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 16 of 255
Found at i:4326649 original size:44 final size:46
Alignment explanation
Indices: 4326569--4326662 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
4326559 TGAATTTTTT
* *
4326569 AAAACATGAAATTTTTTAAAAAACACGAGAATTTTTTGAAAACACG
1 AAAACATGAAAATTTTGAAAAAACACGAGAATTTTTTGAAAACACG
*
4326615 AAAACATGAAAATTTTGAAAACACA-G-GTAA-TTTTTGAAAACACG
1 AAAACATGAAAATTTTGAAAAAACACGAG-AATTTTTTGAAAACACG
4326659 AAAA
1 AAAA
4326663 TTTCTGAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 19 0.43
45 3 0.07
46 22 0.50
ACGTcount: A:0.52, C:0.11, G:0.12, T:0.26
Consensus pattern (46 bp):
AAAACATGAAAATTTTGAAAAAACACGAGAATTTTTTGAAAACACG
Found at i:4326725 original size:23 final size:24
Alignment explanation
Indices: 4326695--4326755 Score: 99
Period size: 23 Copynumber: 2.6 Consensus size: 24
4326685 TTGTTTTTTG
4326695 TTTT-ATTTTAAAACACGAAAA-T
1 TTTTCATTTTAAAACACGAAAATT
*
4326717 TTTTCATTTGAAAACACGAAAATT
1 TTTTCATTTTAAAACACGAAAATT
4326741 TTTTCATTTTAAAAC
1 TTTTCATTTTAAAAC
4326756 GCGATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.11
23 16 0.46
24 15 0.43
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (24 bp):
TTTTCATTTTAAAACACGAAAATT
Found at i:4326765 original size:23 final size:23
Alignment explanation
Indices: 4326695--4326755 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 23
4326685 TTGTTTTTTG
*
4326695 TTTT-ATTTTAAAACACGAAAAT
1 TTTTCATTTTAAAACACGAAATT
*
4326717 TTTTCATTTGAAAACACGAAAATT
1 TTTTCATTTTAAAACACG-AAATT
4326741 TTTTCATTTTAAAAC
1 TTTTCATTTTAAAAC
4326756 GCGATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 4 0.12
23 12 0.35
24 18 0.53
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (23 bp):
TTTTCATTTTAAAACACGAAATT
Found at i:4327426 original size:14 final size:14
Alignment explanation
Indices: 4327407--4327437 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4327397 GAGCTGCACG
4327407 GGTGGGCCACTGCT
1 GGTGGGCCACTGCT
*
4327421 GGTGGGCTACTGCT
1 GGTGGGCCACTGCT
4327435 GGT
1 GGT
4327438 CCACCAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.23, G:0.45, T:0.26
Consensus pattern (14 bp):
GGTGGGCCACTGCT
Found at i:4327497 original size:7 final size:7
Alignment explanation
Indices: 4327458--4327488 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
4327448 TAGCCTGCTG
4327458 TTTTTTA
1 TTTTTTA
4327465 TTTTTTA
1 TTTTTTA
4327472 TTTTTTA
1 TTTTTTA
4327479 TTTTTTA
1 TTTTTTA
4327486 TTT
1 TTT
4327489 CTTTTTTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:4327504 original size:21 final size:21
Alignment explanation
Indices: 4327480--4327524 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
4327470 TATTTTTTAT
4327480 TTTTTATT-TCTTTTTTCTCTC
1 TTTTTATTCTCTTTTTTCT-TC
*
4327501 TTTTTCTTCCTCTTTTTTCTTC
1 TTTTTATT-CTCTTTTTTCTTC
4327523 TT
1 TT
4327525 CTCTTCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 4 0.19
23 10 0.48
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTATTCTCTTTTTTCTTC
Found at i:4327529 original size:21 final size:23
Alignment explanation
Indices: 4327488--4327535 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
4327478 ATTTTTTATT
*
4327488 TCTTTTTTCTCTCTTTTTCTTCC
1 TCTTTTTTCTCTCTTTCTCTTCC
*
4327511 TCTTTTTTCT-TC-TTCTCTTCT
1 TCTTTTTTCTCTCTTTCTCTTCC
4327532 TCTT
1 TCTT
4327536 GTCTCAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 2 0.09
23 10 0.43
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (23 bp):
TCTTTTTTCTCTCTTTCTCTTCC
Found at i:4328112 original size:30 final size:30
Alignment explanation
Indices: 4328072--4328173 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 30
4328062 ATTTAGGATT
* * *
4328072 AAAATGAAATTTAATGAAATTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* *
4328102 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* **
4328132 AAAATGAAATTT-AGGAAAAGTTTGGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAAGGGTC
*
4328162 AAAATGCAATTT
1 AAAATGAAATTT
4328174 TTATTTTTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 2 0.03
30 58 0.97
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAAGGGTC
Found at i:4328627 original size:54 final size:55
Alignment explanation
Indices: 4328443--4328661 Score: 308
Period size: 54 Copynumber: 4.1 Consensus size: 55
4328433 CACGTGAGCC
* *
4328443 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AA
*
4328498 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAA
* * *
4328550 AAGGCTCAACTTACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
4328604 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
4328659 AAG
1 AAG
4328662 TAGAAATTGA
Statistics
Matches: 148, Mismatches: 8, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
50 14 0.09
52 34 0.23
54 51 0.34
55 37 0.25
57 6 0.04
58 6 0.04
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:4328639 original size:106 final size:104
Alignment explanation
Indices: 4328443--4328653 Score: 325
Period size: 107 Copynumber: 2.0 Consensus size: 104
4328433 CACGTGAGCC
* *
4328443 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT-CAAAAGGCTCAAC
*
4328508 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAA
65 TCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAA
* * *
4328550 AAGGCTCAACTTACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTCAAAAGGCTCAAC
4328614 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
65 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
4328654 TTGAAAAGTA
Statistics
Matches: 97, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
104 16 0.16
106 35 0.36
107 36 0.37
108 10 0.10
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (104 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTCAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
Found at i:4328659 original size:14 final size:14
Alignment explanation
Indices: 4328640--4328674 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4328630 GAGTTGATTT
4328640 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
4328654 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
4328668 TTGAAAA
1 TTGAAAA
4328675 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:4328906 original size:85 final size:87
Alignment explanation
Indices: 4328762--4329009 Score: 308
Period size: 85 Copynumber: 2.8 Consensus size: 87
4328752 AACAGAAATT
* * *
4328762 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
4328827 TTGATTTGAAAAG-TAGAATT-AG
65 TTGATTTGAAAAGATAG-ATTGAA
* * * *
4328849 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
4328912 TTGATTTTTGAAAAGCATAGATTGAA
65 TTGA--TTTGAAAAG-ATAGATTGAA
*
4328938 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
4329002 GTTGATTT
64 GTTGATTT
4329010 TTGAAAAACA
Statistics
Matches: 138, Mismatches: 13, Indels: 18
0.82 0.08 0.11
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 32 0.23
88 3 0.02
89 31 0.22
91 33 0.24
93 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTGAAAAGATAGATTGAA
Found at i:4328955 original size:15 final size:16
Alignment explanation
Indices: 4328922--4328955 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4328912 TTGATTTTTG
* *
4328922 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
4328938 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
4328954 AA
1 AA
4328956 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:4328997 original size:91 final size:88
Alignment explanation
Indices: 4328762--4329016 Score: 324
Period size: 91 Copynumber: 2.9 Consensus size: 88
4328752 AACAGAAATT
* * *
4328762 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
4328827 TTGA--TTTGAAAAGTAGAATTAG
65 TTGATTTTTGAAAAGTAGAATTAA
* * * *
4328849 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
4328912 TTGATTTTTGAAAAGCATAG-ATTGAA
65 TTGATTTTTGAAAAG--TAGAATT-AA
*
4328938 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
4329002 GTTGATTTTTGAAAA
64 GTTGATTTTTGAAAA
4329017 ACAAAAATTA
Statistics
Matches: 145, Mismatches: 13, Indels: 16
0.83 0.07 0.09
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 32 0.22
88 3 0.02
89 28 0.19
91 43 0.30
93 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGTAGAATTAA
Found at i:4329314 original size:192 final size:192
Alignment explanation
Indices: 4328974--4329968 Score: 1870
Period size: 192 Copynumber: 5.2 Consensus size: 192
4328964 CATGTGAGCC
** *
4328974 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
*
4329039 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
* * ***
4329104 AACTCATTTCTTGCAATATGAGTTGATTTTTTTTTTAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
4329167 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
4329232 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
4329297 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
4329358 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
4329423 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
4329488 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
4329550 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
4329615 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
4329680 ACTCACTTCTCGCAATATGAGTTGA-TTTTTT-AAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
4329740 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
4329805 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
4329870 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
*
4329932 GAGGCTCAACTCATTTCTCGCAATATGAGTAGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
4329969 CCTTGGAAAG
Statistics
Matches: 789, Mismatches: 10, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
190 184 0.23
191 200 0.25
192 375 0.48
193 30 0.04
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:4329416 original size:122 final size:122
Alignment explanation
Indices: 4329290--4329516 Score: 305
Period size: 122 Copynumber: 1.9 Consensus size: 122
4329280 GCGTGCCCCG
* * * * **
4329290 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAAA-A-AATTTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCAACGT
* ** *
4329353 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
64 GCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* **
4329412 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
4329477 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
4329517 TTTAAAAAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
120 6 0.07
121 3 0.03
122 81 0.90
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.30
Consensus pattern (122 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:4329837 original size:382 final size:383
Alignment explanation
Indices: 4328974--4329968 Score: 1884
Period size: 383 Copynumber: 2.6 Consensus size: 383
4328964 CATGTGAGCC
** *
4328974 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
*
4329039 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
* * ***
4329104 AACTCATTTCTTGCAATATGAGTTGATTTTTTTTTTAAATTTAAAAATACCTCAACGTGTCTTGA
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGA
4329169 GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCAC
