Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 54 of 255
Found at i:15279394 original size:22 final size:24
Alignment explanation
Indices: 15279358--15279401 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
15279348 ACTTTGGGAA
15279358 GAAGAAGAACATGGA-AAAAAAGG
1 GAAGAAGAACATGGAGAAAAAAGG
*
15279381 GAAGAA-ATCATGGAGAAAAAA
1 GAAGAAGAACATGGAGAAAAAA
15279402 AGAAGAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.61, C:0.05, G:0.27, T:0.07
Consensus pattern (24 bp):
GAAGAAGAACATGGAGAAAAAAGG
Found at i:15279406 original size:22 final size:22
Alignment explanation
Indices: 15279356--15279407 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
15279346 CAACTTTGGG
15279356 AAGAAGAAGAACATGGAAAAAA
1 AAGAAGAAGAACATGGAAAAAA
* *
15279378 AGGGAAGAA-ATCATGGAGAAAAA
1 A-AGAAGAAGAACATGGA-AAAAA
15279401 AAGAAGA
1 AAGAAGA
15279408 GAAGAGGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.63, C:0.04, G:0.27, T:0.06
Consensus pattern (22 bp):
AAGAAGAAGAACATGGAAAAAA
Found at i:15279410 original size:24 final size:22
Alignment explanation
Indices: 15279367--15279410 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
15279357 AGAAGAAGAA
* *
15279367 CATGGAAAAAAAGGGAAGAAAT
1 CATGGAAAAAAAAGAAAGAAAT
15279389 CATGGAGAAAAAAAGAAGAGAA
1 CATGGA-AAAAAAAGAA-AGAA
15279411 GAGGTGACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 8 0.44
24 4 0.22
ACGTcount: A:0.61, C:0.05, G:0.27, T:0.07
Consensus pattern (22 bp):
CATGGAAAAAAAAGAAAGAAAT
Found at i:15285334 original size:37 final size:37
Alignment explanation
Indices: 15285284--15285368 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
15285274 ACCTTTAGCT
* * * *
15285284 CAGACGAAATCTCCACATGAATTTATCGGGTCTTACC
1 CAGACAAAATCTCCACACGAAGTCATCGGGTCTTACC
*
15285321 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGAAGTCATCGGGTCTTACC
* *
15285358 CGGACATAATC
1 CAGACAAAATC
15285369 AGTGATAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (37 bp):
CAGACAAAATCTCCACACGAAGTCATCGGGTCTTACC
Found at i:15285387 original size:25 final size:25
Alignment explanation
Indices: 15285353--15285403 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
15285343 TCATCGGGTC
15285353 TTACCCGGACATAATCAGTGATAAT
1 TTACCCGGACATAATCAGTGATAAT
15285378 TTACCCGGACATAATCAGTGATAAT
1 TTACCCGGACATAATCAGTGATAAT
15285403 T
1 T
15285404 ATTCTCGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (25 bp):
TTACCCGGACATAATCAGTGATAAT
Found at i:15285642 original size:49 final size:49
Alignment explanation
Indices: 15285468--15285935 Score: 776
Period size: 49 Copynumber: 9.7 Consensus size: 49
15285458 CCCTTCGGGA
*
15285468 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15285515 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15285562 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15285609 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15285658 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15285707 CTTATCACACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTAT--CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
15285758 CTTATCACACATATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15285807 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15285854 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15285903 CTTATCAC--ATATATACACTTTCACATTCATCAC
1 CTTATCACATATATATACACTTTCACATTCATCAC
15285936 GTAGAATCCT
Statistics
Matches: 400, Mismatches: 13, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
46 1 0.00
47 168 0.42
49 184 0.46
51 47 0.12
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15285669 original size:96 final size:94
Alignment explanation
Indices: 15285468--15285935 Score: 756
Period size: 96 Copynumber: 4.9 Consensus size: 94
15285458 CCCTTCGGGA
* *
15285468 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
15285533 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
15285562 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
15285627 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
15285658 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CAC--ATAT
* *
15285723 ATACACTTTCACATTCATCACATTGGCCATTCGGC
60 ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15285758 CTTATCACACATATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACATATATAC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
15285823 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
15285854 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
15285919 ACTTTCACATTCATCAC
64 ACTTTCACATTCATCAC
15285936 GTAGAATCCT
Statistics
Matches: 353, Mismatches: 11, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
94 56 0.16
96 159 0.45
98 47 0.13
100 88 0.25
102 3 0.01
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:15293958 original size:47 final size:47
Alignment explanation
Indices: 15293905--15294637 Score: 1133
Period size: 47 Copynumber: 15.3 Consensus size: 47
15293895 TTAGGATTCT
* *
15293905 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGTCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
15293952 ATGTGATGAATGTCAAAGTGTATATATATGTGATAAGGCCGAATAGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
15294001 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
15294048 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCG
* * *
15294099 ATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
15294146 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* * *
15294195 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
15294242 ATGTGATGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
15294291 ATGTGATGAATGTGAAAGTGTATATATGTGATAAAGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
15294338 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
15294385 ATGTGATGAATGTGAAAGCGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCG
* * *
15294434 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
15294481 ATGTGATGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
15294530 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
15294577 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
15294624 ATGTGATGAATGTG
1 ATGTGATGAATGTG
15294638 TGATAAGGCC
Statistics
Matches: 636, Mismatches: 36, Indels: 28
0.91 0.05 0.04
Matches are distributed among these distances:
47 372 0.58
49 219 0.34
51 45 0.07
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:15294640 original size:96 final size:95
Alignment explanation
Indices: 15293905--15294637 Score: 1148
Period size: 96 Copynumber: 7.6 Consensus size: 95
15293895 TTAGGATTCT
* * *
15293905 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGTCCTAATGGTCGATGTGATGAATGTCAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
15293970 TGTATATATATGTGATAAGGCCGAATAGCCG
66 TGT-TATATATGTGATAAGGCCTAATGGCCG
* *
15294001 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
15294066 TGTATATATATATGTGATAAGGCCTAATGGCCG
66 TG--T-TATATATGTGATAAGGCCTAATGGCCG
* * *
15294099 ATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
15294164 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TGT-TATATATGTGATAAGGCCTAATGGCCG
* * *
15294195 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
15294260 TGTCTATATATGTGATAAGGCCTAATGGCCG
66 TGT-TATATATGTGATAAGGCCTAATGGCCG
* *
15294291 ATGTGATGAATGTGAAAGTGTATATATGTGATAAAGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
15294356 TG-TATATATGTGATAAGGCCTAATAGCCG
66 TGTTATATATGTGATAAGGCCTAATGGCCG
* *
15294385 ATGTGATGAATGTGAAAGCGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAA
1 ATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
15294450 AGTG-TATATATGTGATAAGGCCGAATGGCCA
64 AGTGTTATATATGTGATAAGGCCTAATGGCCG
15294481 ATGTGATGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
15294546 AGTG-TATATATGTGATAAGGCCTAATAGCCG
64 AGTGTTATATATGTGATAAGGCCTAATGGCCG
* *
15294577 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCGATGTGATGAATGTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
15294638 TGATAAGGCC
Statistics
Matches: 600, Mismatches: 31, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
94 84 0.14
96 423 0.70
98 93 0.16
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (95 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTTATATATGTGATAAGGCCTAATGGCCG
Found at i:15294642 original size:33 final size:33
Alignment explanation
Indices: 15294603--15294670 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
15294593 AGTGTATATA
*
15294603 TGTGATAAGGCCTAATAGTCGATGTGATGAATG
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATG
15294636 TGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATG
15294669 TG
1 TG
15294671 AAAGTGTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.29
Consensus pattern (33 bp):
TGTGATAAGGCCTAATAGCCGATGTGATGAATG
Found at i:15294653 original size:80 final size:80
Alignment explanation
Indices: 15294556--15294717 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
15294546 AGTGTATATA
15294556 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
*
15294621 TCGATGTGATGAATG
66 CCGATGTGATGAATG
15294636 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
15294701 CCGATGTGATGAATG
66 CCGATGTGATGAATG
15294716 TG
1 TG
15294718 AAAGTGTATA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (80 bp):
TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
CCGATGTGATGAATG
Found at i:15294704 original size:47 final size:47
Alignment explanation
Indices: 15294636--15294879 Score: 380
Period size: 47 Copynumber: 5.2 Consensus size: 47
15294626 GTGATGAATG
*
15294636 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
15294683 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
15294730 TGTGATAAGGCCTAATGGCCAATGTTATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
15294777 TGTGATAAGGCCTAATGGCCGATGTGATGAATTTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * *
15294824 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGTATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
15294871 TGTGATAAG
1 TGTGATAAG
15294880 TCCCGAAGGG
Statistics
Matches: 181, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 181 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:15296380 original size:40 final size:40
Alignment explanation
Indices: 15296325--15296541 Score: 335
Period size: 40 Copynumber: 5.4 Consensus size: 40
15296315 GAGAATTGAG
