Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 34 of 100
Found at i:6400613 original size:19 final size:19
Alignment explanation
Indices: 6400589--6400651 Score: 54
Period size: 25 Copynumber: 2.9 Consensus size: 19
6400579 AAATCATAAA
6400589 AAAACAATTTTAATTTTAT
1 AAAACAATTTTAATTTTAT
6400608 AAAACATCTATAACTTTAATTTTAT
1 AAAACA---AT---TTTAATTTTAT
*
6400633 AAAAAAATTTTAAATTTTA
1 AAAACAATTTT-AATTTTA
6400652 ATATTAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 13
0.72 0.02 0.26
Matches are distributed among these distances:
19 9 0.25
20 7 0.19
22 4 0.11
25 16 0.44
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAACAATTTTAATTTTAT
Found at i:6402685 original size:24 final size:23
Alignment explanation
Indices: 6402653--6402732 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 23
6402643 GCATGCAAAA
6402653 AAAAAAAAAAAGAGAGGAAAAAGT
1 AAAAAAAAAAAGAGA-GAAAAAGT
* *
6402677 AAAAAAAAAAAAAGAGAAAGAAAAT
1 AAAAAAAAAAAGAGAG-AA-AAAGT
*
6402702 AAAATAAAGAAAGAGA-AAAAAG-
1 AAAA-AAAAAAAGAGAGAAAAAGT
*
6402724 AAAGAAAAA
1 AAAAAAAAA
6402733 TTTTGGTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
21 4 0.09
22 3 0.07
23 4 0.09
24 18 0.39
25 8 0.17
26 9 0.20
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (23 bp):
AAAAAAAAAAAGAGAGAAAAAGT
Found at i:6402700 original size:18 final size:18
Alignment explanation
Indices: 6402679--6402728 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
6402669 GAAAAAGTAA
6402679 AAAAAAAAAAAGAGAAAG
1 AAAAAAAAAAAGAGAAAG
*
6402697 AAAATAAAATAA-AGAAAG
1 AAAA-AAAAAAAGAGAAAG
*
6402715 AGAAAAAAGAAAGA
1 A-AAAAAAAAAAGA
6402729 AAAATTTTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (18 bp):
AAAAAAAAAAAGAGAAAG
Found at i:6402700 original size:26 final size:26
Alignment explanation
Indices: 6402651--6402719 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
6402641 GGGCATGCAA
*
6402651 AAAAAAAAAAAAAGAG-AGGAAAAAGT
1 AAAAAAAAAAAAAGAGAAAGAAAAA-T
6402677 AAAAAAAAAAAAAGAGAAAG-AAAAT
1 AAAAAAAAAAAAAGAGAAAGAAAAAT
* *
6402702 -AAAATAAAGAAAGAGAAA
1 AAAAAAAAAAAAAGAGAAA
6402720 AAAGAAAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 16 0.41
25 1 0.03
26 20 0.51
27 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (26 bp):
AAAAAAAAAAAAAGAGAAAGAAAAAT
Found at i:6403587 original size:14 final size:14
Alignment explanation
Indices: 6403554--6403587 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6403544 TACTCTAAAG
6403554 AGAAAAAAAAAGCA
1 AGAAAAAAAAAGCA
* *
6403568 AAAAAAAAAAAGTA
1 AGAAAAAAAAAGCA
6403582 AGAAAA
1 AGAAAA
6403588 GGCAAAGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (14 bp):
AGAAAAAAAAAGCA
Found at i:6403587 original size:24 final size:24