195 GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCAC
4329234 CTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAAC
260 CTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAAC
4329299 TCACTTCTCGCAATATGAGTTGATTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
325 TCACTTCTCGCAATATGAGTTGATTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
4329358 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
4329423 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
4329488 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
4329553 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
196 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
4329618 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
261 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
4329683 CACTTCTCGCAATATGAGTTGATTTTTT-AAAAATTTAAAAATACCTCAACGTGTCTT
326 CACTTCTCGCAATATGAGTTGATTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
4329740 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
4329805 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
4329870 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
*
4329935 GCTCAACTCATTTCTCGCAATATGAGTAGATTTT
196 GCTCAACTCATTTCTCGCAATATGAGTTGATTTT
4329969 CCTTGGAAAG
Statistics
Matches: 601, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
382 257 0.43
383 314 0.52
384 30 0.05
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (383 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
CACTTCTCGCAATATGAGTTGATTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:4346521 original size:26 final size:27
Alignment explanation
Indices: 4346490--4346540 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
4346480 TATAATATTA
*
4346490 TTATATTATA-AATTTATTTA-AAATAT
1 TTATATTAAATAATTT-TTTATAAATAT
4346516 TTATATTAAATAATTTTTTATAAAT
1 TTATATTAAATAATTTTTTATAAAT
4346541 TGATAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TTATATTAAATAATTTTTTATAAATAT
Found at i:4346608 original size:19 final size:20
Alignment explanation
Indices: 4346575--4346612 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4346565 GAAGGAAGAT
*
4346575 ATTTTATATTTTTGTTTGAA
1 ATTTTATATTGTTGTTTGAA
4346595 ATTTT-TATTGTTGTTTGA
1 ATTTTATATTGTTGTTTGA
4346613 GGTGGGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (20 bp):
ATTTTATATTGTTGTTTGAA
Found at i:4347340 original size:40 final size:40
Alignment explanation
Indices: 4347296--4347376 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
4347286 TCAAATACAT
4347296 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
* * * * **
4347336 TTAAAACAATTCTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
4347376 T
1 T
4347377 AATAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:4347385 original size:20 final size:19
Alignment explanation
Indices: 4347362--4347419 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
4347352 AACAATACAC
4347362 AAATTGAAAATATATAATAA
1 AAATTGAAAATATA-AATAA
** *
4347382 AAATTGATTATATTAAAATTA
1 AAATTGAAAATA-T-AAATAA
4347403 AAATT-AAAATATAAATA
1 AAATTGAAAATATAAATA
4347420 TAATTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 4 0.13
19 1 0.03
20 14 0.47
21 10 0.33
22 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
AAATTGAAAATATAAATAA
Found at i:4347427 original size:23 final size:23
Alignment explanation
Indices: 4347398--4347444 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4347388 ATTATATTAA
* *
4347398 AATTAAAATTAAAATATAAATAT
1 AATTAAAAATAAAAAATAAATAT
*
4347421 AATTAAAAATAAAAAATATATAT
1 AATTAAAAATAAAAAATAAATAT
4347444 A
1 A
4347445 TTTATTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AATTAAAAATAAAAAATAAATAT
Found at i:4356528 original size:22 final size:22
Alignment explanation
Indices: 4356486--4356528 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4356476 TATTTTTTCA
* *
4356486 ATTTTTTAAATTAGTTATAATT
1 ATTTTTAAAATTAATTATAATT
4356508 ATTTTTAAATATTAATT-TAAT
1 ATTTTTAAA-ATTAATTATAAT
4356529 AATATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTTAAAATTAATTATAATT
Found at i:4363236 original size:83 final size:83
Alignment explanation
Indices: 4363115--4363279 Score: 249
Period size: 83 Copynumber: 2.0 Consensus size: 83
4363105 AGTGATATAA
* ** *
4363115 ATACACTTATTGGTACTGTACTCCTTATAAACCATTACAACCTCACTAGTGCATCATCTAGTGAA
1 ATACACTTACTGGTACACTACTCCTTATAAACCATTACAACCTCACTAGTGCATCATCTAGTAAA
*
4363180 CTCACCAAAGGAACATCG
66 CTCACCAAAGAAACATCG
* * *
4363198 ATACACTTACTGGTACACTACTCCTTATTAACCGTTACAACCTCACTATTGCATCATCTAGTAAA
1 ATACACTTACTGGTACACTACTCCTTATAAACCATTACAACCTCACTAGTGCATCATCTAGTAAA
*
4363263 CTCACTAAAGAAACATC
66 CTCACCAAAGAAACATC
4363280 CACTTTACCT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 73 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (83 bp):
ATACACTTACTGGTACACTACTCCTTATAAACCATTACAACCTCACTAGTGCATCATCTAGTAAA
CTCACCAAAGAAACATCG
Found at i:4367178 original size:15 final size:15
Alignment explanation
Indices: 4367148--4367187 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
4367138 CATAACCCCC
4367148 ATGTGAACCC-ATGT
1 ATGTGAACCCTATGT
4367162 ATGTGAACCCTATGT
1 ATGTGAACCCTATGT
*
4367177 ATATGAACCCT
1 ATGTGAACCCT
4367188 CATATATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (15 bp):
ATGTGAACCCTATGT
Found at i:4367197 original size:16 final size:15
Alignment explanation
Indices: 4367151--4367198 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
4367141 AACCCCCATG
* *
4367151 TGAACCC-ATGTATG
1 TGAACCCTATATATA
*
4367165 TGAACCCTATGTATA
1 TGAACCCTATATATA
4367180 TGAACCCTCATATATA
1 TGAACCCT-ATATATA
4367196 TGA
1 TGA
4367199 GAACCCTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 7 0.23
15 14 0.47
16 9 0.30
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (15 bp):
TGAACCCTATATATA
Found at i:4367204 original size:18 final size:16
Alignment explanation
Indices: 4367161--4367211 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
4367151 TGAACCCATG
*
4367161 TATGTGAACCCTATGTA
1 TATG-GAACCCTATATA
4367178 TAT-GAACCCTCATATA
1 TATGGAACCCT-ATATA
*
4367194 TATGAGAACCCTTTATA
1 TATG-GAACCCTATATA
4367211 T
1 T
4367212 GCAAACCCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 8 0.28
18 7 0.24
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (16 bp):
TATGGAACCCTATATA
Found at i:4370992 original size:92 final size:92
Alignment explanation
Indices: 4370835--4371012 Score: 320
Period size: 92 Copynumber: 1.9 Consensus size: 92
4370825 AAAGCAAAAG
* *
4370835 AATGGCTTTACAGGATCACTTCAGTGATCAATGTAATGCCTTCGACTTAGCCAAAACTCTTAAGC
1 AATGGCTTTACAGGATCACTTCAGTGATCAATGTAATGCCTTCAACTTAGCCAAAACTCCTAAGC
4370900 TGGGTCGGGGGTGTTACAAACTTGTAT
66 TGGGTCGGGGGTGTTACAAACTTGTAT
* *
4370927 AATGGCTTTACAGGATCACTTTAGTGATCAATGTAATGCCTTTAACTTAGCCAAAACTCCTAAGC
1 AATGGCTTTACAGGATCACTTCAGTGATCAATGTAATGCCTTCAACTTAGCCAAAACTCCTAAGC
4370992 TGGGTCGGGGGTGTTACAAAC
66 TGGGTCGGGGGTGTTACAAAC
4371013 CTGCATAGGT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 82 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (92 bp):
AATGGCTTTACAGGATCACTTCAGTGATCAATGTAATGCCTTCAACTTAGCCAAAACTCCTAAGC
TGGGTCGGGGGTGTTACAAACTTGTAT
Found at i:4371717 original size:29 final size:27
Alignment explanation
Indices: 4371651--4371719 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 27
4371641 TTCTTTCTAC
* *
4371651 ATTTGAAATTTAGTCCATTTACTTTTA
1 ATTTAAAATTTAGTCCATCTACTTTTA
* *
4371678 TTTCTAGAAATTTAGTCCCTCTACTTTTA
1 ATT-TA-AAATTTAGTCCATCTACTTTTA
4371707 GGATTTAAAATTT
1 --ATTTAAAATTT
4371720 CAAGTCCACT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 26 0.79
30 2 0.06
31 2 0.06
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (27 bp):
ATTTAAAATTTAGTCCATCTACTTTTA
Found at i:4379557 original size:16 final size:16
Alignment explanation
Indices: 4379536--4379567 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4379526 AGAAAGTGTC
4379536 AACACGATATCATTTA
1 AACACGATATCATTTA
4379552 AACACGATATCATTTA
1 AACACGATATCATTTA
4379568 TCCGTGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (16 bp):
AACACGATATCATTTA
Found at i:4382085 original size:21 final size:18
Alignment explanation
Indices: 4382039--4382072 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4382029 TATTTAATAT
*
4382039 AAAAT-CTTGAAATAAAA
1 AAAATACTTTAAATAAAA
4382056 AAAATACTTTAAATAAA
1 AAAATACTTTAAATAAA
4382073 CCAAAAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAATACTTTAAATAAAA
Found at i:4383451 original size:22 final size:22
Alignment explanation
Indices: 4383391--4383451 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
4383381 AATGGTCTTT
* *
4383391 TAGATAATTATAAAAAAAATTA
1 TAGAAAATTATAAAAATAATTA
*
4383413 TAGAAAATTACT-TAAATAATTA
1 TAGAAAATTA-TAAAAATAATTA
*
4383435 TTA-AGAATTATAAAAAT
1 -TAGAAAATTATAAAAAT
4383452 TATAAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 1 0.03
22 27 0.87
23 3 0.10
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (22 bp):
TAGAAAATTATAAAAATAATTA
Found at i:4383454 original size:9 final size:9
Alignment explanation
Indices: 4383405--4383459 Score: 56
Period size: 9 Copynumber: 5.6 Consensus size: 9
4383395 TAATTATAAA
4383405 AAAAATTAT
1 AAAAATTAT
4383414 AGAAAATTACTT
1 A-AAAATTA--T
4383426 AAATAATTATT
1 AAA-AATTA-T
*
4383437 AAGAATTAT
1 AAAAATTAT
4383446 AAAAATTAT
1 AAAAATTAT
4383455 AAAAA
1 AAAAA
4383460 ATATTAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 15 0.38
10 12 0.30
11 6 0.15
12 7 0.17
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:4383460 original size:10 final size:10
Alignment explanation
Indices: 4383404--4383461 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
4383394 ATAATTATAA
4383404 AAAAAATTAT
1 AAAAAATTAT
*
4383414 AGAAAATTACTT
1 AAAAAATTA--T
*
4383426 AAATAATTAT
1 AAAAAATTAT
* *
4383436 TAAGAATTAT
1 AAAAAATTAT
4383446 -AAAAATTAT
1 AAAAAATTAT
4383455 AAAAAAT
1 AAAAAAT
4383462 ATTAATTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.21
10 23 0.59
12 8 0.21
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:4389700 original size:18 final size:18
Alignment explanation
Indices: 4389677--4389727 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
4389667 TAGAATAATA
4389677 TATAAAAATGAAAAATTT
1 TATAAAAATGAAAAATTT
4389695 TATAAAAA--AATTAAATTT
1 TATAAAAATGAA--AAATTT
4389713 TA-AAAAATTGAAAAA
1 TATAAAAA-TGAAAAA
4389728 AGAATTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
16 2 0.07
17 5 0.18
18 19 0.68
20 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (18 bp):
TATAAAAATGAAAAATTT
Found at i:4390893 original size:20 final size:20
Alignment explanation
Indices: 4390868--4390927 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
4390858 TAGAAGACTG
4390868 AAATATATATATATAAATTT
1 AAATATATATATATAAATTT
* *
4390888 AAATATATATATATTATTTT
1 AAATATATATATATAAATTT
*
4390908 AAAT-T-TA-ACATAAATTT
1 AAATATATATATATAAATTT
4390925 AAA
1 AAA
4390928 AAGCATCTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 10 0.29
18 2 0.06
19 1 0.03
20 22 0.63
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATATATATATATAAATTT
Found at i:4390895 original size:18 final size:18
Alignment explanation