15296325 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
15296365 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
15296405 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
15296445 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
** ** *
15296485 AGTGATATATCCATGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
15296525 GGTGTTATATCCGGGCT
1 AGTGATATATCCGGGCT
15296542 TGGTCTCGAA
Statistics
Matches: 162, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 162 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:15300438 original size:47 final size:47
Alignment explanation
Indices: 15300385--15301073 Score: 1001
Period size: 47 Copynumber: 14.7 Consensus size: 47
15300375 TTAGGATTCT
15300385 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
15300432 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTCGAATAGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
15300481 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
15300528 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
15300577 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCG
* *
15300628 ATGTGATGAATGTGAAAGTGTGTATATGTGATAAGG-C-GATGG-C-
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
15300671 A--TG-TG-ATGTG--A--GTATATATGTGAT-A-GCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
15300708 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
15300755 ATGTGATGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
15300804 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
15300851 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
15300898 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
15300945 ATCTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * *
15300992 ATGTGATGGATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
15301039 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
15301074 TCCCGAAGGG
Statistics
Matches: 589, Mismatches: 31, Indels: 44
0.89 0.05 0.07
Matches are distributed among these distances:
33 1 0.00
34 2 0.00
35 16 0.03
36 1 0.00
37 2 0.00
39 7 0.01
40 4 0.01
41 7 0.01
43 2 0.00
44 1 0.00
45 17 0.03
46 2 0.00
47 344 0.58
49 134 0.23
51 49 0.08
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:15300445 original size:96 final size:93
Alignment explanation
Indices: 15300385--15301018 Score: 580
Period size: 96 Copynumber: 6.8 Consensus size: 93
15300375 TTAGGATTCT
15300385 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
15300450 TG-TATATATA-TGTGATAAGGTCGAATAGCCG
66 TGATATATATATTATGATTA-G--G-AT-GCCG
* *
15300481 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
15300546 TG-TATATATA-TGTGATAAGGCCTAATGGCCG
66 TGATATATATATTATGATTAGG----AT-GCCG
15300577 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 ATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * *
15300642 AAAGTG---TGTATA-TGTGA-TA--A-GGCG
62 AAAGTGATATATATATTATGATTAGGATGCCG
* *
15300666 ATG-GCATGTGATGTG--A--GTATATATGTGAT-A-GCCTAATGGCCGATATGATGAATGTGAA
1 ATGTG-ATG-AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * *** * *
15300724 AGTG-TATATATGTGATAAGGCCGAATGGCCA
64 AGTGATATATATATTATGA-TTAGGAT-GCCG
15300755 ATGTGATGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * **
15300820 AGTGTATATATGTGATAAGGCCTA--ATAGCCG
64 AGTG-ATATATAT-ATTATGATTAGGAT-GCCG
15300851 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * **
15300916 TGTATATATGTGATAAGGCCTA--ATGGCCG
66 TG-ATATATAT-ATTATGATTAGGAT-GCCG
* *
15300945 ATCTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
15301010 TG-TATATAT
66 TGATATATAT
15301019 GTGACAGGGC
Statistics
Matches: 472, Mismatches: 36, Indels: 64
0.83 0.06 0.11
Matches are distributed among these distances:
80 31 0.07
81 1 0.00
82 16 0.03
83 2 0.00
86 1 0.00
87 1 0.00
88 7 0.01
89 17 0.04
90 7 0.01
91 1 0.00
92 7 0.01
93 1 0.00
94 150 0.32
95 2 0.00
96 164 0.35
97 1 0.00
98 16 0.03
99 2 0.00
100 45 0.10
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (93 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGATATATATATTATGATTAGGATGCCG
Found at i:15301242 original size:37 final size:37
Alignment explanation
Indices: 15301192--15301292 Score: 184
Period size: 37 Copynumber: 2.7 Consensus size: 37
15301182 CCGAGCTCTA
15301192 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
15301229 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
15301266 AAGACCCGATGACTTCTTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
15301293 TCGTCTGAGC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:15307363 original size:39 final size:39
Alignment explanation
Indices: 15307311--15307438 Score: 202
Period size: 39 Copynumber: 3.3 Consensus size: 39
15307301 TTTGAGATTG
15307311 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
* *
15307350 AAAATATCTGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
* * * *
15307389 AATATATCCGGACTTGAGGTCCGCAGGCTACATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
15307428 AAAATATCCGG
1 AAAATATCCGG
15307439 GTTAAAGACC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
Found at i:15307452 original size:78 final size:77
Alignment explanation
Indices: 15307310--15307456 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 77
15307300 GTTTGAGATT
* * * *
15307310 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGAAAAATATCTGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCGGGACATAAGACCCGCA
15307375 GGCTATATGCTA
66 GGCTATATGCTA
* * **
15307387 GAAATATATCCGGACTTGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGGTTA-AAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATAT-CGGGACATAAGACCCG
15307451 CAGGCT
64 CAGGCT
15307457 TACACTAGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
77 4 0.07
78 52 0.87
79 4 0.07
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (77 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCGGGACATAAGACCCGCA
GGCTATATGCTA
Found at i:15311135 original size:27 final size:27
Alignment explanation
Indices: 15311105--15311352 Score: 313
Period size: 27 Copynumber: 9.2 Consensus size: 27
15311095 AAAGTACTCC
15311105 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
15311132 CGATTTACAGAACTACAGCTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
15311159 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
15311186 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
15311213 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
15311240 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
15311267 TGATTTACAAAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
15311294 C-AGTTTACAAAATTATCGTTTTACCCC
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
15311321 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
15311348 TGATT
1 CGATT
15311353 GTGAAATTAC
Statistics
Matches: 190, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.02
27 184 0.97
28 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:15311387 original size:27 final size:27
Alignment explanation
Indices: 15311357--15311552 Score: 223
Period size: 27 Copynumber: 7.3 Consensus size: 27
15311347 TTGATTGTGA
*
15311357 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
15311384 AATTTCCGAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
15311411 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** * * *
15311438 AATTACCAAAACACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
15311465 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* *
15311492 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
15311519 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
15311546 AATTACT
1 AATTACT
15311553 ATTTTGCCCC
Statistics
Matches: 141, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
27 140 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:15311426 original size:54 final size:54
Alignment explanation
Indices: 15311357--15311551 Score: 248
Period size: 54 Copynumber: 3.6 Consensus size: 54
15311347 TTGATTGTGA
* * *
15311357 AATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * * *
15311411 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAACACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * *
15311465 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * * *
15311519 AATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTAC
15311552 TATTTTGCCC
Statistics
Matches: 120, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 119 0.99
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
Found at i:15311544 original size:81 final size:82
Alignment explanation
Indices: 15311357--15311550 Score: 257
Period size: 81 Copynumber: 2.4 Consensus size: 82
15311347 TTGATTGTGA
* *
15311357 AATTACTGAAATACCCCTGTAGGGTAGAATT-TCCGAAATACCCTTATAGGGTAGAATTACTGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTATCCGAAATACCCTTATAGGGTAGAAATACTGAA
*
15311421 ATACCCTTATAGGATAG
66 ATACCCCTATAGGATAG
* * * *
15311438 AATTACCAAAACACCCCTATAGGGTAGAATTAT-CGAAATACCCTTGTAGGGTAGAAATACTGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTATCCGAAATACCCTTATAGGGTAGAAATACTGAA
* *
15311502 ATACCCCTGTAGGGTAG
66 ATACCCCTATAGGATAG
* * * *
15311519 AATTACCGAGATACCCTTGTGGGGTAAAATTA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTA
15311551 CTATTTTGCC
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 95 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (82 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTATCCGAAATACCCTTATAGGGTAGAAATACTGAA
ATACCCCTATAGGATAG
Found at i:15311812 original size:27 final size:26
Alignment explanation
Indices: 15311751--15311833 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
15311741 CGGAAGAAGC
* *
15311751 GTTCTGGTGGCTATGCCACAAATAACT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
15311778 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
15311804 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
15311831 GTT
1 GTT
15311834 GACCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 9 0.18
27 41 0.82
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:15311955 original size:22 final size:22
Alignment explanation
Indices: 15311921--15311979 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
15311911 CCCGTTATTA
* *
15311921 ATGGCTCTATGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
15311943 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