Alignment explanation
Indices: 6403554--6403630 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 24
6403544 TACTCTAAAG
*
6403554 AGAAAAAAAAAGCAAAAAAAAAAA
1 AGAAAGAAAAAGCAAAAAAAAAAA
* *
6403578 AGTAAGAAAAGGCAAAGAAATGAAAAAA
1 AGAAAGAAAAAGC-AA-AAA--AAAAAA
* * *
6403606 AGAAATAAAAAGGAAAAAAAGAAA
1 AGAAAGAAAAAGCAAAAAAAAAAA
6403630 A
1 A
6403631 CAAAATGAGG
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
24 16 0.39
25 2 0.05
26 6 0.15
27 2 0.05
28 15 0.37
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.04
Consensus pattern (24 bp):
AGAAAGAAAAAGCAAAAAAAAAAA
Found at i:6405312 original size:25 final size:25
Alignment explanation
Indices: 6405283--6405358 Score: 98
Period size: 26 Copynumber: 3.0 Consensus size: 25
6405273 TTATATGGAT
* * *
6405283 CATTTGCATCAGGAAAATATATTTG
1 CATTTGTATCAGGAAAAGACATTTG
*
6405308 CATTTGTATCAAGAAAAAGACATTTG
1 CATTTGTATC-AGGAAAAGACATTTG
6405334 CATTTGTATCAGGAAAAAGACATTT
1 CATTTGTATCAGG-AAAAGACATTT
6405359 ATGTTTGCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
25 11 0.25
26 33 0.75
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (25 bp):
CATTTGTATCAGGAAAAGACATTTG
Found at i:6405368 original size:32 final size:26
Alignment explanation
Indices: 6405303--6405358 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
6405293 AGGAAAATAT
6405303 ATTTGCATTTGTATCAAGAAAAAGAC
1 ATTTGCATTTGTATCAAGAAAAAGAC
*
6405329 ATTTGCATTTGTATCAGGAAAAAGAC
1 ATTTGCATTTGTATCAAGAAAAAGAC
6405355 ATTT
1 ATTT
6405359 ATGTTTGCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (26 bp):
ATTTGCATTTGTATCAAGAAAAAGAC
Found at i:6405799 original size:40 final size:40
Alignment explanation
Indices: 6405721--6405799 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
6405711 TGGGTATAAC
* * * * *
6405721 TTTAAATTTTTGAATGATTTCCAAAACTTCCAATCAAAAT
1 TTTAAAATTTTAAAAGATTTCCAAAACCTCCAAGCAAAAT
* *
6405761 TTTAAAATTTTAAAAGATTTCCAAAACCTCTAGGCAAAA
1 TTTAAAATTTTAAAAGATTTCCAAAACCTCCAAGCAAAA
6405800 CCTTAGATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (40 bp):
TTTAAAATTTTAAAAGATTTCCAAAACCTCCAAGCAAAAT
Found at i:6408679 original size:14 final size:13
Alignment explanation
Indices: 6408650--6408708 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 13
6408640 CAAGAAATCT
6408650 TAAATTCAAACCC
1 TAAATTCAAACCC
*
6408663 TAAATTCCAAACTC
1 TAAATT-CAAACCC
* * *
6408677 TAAATTTTAAATCT
1 TAAA-TTCAAACCC
6408691 TAAATTCTAAACCC
1 TAAATTC-AAACCC
6408705 TAAA
1 TAAA
6408709 CCTCAAACCA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
13 8 0.23
14 25 0.71
15 2 0.06
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAATTCAAACCC
Found at i:6408759 original size:25 final size:25
Alignment explanation