Indices: 4390872--4390927 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
4390862 AGACTGAAAT
4390872 ATATATATATAAATTTAA
1 ATATATATATAAATTTAA
*
4390890 ATATATATATATTATTTTAA
1 ATATATATATA--AATTTAA
* *
4390910 ATTTA-ACATAAATTTAA
1 ATATATATATAAATTTAA
4390927 A
1 A
4390928 AAGCATCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 7 0.22
18 11 0.34
19 4 0.12
20 10 0.31
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATATATATAAATTTAA
Found at i:4391203 original size:28 final size:25
Alignment explanation
Indices: 4391142--4391204 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 25
4391132 TTTGCTTTTT
4391142 AATATAAAATTAAAAAAAAACTTAC
1 AATATAAAATTAAAAAAAAACTTAC
4391167 ATATGATAAAATTTAAACACAAAATA-TTAC
1 A-AT-ATAAAA-TTAAA-A-AAAA-ACTTAC
4391197 AATATAAA
1 AATATAAA
4391205 GATGATATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
25 1 0.03
26 2 0.06
27 6 0.19
28 10 0.31
29 3 0.09
30 9 0.28
31 1 0.03
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (25 bp):
AATATAAAATTAAAAAAAAACTTAC
Found at i:4391789 original size:3 final size:3
Alignment explanation
Indices: 4391781--4391815 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
4391771 ACAGCTGCAC
* *
4391781 CTT CTT CTT CTT CTT CTT CTT CTT CCT CAT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
4391816 GTTCTAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (3 bp):
CTT
Found at i:4395236 original size:17 final size:16
Alignment explanation
Indices: 4395211--4395262 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
4395201 CCTTAAATCT
4395211 AAATGATCCAAATTCAA
1 AAATGATCCAAA-TCAA
* *
4395228 AAATAATCCAAACTCGA
1 AAATGATCCAAA-TCAA
*
4395245 AATTGATCCAAATCAA
1 AAATGATCCAAATCAA
4395261 AA
1 AA
4395263 TAAACAGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
16 5 0.17
17 24 0.83
ACGTcount: A:0.54, C:0.19, G:0.06, T:0.21
Consensus pattern (16 bp):
AAATGATCCAAATCAA
Found at i:4403837 original size:9 final size:9
Alignment explanation
Indices: 4403823--4403847 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4403813 TGTAACACAC
4403823 ATACATGCA
1 ATACATGCA
4403832 ATACATGCA
1 ATACATGCA
4403841 ATACATG
1 ATACATG
4403848 AAGAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (9 bp):
ATACATGCA
Found at i:4409281 original size:20 final size:20
Alignment explanation
Indices: 4409248--4409286 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4409238 ATTTTTTTAT
*
4409248 ATTTTTATACTTTTTAAATA
1 ATTTTTATACTTTTGAAATA
4409268 ATTTTTAT-CATTTTGAAAT
1 ATTTTTATAC-TTTTGAAAT
4409287 TTTAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTTTATACTTTTGAAATA
Found at i:4409289 original size:28 final size:28
Alignment explanation
Indices: 4409241--4409294 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
4409231 AAATAATATT
* * *
4409241 TTTTTATATTTTTATACTTTTTAAATAA
1 TTTTTATATTTTGATAATTTTAAAATAA
4409269 TTTTTATCATTTTGA-AATTTTAAAAT
1 TTTTTAT-ATTTTGATAATTTTAAAAT
4409295 TTTAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 16 0.73
29 6 0.27
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTTTATATTTTGATAATTTTAAAATAA
Found at i:4411159 original size:29 final size:30
Alignment explanation
Indices: 4411132--4411192 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
4411122 TAATATTATA
4411132 TTTTCTCATAAAAATATTAAAAAATTATAAT
1 TTTTCTCA-AAAAATATTAAAAAATTATAAT
* * *
4411163 TTTTTTCAAAAATTATT-AAAAATTAAAAT
1 TTTTCTCAAAAAATATTAAAAAATTATAAT
4411192 T
1 T
4411193 GATATAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 12 0.44
30 8 0.30
31 7 0.26
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (30 bp):
TTTTCTCAAAAAATATTAAAAAATTATAAT
Found at i:4411217 original size:20 final size:20
Alignment explanation
Indices: 4411194--4411231 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4411184 ATTAAAATTG
* *
4411194 ATATAAACTTTATAAAAATA
1 ATATAAAATTAATAAAAATA
4411214 ATATAAAATTAATAAAAA
1 ATATAAAATTAATAAAAA
4411232 CATATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATAAAATTAATAAAAATA
Found at i:4411986 original size:9 final size:9
Alignment explanation
Indices: 4411972--4412100 Score: 61
Period size: 9 Copynumber: 13.8 Consensus size: 9
4411962 CCAATAAATA
4411972 AAATTTTAT
1 AAATTTTAT
4411981 AAATTTTAT
1 AAATTTTAT
*
4411990 AAATTTATTT
1 AAATTT-TAT
*
4412000 AAA-ATTAT
1 AAATTTTAT
4412008 -AATTTT-T
1 AAATTTTAT
4412015 AGAATATTTAT
1 A-AAT-TTTAT
*
4412026 AAGTTTT-T
1 AAATTTTAT
*
4412034 ATAATATTCAT
1 A-AAT-TTTAT
*
4412045 AAGGTTTTAT
1 AA-ATTTTAT
*
4412055 GAATTTTTTAT
1 -AA-ATTTTAT
*
4412066 AATTTTTAT
1 AAATTTTAT
*
4412075 AAGTTTATAT
1 AAATTT-TAT
4412085 AAATTTT-T
1 AAATTTTAT
4412093 AATATTTT
1 AA-ATTTT
4412101 TATGTGAAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 26
0.71 0.10 0.20
Matches are distributed among these distances:
7 3 0.03
8 9 0.10
9 42 0.45
10 27 0.29
11 13 0.14
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.56
Consensus pattern (9 bp):
AAATTTTAT
Found at i:4411991 original size:19 final size:18
Alignment explanation
Indices: 4411969--4412100 Score: 63
Period size: 19 Copynumber: 7.0 Consensus size: 18
4411959 GAACCAATAA
*
4411969 ATAAAATTTTATAAATTTT
1 ATAAATTTTTA-AAATTTT
4411988 ATAAATTTATTTAAAA--TT
1 ATAAA-TT-TTTAAAATTTT
*
4412006 AT-AATTTTTAGAATATTT
1 ATAAATTTTTAAAAT-TTT
* * *
4412024 ATAAGTTTTTATAATATTC
1 ATAAATTTTTAAAAT-TTT
** *
4412043 ATAAGGTTTTATGAATTTT
1 ATAAATTTTTA-AAATTTT
* *
4412062 TTATAATTTTTATAAGTTTAT
1 ATA-AATTTTTA-AAATTT-T
*
4412083 ATAAATTTTTAATATTTT
1 ATAAATTTTTAAAATTTT
4412101 TATGTGAAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
15 6 0.07
16 2 0.02
17 2 0.02
18 9 0.10
19 36 0.41
20 26 0.30
21 7 0.08
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (18 bp):
ATAAATTTTTAAAATTTT
Found at i:4412036 original size:10 final size:9
Alignment explanation
Indices: 4412004--4412103 Score: 76
Period size: 9 Copynumber: 10.4 Consensus size: 9
4411994 TTATTTAAAA
4412004 TTATAATTT
1 TTATAATTT
* *
4412013 TTAGAATAT
1 TTATAATTT
4412022 TTATAAGTTT
1 TTATAA-TTT
*
4412032 TTATAATAT
1 TTATAATTT
* *
4412041 TCATAAGGTT
1 TTATAA-TTT
4412051 TTATGAATTTT
1 TTAT-AA-TTT
4412062 TTATAATTT
1 TTATAATTT
4412071 TTATAAGTTT
1 TTATAA-TTT
*
4412081 ATATAAATTT
1 TTAT-AATTT
4412091 TTA-ATATTT
1 TTATA-ATTT
4412100 TTAT
1 TTAT
4412104 GTGAAAAATA
Statistics
Matches: 71, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
8 1 0.01
9 35 0.49
10 25 0.35
11 10 0.14
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (9 bp):
TTATAATTT
Found at i:4412065 original size:30 final size:28
Alignment explanation
Indices: 4412021--4412093 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 28
4412011 TTTTAGAATA
*
4412021 TTTATAAGTTTTTATAATATTCATAAGGT
1 TTTATAATTTTTTATAATATTCATAA-GT
* *
4412050 TTTATGAATTTTTTATAATTTTTATAAGT
1 TTTAT-AATTTTTTATAATATTCATAAGT
*
4412079 TTATATAAATTTTTA
1 TT-TATAATTTTTTA
4412094 ATATTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 17 0.45
30 21 0.55
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (28 bp):
TTTATAATTTTTTATAATATTCATAAGT
Found at i:4412080 original size:29 final size:29
Alignment explanation
Indices: 4412043--4412103 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
4412033 TATAATATTC
* *
4412043 ATAAGGTTT-TATGAATTTTTTATAATTTTT
1 ATAA-GTTTATATAAATTTTTAAT-ATTTTT
4412073 ATAAGTTTATATAAATTTTTAATATTTTT
1 ATAAGTTTATATAAATTTTTAATATTTTT
4412102 AT
1 AT
4412104 GTGAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (29 bp):
ATAAGTTTATATAAATTTTTAATATTTTT
Found at i:4421307 original size:18 final size:19
Alignment explanation
Indices: 4421284--4421335 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
4421274 AGAAATATCT
* *
4421284 AAAAAATTTGTAAAA-TTA
1 AAAAAATATATAAAATTTA
4421302 AAAAAATATATAAAATTTA
1 AAAAAATATATAAAATTTA
4421321 AAAAGAATATATAAA
1 AAAA-AATATATAAA
4421336 GAATACTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 13 0.43
19 7 0.23
20 10 0.33
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAAATATATAAAATTTA
Found at i:4425284 original size:22 final size:22
Alignment explanation
Indices: 4425259--4425301 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4425249 TGTTGATGTG
*
4425259 TTGCTGTCATTTTGTTATTATA
1 TTGCTATCATTTTGTTATTATA
* *
4425281 TTGCTATTATTTTGTTGTTAT
1 TTGCTATCATTTTGTTATTAT
4425302 TATTTAGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.07, G:0.14, T:0.63
Consensus pattern (22 bp):
TTGCTATCATTTTGTTATTATA
Found at i:4435205 original size:38 final size:38
Alignment explanation
Indices: 4435156--4435249 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 38
4435146 AATATAAAGA
* *
4435156 ATATATAAGTATGTATATG-ATGTA-AAATATGCATAAAT
1 ATATATAAGTATGTATAAGAAT-TAGAAATATG-AAAAAT
*
4435194 ATATGTAAGTA--TATAAGAATTATGAAATATGAAAAAT
1 ATATATAAGTATGTATAAGAATTA-GAAATATGAAAAAT
*
4435231 ATATTTAAGTATGTATAAG
1 ATATATAAGTATGTATAAG
4435250 TACGTATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
36 7 0.15
37 17 0.36
38 17 0.36
39 6 0.13
ACGTcount: A:0.49, C:0.01, G:0.14, T:0.36
Consensus pattern (38 bp):
ATATATAAGTATGTATAAGAATTAGAAATATGAAAAAT
Found at i:4435308 original size:3 final size:3
Alignment explanation
Indices: 4435300--4435326 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4435290 AAGCATAAAC
4435300 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
4435327 CATTGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4444461 original size:89 final size:91
Alignment explanation
Indices: 4444350--4444549 Score: 230
Period size: 92 Copynumber: 2.2 Consensus size: 91
4444340 TTTATATTTT
* * **
4444350 TCAAGTTCATGGACTAAAATATAGACCTATTTGTCAAGTTCTAGT-AAA-TGGAC-CAAAAAAAA
1 TCAAGTTCAGGGACTAAAATATAGACCTAGTTGTCAAGTTAAAGTCAAAGTGGACTC---AAAAA
*
4444412 AATTACATGTA-TAAAGTGAACCTAATTG
63 AAGTACATGTACTAAAGTGAACCTAATTG
* **
4444440 TCAAGTTCAGGGA-TCAAATATAGATGTAGTTGTCAAGTTAAAGTACCAAAGTGGACTCAAAAAA
1 TCAAGTTCAGGGACTAAAATATAGACCTAGTTGTCAAGTTAAAGT--CAAAGTGGACTCAAAAAA
**
4444504 AGTACATGTACTAAAGTGAATTTAATTG
64 AGTACATGTACTAAAGTGAACCTAATTG
4444532 TCAAGTTCAGGGACTAAA
1 TCAAGTTCAGGGACTAAA
4444550 CATTATATTA
Statistics
Matches: 92, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
89 25 0.27
90 12 0.13
91 15 0.16
92 31 0.34
93 8 0.09
94 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (91 bp):
TCAAGTTCAGGGACTAAAATATAGACCTAGTTGTCAAGTTAAAGTCAAAGTGGACTCAAAAAAAG
TACATGTACTAAAGTGAACCTAATTG
Found at i:4449461 original size:48 final size:48
Alignment explanation
Indices: 4449406--4449502 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
4449396 AATAATCTAA
4449406 ACCTAAGCTACTAAAGCTAAAAATGTAATAATTAAATATAAAATATTT
1 ACCTAAGCTACTAAAGCTAAAAATGTAATAATTAAATATAAAATATTT
*
4449454 ACCTAAGCTACTAAAGCTAAAAATGTAATAATTAAATATAAGATATTT
1 ACCTAAGCTACTAAAGCTAAAAATGTAATAATTAAATATAAAATATTT
4449502 A
1 A
4449503 TAAAACAAGC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (48 bp):
ACCTAAGCTACTAAAGCTAAAAATGTAATAATTAAATATAAAATATTT
Found at i:4452667 original size:24 final size:23
Alignment explanation
Indices: 4452615--4452667 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
4452605 ATTTTTTTCA
* *