15311965 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
15311980 ACGTATTTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:15312166 original size:27 final size:27
Alignment explanation
Indices: 15312152--15312217 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
15312142 TTTGCTACAT
15312152 TATCTG-ATTCTGGTGGCTCTGCCACAA
1 TATCTGTA-TCTGGTGGCTCTGCCACAA
* * *
15312179 TATCTGTATCTGGTGACTCTGTCACGA
1 TATCTGTATCTGGTGGCTCTGCCACAA
15312206 TATCTGT-TCTGG
1 TATCTGTATCTGG
15312218 CAGCCATGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.14
27 29 0.83
28 1 0.03
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
TATCTGTATCTGGTGGCTCTGCCACAA
Found at i:15312350 original size:6 final size:6
Alignment explanation
Indices: 15312341--15312515 Score: 130
Period size: 6 Copynumber: 28.8 Consensus size: 6
15312331 TCACATTCAC
* * * *
15312341 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG -TTACTA ATACTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATT-CTG ATTCTG
* * * *
15312390 ATTCTG ATTCTA ATTATG -TTACTG ATTCTG ATTCTG -TCACCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
15312439 ATTCTG ATTCTG ATTCTG ATTTTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
15312487 ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
15312516 CATTTTGGTT
Statistics
Matches: 133, Mismatches: 20, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
5 11 0.08
6 109 0.82
7 10 0.08
8 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:15312434 original size:49 final size:49
Alignment explanation
Indices: 15312341--15312449 Score: 148
Period size: 49 Copynumber: 2.2 Consensus size: 49
15312331 TCACATTCAC
* * *
15312341 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTAATTATGTCACGTAATTCTGATTCTGTCACTAATACTG
* * *
15312390 ATTCTGATTCTAATTATGTTAC-TGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTATGTCACGTAATTCTGATTCTGTCA-CTAATACTG
15312439 ATTCTGATTCT
1 ATTCTGATTCT
15312450 GATTCTGATT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 15 0.28
49 38 0.72
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (49 bp):
ATTCTGATTCTAATTATGTCACGTAATTCTGATTCTGTCACTAATACTG
Found at i:15312458 original size:67 final size:67
Alignment explanation
Indices: 15312341--15312515 Score: 225
Period size: 67 Copynumber: 2.6 Consensus size: 67
15312331 TCACATTCAC
*
15312341 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTG-TTACTAATACTGATTCTGATT-CTAAT
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT-CTAATACTGATTCTG-TTACTAAT
15312404 -TATG
64 AT-TG
* * *
15312408 -TTACTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGATTTTGTTACTAATA
1 ATT-CTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATACTGATTCTGTTACTAATA
15312472 TTG
65 TTG
* *
15312475 ATTCTGATTCTGATTCTGTTA-CTGATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCT
15312516 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
66 23 0.24
67 69 0.71
68 5 0.05
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (67 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATACTGATTCTGTTACTAATAT
TG
Found at i:15312533 original size:30 final size:30
Alignment explanation
Indices: 15312366--15312536 Score: 149
Period size: 30 Copynumber: 5.9 Consensus size: 30
15312356 CTGTCACGTA
* *
15312366 ATTCTGATTCTGTTACTAATACTGATTCTG
1 ATTCTGATTTTGTTACTAATTCTGATTCTG
* * *
15312396 ATTCTAATTATGTTACTGATTCTGATTCTG
1 ATTCTGATTTTGTTACTAATTCTGATTCTG
** ** *
15312426 --TC--ACCTAATT-CTGATTCTGATTCTG
1 ATTCTGATTTTGTTACTAATTCTGATTCTG
15312451 ATTCTGATTTTGTTACTAATAT-TGATTCTG
1 ATTCTGATTTTGTTACTAAT-TCTGATTCTG
* *
15312481 ATTCTGATTCTGTTACTGATTCTGATTCTG
1 ATTCTGATTTTGTTACTAATTCTGATTCTG
* *
15312511 ATTCTCATTTTGGTT-CCAATTCTGAT
1 ATTCTGATTTT-GTTACTAATTCTGAT
15312537 AATGTTTCTT
Statistics
Matches: 113, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
25 15 0.13
26 3 0.03
27 2 0.02
28 2 0.02
29 5 0.04
30 82 0.73
31 4 0.04
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTTTGTTACTAATTCTGATTCTG
Found at i:15314674 original size:27 final size:27
Alignment explanation
Indices: 15314643--15314819 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
15314633 TATATTGAGC
* *
15314643 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
15314670 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
15314697 CGCACAC-TAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
15314724 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
15314751 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
15314778 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
15314805 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15314820 GTACAATTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.10
27 100 0.79
28 14 0.11
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:15314725 original size:54 final size:54
Alignment explanation
Indices: 15314643--15314819 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
15314633 TATATTGAGC
* * * * *
15314643 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
15314697 CGCACAC-TAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
15314751 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
15314805 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15314820 GTACAATTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
53 12 0.12
54 78 0.76
55 12 0.12
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:15314781 original size:81 final size:81
Alignment explanation
Indices: 15314664--15314818 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
15314654 TGCTATATAA
* *
15314664 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACAC-TAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
15314728 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
15314745 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
15314809 CACTTAGTGC
65 CACTTAGTGC
15314819 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 1 0.02
81 48 0.74
82 16 0.25
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:15328390 original size:11 final size:11
Alignment explanation
Indices: 15328374--15328398 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15328364 GTCCTTTACT
15328374 TGTAATTTTTA
1 TGTAATTTTTA
15328385 TGTAATTTTTA
1 TGTAATTTTTA
15328396 TGT
1 TGT
15328399 TTTTGAGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (11 bp):
TGTAATTTTTA
Found at i:15329365 original size:30 final size:30
Alignment explanation
Indices: 15329329--15329591 Score: 294
Period size: 30 Copynumber: 8.8 Consensus size: 30
15329319 TAACCCGACA
* * *
15329329 ATAATGTCAGCTTGTATGAGCAATTCGATC
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
* *
15329359 ATAATGTCAACTTGTGTGCGCAATCCAATC
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
* *
15329389 ATAATGTCTGCTTGTGTGAGCAATCCTATC
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
*
15329419 ATAATGTCAGCTTGTGTGAGCAA-CCTGATC
1 ATAATGTCAGCTTGTGTGAGCAATCC-AATC
* * * *
15329449 ATAATGTCAACTTATGTGAACAATCCAATT
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
* *
15329479 ATAATGTCAGCTTGTGTGAGCAATCCGATT
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
* * * *
15329509 ACAATGTCAACTTGTGTGAACAATCCAATT
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
* * * *
15329539 ATAATGTCAGATTGTGTAAGCAATTCAATT
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
* *
15329569 ATAATGTTAACTTGTGTGAGCAA
1 ATAATGTCAGCTTGTGTGAGCAA
15329592 CCCTAAAATA
Statistics
Matches: 197, Mismatches: 34, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
29 2 0.01
30 193 0.98
31 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (30 bp):
ATAATGTCAGCTTGTGTGAGCAATCCAATC
Found at i:15333010 original size:33 final size:34
Alignment explanation
Indices: 15332962--15333029 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
15332952 ACAGTGCATG
*
15332962 CAGTAACAGTCTGGGCCAGAGCCCTATTCAGTAA
1 CAGTAACAGTCTGGGCCAGAGCCCTATACAGTAA
* ***
15332996 CAGT-ACAGTTTGGGCTTTAGCCCTATACAGTAA
1 CAGTAACAGTCTGGGCCAGAGCCCTATACAGTAA
15333029 C
1 C
15333030 GGTGTGGGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (34 bp):
CAGTAACAGTCTGGGCCAGAGCCCTATACAGTAA
Found at i:15335281 original size:27 final size:27
Alignment explanation
Indices: 15335251--15335428 Score: 153
Period size: 27 Copynumber: 6.6 Consensus size: 27
15335241 ATATTGAGCC
* *
15335251 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
15335278 CGCACACTTAGTGCCACGTAATCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
*
15335305 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
15335333 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
15335360 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
15335387 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
15335414 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
15335429 GTACAATTTA
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.79
28 25 0.20
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:15335411 original size:54 final size:54
Alignment explanation
Indices: 15335251--15335427 Score: 187
Period size: 54 Copynumber: 3.3 Consensus size: 54
15335241 ATATTGAGCC
* * * *
15335251 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCCACGTAATCAAAC
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * * *
15335305 CGCACACTTAGTGC-TACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
* ** * *
15335360 CGCACACTTAGTGCATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
*
15335414 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
15335428 TGTACAATTT
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 55 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:15337989 original size:40 final size:40
Alignment explanation
Indices: 15337934--15338091 Score: 244
Period size: 40 Copynumber: 4.0 Consensus size: 40
15337924 TGGAAAACAA
* * *
15337934 TATAACCAGGTTAAGTCCCGAAGGCATTCGTGTGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
15337974 TATAACCGGGTTAAGTCCCTAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
15338014 TATAACTGGGTTAAGTCCCAAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
15338054 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
15338092 GTTACATCTG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:15351475 original size:21 final size:21
Alignment explanation