Indices: 6408720--6408769 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
6408710 CTCAAACCAA
*
6408720 AATCCTAAACCAA-CCTTAATCCCT
1 AATCCTAAACCAACCCTTAAACCCT
6408744 AATCCTAAAACCAACCCTTAAACCCT
1 AATCCT-AAACCAACCCTTAAACCCT
6408770 GCAACCAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.26
25 7 0.30
26 10 0.43
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.22
Consensus pattern (25 bp):
AATCCTAAACCAACCCTTAAACCCT
Found at i:6409643 original size:20 final size:20
Alignment explanation
Indices: 6409618--6409664 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
6409608 TATTTGATAT
** *
6409618 AAAAAATCATTCTTCTTATA
1 AAAAAATCATTCTAATAATA
*
6409638 AAAAAATGATTCTAATAATA
1 AAAAAATCATTCTAATAATA
6409658 AAAAAAT
1 AAAAAAT
6409665 TATTTAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAAATCATTCTAATAATA
Found at i:6413133 original size:42 final size:42
Alignment explanation
Indices: 6413087--6413221 Score: 182
Period size: 42 Copynumber: 3.2 Consensus size: 42
6413077 AAATTCTTGC
* ** * *
6413087 AAGAGGAAATTGGGCGGTTGAGTACTGAGAATAGACAATTAA
1 AAGAGGAAAGTGTACGGTTGAGTATTGAGAACAGACAATTAA
* *
6413129 AAGAGGAAAGTGTACGGTTGAGTATTGAGAACAGACACTTTA
1 AAGAGGAAAGTGTACGGTTGAGTATTGAGAACAGACAATTAA
*
6413171 AAGATGAAAGTGTACGGTTGAGTATTGAGAACAGA-AACTTAA
1 AAGAGGAAAGTGTACGGTTGAGTATTGAGAACAGACAA-TTAA
6413213 AAGAGGAAA
1 AAGAGGAAA
6413222 CTGGACAGTT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 1 0.01
42 80 0.99
ACGTcount: A:0.42, C:0.07, G:0.29, T:0.21
Consensus pattern (42 bp):
AAGAGGAAAGTGTACGGTTGAGTATTGAGAACAGACAATTAA
Found at i:6413233 original size:42 final size:42
Alignment explanation
Indices: 6413087--6413259 Score: 179
Period size: 42 Copynumber: 4.1 Consensus size: 42
6413077 AAATTCTTGC
* * * *
6413087 AAGAGGAAATTGGGCGGTTGAGTACTGAGAATAGACAA-TTAA
1 AAGAGGAAAGTGGACGGTTGAGTATTGAGAACAGA-AACTTAA
* * *
6413129 AAGAGGAAAGTGTACGGTTGAGTATTGAGAACAGACACTTTA
1 AAGAGGAAAGTGGACGGTTGAGTATTGAGAACAGAAACTTAA
* *
6413171 AAGATGAAAGTGTACGGTTGAGTATTGAGAACAGAAACTTAA
1 AAGAGGAAAGTGGACGGTTGAGTATTGAGAACAGAAACTTAA
* * * * * *
6413213 AAGAGGAAACTGGACAGTTGACTCTCGAGAACA-AACACTTAG
1 AAGAGGAAAGTGGACGGTTGAGTATTGAGAACAGAA-ACTTAA
6413255 AAGAG
1 AAGAG
6413260 CGTATCAGAG
Statistics
Matches: 111, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
41 3 0.03
42 108 0.97
ACGTcount: A:0.41, C:0.10, G:0.28, T:0.21
Consensus pattern (42 bp):
AAGAGGAAAGTGGACGGTTGAGTATTGAGAACAGAAACTTAA
Found at i:6420995 original size:2 final size:2
Alignment explanation
Indices: 6420988--6421023 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6420978 AACAGCTCTA