4452615 AAAAAATA-TTTTTTATTTTATT
1 AAAATATATTTTTTTATTTTATG
4452637 AAAATATATTTTTTTATTTCTATG
1 AAAATATATTTTTTTATTT-TATG
*
4452661 AATATAT
1 AAAATAT
4452668 TAAATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 9 0.35
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
AAAATATATTTTTTTATTTTATG
Found at i:4456433 original size:30 final size:27
Alignment explanation
Indices: 4456384--4456438 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 27
4456374 AAAGCTACAA
4456384 ACTATTAAAATAATAAAATTACATTTTT
1 ACTATTAAAATAATAAAATTA-ATTTTT
4456412 ACTATTATAAA-AATTACAAATTAATTT
1 ACTATTA-AAATAA-TA-AAATTAATTT
4456439 CAACCCTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 9 0.38
29 9 0.38
30 6 0.25
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (27 bp):
ACTATTAAAATAATAAAATTAATTTTT
Found at i:4457834 original size:23 final size:23
Alignment explanation
Indices: 4457786--4457834 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
4457776 TTTTGAGCAA
*
4457786 TTTAATTTTTTCTTTTATGTTTT
1 TTTAATTTTTTCTTTTATCTTTT
4457809 TTTAATTTTCTT-TTTT-TCTTTAT
1 TTTAATTTT-TTCTTTTATCTTT-T
4457832 TTT
1 TTT
4457835 TCATTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
23 17 0.74
24 2 0.09
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTAATTTTTTCTTTTATCTTTT
Found at i:4465131 original size:13 final size:14
Alignment explanation
Indices: 4465108--4465142 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
4465098 AAAACTGATG
4465108 TTTTTGATTTAGTT-
1 TTTTTG-TTTAGTTC
4465122 TTTTTGTTTAGTTC
1 TTTTTGTTTAGTTC
4465136 TTTTTGT
1 TTTTTGT
4465143 AAAATACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.09, C:0.03, G:0.14, T:0.74
Consensus pattern (14 bp):
TTTTTGTTTAGTTC
Found at i:4470604 original size:87 final size:84
Alignment explanation
Indices: 4470503--4470750 Score: 236
Period size: 87 Copynumber: 2.9 Consensus size: 84
4470493 CCTTTATTTT
* * *
4470503 AATCCGCTCTACTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCGCTGTAATCTCA
1 AATCTGCTCTACTGTAACTTCAGGGAGATA-GATA-TGTCTTTAATCTGCTCCACTGTAATCTCA
*
4470568 GGGAGATAAGATTTCTGGCCT-C
64 GGGAGATAAGATTCCTGG--TGC
* * * * *
4470590 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAATC
1 AATCTGCTCTACTGTAACTTCAGGGAGAT-AGATATG----TCTTTAATCTGCTCCACTGTAATC
*
4470655 TCAGGGAAATAAGA--CCTGGTGC
61 TCAGGGAGATAAGATTCCTGGTGC
* * * * *
4470677 GATCTGCTCTACTGTAACTTCAGAGAGATA-AGAT-CCTTTAATCCGCTCCACTGTAATCTCAGG
1 AATCTGCTCTACTGTAACTTCAGGGAGATAGATATGTCTTTAATCTGCTCCACTGTAATCTCAGG
*
4470740 GAGATAGGATT
66 GAGATAAGATT
4470751 ACTATATTCA
Statistics
Matches: 131, Mismatches: 22, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
80 32 0.24
85 2 0.02
86 4 0.03
87 55 0.42
88 5 0.04
90 33 0.25
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (84 bp):
AATCTGCTCTACTGTAACTTCAGGGAGATAGATATGTCTTTAATCTGCTCCACTGTAATCTCAGG
GAGATAAGATTCCTGGTGC
Found at i:4470605 original size:44 final size:42
Alignment explanation
Indices: 4470503--4470796 Score: 213
Period size: 44 Copynumber: 6.9 Consensus size: 42
4470493 CCTTTATTTT
* * * * *
4470503 AATCCGCTCTACTGTAA-CTTCAGGGAGATAGGATAGTGTCTTC
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTGGCTTC
* *
4470546 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA--TCTGGCTTC
* * *
4470590 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG----GCTTC
* * * * *
4470636 AGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGG-TGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGGCTTC
* * * *
4470677 GATCTGCTCTACTGTAA-CTTCAGAGAGATAAGATC---CTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGGCTTC
* * ***
4470716 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATATTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-T-CTGGCTTC
* *
4470760 AATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTG
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG
4470797 CAATTCTTTG
Statistics
Matches: 195, Mismatches: 41, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
39 27 0.14
40 3 0.02
41 28 0.14
42 6 0.03
43 28 0.14
44 68 0.35
45 1 0.01
46 34 0.17
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGGCTTC
Found at i:4470659 original size:46 final size:44
Alignment explanation
Indices: 4470470--4470838 Score: 193
Period size: 44 Copynumber: 8.5 Consensus size: 44
4470460 ATCTACTCTG
* * *
4470470 CTGTAA-CTTCAGGGAGATAAGATCCT--TTATTTTAATCCGCTCTA
1 CTGTAATC-TCAGGGAGATAAGAT-CTGATT-CTTTAATCTGCTCCA
* * * *
4470514 CTGTAA-CTTCAGGGAGATAGGAT-AG-TGTCTTCAATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATCTGAT-TCTTTAATCTGCTCCA
* * *
4470557 CTGTAATCTCAGGGAGATAAGATTTCTG--GCCTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGA--TCTGATTCTTTAATCTGCTCCA
* * *
4470601 CTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCTG--ATTCTTTAATCTGCTCCA
* * * * * *
4470647 CTGTAATCTCAGGGAAATAAGACCTGGTGC---GATCTGCTCTA
1 CTGTAATCTCAGGGAGATAAGATCTGATTCTTTAATCTGCTCCA
* *
4470688 CTGTAA-CTTCAGAGAGATAAGATC-----CTTTAATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATCTGATTCTTTAATCTGCTCCA
* * * * *
4470727 CTGTAATCTCAGGGAGATAGGAT-T-ACTATATTCAATCTACTCCG
1 CTGTAATCTCAGGGAGATAAGATCTGA-T-TCTTTAATCTGCTCCA
** *
4470771 CTGTAATCTCAGGGAGATAAGATCTGCAATTCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCTG--ATTCTTTAATCTGCTCCA
*
4470817 CCGTAATCTCAGGG-GAATAAGA
1 CTGTAATCTCAGGGAG-ATAAGA
4470839 CCTTTTATAA
Statistics
Matches: 250, Mismatches: 49, Indels: 50
0.72 0.14 0.14
Matches are distributed among these distances:
36 1 0.00
39 27 0.11
40 2 0.01
41 26 0.10
42 4 0.02
43 30 0.12
44 92 0.37
45 3 0.01
46 63 0.25
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGTAATCTCAGGGAGATAAGATCTGATTCTTTAATCTGCTCCA
Found at i:4470744 original size:170 final size:173
Alignment explanation
Indices: 4470508--4470841 Score: 467
Period size: 170 Copynumber: 1.9 Consensus size: 173
4470498 ATTTTAATCC
* * * * *
4470508 GCTCTACTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
1 GCTCTACTGTAACTTCAGAGAGATA-GAGAGTGCCTTCAATCCGCTCCACTGTAATCTCAGGGAG
* * * *
4470573 ATAAGATTTCTGGCCTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAG
65 ATAAGATTACTAGACTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAG
*
4470638 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCT
130 TCTGTTCCACCGTAATCTCAGGGAAATAAGACCTGGTGCGATCT
*
4470682 GCTCTACTGTAACTTCAGAGAGATA-AGA-T-CCTTTAATCCGCTCCACTGTAATCTCAGGGAGA
1 GCTCTACTGTAACTTCAGAGAGATAGAGAGTGCCTTCAATCCGCTCCACTGTAATCTCAGGGAGA
* * * * * * *
4470744 TAGGATTACTATATTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTTGGT
66 TAAGATTACTAGACTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAGT
*
4470809 CTGTTCCACCGTAATCTCAGGGGAATAAGACCT
131 CTGTTCCACCGTAATCTCAGGGAAATAAGACCT
4470842 TTTATAATGA
Statistics
Matches: 141, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
170 114 0.81
171 1 0.01
172 2 0.01
174 24 0.17
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (173 bp):
GCTCTACTGTAACTTCAGAGAGATAGAGAGTGCCTTCAATCCGCTCCACTGTAATCTCAGGGAGA
TAAGATTACTAGACTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAGT
CTGTTCCACCGTAATCTCAGGGAAATAAGACCTGGTGCGATCT
Found at i:4485606 original size:42 final size:42
Alignment explanation
Indices: 4485560--4485706 Score: 170
Period size: 42 Copynumber: 3.3 Consensus size: 42
4485550 CATAATTCAA
4485560 CTATGGTCTTACACATCTTCACATAAT-GATGCCATAGCCCAG
1 CTATGGTCTTACACATCTTCACAT-ATCGATGCCATAGCCCAG
* * * *
4485602 CTATGGCCTTACACATATTTATATATCGATGCCATAGCCCAG
1 CTATGGTCTTACACATCTTCACATATCGATGCCATAGCCCAG
*
4485644 TTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC---AT--C-T-TCACATATCGATGCCATAGCCCAG
4485693 CTATGGTCTTACAC
1 CTATGGTCTTACAC
4485707 GAATCACATA
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
41 2 0.02
42 47 0.54
45 2 0.02
48 1 0.01
49 35 0.40
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
CTATGGTCTTACACATCTTCACATATCGATGCCATAGCCCAG
Found at i:4485686 original size:49 final size:48
Alignment explanation
Indices: 4485626--4485796 Score: 206
Period size: 47 Copynumber: 3.6 Consensus size: 48
4485616 ATATTTATAT
*
4485626 ATCGATGCCATAGCCCAGTTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* *
4485674 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * * *
4485722 GT-GATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACA
* *
4485768 ACCGATGCCATATCCCAGATATGGTCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
4485797 TACGGAAATC
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
46 26 0.24
47 37 0.34
48 13 0.12
49 32 0.30
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:4485799 original size:47 final size:46
Alignment explanation
Indices: 4485587--4485796 Score: 194
Period size: 47 Copynumber: 4.6 Consensus size: 46
4485577 TTCACATAAT
* * ** * *
4485587 GATGCCATAGCCCAGCTATGGCCTTACAC--AT-ATTTAT-ATATC
1 GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACC
* *
4485629 GATGCCATAGCCCAGTTATGGTCTTACACGTAATCACATATCACATATC
1 GATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCAC--ACC
* * * **
4485678 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAGT
1 GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACC
* * * *
4485724 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACC
1 GATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACACC
*
4485771 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
4485797 TACGGAAATC
Statistics
Matches: 141, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
42 27 0.19
45 2 0.01
46 31 0.22
47 38 0.27
48 11 0.08
49 32 0.23
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (46 bp):
GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACC
Found at i:4485817 original size:7 final size:7
Alignment explanation
Indices: 4485805--4485833 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
4485795 TATACGGAAA
4485805 TCACTTG
1 TCACTTG
4485812 TCACTTG
1 TCACTTG
4485819 TCACTTG
1 TCACTTG
4485826 TCACTTG
1 TCACTTG
4485833 T
1 T
4485834 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:4485867 original size:31 final size:31
Alignment explanation
Indices: 4485832--4485980 Score: 208
Period size: 31 Copynumber: 4.8 Consensus size: 31
4485822 CTTGTCACTT
* *
4485832 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** *
4485863 GTAGCCGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
4485894 GTAGCCGGAGCTGCCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
4485925 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
4485956 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
4485981 TGTCATTTGC
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:4486062 original size:50 final size:51
Alignment explanation
Indices: 4485956--4486084 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
4485946 CACTGATCAG
* * * *
4485956 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGCCATTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGCCATTGATCAAATAAGT
*
4486007 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCC-TTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTG-CCATTGATCAAATAAGT
4486057 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