Indices: 15351433--15351476 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
15351423 TGTTGCGTAA
* * *
15351433 AGTAGGATTTTTCTATTAAGG
1 AGTAGGAGTTTACTACTAAGG
*
15351454 AGTAGGAGTTTACTACTGAGG
1 AGTAGGAGTTTACTACTAAGG
15351475 AG
1 AG
15351477 CAAGATTGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.34
Consensus pattern (21 bp):
AGTAGGAGTTTACTACTAAGG
Found at i:15352903 original size:18 final size:18
Alignment explanation
Indices: 15352880--15352916 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
15352870 AAATAAAGGG
15352880 TGTATCTTGCAAAATGAC
1 TGTATCTTGCAAAATGAC
15352898 TGTATCTTGCAAAATGAC
1 TGTATCTTGCAAAATGAC
15352916 T
1 T
15352917 AAGAGTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (18 bp):
TGTATCTTGCAAAATGAC
Found at i:15353683 original size:47 final size:47
Alignment explanation
Indices: 15353568--15353938 Score: 247
Period size: 46 Copynumber: 7.9 Consensus size: 47
15353558 GTCATTTGTG
*
15353568 TGAG-CTAGTGTAAGA-CATGTCCGGGACAT-GCATCGGACACATT-AG-
1 TGAGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGAGA
* *
15353613 -GAAGCC-AGTGTAAGACCACGTCTGGGACATGGCATCGGTATTGAGA
1 TG-AGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * *
15353659 CGAGCGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA
1 TGAGC-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * *
15353705 TGTAAGCC-AGTGTAAGA-CATGCCTGGGACAT-GCAACGGC-TACGAGA
1 TG--AGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGA
* * * * * * *
15353751 TG-TCTTAGAGTAAGACCATCTCTGGGACATGGCATCAGCATAGATA
1 TGAGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * * * *
15353797 TGTGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCAGCCTTGATTTCGA
1 --TGAG-CCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA----GA
* *
15353851 T-AGTC-AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATGGA
1 TGAGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA--GA
*
15353897 TGAGCC-AGTGTAAGACCATGTCTAGGACATGGCATCGGCATT
1 TGAGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
15353939 ATACCCTATG
Statistics
Matches: 262, Mismatches: 38, Indels: 49
0.75 0.11 0.14
Matches are distributed among these distances:
43 1 0.00
44 12 0.05
45 26 0.10
46 78 0.30
47 58 0.22
48 20 0.08
49 29 0.11
50 34 0.13
51 2 0.01
52 1 0.00
54 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
TGAGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
Found at i:15353869 original size:49 final size:47
Alignment explanation
Indices: 15353802--15353933 Score: 176
Period size: 47 Copynumber: 2.8 Consensus size: 47
15353792 AGATATGTGA
* * *
15353802 GAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCAGCCTTGATTTCGAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACTTGA--TCGAT
* * *
15353852 -AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGATCGAT
15353898 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
15353934 GCATTATACC
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 4 0.05
47 33 0.45
48 6 0.08
49 30 0.41
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGATCGAT
Found at i:15356750 original size:46 final size:46
Alignment explanation
Indices: 15356699--15356964 Score: 193
Period size: 46 Copynumber: 5.7 Consensus size: 46
15356689 TTGGGCATCT
* **
15356699 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * * * * * * *
15356745 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCATTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACGTCC
* * * *
15356792 GAGCTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * * *
15356838 GAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCC
* * *
15356885 GAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * *
15356931 GAGCTCGTTGACTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15356965 GCGGGTTACA
Statistics
Matches: 167, Mismatches: 39, Indels: 28
0.71 0.17 0.12
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
45 4 0.02
46 88 0.53
47 58 0.35
48 4 0.02
50 4 0.02
51 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
Found at i:15356814 original size:47 final size:47
Alignment explanation
Indices: 15356748--15356910 Score: 165
Period size: 47 Copynumber: 3.5 Consensus size: 47
15356738 AACGTTTGAA
*
15356748 CTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATTCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAG
* * * * * *
15356795 CTCGTTGATTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAATGCCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCAT--CCGAG
* *
15356841 CTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAG
*
15356888 CTCATTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
15356911 ACTTATGGAT
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 27 0.30
47 50 0.55
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAG
Found at i:15356851 original size:93 final size:93
Alignment explanation
Indices: 15356692--15356957 Score: 415
Period size: 93 Copynumber: 2.9 Consensus size: 93
15356682 CGGATATTTG
* * *
15356692 GGCATCTGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTTGAACTCGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
15356757 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * * * * *
15356785 GGCATTCGAGCTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
* *
15356850 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
15356878 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAGCTCGTTGAC
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
15356943 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
15356958 CTTATGGGCG
Statistics
Matches: 153, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 153 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:15363871 original size:30 final size:30
Alignment explanation
Indices: 15363815--15363872 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15363805 TTTTCGAATA
* * *
15363815 TAGGGGTAAAATGGTTATTCTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTCTACCAAAGTC
*
15363845 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTCTACCAAAG
15363873 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTCTACCAAAGTC
Found at i:15364372 original size:46 final size:45
Alignment explanation
Indices: 15364257--15364472 Score: 172
Period size: 46 Copynumber: 4.6 Consensus size: 45
15364247 ACACTAGGAG
* *
15364257 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATG-
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGT
*
15364303 AGCGCTAGTGTAAGACAT-TCTGGGATATGCATCGGCCTCGAGATGT
1 AGC-C-AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT
*
15364349 AAGCCAGTGCAAGACATGTCTGGGACATGCATCGG-CTACGAGATGT
1 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGT
** * * * * *
15364395 -TTCAGAGTAAGACCATGTGTTGGACATAGCATCGGCAC-GGATATGT
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGATGT
*
15364441 GAGAGCTAGTGTAAGACCATGTCTGGGACATG
1 ---AGCCAGTGTAAGA-CATGTCTGGGACATG
15364473 GTGTCGGCCT
Statistics
Matches: 137, Mismatches: 19, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
44 8 0.06
45 40 0.29
46 50 0.36
47 7 0.05
48 10 0.07
49 1 0.01
50 21 0.15
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT
Found at i:15364897 original size:56 final size:56
Alignment explanation
Indices: 15364811--15364930 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
15364801 ACAAGGGATG
*
15364811 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGCCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
15364867 ATGGGCAAAACATGCCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGCCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
15364923 ATGGGCAA
1 ATGGGCAA
15364931 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGCCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:15366398 original size:47 final size:47
Alignment explanation
Indices: 15366306--15366864 Score: 795
Period size: 47 Copynumber: 11.8 Consensus size: 47
15366296 TATTCATTGG
*
15366306 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 AATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCC
*
15366355 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
* * *
15366402 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCT
1 AATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCC
* *
15366451 GATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
15366498 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCC
* *
15366547 AATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
* *
15366594 AATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
* *
15366641 AATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
* * *
15366688 AATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGTCGAATGGCC
1 AATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
* *
15366735 AATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
15366782 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
* * *
15366829 AATGTGATGGATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAG
15366865 TCCCGAAGGG
Statistics
Matches: 476, Mismatches: 28, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 363 0.76
49 111 0.23
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
Found at i:15366742 original size:22 final size:22
Alignment explanation
Indices: 15366715--15366836 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
15366705 CATGTGTATG
15366715 TGTGATAAGGTCGAATGGCCAA
1 TGTGATAAGGTCGAATGGCCAA
* *
15366737 TGTGATGAATGT-GAACAT-GCATATA
1 TGTGAT-AAGGTCG-A-ATGGC-CA-A
* *
15366762 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGTCGAATGGCCAA
* ***
15366784 TGTGATGAATGT-GAAAGTGTATATA
1 TGTGAT-AAGGTCG-AA-TGGCCA-A
*
15366809 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGTCGAATGGCCAA
15366831 TGTGAT
1 TGTGAT
15366837 GGATGTGGAA
Statistics
Matches: 71, Mismatches: 17, Indels: 24
0.63 0.15 0.21
Matches are distributed among these distances:
22 21 0.30
23 18 0.25
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGTCGAATGGCCAA
Found at i:15369062 original size:11 final size:11
Alignment explanation
Indices: 15369046--15369070 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15369036 TTATGCTTAC
15369046 TCGCTTTTCTT
1 TCGCTTTTCTT
15369057 TCGCTTTTCTT
1 TCGCTTTTCTT
15369068 TCG
1 TCG
15369071 GTGTCACCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.28, G:0.12, T:0.60
Consensus pattern (11 bp):