6420988 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6421024 CATCATCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6421030 original size:3 final size:3
Alignment explanation
Indices: 6421022--6421052 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
6421012 ATATATATAT
*
6421022 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
6421053 AATTTCAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:6428986 original size:116 final size:116
Alignment explanation
Indices: 6428805--6429321 Score: 758
Period size: 116 Copynumber: 4.6 Consensus size: 116
6428795 TTAAAGTTTC
**
6428805 AAGAAAGTTGGGATTTTTGAGAGGTTGGATTTTCTTGCTTTTTCGTATGTTTTTGCTAATGGAAA
1 AAGAAAGTTAAGA-TTTTGAGAGGTTGGATTTTCTTGC-TTTTCGTATGTTTTTGCTAATGGAAA
6428870 GTGGATTGTCCATCGTTTGGTTTGTTGGTTTCATGTTTTGTGTTGCAATAGTG
64 GTGGATTGTCCATCGTTTGGTTTGTTGGTTTCATGTTTTGTGTTGCAATAGTG
*
6428923 AAGAAAGTTAAGATTTTGAGAGGTTGGATTTTCTTACTTTTCGTATGTTTTTGCTAATGGAAAGT
1 AAGAAAGTTAAGATTTTGAGAGGTTGGATTTTCTTGCTTTTCGTATGTTTTTGCTAATGGAAAGT
**
6428988 GGATTGTCCA-----T--TTTGTTGGTTTCATGTTTTGTGTTGCAGCAGTG
66 GGATTGTCCATCGTTTGGTTTGTTGGTTTCATGTTTTGTGTTGCAATAGTG
6429032 AAGAAAGTTAAGATTTTGAGAGGTTGGATTTTCTTGCTTTTCGTATGTTTTTGCTAATGGAAAGT
1 AAGAAAGTTAAGATTTTGAGAGGTTGGATTTTCTTGCTTTTCGTATGTTTTTGCTAATGGAAAGT
* *
6429097 GGATTGTCCATCGTTTGGTTTGTTGGTTGCATGTTTTGTGTTGCAATAGGG
66 GGATTGTCCATCGTTTGGTTTGTTGGTTTCATGTTTTGTGTTGCAATAGTG
* * *
6429148 AAGAAAGTTAAGATTTTGAGTGGTTGGATTTTCTTGCATTTCGTATGTTTTTGCTAATGGAATGT
1 AAGAAAGTTAAGATTTTGAGAGGTTGGATTTTCTTGCTTTTCGTATGTTTTTGCTAATGGAAAGT
6429213 GGA---T---TCGTTTGGTTTGTTGGTTTCATGTTTTGTGTTGCAATAGTG
66 GGATTGTCCATCGTTTGGTTTGTTGGTTTCATGTTTTGTGTTGCAATAGTG
* * ** * * *
6429258 AAGAAACTTAAGATTTTGAGAGGTGGGATTGGCTTG-TTTTTGTGTG-TTTTGCTAATCGAAAGT
1 AAGAAAGTTAAGATTTTGAGAGGTTGGATTTTCTTGCTTTTCGTATGTTTTTGCTAATGGAAAGT
6429321 G
66 G
6429322 AAGCTTGCTC
Statistics
Matches: 367, Mismatches: 25, Indels: 24
0.88 0.06 0.06
Matches are distributed among these distances:
108 16 0.04
109 112 0.31
110 70 0.19
111 1 0.00
113 1 0.00
114 1 0.00
116 132 0.36
117 23 0.06
118 11 0.03
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (116 bp):
AAGAAAGTTAAGATTTTGAGAGGTTGGATTTTCTTGCTTTTCGTATGTTTTTGCTAATGGAAAGT
GGATTGTCCATCGTTTGGTTTGTTGGTTTCATGTTTTGTGTTGCAATAGTG
Found at i:6429217 original size:225 final size:226
Alignment explanation
Indices: 6428805--6429321 Score: 806
Period size: 225 Copynumber: 2.3 Consensus size: 226
6428795 TTAAAGTTTC
**
6428805 AAGAAAGTTGGGATTTTTGAGAGGTTGGATTTTCTTGCTTTTTCGTATGTTTTTGCTAATGGAAA
1 AAGAAAGTTAAGA-TTTTGAGAGGTTGGATTTTCTTGC-TTTTCGTATGTTTTTGCTAATGGAAA
* *
6428870 GTGGATTGTCCATCGTTTGGTTTGTTGGTTTCATGTTTTGTGTTGCAATAGTGAAGAAAGTTAAG
64 GTGGATTGTCCATCGTTTGGTTTGTTGGTTGCATGTTTTGTGTTGCAATAGGGAAGAAAGTTAAG
* *