4486085 TGCCATAGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 45 0.63
51 26 0.37
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGCCATTGATCAAATAAGT
Found at i:4496195 original size:22 final size:22
Alignment explanation
Indices: 4496155--4496204 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4496145 TTATTAATAT
*
4496155 ATATTTTGAAATTACTTTTTTA
1 ATATTTTAAAATTACTTTTTTA
*
4496177 A-ATTTTAAATATTATTTTTTTA
1 ATATTTTAAA-ATTACTTTTTTA
4496199 ATATTT
1 ATATTT
4496205 AGATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 13 0.54
23 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
ATATTTTAAAATTACTTTTTTA
Found at i:4496210 original size:22 final size:22
Alignment explanation
Indices: 4496155--4496211 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
4496145 TTATTAATAT
* *
4496155 ATATTTTGAAATTACTTTTTTA
1 ATATTTAGATATTACTTTTTTA
* *
4496177 A-ATTTTAAATATTATTTTTTTA
1 ATA-TTTAGATATTACTTTTTTA
4496199 ATATTTAGATATT
1 ATATTTAGATATT
4496212 TTAAACTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 26 0.93
23 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
ATATTTAGATATTACTTTTTTA
Found at i:4497102 original size:22 final size:22
Alignment explanation
Indices: 4497075--4497129 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
4497065 GAAAGTTTAA
4497075 AATATTTAAACA-TTAAAAAAAT
1 AATATTTAAA-ATTTAAAAAAAT
4497097 AATATTTAAAATTTAAAAAAAT
1 AATATTTAAAATTTAAAAAAAT
*
4497119 AAT-TTCAAAAT
1 AATATTTAAAAT
4497130 ATATATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 8 0.26
22 23 0.74
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAAT
Found at i:4497158 original size:24 final size:26
Alignment explanation
Indices: 4497109--4497160 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 26
4497099 TATTTAAAAT
4497109 TTAAAAAAATAATTTCAAAATATATA
1 TTAAAAAAATAATTTCAAAATATATA
*
4497135 TTAATAAAAT-ATTTC-AAATATATA
1 TTAAAAAAATAATTTCAAAATATATA
4497159 TT
1 TT
4497161 TCAAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.44
25 5 0.20
26 9 0.36
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (26 bp):
TTAAAAAAATAATTTCAAAATATATA
Found at i:4497233 original size:13 final size:13
Alignment explanation
Indices: 4497198--4497236 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
4497188 AATAAAGACA
4497198 AAAAAAATAAAAGT
1 AAAAAAA-AAAAGT
**
4497212 AAAGTAAAAAAGT
1 AAAAAAAAAAAGT
4497225 AAAAAAAAAAAG
1 AAAAAAAAAAAG
4497237 ACTGACATGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (13 bp):
AAAAAAAAAAAGT
Found at i:4500510 original size:51 final size:51
Alignment explanation
Indices: 4500434--4500547 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
4500424 AGTGACAAGC
* *
4500434 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
*
4500485 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
4500536 GACAAGTGATAA
1 GACAAGTGATAA
4500548 ATGTGATCAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:4504922 original size:29 final size:28
Alignment explanation
Indices: 4504890--4504981 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 28
4504880 AATTAATTTT
4504890 TTAAAAAATCTAAAAAA-ATAAGAAAGTTA
1 TTAAAAAATCTAAAAAATATAA-AAA-TTA
* *
4504919 TTAAAACTATTTAAAAAATATAAAAATTA
1 TTAAAA-AATCTAAAAAATATAAAAATTA
* *
4504948 TTATAAAAT-TATTAAAAT-TGAAAAA-TA
1 TTAAAAAATCTA-AAAAATAT-AAAAATTA
4504975 TTAAAAA
1 TTAAAAA
4504982 TTAATTAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
27 11 0.21
28 12 0.23
29 14 0.26
30 12 0.23
31 4 0.08
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (28 bp):
TTAAAAAATCTAAAAAATATAAAAATTA
Found at i:4504964 original size:20 final size:20
Alignment explanation
Indices: 4504916--4504966 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
4504906 AATAAGAAAG
*
4504916 TTATTAAAACTATTTAAAAA
1 TTATTAAAATTATTTAAAAA
* *
4504936 ATATAAAAATTA-TTATAAAA
1 TTATTAAAATTATTTA-AAAA
4504956 TTATTAAAATT
1 TTATTAAAATT
4504967 GAAAAATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TTATTAAAATTATTTAAAAA
Found at i:4510709 original size:20 final size:21
Alignment explanation
Indices: 4510684--4510729 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
4510674 CTAAACCCCA
4510684 AAACCC-AACACATTA-AATAT
1 AAACCCAAACACATTACAAT-T
*
4510704 AAACCCAAATACATTACAATT
1 AAACCCAAACACATTACAATT
4510725 AAACC
1 AAACC
4510730 AATCCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 14 0.61
22 3 0.13
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (21 bp):
AAACCCAAACACATTACAATT
Found at i:4511313 original size:14 final size:14
Alignment explanation
Indices: 4511290--4511328 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4511280 AACTCTAAAT
4511290 ATAC-AAAAATATA
1 ATACAAAAAATATA
4511303 ATACAAAAAATATA
1 ATACAAAAAATATA
* *
4511317 ACAAAAAAAATA
1 ATACAAAAAATA
4511329 AAAAAATCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (14 bp):
ATACAAAAAATATA
Found at i:4511320 original size:12 final size:12
Alignment explanation
Indices: 4511286--4511334 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
4511276 AATAAACTCT
4511286 AAATAT-AC-AA
1 AAATATAACAAA
4511296 AAATATAATACAAA
1 AAATAT-A-ACAAA
4511310 AAATATAACAAA
1 AAATATAACAAA
*
4511322 AAAAATAA-AAA
1 AAATATAACAAA
4511333 AA
1 AA
4511335 TCTAACCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
10 6 0.18
11 5 0.15
12 12 0.35
13 3 0.09
14 8 0.24
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATATAACAAA
Found at i:4511335 original size:22 final size:25
Alignment explanation
Indices: 4511286--4511340 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 25
4511276 AATAAACTCT
4511286 AAATAT-ACAAAAATATAATACAAA
1 AAATATAACAAAAATATAATACAAA
4511310 AAATATAACAAAAA-A-AATA-AAA
1 AAATATAACAAAAATATAATACAAA
*
4511332 AAATCTAAC
1 AAATATAAC
4511341 CTTTTTTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 11 0.38
23 4 0.14
24 7 0.24
25 7 0.24
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (25 bp):
AAATATAACAAAAATATAATACAAA
Found at i:4512173 original size:22 final size:21
Alignment explanation
Indices: 4512145--4512186 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
4512135 CTCAACTTTA
*
4512145 ATATATATTACATATAGTATTT
1 ATATATAGTACATATA-TATTT
*
4512167 ATATATAGTACGTATATATT
1 ATATATAGTACATATATATT
4512187 ATGTATGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (21 bp):
ATATATAGTACATATATATTT
Found at i:4514637 original size:20 final size:19
Alignment explanation
Indices: 4514614--4514657 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
4514604 AAAAATTACA
*
4514614 AAAAAATCAAAATAATTTTT
1 AAAAAATCAAAAT-ATTTAT
* *
4514634 AAAAATTTAAAATATTTAT
1 AAAAAATCAAAATATTTAT
4514653 AAAAA
1 AAAAA
4514658 TTTCAAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAAATCAAAATATTTAT
Found at i:4514639 original size:19 final size:18
Alignment explanation
Indices: 4514615--4514658 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
4514605 AAAATTACAA
*
4514615 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTAT
*
4514634 AAAAATTTAAAATATTTAT
1 AAAAA-TCAAAATATTTAT
4514653 AAAAAT
1 AAAAAT
4514659 TTCAAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 15 0.68
20 6 0.27
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:4514665 original size:20 final size:21
Alignment explanation
Indices: 4514620--4514670 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
4514610 TACAAAAAAA
*
4514620 TCAAAATAATTTTTAAAAATT
1 TCAAAATAATTTATAAAAATT
4514641 T-AAAAT-ATTTATAAAAATT
1 TCAAAATAATTTATAAAAATT
4514660 TCAAAACTAAT
1 TCAAAA-TAAT
4514671 AGTTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 13 0.50
20 9 0.35
21 2 0.08
22 2 0.08
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (21 bp):
TCAAAATAATTTATAAAAATT
Found at i:4516335 original size:20 final size:20
Alignment explanation
Indices: 4516297--4516344 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
4516287 AAATTTTAAA
* **
4516297 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
4516317 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
4516337 AAA-ATAAA
1 AAAGATAAA
4516345 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:4516999 original size:9 final size:9
Alignment explanation
Indices: 4516980--4517024 Score: 81
Period size: 9 Copynumber: 4.9 Consensus size: 9
4516970 TAGTATTTAT
4516980 TTTTTTCTTC
1 TTTTTT-TTC
4516990 TTTTTTTTC
1 TTTTTTTTC
4516999 TTTTTTTTC
1 TTTTTTTTC
4517008 TTTTTTTTC
1 TTTTTTTTC
4517017 TTTTTTTT
1 TTTTTTTT
4517025 TAAATTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 29 0.83
10 6 0.17
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:4517307 original size:118 final size:118
Alignment explanation
Indices: 4517151--4517381 Score: 363
Period size: 118 Copynumber: 2.0 Consensus size: 118
4517141 TATTTCCGGT
* *
4517151 TAGCGGAGTTTTACCCAACACGTCACACAGCCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAATAGAATGACAACCCAAGCAC
* * *
4517216 TCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAATCAGTCACGATTTAAGCCATACTCATAACCTCGGC
****
4517269 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAATAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAATAGAATGACAACCCAAGCAC
**
4517334 CCTACCCCGGTTACTCAATCAGTCACGATTTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAATCAGTCACGATTTAAGCCATACTCATAACC
4517382 ATGGAAAACT
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
118 102 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAATAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAATCAGTCACGATTTAAGCCATACTCATAACCTCGGC
Found at i:4518407 original size:5 final size:6
Alignment explanation
Indices: 4518338--4518414 Score: 72
Period size: 6 Copynumber: 12.7 Consensus size: 6
4518328 ATATTTAACT
*
4518338 AAAAT- AAAATA AAAAT- AAAAT- AAAATA ATAAATA AAAAGA AAGAA-A
1 AAAATA AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA AA-AATA
4518384 GGAAAATA ATAAATA AAAATA AAAATA AAAA
1 --AAAATA A-AAATA AAAATA AAAATA AAAA
4518415 GAAAGATTGG
Statistics
Matches: 63, Mismatches: 1, Indels: 15
0.80 0.01 0.19
Matches are distributed among these distances:
5 15 0.24
6 29 0.46
7 16 0.25
8 3 0.05
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:4520741 original size:26 final size:25
Alignment explanation
Indices: 4520713--4520799 Score: 144
Period size: 24 Copynumber: 3.6 Consensus size: 25
4520703 CCTCCCCAAA
4520713 AAAAAACCTAACCCAAAAAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAAG
4520738 AAAAAAACCTAACCC-AAAAAAAAAG
1 -AAAAAACCTAACCCAAAAAAAAAAG
4520763 AAAAAACCTAA-CCAAAAAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAAG
4520787 -AAAAACCTAACCC
1 AAAAAACCTAACCC
4520800 CCCAAAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.20
24 23 0.39
25 10 0.17
26 14 0.24
ACGTcount: A:0.70, C:0.22, G:0.03, T:0.05
Consensus pattern (25 bp):
AAAAAACCTAACCCAAAAAAAAAAG
Found at i:4520756 original size:24 final size:23
Alignment explanation
Indices: 4520710--4520799 Score: 128
Period size: 23 Copynumber: 3.7 Consensus size: 23
4520700 AGCCCTCCCC
4520710 AAAAAAAAACCTAACCCAAAAAAAA
1 AAAAAAAAACCTAACCC--AAAAAA
4520735 AAGAAAAAAACCTAACCCAAAAAA
1 AA-AAAAAAACCTAACCCAAAAAA