TCGCTTTTCTT
Found at i:15373068 original size:45 final size:45
Alignment explanation
Indices: 15373001--15373136 Score: 182
Period size: 45 Copynumber: 3.0 Consensus size: 45
15372991 ATATTTTATC
*
15373001 ATAAACATGATTAAAAACGAGTAAGACCATAATTGAAAGACGCTATA
1 ATAAA-ATGATT-AAAACGAGTAAGACCATAGTTGAAAGACGCTATA
* * *
15373048 ATAAAATGATTAAAACGAGTAAGACCATAGTTGAAAGGCGCCATG
1 ATAAAATGATTAAAACGAGTAAGACCATAGTTGAAAGACGCTATA
* * * *
15373093 ACAATATGATTAAAACGAGTAAGACCATAGTTGGAAGATGCTAT
1 ATAAAATGATTAAAACGAGTAAGACCATAGTTGAAAGACGCTAT
15373137 GGCATCATGA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 68 0.86
46 6 0.08
47 5 0.06
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (45 bp):
ATAAAATGATTAAAACGAGTAAGACCATAGTTGAAAGACGCTATA
Found at i:15373833 original size:4 final size:4
Alignment explanation
Indices: 15373826--15373860 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
15373816 GTGAAATGGT
15373826 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
15373861 TGCCATGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:15379766 original size:31 final size:31
Alignment explanation
Indices: 15379700--15379768 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
15379690 TATAATTTCT
* * * * *
15379700 TAACCATCCACATCCCGCTAAGTCCTATAAT
1 TAACCACCCACATCCCACTAAGTCCCACAAA
15379731 TAACCACCCACATCCCACTAAGTCCCACAAA
1 TAACCACCCACATCCCACTAAGTCCCACAAA
15379762 TAACCAC
1 TAACCAC
15379769 TCACCAGATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.41, G:0.04, T:0.19
Consensus pattern (31 bp):
TAACCACCCACATCCCACTAAGTCCCACAAA
Found at i:15382770 original size:15 final size:15
Alignment explanation
Indices: 15382750--15382780 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15382740 ACAGTAACTG
15382750 TATCAATTAAAATAA
1 TATCAATTAAAATAA
15382765 TATCAATTAAAATAA
1 TATCAATTAAAATAA
15382780 T
1 T
15382781 TTTTCTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
TATCAATTAAAATAA
Found at i:15387571 original size:23 final size:23
Alignment explanation
Indices: 15387526--15387573 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
15387516 ATAAATAATT
* *
15387526 TATTAAAATATTAATCATAAAAA
1 TATTAAAATATTAATAAAAAAAA
15387549 TATTAAAATA-TAATAAAACAAAA
1 TATTAAAATATTAATAAAA-AAAA
15387572 TA
1 TA
15387574 GTTTTACACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
TATTAAAATATTAATAAAAAAAA
Found at i:15387832 original size:45 final size:45
Alignment explanation
Indices: 15387768--15387857 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
15387758 CATGACACCC
15387768 ATATCAACACCTTTACTCCAATTCTTGCTCTCTTAAAACTAAAAA
1 ATATCAACACCTTTACTCCAATTCTTGCTCTCTTAAAACTAAAAA
15387813 ATATCAACACCTTTACTCCAATTCTTGCTCTCTTAAAACTAAAAA
1 ATATCAACACCTTTACTCCAATTCTTGCTCTCTTAAAACTAAAAA
15387858 GATAAATTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.33
Consensus pattern (45 bp):
ATATCAACACCTTTACTCCAATTCTTGCTCTCTTAAAACTAAAAA
Found at i:15389055 original size:16 final size:16
Alignment explanation
Indices: 15389010--15389066 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 16
15389000 ATGTTTTTGA
15389010 ATTTTTATGAATTTT-C
1 ATTTTTAT-AATTTTAC
15389026 ATATTTTA-AATTTTAC
1 AT-TTTTATAATTTTAC
*
15389042 ATTTTTATAATTTTAA
1 ATTTTTATAATTTTAC
15389058 ATTATTTAT
1 ATT-TTTAT
15389067 TGATGTGGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
15 11 0.31
16 15 0.42
17 10 0.28
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (16 bp):
ATTTTTATAATTTTAC
Found at i:15392305 original size:86 final size:88
Alignment explanation
Indices: 15392203--15392544 Score: 392
Period size: 88 Copynumber: 3.9 Consensus size: 88
15392193 TGTAACCTTT
* ** * * *
15392203 AACCAGCTCCAAT-GCAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* * *
15392265 CAAGAAGGCAAGATCTGCT-TCTTT
64 CAGGAAGGCAAGATCTGTTGTCTTC
* * * ** * * *
15392289 AACTAGCTCCA-CTGCAATCGATGGACGCAAGGCTTTGT-T-TTCAATCTGCTTCGCTGTTAATG
1 AACCAGCTCCATC-ACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* *
15392351 TAGGAAGGCAAGATCTTTTGTCTTC
64 CAGGAAGGCAAGATCTGTTGTCTTC
* *
15392376 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
15392441 GGAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTGTTGTCTTC
*
15392464 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
15392529 GGAAGGCAAGATCTGT
66 GGAAGGCAAGATCTGT
15392545 AACTTCATTG
Statistics
Matches: 228, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
85 1 0.00
86 73 0.32
87 28 0.12
88 126 0.55
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (88 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
GGAAGGCAAGATCTGTTGTCTTC
Found at i:15392377 original size:45 final size:45
Alignment explanation
Indices: 15392322--15392542 Score: 139
Period size: 44 Copynumber: 5.0 Consensus size: 45
15392312 GACGCAAGGC
* *
15392322 TTTGTTTTCAATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCT
1 TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
* * ** ** * * * *
15392367 TTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-AGGCAAGGT-T
1 TTTGTCTTCAATCTGCTTCGCTGTCAA-TGTAGGAAGGCAAGATCT
* *
15392410 TGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
* * ** ** * * * *
15392455 TTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-AGGCAAGGT-T
1 TTTGTCTTCAATCTGCTTCGCTGTCAA-TGTAGGAAGGCAAGATCT
* * *
15392498 TGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
15392543 GTAACTTCAT
Statistics
Matches: 120, Mismatches: 48, Indels: 16
0.65 0.26 0.09
Matches are distributed among these distances:
43 32 0.27
44 55 0.46
45 33 0.28
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (45 bp):
TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
Found at i:15392439 original size:88 final size:88
Alignment explanation
Indices: 15392315--15392542 Score: 406
Period size: 88 Copynumber: 2.6 Consensus size: 88
15392305 ATCGATGGAC
* *
15392315 GCAAGGCTTTGT-T-TTCAATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCAA
1 GCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAA
15392378 CCAGCTCTATCACAACCGAAAGAG
65 CCAGCTCTATCACAACCGAAAGAG
15392402 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAAC
1 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAAC
15392467 CAGCTCTATCACAACCGAAAGAG
66 CAGCTCTATCACAACCGAAAGAG
*
15392490 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
15392543 GTAACTTCAT
Statistics
Matches: 136, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
86 5 0.04
87 7 0.05
88 124 0.91
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (88 bp):
GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAAC
CAGCTCTATCACAACCGAAAGAG
Found at i:15394789 original size:15 final size:16
Alignment explanation
Indices: 15394763--15394795 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15394753 TTGATCTTGA
*
15394763 TTTTGATTTTTTCTTC
1 TTTTGATTTTTTATTC
15394779 TTTTG-TTTTTTATTC
1 TTTTGATTTTTTATTC
15394794 TT
1 TT
15394796 AAGCCTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTTGATTTTTTATTC
Found at i:15397292 original size:19 final size:20
Alignment explanation
Indices: 15397263--15397311 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
15397253 CACTTCGTGA
* *
15397263 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
15397282 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
15397302 AAATG-AATGC
1 AAATGTAATGC
15397312 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:15399311 original size:36 final size:36
Alignment explanation
Indices: 15399271--15399350 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
15399261 ATACATATAA
* *
15399271 ATATATATACT-TATAAAAATAAAAAT-ATGTATATGT
1 ATATATATA-TATATAAAAAGAAAAATGA-GTATACGT
* *
15399307 ATATAGATATATATAAAAAGAAATATGAGTATACGT
1 ATATATATATATATAAAAAGAAAAATGAGTATACGT
15399343 ATATATAT
1 ATATATAT
15399351 TAAACAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.36
Consensus pattern (36 bp):
ATATATATATATATAAAAAGAAAAATGAGTATACGT
Found at i:15399493 original size:3 final size:3
Alignment explanation
Indices: 15399482--15399549 Score: 93
Period size: 3 Copynumber: 22.7 Consensus size: 3
15399472 CAATAATACC
* * *
15399482 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
15399527 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
15399550 AGTTAACAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 56 0.98
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15401338 original size:25 final size:25
Alignment explanation
Indices: 15401304--15401355 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
15401294 AAGAATCAGT
*
15401304 AAACTTAAACAGACGGGACTGGTGA
1 AAACTTAAACAAACGGGACTGGTGA
15401329 AAACTTAAACAAACGGGACTGGTGA
1 AAACTTAAACAAACGGGACTGGTGA
15401354 AA
1 AA
15401356 TATAAATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.15
Consensus pattern (25 bp):
AAACTTAAACAAACGGGACTGGTGA
Found at i:15401704 original size:137 final size:138
Alignment explanation
Indices: 15401457--15401725 Score: 434
Period size: 137 Copynumber: 2.0 Consensus size: 138
15401447 CTTAAAATTG
* * *
15401457 AAATCAATTATGGAATGCGTTACATTCAAAATAACAATAAACAAAATATGGATATAACACTAGCT
1 AAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAACT
* * *
15401522 ACAAAAGTAATTTAACAACATCATGTGGTAACAAGTTCACCTGAAAGTG-AGATATGAAAGATAT
66 ACAAAAGTAATTTAACAACATCATGTAGTAACAAGTTCACATGAAAGTGCA-ATATGAAAGACAT
15401586 GCCCAAATA
130 GCCCAAATA
* *
15401595 AAATCATTTATGGCATGAGTTACATTCAAAATAACAAT-AACAAAAGATGGATATAACACTAACT
1 AAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAACT
*
15401659 ACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACATG
66 ACAAAAGTAATTTAACAACATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACATG
15401724 CC
131 CC
15401726 ATTTTCTGAA
Statistics
Matches: 121, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
137 85 0.70
138 36 0.30
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.25
Consensus pattern (138 bp):
AAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAACT
ACAAAAGTAATTTAACAACATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACATG
CCCAAATA
Found at i:15403945 original size:13 final size:12
Alignment explanation
Indices: 15403923--15403965 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
15403913 CTACCCAATT
15403923 ACCCAGGCCCAA
1 ACCCAGGCCCAA
15403935 ACCCGAGGCCCAAA
1 ACCC-AGGCCC-AA
15403949 ACCCTA-GCCCAA
1 ACCC-AGGCCCAA
15403961 ACCCA
1 ACCCA
