original size:2 final size:2
Alignment explanation
Indices: 23478546--23478579 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
23478536 ATATATATAT
*
23478546 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23478580 CTAGGTTCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23481575 original size:30 final size:30
Alignment explanation
Indices: 23481541--23481608 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
23481531 TTGATCTTCA
* *
23481541 TCTTCATTTTCATCTCCTTCCATGTCATTT
1 TCTTCATCTTCATCTCCTTCCATGTCATCT
* *
23481571 TCTTCATCTTCATCTCTTTGCATGTCATCT
1 TCTTCATCTTCATCTCCTTCCATGTCATCT
23481601 TCTTCATC
1 TCTTCATC
23481609 CGCAATCAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.13, C:0.31, G:0.04, T:0.51
Consensus pattern (30 bp):
TCTTCATCTTCATCTCCTTCCATGTCATCT
Done.