4520759 AAAGAAAAAACCTAA-CCAAAAAA
1 AAA-AAAAAACCTAACCCAAAAAA
4520782 AAAAGAAAAACCTAACCC
1 AAAA-AAAAACCTAACCC
4520800 CCCAAAAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 9
0.87 0.00 0.13
Matches are distributed among these distances:
22 1 0.02
23 22 0.36
24 21 0.34
25 2 0.03
26 15 0.25
ACGTcount: A:0.71, C:0.21, G:0.03, T:0.04
Consensus pattern (23 bp):
AAAAAAAAACCTAACCCAAAAAA
Found at i:4523330 original size:12 final size:12
Alignment explanation
Indices: 4523313--4523348 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
4523303 ATTCATTTGA
4523313 CATTCATGCATT
1 CATTCATGCATT
4523325 CATTCATGCATT
1 CATTCATGCATT
*
4523337 CATTCATACATT
1 CATTCATGCATT
4523349 GCATATCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:4531794 original size:50 final size:50
Alignment explanation
Indices: 4531719--4531814 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
4531709 ACGCTGAGGT
**
4531719 ATTTTTGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTA
1 ATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTA
* *
4531769 ATTTTT-TTTTCAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCT
1 ATTTTTGTTTT-AAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
4531815 CGGGCACGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 4 0.10
50 37 0.90
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (50 bp):
ATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTA
Found at i:4531933 original size:65 final size:68
Alignment explanation
Indices: 4531764--4531945 Score: 259
Period size: 65 Copynumber: 2.7 Consensus size: 68
4531754 GAGTTAAGCC
* *
4531764 TTTT-AATTTTT-TTTTC-AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTG
1 TTTTCAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACGCTG
4531826 AGG
66 AGG
* **
4531829 TATTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCACG-
1 --TTTTCAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACGC
4531892 TGAGG
64 TGAGG
4531897 -TTTCAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGA
4531946 ACTTTTAATT
Statistics
Matches: 104, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
65 46 0.44
67 4 0.04
68 12 0.12
69 9 0.09
70 33 0.32
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (68 bp):
TTTTCAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACGCTG
AGG
Found at i:4532051 original size:184 final size:188
Alignment explanation
Indices: 4531600--4532139 Score: 606
Period size: 180 Copynumber: 2.9 Consensus size: 188
4531590 CTTTTCAAGG
* * * * *
4531600 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG-CAC-CTGAGGTATTTTCAATTTCTG
* *
4531665 -T-TT--TCAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCGGGCACGCTGAGG--T--AT
64 TTCTTAATTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCACGCTGAGGTTTCAAT
** *
4531721 TTTTGTTTT--AAATTGACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTTTTTTTTC
128 TTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTTTTTC
* * *
4531780 AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTTGT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCAC-CTGAGGTATTTTCAATTTCTGT
*
4531845 TTTTAATT---TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACG-TGAGGTTTCAATTT
65 TCTTAATTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACGCTGAGGTTTCAATTT
4531906 TTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CTTTTAATTTCCTTTTTC
130 TTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTT-CTTTTTC
4531965 AAATC-ACTCATATTG-GAGA-GTGAGTTGAGCCTC-AGCA-C-GAGGTA-TTTCAATTTCTGTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACCTGAGGTATTTTCAATTTCTGTT
4532023 CTTAATTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATT
66 CTTAA--TT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-G-CACGCTGAGG---T
*
4532088 TTCAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
122 TTCAATTTTTGTTTTC----AAAATCAACTCATATTGCGAGAGGTGAGTTGA
4532140 GCCTCAGGTC
Statistics
Matches: 314, Mismatches: 16, Indels: 46
0.84 0.04 0.12
Matches are distributed among these distances:
177 17 0.05
178 6 0.02
179 31 0.10
180 59 0.19
181 20 0.06
182 14 0.04
183 15 0.05
184 54 0.17
185 39 0.12
186 6 0.02
187 5 0.02
190 16 0.05
194 32 0.10
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (188 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACCTGAGGTATTTTCAATTTCTGTT
CTTAATTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACGCTGAGGTTTCAATTTT
TGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTTTTTC
Found at i:4532346 original size:12 final size:11
Alignment explanation
Indices: 4532317--4532346 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
4532307 ACGCGAGGTA
4532317 TTTTCAATTTC
1 TTTTCAATTTC
4532328 TTTTCAATTTC
1 TTTTCAATTTC
4532339 TGTTTCAA
1 T-TTTCAA
4532347 AAAATCAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (11 bp):
TTTTCAATTTC
Found at i:4532461 original size:71 final size:71
Alignment explanation
Indices: 4532329--4532786 Score: 382
Period size: 71 Copynumber: 6.2 Consensus size: 71
4532319 TTCAATTTCT
4532329 TTTCAATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTG
1 TTTCAATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTG
4532394 AGGTAA
66 AGGTAA
4532400 TTTCAATTTCTGTTTC-AAAAATCAACTCATATTGCGAG-GGTGAGTTGAGCCTCGGTCACACGC
1 TTTCAATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--ACACGC
4532463 TGAGGTATTTTCAA
64 TGAGG-----T-AA
**
4532477 TTTTCTTTTTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAG-GGTGA-TTGAGCCT-GGCT
1 -TTTC-----AATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--
* * *
4532539 CACGCGCTGAGCTAT
58 -ACACGCTGAGGTAA
* ** * * *
4532554 TTTCAATTTCT-TCTTCAAAAAAATCAACTCATA-TGTGAGAAATGAG-TGA-CCTC-AAAACAT
1 TTTCAATTTCTGT-TTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC-G
*
4532614 CTGAGGTAT
63 CTGAGGTAA
* *
4532623 TTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGATGTGAGTTG-GCCTCCGGACACG
1 TTTCAATTTC--TGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CGGACACG
*
4532687 CTGCAGGTCA
63 CTG-AGGTAA
* * *
4532697 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTTACA
1 TTTCAATTTCTGTT-TC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG--ACA
** *
4532762 CGCCAAGGTAT
61 CGCTGAGGTAA
4532773 TTTCAATTT-TGTTT
1 TTTCAATTTCTGTTT
4532787 TTCAATTTCT
Statistics
Matches: 319, Mismatches: 31, Indels: 71
0.76 0.07 0.17
Matches are distributed among these distances:
68 2 0.01
69 35 0.11
70 39 0.12
71 58 0.18
72 30 0.09
73 6 0.02
74 48 0.15
75 10 0.03
76 18 0.06
77 9 0.03
78 5 0.02
82 2 0.01
83 30 0.09
84 27 0.08
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (71 bp):
TTTCAATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTG
AGGTAA
Found at i:4532555 original size:83 final size:83
Alignment explanation
Indices: 4532404--4532562 Score: 268
Period size: 83 Copynumber: 1.9 Consensus size: 83
4532394 AGGTAATTTC
*
4532404 AATTTCTGTTTCAAAAATCAACTCATATTGCGAGGGTGAGTTGAGCCTCGGTCACACGCTGAGGT
1 AATTTCTGTTTCAAAAATCAACTCATATTGCGAGGGTGAGTTGAGCCTCGGTCACACGCTGAGCT
4532469 ATTTTCAATTTTCTTTTT
66 ATTTTCAATTTTCTTTTT
*
4532487 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGGGTGA-TTGAGCCT-GGCTCACGCGCTGAG
1 AATTTCTG-TTTCAAAAATCAACTCATATTGCGAGGGTGAGTTGAGCCTCGG-TCACACGCTGAG
4532550 CTATTTTCAATTT
64 CTATTTTCAATTT
4532563 CTTCTTCAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
82 2 0.03
83 39 0.54
84 31 0.43
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (83 bp):
AATTTCTGTTTCAAAAATCAACTCATATTGCGAGGGTGAGTTGAGCCTCGGTCACACGCTGAGCT
ATTTTCAATTTTCTTTTT
Found at i:4532664 original size:454 final size:473
Alignment explanation
Indices: 4532028--4532948 Score: 1237
Period size: 454 Copynumber: 2.0 Consensus size: 473
4532018 CTGTTCTTAA
*
4532028 TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA
1 TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGTCACGCTGAGCTATTTTCAA
* ** **
4532093 TTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACAGCTGA
65 TTTCTGTCTTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-GAAACAGCTGA
* *
4532158 GGTATTTTCAATTTTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
129 GGTATTTTCAA-TTTTC-ATATCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-GC
* *
4532223 CTCAGGACACGCTG-AGGTAATTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGTG
191 CTCAGGACACGCTGCAGGTAATTTCAATTTCTG-TTGTCAAAAAAATCAACTCATATTGCGAGAG
* *
4532286 GTGAGTTGAGCCTCAGGTCACACG-CGAGGTATTTTCAA-TTT-CTTTTCAATTTCTG-TTTC-A
255 GCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAATTTTGCTTTTCAATTTCTGCTTTCAA
* *
4532346 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-ACACGCTGAGGTAATTTCAATTTC
320 AAAAAT-AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGCTAATTTAAATTTC
* *
4532410 TG-TTTC-AAAAATCAACTCATATTGCG-AGGGTGAGTTGAGC-CTCGGTCACACGCTGAGGTA-
384 TGCTTTCAAAAAATCAACTCATATTGCGAAGGGTGAGTTGAGCTCTAGGTCACACACTGAGGTAT
4532470 TTTTCAATTTTCTTTTTAATTTCTG
449 TTTTCAATTTTCTTTTTAATTTCTG
4532495 TTTTCAAAAATCAACTCATATTGCGAG-GGTGA-TTGAGCCT-GGCTCACGCGCTGAGCTATTTT
1 TTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG-TCA--CGCTGAGCTATTTT
* *
4532557 CAATTTCT-TCTTC-AAAAAAATCAACTCATA-TGTGAGAAATGAG-TGA-CCTCA-AAACATCT
62 CAATTTCTGTCTTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAAACAGCT
*
4532616 GAGGTATTTTCAA-TTTC-TAT-T-TTTCAAAAAATCAACTCATATTGCGAGATGTGAGTTGGCC
127 GAGGTATTTTCAATTTTCATATCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGGCC
* * * *
4532677 TCCGGACACGCTGCAGGTCATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGC
192 TCAGGACACGCTGCAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGC
* *
4532742 GAGTTGAGCCTCAGGTTACACGCCAAGGTATTTTCAATTTTGTTTTTCAATTTCTGCCTTTCAAA
257 GAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAATTTTGCTTTTCAATTTCTG-CTTTC--A
* * *
4532807 AAAAAATAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACGCGCTGAGCTATTTTAAATTT
319 AAAAAATAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-CACACGCTGAGCTAATTTAAATTT
* * *
4532872 CTGTCTTTCAAAAAATCAACTCATATTGCGAAGGGTGAGTTGAGCTTTAGTTCACACATTGAGGT
383 CTG-CTTTCAAAAAATCAACTCATATTGCGAAGGGTGAGTTGAGCTCTAGGTCACACACTGAGGT
4532937 ATTTTTCAATTT
447 ATTTTTCAATTT
4532949 ATATTTTCAA
Statistics
Matches: 401, Mismatches: 31, Indels: 42
0.85 0.07 0.09
Matches are distributed among these distances:
453 19 0.05
454 96 0.24
455 14 0.03
456 5 0.01
457 13 0.03
458 4 0.01
459 4 0.01
460 18 0.04
461 32 0.08
462 12 0.03
463 25 0.06
464 12 0.03
465 24 0.06
466 32 0.08
467 44 0.11
468 37 0.09
469 10 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (473 bp):
TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGTCACGCTGAGCTATTTTCAAT
TTCTGTCTTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAAACAGCTGAGG
TATTTTCAATTTTCATATCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGGCCTCAG
GACACGCTGCAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGT
TGAGCCTCAGGTCACACGCCAAGGTATTTTCAATTTTGCTTTTCAATTTCTGCTTTCAAAAAAAT
AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGCTAATTTAAATTTCTGCTTTC
AAAAAATCAACTCATATTGCGAAGGGTGAGTTGAGCTCTAGGTCACACACTGAGGTATTTTTCAA
TTTTCTTTTTAATTTCTG