15403966 TAACAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 1 0.04
12 10 0.36
13 10 0.36
14 7 0.25
ACGTcount: A:0.35, C:0.49, G:0.14, T:0.02
Consensus pattern (12 bp):
ACCCAGGCCCAA
Found at i:15404634 original size:21 final size:22
Alignment explanation
Indices: 15404594--15404640 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
15404584 TCTTTTTAGA
*
15404594 AAGGAAGAAGAATGATTTTTTAT
1 AAGGAAGAAGAATGA-ATTTTAT
15404617 AAGGAA-AA-AATGAATTTTAT
1 AAGGAAGAAGAATGAATTTTAT
15404637 AAGG
1 AAGG
15404641 CCCCTAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 5 0.22
22 2 0.09
23 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.30
Consensus pattern (22 bp):
AAGGAAGAAGAATGAATTTTAT
Found at i:15405011 original size:30 final size:27
Alignment explanation
Indices: 15404942--15405015 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 27
15404932 ACGCGTCACA
**
15404942 ATTTAGTCCCTTTTGTTTTTTTATTTCG
1 ATTTAGTCCCTTTT-TTTTTTTACGTCG
* *
15404970 ATTTCGCCCCTTATTTTTGCTTTTACGTCG
1 ATTTAGTCCCTT-TTTTT--TTTTACGTCG
15405000 ATTTAGTCCCTTTTTT
1 ATTTAGTCCCTTTTTT
15405016 AGCACTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
28 13 0.35
29 6 0.16
30 18 0.49
ACGTcount: A:0.11, C:0.20, G:0.11, T:0.58
Consensus pattern (27 bp):
ATTTAGTCCCTTTTTTTTTTTACGTCG
Found at i:15407108 original size:3 final size:3
Alignment explanation
Indices: 15407100--15407128 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
15407090 TCACAGAGGC
15407100 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
15407129 GAGGAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:15423561 original size:12 final size:12
Alignment explanation
Indices: 15423544--15423570 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15423534 ATTCCGAAGT
15423544 ATATATATATAC
1 ATATATATATAC
15423556 ATATATATATAC
1 ATATATATATAC
15423568 ATA
1 ATA
15423571 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:15424084 original size:27 final size:27
Alignment explanation
Indices: 15424050--15424200 Score: 162
Period size: 27 Copynumber: 5.6 Consensus size: 27
15424040 TAAATTGTAC
* *
15424050 AGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
15424076 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
15424104 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
15424132 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
15424159 AGCACTAAGTGTGC-AAGTTGATTATAT
1 AGCACTAAGTGTGCGAA-TTGACTATGT
*
15424186 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15424201 GACTCAATAT
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.02
27 83 0.77
28 23 0.21
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:15424147 original size:55 final size:54
Alignment explanation
Indices: 15424049--15424200 Score: 171
Period size: 55 Copynumber: 2.8 Consensus size: 54
15424039 TTAAATTGTA
**
15424049 CAGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATG
1 CAGCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCATG
* * * **
15424103 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG
1 CAGCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCATG
* * * * *
15424158 TAGCACTAAGTGTGCAAGTTGATTATATAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
15424201 GACTCAATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 38 0.46
55 44 0.53
56 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (54 bp):
CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCATG
Found at i:15424191 original size:82 final size:82
Alignment explanation
Indices: 15424050--15424200 Score: 189
Period size: 82 Copynumber: 1.8 Consensus size: 82
15424040 TAAATTGTAC
* *
15424050 AGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
15424115 TGCGAGTTTGACTATGT
66 TGCGAGTTTGACTATGT
** * ** * *
15424132 AGCACTAAGTGTGCGATTTGATTATG-TAGCACTAAGTGTGC-AAGTTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAA-TTGACCATACAGCACTAAG
15424195 TGTGCG
64 TGTGCG
15424201 GACTCAATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
81 3 0.05
82 55 0.95
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
TGCGAGTTTGACTATGT
Found at i:15428223 original size:40 final size:40
Alignment explanation
Indices: 15428139--15428322 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
15428129 TTGAATGCTG
* * * *
15428139 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
15428178 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
15428219 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
15428259 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
15428299 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15428323 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:15428276 original size:80 final size:81
Alignment explanation
Indices: 15428139--15428319 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
15428129 TTGAATGCTG
* *
15428139 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
15428203 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
15428219 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
15428280 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
15428299 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
15428320 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:15441973 original size:22 final size:22
Alignment explanation
Indices: 15441945--15441986 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15441935 CAAAAATAAC
*
15441945 TAAAATTCATCAAAATTAATTT
1 TAAAATTAATCAAAATTAATTT
*
15441967 TAAAATTAATTAAAATTAAT
1 TAAAATTAATCAAAATTAAT
15441987 CATGTTCGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAATTAATCAAAATTAATTT
Found at i:15442006 original size:20 final size:20
Alignment explanation
Indices: 15441981--15442022 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
15441971 ATTAATTAAA
15441981 ATTAATCATGTTCGTATTTT
1 ATTAATCATGTTCGTATTTT
15442001 ATTAATCATGTTCGTATTTT
1 ATTAATCATGTTCGTATTTT
15442021 AT
1 AT
15442023 GTACACTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.55
Consensus pattern (20 bp):
ATTAATCATGTTCGTATTTT
Found at i:15458679 original size:93 final size:93
Alignment explanation
Indices: 15458566--15458735 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
15458556 CGCCCATAAG
* * *
15458566 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCA
15458631 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
15458659 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCA
15458724 ACGAGTTCGGAT
66 ACGAGTTCGGAT
15458736 ACTCAACCAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:15458734 original size:46 final size:46
Alignment explanation
Indices: 15458559--15458734 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
15458549 TGTAACCCGC
* * *
15458559 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
15458605 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
15458655 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
15458698 CCATAAGTGAACTCGGACTCAAATCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
15458735 TACTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:15466175 original size:46 final size:46
Alignment explanation
Indices: 15466108--15466232 Score: 214
Period size: 46 Copynumber: 2.7 Consensus size: 46
15466098 ACCCGCCCAT
* * *
15466108 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAG
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAG
*
15466154 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAG
15466200 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15466233 TCTCAACCAT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAG
Found at i:15479715 original size:31 final size:31
Alignment explanation
Indices: 15479662--15479729 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
15479652 CTTAACAACT
15479662 AGTGACATTAATAAAAACTTTTGAATAGTTC
1 AGTGACATTAATAAAAACTTTTGAATAGTTC
* *
15479693 AGTGAC-TTAAATGAAAAGTTTTGAATAGTTC
1 AGTGACATT-AATAAAAACTTTTGAATAGTTC
*
15479724 AATGAC
1 AGTGAC
15479730 CATTTTTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (31 bp):
AGTGACATTAATAAAAACTTTTGAATAGTTC
Found at i:15480287 original size:25 final size:24
Alignment explanation
Indices: 15480234--15480278 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
15480224 AAACTTCAAA
15480234 ATATTTTTTATTTAAATTAAAAAAT
1 ATATTTTTTATTT-AATTAAAAAAT
15480259 ATATTTTTTA-TT-ATTAAAAA
1 ATATTTTTTATTTAATTAAAAA
15480279 TATTTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTTTTTATTTAATTAAAAAAT
Found at i:15480337 original size:15 final size:16
Alignment explanation
Indices: 15480319--15480349 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15480309 TCTTATTTCA
15480319 TATTTTT-ATATTATT
1 TATTTTTAATATTATT
15480334 TATTTTTAATATTATT
1 TATTTTTAATATTATT
15480350 ATTCTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTTTAATATTATT
Found at i:15480461 original size:17 final size:18
Alignment explanation
Indices: 15480435--15480480 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
15480425 AAATAATAAC
15480435 AAAA-TTTAAAAAT-ACT
1 AAAATTTTAAAAATCACT
* *
15480451 AACATTTTAAAAATCTCT
1 AAAATTTTAAAAATCACT
15480469 AAAATTTTAAAA
1 AAAATTTTAAAA
15480481 TTTCTCATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 3 0.12
17 9 0.36
18 13 0.52
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTTTAAAAATCACT
Found at i:15482951 original size:38 final size:39
Alignment explanation
Indices: 15482886--15482963 Score: 131
Period size: 38 Copynumber: 2.0 Consensus size: 39
15482876 TTTTGAAACC
*
15482886 ATTAACTATTTTTTTCTTTTTGGTTACATGAACCAATTA
1 ATTAACTATCTTTTTCTTTTTGGTTACATGAACCAATTA
*
15482925 ATTAACTCTCTTTTT-TTTTTGGTTACATGAACCAATTA
1 ATTAACTATCTTTTTCTTTTTGGTTACATGAACCAATTA
15482963 A
1 A
15482964 CTTTGATTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 24 0.65
39 13 0.35
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (39 bp):
ATTAACTATCTTTTTCTTTTTGGTTACATGAACCAATTA
Found at i:15483086 original size:27 final size:27
Alignment explanation
Indices: 15483039--15483102 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
15483029 AAATATTCTC
15483039 TAAATTAAT-AAATATTAATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
*
15483065 TAAATTAATAAAATATTCATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
*
15483092 TAAACTAATAA
1 TAAATTAATAA
15483103 CCCTGATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 9 0.26