Found at i:4532780 original size:76 final size:72
Alignment explanation
Indices: 4532482--4532785 Score: 195
Period size: 74 Copynumber: 4.2 Consensus size: 72
4532472 TTCAATTTTC
* * * *
4532482 TTTTTAATTTCTGTTTTC-AAAAATCAACTCATATTGCGAG-GGTGA-TTGAGCCT--GGCTCAC
1 TTTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGCGAGTTG-GCCTCAGG-ACAC
*
4532542 GCGCTGAGCTA
64 GCGC--AGGTA
* *** * **
4532553 TTTTCAATTTCT-TCT-TCAAAAAAATCAACTCATA-TGTGAGAAATGAG-TGACCTCAAAACAT
1 TTTTCAATTTCTGT-TGTC-AAAAAATCAACTCATATTGCGAGAGGCGAGTTGGCCTCAGGACA-
*
4532614 C-TG-AGGTA
63 CGCGCAGGTA
* * * * *
4532622 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGATGTGAGTTGGCCTCCGGACACG
1 TTTTCAATTTCT-GTTGTCAAAAAATCAACTCATATTGCGAGAGGCGAGTTGGCCTCAGGACACG
4532687 CTGCAGGTCA
65 C-GCAGGT-A
* *
4532697 -TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTTAC
1 TTTTCAATTTCTGTTGTC-AAAAAATCAACTCATATTGCGAGAGGCGAGTTG-GCCTCAGG--AC
4532761 ACGC-CAAGGTA
62 ACGCGC-AGGTA
4532772 TTTTCAATTT-TGTT
1 TTTTCAATTTCTGTT
4532786 TTTCAATTTC
Statistics
Matches: 185, Mismatches: 25, Indels: 42
0.73 0.10 0.17
Matches are distributed among these distances:
69 16 0.09
70 20 0.11
71 34 0.18
72 32 0.17
73 6 0.03
74 44 0.24
75 14 0.08
76 13 0.07
77 6 0.03
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (72 bp):
TTTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGCGAGTTGGCCTCAGGACACGC
GCAGGTA
Found at i:4532881 original size:91 final size:92
Alignment explanation
Indices: 4532714--4532882 Score: 216
Period size: 91 Copynumber: 1.8 Consensus size: 92
4532704 TTCTGTTGTC
* * * * *
4532714 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTTACACGCCAAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGCTATTTTAAA
*
4532779 TTTTGTTTTTCAATTTCTGCCTTTCAA
66 TTTTGTCTTTCAATTTCTGCCTTTCAA
* * * **
4532806 AAAAAAAT-AACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTCACGCGCTGAGCTATTTTAAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGCTATTTTAAA
4532869 TTTCTGTCTTTCAA
66 TTT-TGTCTTTCAA
4532883 AAAATCAACT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
90 21 0.32
91 36 0.55
92 8 0.12
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (92 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGCTATTTTAAA
TTTTGTCTTTCAATTTCTGCCTTTCAA
Found at i:4532939 original size:166 final size:167
Alignment explanation
Indices: 4532641--4532948 Score: 362
Period size: 166 Copynumber: 1.9 Consensus size: 167
4532631 TCTATTTTTC
* * *
4532641 AAAAAATCAACTCATATTGCGAGATGTGAGTTGGCCTCCGGACACGCTGCAGGTCATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGGCCTCCGGACACGCTGCAGCTCATTTAAATTT
* * *
4532706 CTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTTACACGCCAAGGT
66 CTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTTACACACCAAGGT
4532771 A-TTTTCAATTTTGTTTTTCAATTTCTGCCTTTCAAA
131 ATTTTTCAATTTTGTTTTTCAATTTCTGCCTTTCAAA
* *
4532807 AAAAAAT-AACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTCACGC-GCTGAGCT-ATTTTAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTG-GCCTCCGGACACGCTGC--AGCTCA-TTTAA
* * * *
4532868 ATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGA-AGGGTGAGTTGAGCTTTA-GTTCACACA
62 ATTTCTGT-TGTCAAAAAAATCAACTCATATTGCGAGA-GGCGAGTTGAGCCTCAGGTT-ACACA
***
4532930 TTGAGGTATTTTTCAATTT
124 CCAAGGTATTTTTCAATTT
4532949 ATATTTTCAA
Statistics
Matches: 119, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
164 2 0.02
165 36 0.30
166 68 0.57
167 13 0.11
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (167 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGGCCTCCGGACACGCTGCAGCTCATTTAAATTT
CTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTTACACACCAAGGT
ATTTTTCAATTTTGTTTTTCAATTTCTGCCTTTCAAA
Found at i:4532961 original size:75 final size:74
Alignment explanation
Indices: 4532807--4532962 Score: 181
Period size: 75 Copynumber: 2.1 Consensus size: 74
4532797 GCCTTTCAAA
* *
4532807 AAAAAATAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACGCGCTGAGCTATTTTAAATTT
1 AAAAAATAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACACACTGAGCTATTTTAAATTT
* *
4532872 CTGTCTTTC
66 ATATCTTTC
* * * * *
4532881 AAAAAATCAACTCATATTGCGA-AGGGTGAGTTGAGCTTTAGTTCACACATTGAGGTATTTTTCA
1 AAAAAAT-AACTCATATTGCGAGA-GGTGAGTTGAGCCTT-GGTCACACACTGAGCTA-TTTTAA
4532945 ATTTATAT-TTTC
62 ATTTATATCTTTC
4532957 AAAAAA
1 AAAAAA
4532963 ATTAACTTAC
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
74 8 0.12
75 28 0.41
76 22 0.32
77 11 0.16
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (74 bp):
AAAAAATAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACACACTGAGCTATTTTAAATTT
ATATCTTTC
Found at i:4533333 original size:241 final size:233
Alignment explanation
Indices: 4532807--4533351 Score: 644
Period size: 236 Copynumber: 2.3 Consensus size: 233
4532797 GCCTTTCAAA
*
4532807 AAAAAATAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-TCACGCGCTGAGCTATTTTAAATT
1 AAAAAATAACTCATATTGCGAGA-GTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATT
* *
4532871 TCTGTCTTTCAAAAAATCAACTCATATTGCGAAGGGTGAGTTGAGCTTTAGTTCACACATTGAGG
65 TCTGTTTTTCAAAAAATCAACTCATATTGCGAAGGGTGAGTTGAGCTTTAGTTCACACAGTGAGG
* * * * **
4532936 TATTTTTCAATTTATATTTTCAAAAAAATTAACTTACTTGTGAGATGTGAGTTAGCCTCGGGTCA
130 TATTTTT-AATTTATATTTTC-AAAAAATCAACTTACTTGCGAGAGGTGAGTTAACCTCAAGTCA
* *
4533001 CATGTCGAGGTATTTTCAAAATCTGTTTTTAATTCGTTTTC
193 CATATCGAGGTATTTTCAAAATCTGTTTTTAATTAGTTTTC
* * * * *
4533042 --AAATTTACTCATATTGCGAAAGTGAGTTGAGCCTTAGCTCACGTGCTGAGCTATTTTCAATTT
1 AAAAAATAACTCATATTGCGAGAGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTT
* * * *
4533105 CTTTTTTTCAAAAAATTCAACTTATATTGCG-AGAGGTGAGTTGAGCTTTTAATTTCGCGA-AGT
66 CTGTTTTTCAAAAAA-TCAACTCATATTGCGAAG-GGTGAGTTGAGC-TTT-AGTTCAC-ACAGT
* *
4533168 GAGTTGAGTCTTTT-ATTTCATTTTTTC-AAAAATCAACTATA-TTGCGAGAGGTGAGTTGAACC
126 GAGGT-A-T-TTTTAATTT-ATATTTTCAAAAAATCAACT-TACTTGCGAGAGGTGAGTT-AACC
4533230 T-AAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTTCAAGTTAG-TTTC
185 TCAAGTCACATATCGAGGTATTTTCAAAATCTG-TTTTT-AA-TTAGTTTTC
*
4533280 AAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTTGGCTCACACGCTGAGCTA-TTTCAATT
1 AAAAAAT-AACTCATATTGCGAGAGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATT
4533344 TCTGTTTT
65 TCTGTTTT
4533352 AATGTCTGTT
Statistics
Matches: 263, Mismatches: 29, Indels: 31
0.81 0.09 0.10
Matches are distributed among these distances:
232 15 0.06
233 56 0.21
234 26 0.10
235 3 0.01
236 63 0.24
237 17 0.06
238 14 0.05
239 7 0.03
240 19 0.07
241 43 0.16
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (233 bp):
AAAAAATAACTCATATTGCGAGAGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTT
CTGTTTTTCAAAAAATCAACTCATATTGCGAAGGGTGAGTTGAGCTTTAGTTCACACAGTGAGGT
ATTTTTAATTTATATTTTCAAAAAATCAACTTACTTGCGAGAGGTGAGTTAACCTCAAGTCACAT
ATCGAGGTATTTTCAAAATCTGTTTTTAATTAGTTTTC
Found at i:4544087 original size:146 final size:145
Alignment explanation
Indices: 4543823--4544887 Score: 1149
Period size: 146 Copynumber: 7.1 Consensus size: 145
4543813 TAAGCCTTTT
* *
4543823 AATTTTTGTTTTTCAAAATCAACTTATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* *
4543888 TAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
66 TAATTTTAATTTCTGTT-TCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGAC
4543953 ACGCTGAGGTAATTTC
130 ACGCTGAGGTAATTTC
*
4543969 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* *
4544034 TAATTTTAATTTCTGTTGTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
66 TAATTTTAATTTCTGTT-TCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGAC
4544099 ACGCTGAGGTAATTTC
130 ACGCTGAGGTAATTTC
*
4544115 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* *
4544180 TAATTTCAATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGA
66 TAATTTTAATTTCTGTT-TC-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGA
4544245 CACGCTGAGGTAATTTC
129 CACGCTGAGGTAATTTC
***** **
4544262 AATTTCTGTGGTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
1 AATTT-T-T-GTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
* *** * * *
4544327 AGGTAATTTCAATTT-TGTTT-TTCAAAATCAACTCATACTGCTAGAGGTGAGTTGAGCCTCAGG
63 AGGTAATTTTAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG
4544390 ACACGCTGAGGTAATTTC
128 ACACGCTGAGGTAATTTC
* * * **
4544408 AATTTCTG-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTG
1 AATTTTTGTTTTTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
* *
4544472 AGGT-ATTTTCAATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
63 AGGTAATTTT-AATTTCTG--TTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
* *
4544536 AAGACACGTTGAGGTATTTTCAATTCCTGTTC
125 AGGACACGCTGAGG-----T-AA----T-TTC
* * * *
4544568 AATTTATGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGG
1 AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* * *
4544633 T-ATTTTCAAATTCTACTTTCAAAAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCT-TGG
66 TAATTTT-AATTTCT-GTTTCAAAAAAATCAACTCATATTGCGAGAA-GTGAGTTGAGCCTCAGG
* * *
4544695 CTCACG-TGTTGAGTCATTTTC
128 -ACACGCTG-AG-GT-AATTTC
* * *
4544716 AATTTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGG
1 AA-------TTTT-TG--T-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * *** * * * *
4544781 GCACGCTGAGGT-ATTTTCAATTACTGTTTGGCAAAAACCAACTCATACTGTGAGAGGTGAGTTG
55 ACACGCTGAGGTAATTTT-AATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTG
* *
4544845 AGCCTCAGGACATGCTGAGGTATTTTC
119 AGCCTCAGGACACGCTGAGGTAATTTC
* *
4544872 CATTTCTGTTTTTCAA
1 AATTTTTGTTTTTCAA
4544888 TTTATGTTTT
Statistics
Matches: 799, Mismatches: 77, Indels: 87
0.83 0.08 0.09
Matches are distributed among these distances:
143 1 0.00
144 5 0.01
145 58 0.07
146 288 0.36
147 66 0.08
148 12 0.02
149 56 0.07
150 62 0.08
153 3 0.00
154 1 0.00
155 5 0.01
156 13 0.02
157 46 0.06
158 98 0.12
159 71 0.09
160 10 0.01
161 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (145 bp):
AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTTAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTC
Found at i:4544248 original size:75 final size:74
Alignment explanation
Indices: 4543837--4544881 Score: 1143
Period size: 74 Copynumber: 13.9 Consensus size: 74
4543827 TTTGTTTTTC
* *
4543837 AAAATCAACTTATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
4543902 GTTGTCAAA
66 GTTGTCAAA
** *
4543911 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
4543976 GTTTTTC---
66 G-TTGTCAAA
* *
4543983 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
4544048 GTTGTAAAA
66 GTTGTCAAA
** *
4544057 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
4544122 GTTTTTC---
66 G-TTGTCAAA
*
4544129 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
4544194 GTTGTCAAAA
66 GTTGTC-AAA
**
4544204 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
4544269 GTGGTAAAAA
66 GTTGT-CAAA
**
4544279 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
4544343 GTTTTTC---
66 G-TTGTCAAA
* *
4544350 AAAATCAACTCATACTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
4544415 GTTGTCAAA
66 GTTGTCAAA
* ** *
4544424 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
4544489 GCTTTTCAAG
66 G-TTGTCAAA
* * * *