27 26 0.74
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATCGA
Found at i:15487425 original size:22 final size:22
Alignment explanation
Indices: 15487383--15487425 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
15487373 AGATAAAATG
* *
15487383 CAGAACATATCAGATATAGATA
1 CAGAACAAATCAGAAATAGATA
15487405 CAGAACAAATCA-AAATCAGAT
1 CAGAACAAATCAGAAAT-AGAT
15487426 GCAGTTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (22 bp):
CAGAACAAATCAGAAATAGATA
Found at i:15488165 original size:63 final size:63
Alignment explanation
Indices: 15488098--15488236 Score: 136
Period size: 63 Copynumber: 2.2 Consensus size: 63
15488088 TCTCTCACAT
* * * * *
15488098 AGCCTAGATACACACCTGTGTCTATGGCTCACGTGACACCAATTCACAAACAGTGAGTTACAC
1 AGCCTAGACACACACCTATGTCCATGGCTCACGTGACACCAAATCACAAACAATGAGTTACAC
* * * *** **
15488161 AGCCTGGACACACGCCTATGTCCCTGGCTTGTGTGACATTAAATCACAAACAATGAGTTACAC
1 AGCCTAGACACACACCTATGTCCATGGCTCACGTGACACCAAATCACAAACAATGAGTTACAC
* *
15488224 GGCCT-GGCACACA
1 AGCCTAGACACACA
15488237 ATCAGTGTGG
Statistics
Matches: 60, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
62 6 0.10
63 54 0.90
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (63 bp):
AGCCTAGACACACACCTATGTCCATGGCTCACGTGACACCAAATCACAAACAATGAGTTACAC
Found at i:15490852 original size:29 final size:29
Alignment explanation
Indices: 15490819--15490885 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
15490809 CATGGCCTAA
* **
15490819 CACATGGCTAGCCATACACCCGTGTGGCT
1 CACATGGCTAACCATACACCCGTGCAGCT
* *
15490848 CACATAGCTAACCATATACCCGTGCAGCT
1 CACATGGCTAACCATACACCCGTGCAGCT
*
15490877 CACACGGCT
1 CACATGGCT
15490886 TGACACACGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.19
Consensus pattern (29 bp):
CACATGGCTAACCATACACCCGTGCAGCT
Found at i:15494633 original size:22 final size:20
Alignment explanation
Indices: 15494603--15494645 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
15494593 TTTTTTTATT
*
15494603 ACATATTTATTATGTGTCTTAA
1 ACATATTTA--ATGTGTCCTAA
*
15494625 ACATGTTTAATGTGTCCTAA
1 ACATATTTAATGTGTCCTAA
15494645 A
1 A
15494646 AGTGTGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (20 bp):
ACATATTTAATGTGTCCTAA
Found at i:15500214 original size:20 final size:21
Alignment explanation
Indices: 15500169--15500222 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
15500159 GCAATGCACT
15500169 AAATTTCAAAAC-CAATTTAC
1 AAATTTCAAAACTCAATTTAC
* **
15500189 AGATTTCAAAACTCTGTTTA-
1 AAATTTCAAAACTCAATTTAC
15500209 AAATTTTCAAAACT
1 AAA-TTTCAAAACT
15500223 TCGTTTAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (21 bp):
AAATTTCAAAACTCAATTTAC
Found at i:15522809 original size:19 final size:19
Alignment explanation
Indices: 15522782--15522818 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15522772 GTTTATTATG
*
15522782 AATACTAATAATAATAAAA
1 AATAATAATAATAATAAAA
15522801 AATAATAATAATAATAAA
1 AATAATAATAATAATAAA
15522819 GAAAGTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAATAATAATAATAAAA
Found at i:15523342 original size:25 final size:22
Alignment explanation
Indices: 15523311--15523368 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 22
15523301 ACAACGACTC
*
15523311 AATTTTAAATAAAATTATAATTAAT
1 AATTTTAAATAAAACTAT-A--AAT
*
15523336 AATTTTAAATTAAACTATAAAT
1 AATTTTAAATAAAACTATAAAT
15523358 AATTTTAAATA
1 AATTTTAAATA
15523369 TTAACTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.43
24 1 0.03
25 16 0.53
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTTTAAATAAAACTATAAAT
Found at i:15531159 original size:11 final size:11
Alignment explanation
Indices: 15531145--15531180 Score: 58
Period size: 10 Copynumber: 3.5 Consensus size: 11
15531135 TATTTTTAAT
15531145 TTTTTTTATAA
1 TTTTTTTATAA
15531156 -TTTTTTAT-A
1 TTTTTTTATAA
15531165 TTTTTTTATAA
1 TTTTTTTATAA
15531176 TTTTT
1 TTTTT
15531181 ACGGATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 1 0.04
10 16 0.70
11 6 0.26
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTTATAA
Found at i:15531162 original size:20 final size:20
Alignment explanation
Indices: 15531136--15531180 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
15531126 TTCTTTCTAT
*
15531136 ATTTTTAAT-TTTTTTTATA
1 ATTTTTTATATTTTTTTATA
15531155 ATTTTTTATATTTTTTTATA
1 ATTTTTTATATTTTTTTATA
15531175 ATTTTT
1 ATTTTT
15531181 ACGGATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
ATTTTTTATATTTTTTTATA
Found at i:15537876 original size:27 final size:27
Alignment explanation
Indices: 15537825--15537946 Score: 118
Period size: 27 Copynumber: 4.5 Consensus size: 27
15537815 ATATCGAGTC
* * * * *
15537825 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCAACATAGTCAATT
* ** *
15537852 CGCACACTCAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAATT
* * * *
15537879 TGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCAACATAGTCAATT
*
15537906 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCAACATAGTCAATT
15537933 CGCACACTTAGTGC
1 CGCACACTTAGTGC
15537947 TGTACAATTT
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAATT
Found at i:15545858 original size:27 final size:27
Alignment explanation
Indices: 15545828--15546005 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
15545818 ATATTGAGTC
* * * *
15545828 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
15545855 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
15545882 CGCACACTTAGTGCTTCATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* ** * *
15545910 CGCACACTCAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
15545937 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
15545964 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15545991 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15546006 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:15545967 original size:82 final size:81
Alignment explanation
Indices: 15545849--15546004 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
15545839 TGCTATATAA
**
15545849 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTTCATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
15545914 CACTCAGTGCCGCATGG
65 CACTCAGTGCCGCATGG
* * **
15545931 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
15545995 CACTTAGTGC
65 CACTCAGTGC
15546005 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTCAGTGCCGCATGG
Found at i:15552667 original size:24 final size:23
Alignment explanation
Indices: 15552640--15552685 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
15552630 CCTGTTACAT
* *
15552640 GGCTCTTTGTGAGCATTCTTGATA
1 GGCTCTTCGTGAGC-TTCCTGATA
15552664 GGCTCTTCGTGAGCTTCCTGAT
1 GGCTCTTCGTGAGCTTCCTGAT
15552686 TAAAAGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.13, C:0.22, G:0.26, T:0.39
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCTGATA
Found at i:15557049 original size:12 final size:12
Alignment explanation
Indices: 15557032--15557059 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15557022 AGACGGTTTA
15557032 GTGACTAATCGT
1 GTGACTAATCGT
15557044 GTGACTAATCGT
1 GTGACTAATCGT
15557056 GTGA
1 GTGA
15557060 GCGAAGTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (12 bp):
GTGACTAATCGT
Found at i:15558379 original size:17 final size:16
Alignment explanation
Indices: 15558346--15558389 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
15558336 ATACGATGTT
*
15558346 TTGGATATTAGATTAAA
1 TTGGATGTTA-ATTAAA
15558363 TTGTGATGTTAATTAAA
1 TTG-GATGTTAATTAAA
15558380 TTGGATGTTA
1 TTGGATGTTA
15558390 TAATTGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 7 0.28
17 12 0.48
18 6 0.24
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (16 bp):
TTGGATGTTAATTAAA
Found at i:15558818 original size:25 final size:25
Alignment explanation
Indices: 15558790--15558838 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
15558780 TATGTGTATA
15558790 TGACATGAATTATAATCTTGAAAGG
1 TGACATGAATTATAATCTTGAAAGG
15558815 TGACATGAATTATAATCTTGAAAG
1 TGACATGAATTATAATCTTGAAAG
15558839 TTAACACGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (25 bp):
TGACATGAATTATAATCTTGAAAGG
Found at i:15560275 original size:38 final size:38
Alignment explanation
Indices: 15560224--15560301 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
15560214 CTCAGACTGA
15560224 ATGTAGCATGCTCAGAGTGTAAAAATACATGCCACTTT
1 ATGTAGCATGCTCAGAGTGTAAAAATACATGCCACTTT
15560262 ATGTAGCATGCTCAGAGTGTAAAAATACATGCCACTTT
1 ATGTAGCATGCTCAGAGTGTAAAAATACATGCCACTTT
15560300 AT
1 AT
15560302 AACCTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (38 bp):
ATGTAGCATGCTCAGAGTGTAAAAATACATGCCACTTT
Found at i:15561732 original size:42 final size:43
Alignment explanation
Indices: 15561665--15561764 Score: 114
Period size: 42 Copynumber: 2.3 Consensus size: 43
15561655 GACTTATTAT
* *
15561665 TTACGTGTAAGACCATGTCTAGGACA-TCGACATCG-TATTTGA
1 TTACATGTAAGACCATATCTAGGACAGT-GACATCGATATTTGA
* * * * *
15561707 TTTCATGTAAGACCCTATCTGGGACAGTGGCATGGATATTTGA
1 TTACATGTAAGACCATATCTAGGACAGTGACATCGATATTTGA
15561750 TTACATGTAAGACCA
1 TTACATGTAAGACCA
15561765 CGTCTGAGAA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 26 0.55
43 21 0.45
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCATATCTAGGACAGTGACATCGATATTTGA
Found at i:15561957 original size:18 final size:18
Alignment explanation
Indices: 15561930--15561964 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15561920 GTAAGTATAT
*
15561930 GTACAGTTGATGATATGC
1 GTACAATTGATGATATGC
15561948 GTACAATTGATGATATG
1 GTACAATTGATGATATG
15561965 TGTTATATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTACAATTGATGATATGC
Found at i:15568590 original size:20 final size:20
Alignment explanation
Indices: 15568562--15568611 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
15568552 ATGTTGTCCT
* * *
15568562 ATGAGTAGTGGGGTCAAGTC
1 ATGAATAGTGGAGTCAAATC
15568582 ATGAATAGTGGAGTCAAATC
1 ATGAATAGTGGAGTCAAATC
*
15568602 ATGAACAGTG
1 ATGAATAGTG
15568612 ATAATATGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.24
Consensus pattern (20 bp):
ATGAATAGTGGAGTCAAATC
Found at i:15571143 original size:50 final size:50
Alignment explanation
Indices: 15570978--15571360 Score: 324
Period size: 50 Copynumber: 7.8 Consensus size: 50
15570968 AGGGTTATTC
* * * * *
15570978 GAGAGCTAATGTAAGACCATGTCTTGGATATGGCATTGGC-CTCG---GCAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-GATAG-AT
* *
15571026 GTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAT-G-T
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGAT
* * * * *
15571074 GACTA-CTAGTGTAAGACCATGTATGGCACATTGCATCGGCACTGATAGAT
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGAT
* * * *
15571124 GAGAGCCAGTGTAAGACCATGTCT-GGACAAGGCATCGGCACAGATGGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGAT
* * * * * *
15571173 GAGAGTCAGTGTAAGACCATGTTTGGGACATGGCATTGGC-CTCGACATAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-GATAGAT
* * * *
15571223 GAGATCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGC-CTCGATACAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-GATAGAT
* * * * **
15571273 GATAGTCAGTGTAAGACCATGTCTGAGACATGGCATCGACTTTGATACG-T
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATA-GAT
*
15571323 --GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
15571361 TTTCTACCCT
Statistics
Matches: 270, Mismatches: 54, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
48 106 0.39
49 46 0.17
50 117 0.43
51 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGAT
Found at i:15574260 original size:27 final size:26
Alignment explanation
Indices: 15574212--15574263 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
15574202 GCGAGGCTGC
*
15574212 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
15574238 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
15574264 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:15584590 original size:50 final size:49
Alignment explanation
Indices: 15584471--15584754 Score: 270
Period size: 50 Copynumber: 5.8 Consensus size: 49
15584461 AGGGTCATTC
* * *
15584471 GAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGATG-T
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATGAT
* * * *
15584519 GAGTGCTAGTGTAAGACCATGTCTGGGACATGGCGTTGACACTGATAGAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGAT-GAT
* * * *
15584569 GAGAGCCAGTGAAAGACCATGTCTGGGACATGGCAT-TAGCACAGATGGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CACTGAT-GAT
* * * * *
15584619 GAGAGTCAGTGTAAAACCATGTCTGGGACATGGCGTCGGC-CTCGATACAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACT-GAT-GAT
* * * **
15584669 GATAGTCAGTGTAAGACCATGTCTGGGACATAGCATCGACTTTGAT-AT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATGAT
* * **
15584717 GTGAGCTAGTGTAAGACCATGTCTGGGACGGGGCATCG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
15584755 GCTTCCTACC
Statistics
Matches: 194, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
48 74 0.38
49 3 0.02
50 116 0.60
51 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (49 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATGAT
Found at i:15587408 original size:24 final size:24
Alignment explanation
Indices: 15587354--15587408 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
15587344 ATTGTTACTC
15587354 TCTTCTCTTATTCTTTCTTAAAAAT
1 TCTTCTCTTATTCTTTCTT-AAAAT
*
15587379 TC-TCTCTTCTTCTTTCTCT-AAAT
1 TCTTCTCTTATTCTTTCT-TAAAAT
15587402 TCTTCTC
1 TCTTCTC
15587409 AAGATTGTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 6 0.22
24 18 0.67
25 3 0.11
ACGTcount: A:0.16, C:0.27, G:0.00, T:0.56
Consensus pattern (24 bp):
TCTTCTCTTATTCTTTCTTAAAAT
Found at i:15594678 original size:48 final size:46
Alignment explanation
Indices: 15594622--15594750 Score: 152
Period size: 48 Copynumber: 2.8 Consensus size: 46
15594612 CTCAATTGAT
15594622 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTTATCC-CCG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAAC---TCCTCCG
* ** *
15594670 GAGTACCTATACCATGGCCCGTGGCCAAATTAAGGTAACTCCTCCG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCCTCCG
* * **
15594716 AAGTGCGTATAATATGGCCCGAAGCCAAATCAAGG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGG
15594751 CATAACTTGC
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 3 0.04
46 30 0.44
48 35 0.51
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (46 bp):
AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCCTCCG
Found at i:15600955 original size:49 final size:47
Alignment explanation
Indices: 15600861--15601375 Score: 877
Period size: 47 Copynumber: 10.8 Consensus size: 47
15600851 ATTTAGGATT
15600861 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
15600908 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
15600957 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
15601004 CAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
15601051 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
15601100 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
15601149 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
15601198 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
15601245 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
15601292 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
15601339 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
15601376 TCCCGAAGGG
Statistics
Matches: 452, Mismatches: 12, Indels: 8
0.96 0.03 0.02
Matches are distributed among these distances:
47 260 0.58
49 192 0.42
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:15601210 original size:241 final size:239
Alignment explanation
Indices: 15600861--15601375 Score: 912
Period size: 241 Copynumber: 2.2 Consensus size: 239
15600851 ATTTAGGATT
15600861 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
15600924 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
66 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
15600989 ATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
131 ATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
* *
15601054 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
196 TGTGATGAATGTGAAAGTG--TATATATGTGACAAGGCCGAATGGC
15601100 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
15601165 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
66 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
*
15601230 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
131 ATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
* *
15601295 TGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
196 TGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGC
* * *
15601339 CAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
15601376 TCCCGAAGGG
Statistics
Matches: 266, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
237 10 0.04
238 1 0.00
239 66 0.25
241 189 0.71
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (239 bp):
CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
ATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
TGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGC
Found at i:15621104 original size:27 final size:27
Alignment explanation
Indices: 15621082--15621203 Score: 172
Period size: 27 Copynumber: 4.5 Consensus size: 27
15621072 AGTACCCCCA
*
15621082 ATTTACATAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
15621109 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* ** *
15621136 ATTTATAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
**
15621163 ATTTACAGAATTATTGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
15621190 ATTTACAAAATTAC
1 ATTTACAGAATTAC
15621204 TAAAATACCC
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:15621121 original size:54 final size:54
Alignment explanation
Indices: 15621063--15621175 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 54
15621053 CGACTTGTAA
* *
15621063 AATTACCAAAGTACCCCCAATTTACATAATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCCCAATTTACAGAATTACCATTTTACCCTCGATTTACAG
**** * * * * *
15621117 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAG
1 AATTACCAAAGTACCCCCAATTTACAGAATTACCATTTTACCCTCGATTTACAG
15621171 AATTA
1 AATTA
15621176 TTGTTTTACC
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (54 bp):
AATTACCAAAGTACCCCCAATTTACAGAATTACCATTTTACCCTCGATTTACAG
Found at i:15621213 original size:54 final size:54
Alignment explanation
Indices: 15621101--15621231 Score: 165
Period size: 54 Copynumber: 2.4 Consensus size: 54
15621091 ATTACCGTTT
* * * ***
15621101 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
**
15621155 TACCCTTGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
*
15621209 TACCCTT-AGTTTACAAAATTACC
1 TACCCTTGA-TTTACAGAATTACC
15621232 AAAATACCCT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.02
54 64 0.98
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:15621229 original size:81 final size:81
Alignment explanation
Indices: 15621082--15621230 Score: 174
Period size: 81 Copynumber: 1.8 Consensus size: 81
15621072 AGTACCCCCA
* * **** * * *
15621082 ATTTACATAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAAT
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTAGATTTACAAAAT
15621147 TACTATTTTACCCTTG
66 TACTATTTTACCCTTG
** *
15621163 ATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAG-TTTACAAAA
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCC-TAGATTTACAAAA
15621227 TTAC
65 TTAC
15621231 CAAAATACCC
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
81 53 0.96
82 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.40
Consensus pattern (81 bp):
ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTAGATTTACAAAAT
TACTATTTTACCCTTG
Found at i:15621240 original size:54 final size:54
Alignment explanation
Indices: 15621182--15621512 Score: 244
Period size: 54 Copynumber: 6.1 Consensus size: 54
15621172 ATTATTGTTT
* * **
15621182 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * * *
15621236 TACCCTCGA-TCAGTAAAATTACCGAAATA-CCTTGGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *
15621289 TACTCT-GGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * * *
15621342 TACCACT-GGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTCGATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * *
15621396 TACCC-CTGATTTATAAAATTA-CAGAAATACCCTTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAATACCC-TT-AGTTTGT-AAAATTACCA-AAA
* * * * ** * * *
15621453 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
*
15621507 CACCCT
1 TACCCT
15621513 TTTAGGGTGA
Statistics
Matches: 215, Mismatches: 48, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
52 16 0.07
53 50 0.23
54 101 0.47
55 6 0.03
56 8 0.04
57 34 0.16
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
Done.