4544499 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
4544564 G-T-TCAATTTA
66 GTTGTCAA---A
* * * *
4544574 TGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTT
1 --------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
* *
4544639 CAAATTCTACTT-TCAAA
58 CAATTTCT-GTTGTCAAA
* * * * *
4544656 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-TGTTGAGTCATTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG-AG-GT-AATTTCAAT
***
4544719 TTCTGTTTTTATGTCTGTTTTC
62 TTCTG----T-TGTC----AAA
* * * * * *
4544741 TAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
4544806 GTTTGGC--A
66 G-TTGTCAAA
* * * * * *
4544814 AAAACCAACTCATACTGTGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
4544879 GTT
66 GTT
4544882 TTTCAATTTA
Statistics
Matches: 840, Mismatches: 86, Indels: 92
0.83 0.08 0.09
Matches are distributed among these distances:
71 70 0.08
72 131 0.16
73 60 0.07
74 224 0.27
75 213 0.25
76 12 0.01
79 4 0.00
80 3 0.00
81 2 0.00
82 1 0.00
83 71 0.08
84 2 0.00
85 43 0.05
86 4 0.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAA
Found at i:4544633 original size:83 final size:82
Alignment explanation
Indices: 4544499--4544962 Score: 335
Period size: 83 Copynumber: 5.7 Consensus size: 82
4544489 GCTTTTCAAG
* *
4544499 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTCCT
4544564 GTTCAATTTATGTTTTTC
66 GTTCAATTTATG-TTTTC
* * *
4544582 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC-AATTC-
4544647 ACT-TTCAA---A-------
64 -CTGTTCAATTTATGTTTTC
* * * *
4544656 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-TGTTGAGTCATTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG-AG-GT-ATTTTCAAT
* ** * *
4544719 TTCTGTTTTTATGTCTGTTTTC
62 TCCTG-TTCAATTTATGTTTTC
* * * * *
4544741 TAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTCCT
*
4544806 G------TT-TG---GC
66 GTTCAATTTATGTTTTC
* * * * * *
4544813 AAAAACCAACTCATACTGTGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCATTTC
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTCC
4544878 TGTTTTTCAATTTATGTTTTC
65 TG---TTCAATTTATGTTTTC
* * * * * *
4544899 AAAAATCAATTCATATTGCTAGAGGTGAATGGAGCCTCAGGTCATACGCCGAGGTATTTTCAAT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAAT
4544963 AGATGTTTTT
Statistics
Matches: 299, Mismatches: 45, Indels: 69
0.72 0.11 0.17
Matches are distributed among these distances:
72 1 0.00
73 61 0.20
74 40 0.13
75 11 0.04
76 7 0.02
82 3 0.01
83 68 0.23
84 7 0.02
85 43 0.14
86 41 0.14
88 17 0.06
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (82 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTCCT
GTTCAATTTATGTTTTC
Found at i:4544766 original size:159 final size:155
Alignment explanation
Indices: 4544124--4544961 Score: 697
Period size: 159 Copynumber: 5.4 Consensus size: 155
4544114 CAATTTTTGT
* * * *
4544124 TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAA
* * ** *
4544189 TTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACAC-GCTGA
66 ATTCTCTT-TC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACTGTTGA
*
4544253 GGTAATTTCAATTTCTG------TG--G
128 GGTATTTTCAATTTCTGTTTTTATGTTG
**** ** * * *
4544273 TAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 T-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCA
* * * * * *
4544338 ATTTTGTTTTTC---AAAATCAACTCATACTGCTAGAGGTGAGTTGAGCCTCAGGACAC-GCTGA
65 A-ATTCTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACTGTTGA
*
4544399 GGTAATTTCAATTTC--------TGTTG
128 GGTATTTTCAATTTCTGTTTTTATGTTG
**** * * ***
4544419 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAA
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAA
* * *
4544484 TTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC-GTTGA
66 ATTCT-C-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACTGTTGA
*
4544548 GGTATTTTCAATTCCTGTTCAATTTATG-T-
128 GGTATTTTCAATTTCTGTT---TTTATGTTG
*
4544577 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAA
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAA
* *
4544642 ATTCTACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACGTGTTG
66 ATTCT-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CAC-TGTTG
4544706 A-GTCATTTTCAATTTCTGTTTTTATGTCTG
127 AGGT-ATTTTCAATTTCTGTTTTTATGT-TG
* * * *
4544736 TTTTCTAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC-A
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAA
* *** * * * *
4544800 ATTACTGTTTGGCAAAAACCAACTCATACTGTGAGAGGTGAGTTGAGCCTCAGG-ACATGCTGAG
66 ATT-CTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCAC-TGTTGAG
* *
4544864 GTATTTTCCATTTCTGTTTTTCAATTTATG
129 GTATTTTCAATTTCTGTTTTT--ATGT-TG
* * * * *
4544894 TTTTCAAAAATCAATTCATATTGCTAGAGGTGAATGGAGCCTCAGGTCATACGCCGAGGTATTTT
1 TTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC--ACGCCGAGGTATTTT
4544959 CAA
63 CAA
4544962 TAGATGTTTT
Statistics
Matches: 581, Mismatches: 70, Indels: 63
0.81 0.10 0.09
Matches are distributed among these distances:
144 6 0.01
145 57 0.10
146 66 0.11
149 56 0.10
150 61 0.10
151 6 0.01
155 1 0.00
156 31 0.05
157 46 0.08
158 113 0.19
159 120 0.21
160 2 0.00
161 15 0.03
162 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (155 bp):
TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAA
ATTCTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACTGTTGAGGT
ATTTTCAATTTCTGTTTTTATGTTG
Found at i:4544865 original size:73 final size:73
Alignment explanation
Indices: 4544746--4544882 Score: 202
Period size: 73 Copynumber: 1.9 Consensus size: 73
4544736 TTTTCTAAAT
* * *
4544746 CAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTG
1 CAACTCATACTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTACTGTTTG
4544811 GCAAAAAC
66 GCAAAAAC
** * * *
4544819 CAACTCATACTGTGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCATTTCTGTTT
1 CAACTCATACTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTACTGTTT
4544883 TTCAATTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 56 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (73 bp):
CAACTCATACTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTACTGTTTG
GCAAAAAC
Found at i:4550770 original size:47 final size:48
Alignment explanation
Indices: 4550648--4550825 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 48
4550638 TGTAACCCGC
* * *
4550648 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-ACAT
* *
4550694 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTACAT
* *
4550744 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTACAT
*
4550786 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
4550826 TCAACCATCC
Statistics
Matches: 111, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
43 2 0.02
44 3 0.03
45 29 0.26
46 33 0.30
47 29 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (48 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTACAT
Found at i:4550813 original size:92 final size:93
Alignment explanation
Indices: 4550655--4550825 Score: 299
Period size: 92 Copynumber: 1.8 Consensus size: 93
4550645 CGCCCATAAG
* * *
4550655 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
4550720 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
4550748 CGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
4550812 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
4550826 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 43 0.58
93 31 0.42
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:4557116 original size:25 final size:24
Alignment explanation
Indices: 4557082--4557138 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
4557072 AAATTATTAA
*
4557082 AAATATAAAATGTATTATAAAGATT
1 AAATAAAAAATGTA-TATAAAGATT
* * *
4557107 AAATAAAAAATTTATATTAATATT
1 AAATAAAAAATGTATATAAAGATT
4557131 AAATAAAA
1 AAATAAAA
4557139 TAAAAACCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAAAAATGTATATAAAGATT
Found at i:4560176 original size:6 final size:6
Alignment explanation
Indices: 4560165--4560211 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
4560155 GTCTGTATAT
4560165 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACA
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACA
4560212 TATATATGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.17
Consensus pattern (6 bp):
ATACAC
Found at i:4562212 original size:18 final size:17
Alignment explanation
Indices: 4562185--4562218 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
4562175 CTTCTCAATG
4562185 GTCAAGTTTCAATTTTC
1 GTCAAGTTTCAATTTTC
4562202 GTCACAGTTTCAATTTT
1 GTCA-AGTTTCAATTTT
4562219 GGTTCCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (17 bp):
GTCAAGTTTCAATTTTC
Found at i:4563151 original size:20 final size:21
Alignment explanation
Indices: 4563099--4563152 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
4563089 TAAGCCTTTT
4563099 AAAATT-TAAAAATTATTAAA
1 AAAATTATAAAAATTATTAAA
* * *
4563119 TAAATCATGAAAATTA-TAAA
1 AAAATTATAAAAATTATTAAA
4563139 AAAATTATAAAAAT
1 AAAATTATAAAAAT
4563153 CTTAAATTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATTATAAAAATTATTAAA
Found at i:4563322 original size:19 final size:18
Alignment explanation
Indices: 4563300--4563348 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
4563290 TTTTAAAATT
*
4563300 TTTTGAATTTTTTTTATAA
1 TTTT-AATTTTTTTAATAA
*
4563319 TTTTTATGTTTTTTAATAA
1 TTTTAAT-TTTTTTAATAA
4563338 TTTTAAATTTT
1 TTTT-AATTTT
4563349 AGAAGGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 21 0.84
20 2 0.08
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (18 bp):
TTTTAATTTTTTTAATAA
Found at i:4563341 original size:29 final size:29
Alignment explanation
Indices: 4563267--4563341 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
4563257 CAGTATTGTT
**
4563267 ATTTTTTAATGAAACTTTTATAATTTTAAA
1 ATTTTTTAAT-AATTTTTTATAATTTTAAA
* * *
4563297 ATTTTTTGAAT-TTTTTTTATAATTTTTAT
1 ATTTTTT-AATAATTTTTTATAATTTTAAA
*
4563326 GTTTTTTAATAATTTT
1 ATTTTTTAATAATTTT
4563342 AAATTTTAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
28 3 0.08
29 23 0.64
30 7 0.19
31 3 0.08
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (29 bp):
ATTTTTTAATAATTTTTTATAATTTTAAA
Found at i:4563348 original size:18 final size:19
Alignment explanation
Indices: 4563290--4563348 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
4563280 ACTTTTATAA
*
4563290 TTTTAA-AATTTTTTGAATTT
1 TTTTAATAA-TTTTT-AAATT
* **
4563310 TTTTTATAATTTTTATGTT
1 TTTTAATAATTTTTAAATT
4563329 TTTTAATAA-TTTTAAATT
1 TTTTAATAATTTTTAAATT
4563347 TT
1 TT
4563349 AGAAGGGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
18 9 0.28
19 11 0.34
20 10 0.31
21 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTAATAATTTTTAAATT
Found at i:4570533 original size:19 final size:17
Alignment explanation
Indices: 4570494--4570536 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
4570484 TTGTCACTAA
*
4570494 AATTTTATTTTAGATTG
1 AATTTTATTTTAAATTG
*
4570511 AATTTTATTATTTAAATTT
1 AATTTTA-T-TTTAAATTG
4570530 AATTTTA
1 AATTTTA
4570537 AAATATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 1 0.05
19 14 0.64
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
AATTTTATTTTAAATTG
Done.