6428935 ATTTTGAGAGGTTGGATTTTCTTACTTTTCGTATGTTTTTGCTAATGGAAAGTGGATT-GTCCAT
129 ATTTTGAGAGGTTGGATTTTCTTACATTTCGTATGTTTTTGCTAATGGAAAGTGGATTCGTCCAG
*
6428999 TTTGTTGGTTTCATGTTTTGTGTTGCAGCAGTG
194 TTTGTTGGTTTCATGTTTTGTGTTGCAACAGTG
6429032 AAGAAAGTTAAGATTTTGAGAGGTTGGATTTTCTTGCTTTTCGTATGTTTTTGCTAATGGAAAGT
1 AAGAAAGTTAAGATTTTGAGAGGTTGGATTTTCTTGCTTTTCGTATGTTTTTGCTAATGGAAAGT
6429097 GGATTGTCCATCGTTTGGTTTGTTGGTTGCATGTTTTGTGTTGCAATAGGGAAGAAAGTTAAGAT
66 GGATTGTCCATCGTTTGGTTTGTTGGTTGCATGTTTTGTGTTGCAATAGGGAAGAAAGTTAAGAT
* * * ***
6429162 TTTGAGTGGTTGGATTTTCTTGCATTTCGTATGTTTTTGCTAATGGAATGTGGATTCGTTTGGTT
131 TTTGAGAGGTTGGATTTTCTTACATTTCGTATGTTTTTGCTAATGGAAAGTGGATTCGTCCAGTT
*
6429227 TGTTGGTTTCATGTTTTGTGTTGCAATAGTG
196 TGTTGGTTTCATGTTTTGTGTTGCAACAGTG
* * ** * * *
6429258 AAGAAACTTAAGATTTTGAGAGGTGGGATTGGCTTG-TTTTTGTGTG-TTTTGCTAATCGAAAGT
1 AAGAAAGTTAAGATTTTGAGAGGTTGGATTTTCTTGCTTTTCGTATGTTTTTGCTAATGGAAAGT
6429321 G
66 G
6429322 AAGCTTGCTC
Statistics
Matches: 268, Mismatches: 21, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
224 17 0.06
225 151 0.56
226 89 0.33
227 11 0.04
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (226 bp):
AAGAAAGTTAAGATTTTGAGAGGTTGGATTTTCTTGCTTTTCGTATGTTTTTGCTAATGGAAAGT
GGATTGTCCATCGTTTGGTTTGTTGGTTGCATGTTTTGTGTTGCAATAGGGAAGAAAGTTAAGAT
TTTGAGAGGTTGGATTTTCTTACATTTCGTATGTTTTTGCTAATGGAAAGTGGATTCGTCCAGTT
TGTTGGTTTCATGTTTTGTGTTGCAACAGTG
Found at i:6434333 original size:21 final size:24
Alignment explanation
Indices: 6434307--6434361 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
6434297 GCACAAAGAC
*
6434307 AAAAAACAAAG-T-CAAT-TTCAA
1 AAAAAAAAAAGTTACAATATTCAA
*
6434328 AAAAAAAAAAGTTAGAATATTCAA
1 AAAAAAAAAAGTTACAATATTCAA
6434352 AAAAAAAAAA
1 AAAAAAAAAA
6434362 TTTCACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
22 1 0.03
23 3 0.10
24 15 0.52
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.16
Consensus pattern (24 bp):
AAAAAAAAAAGTTACAATATTCAA
Found at i:6434730 original size:50 final size:49
Alignment explanation
Indices: 6434531--6434894 Score: 395
Period size: 49 Copynumber: 7.5 Consensus size: 49
6434521 AGATTTTAAA
* * * * *
6434531 TTTTAAAGTTGTTAAGCTTCTGTTGAGAGAAGCTTTTTTAAGAT-AGA-
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGAT
* *
6434578 TTTTAAAGTTGTTGAGCTTCTGTTGAGAGGAGCTTTTTCAAGA-GA-AT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGAT
** *
6434625 TTTTAAAGTTGTTGA-CCTCTATTGAGAGGAGC-TTTTCTAA-AAGA-AT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-AAGATGAGAT
* * *
6434671 TTTAAAAGTTGTTGAGCCTCTGCTGAGATGAGCCCTTTTCAAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATGAGAT
* *
6434721 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATAAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGAT
** * * * *
6434770 TTCAAAAATTGTTAAGCCTCTGCTGAGAGGAGTTTTTTCAAGATGAAAT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGAT
* *
6434819 TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCCTTTTT-AAGATAAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTTCAAGATGAGAT
* * *
6434869 TTTTAAAGTTATTGAGCTTTTGCTGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGA
6434895 TATGAGTTTT
Statistics
Matches: 272, Mismatches: 34, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
45 6 0.02
46 36 0.13
47 69 0.25
48 3 0.01
49 90 0.33
50 63 0.23
51 5 0.02
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (49 bp):
TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGAT
Found at i:6434851 original size:148 final size:142
Alignment explanation
Indices: 6434531--6434894 Score: 439
Period size: 148 Copynumber: 2.5 Consensus size: 142
6434521 AGATTTTAAA
* * * *
6434531 TTTTAAAGTTGTTAAGCTTCTGTTGAGA-GAAG-CTTTTTTAAGATAGA-TTTTAAAGTTGTTGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGATG-AGCCCTTTTTAAGATAGATTTTTAAAGTTGTTGA
* * * ** * * *
6434593 GCTTCTGTTGAGAGGAGCTTTTTCAAGAGAATTTTTAAAGTTGTTGACCTCTATTGAGAGGAGCT
65 GCTTCTGCTGAGAGGAGCTTTTTCAAAAAAATTTCAAAAATTGTTAACCTCTACTGAGAGGAGCT
6434658 TTTCTAAAAGAAT
130 TTTCTAAAAGAAT
* *
6434671 TTTAAAAGTTGTTGAGCCTCTGCTGAGATGAGCCCTTTTCAAGATGAGATTTTTAAAGTTGTTGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCCTTTTTAAGAT-AGATTTTTAAAGTTGTTGA
* *
6434736 GCCTCTGCTGAGAGGAGCTTTTTCAAAATAAGATTTCAAAAATTGTTAAGCCTCTGCTGAGAGGA
65 GCTTCTGCTGAGAGGAGCTTTTTCAAAA-AA-ATTTCAAAAATTGTTAA-CCTCTACTGAGAGGA
* *
6434801 G-TTTTTTCAAGATGAAAT
127 GCTTTTCT-AA-AAG-AAT
*
6434819 TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCCTTTTTAAGATAAGATTTTTAAAGTTATTGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCCTTTTTAAGAT-AGATTTTTAAAGTTGTTGA
*
6434884 GCTTTTGCTGA
65 GCTTCTGCTGA
6434895 TATGAGTTTT
Statistics
Matches: 190, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
140 26 0.14
141 11 0.06
142 3 0.02
143 40 0.21
144 1 0.01
145 18 0.09
146 16 0.08
147 2 0.01
148 73 0.38
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (142 bp):
TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCCTTTTTAAGATAGATTTTTAAAGTTGTTGAG
CTTCTGCTGAGAGGAGCTTTTTCAAAAAAATTTCAAAAATTGTTAACCTCTACTGAGAGGAGCTT
TTCTAAAAGAAT
Found at i:6435161 original size:21 final size:20
Alignment explanation
Indices: 6435137--6435176 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6435127 AAAAAAATAA
6435137 TAAATAAAATAATAATATTAT
1 TAAATAAAATAATAA-ATTAT
*
6435158 TAAATACAATAATAAATTA
1 TAAATAAAATAATAAATTA
6435177 AACAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAATAAAATAATAAATTAT
Found at i:6435214 original size:13 final size:13
Alignment explanation
Indices: 6435176--6435231 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
6435166 ATAATAAATT
*
6435176 AAACAAAAATATCA
1 AAACAAAAA-ATAA
* *
6435190 AAATATAAAATACA
1 AAACAAAAAATA-A
*
6435204 ATA-AAAAAATAA
1 AAACAAAAAATAA
6435216 AAACAAAAAATAA
1 AAACAAAAAATAA
6435229 AAA
1 AAA
6435232 AATGAAGACC
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 10 0.29
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAACAAAAAATAA
Found at i:6436166 original size:12 final size:12
Alignment explanation
Indices: 6436147--6436176 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
6436137 GGTAAAAAAA
6436147 AATTTTTTTTT-
1 AATTTTTTTTTG
6436158 AATTTTTTTTTG
1 AATTTTTTTTTG
6436170 AATTTTT
1 AATTTTT
6436177 ATATATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:6437393 original size:16 final size:16
Alignment explanation
Indices: 6437372--6437404 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6437362 GTTACAACAA
6437372 TAATTAATTCCGGTTC
1 TAATTAATTCCGGTTC
*
6437388 TAATTAATTTCGGTTC
1 TAATTAATTCCGGTTC
6437404 T
1 T
6437405 TGTCAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (16 bp):
TAATTAATTCCGGTTC
Found at i:6443902 original size:117 final size:115
Alignment explanation
Indices: 6443696--6443927 Score: 401
Period size: 117 Copynumber: 2.0 Consensus size: 115
6443686 TATGTGCTTG
**
6443696 CATTCTTATGGATTGTCATTCTATTAAATTAGAGACATGTAGCTTTTGAAGGATTTGTGTTGATA
1 CATTCTTATGGATTGTCATTCTATTAAATTAGAGACAACTAGCTTTTGAAGGATTTGTGTTGATA
6443761 GAACTATTATCAGTAGTTTCAGCATACAATAAGTCTCTTGTTTCCATGGTTC
66 GAACTATTATCAGTAGTTTCAGCATACAATAAG--TCTTGTTTCCATGGTTC
*
6443813 CATTCTTATGGATTGTCATTCTATTATATTAGAGACAACTAGCTTTTGAAGGATTTGTGTTGATA
1 CATTCTTATGGATTGTCATTCTATTAAATTAGAGACAACTAGCTTTTGAAGGATTTGTGTTGATA
* *
6443878 GAACTATTATCGGTAGTTTCAGCATATAATAAGTCTTGTTTCCATGGTTC
66 GAACTATTATCAGTAGTTTCAGCATACAATAAGTCTTGTTTCCATGGTTC
6443928 TGTAAGTCAT
Statistics
Matches: 110, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
115 17 0.15
117 93 0.85
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.41
Consensus pattern (115 bp):
CATTCTTATGGATTGTCATTCTATTAAATTAGAGACAACTAGCTTTTGAAGGATTTGTGTTGATA
GAACTATTATCAGTAGTTTCAGCATACAATAAGTCTTGTTTCCATGGTTC
Found at i:6445770 original size:24 final size:24
Alignment explanation
Indices: 6445740--6445890 Score: 137
Period size: 24 Copynumber: 6.2 Consensus size: 24
6445730 CCTGGCATTC
* *
6445740 TTCCTCCCATGTTGTTTGGTGCCA
1 TTCCTCCCATGTTGTTTGGAGGCA
6445764 TTCCTCCTCCCATGTTGTTTGGAGGCA
1 -T--TCCTCCCATGTTGTTTGGAGGCA
6445791 -TCCTTCCCATGTTG-TTGGATGGCA
1 TTCC-TCCCATGTTGTTTGGA-GGCA
* * ** *
6445815 TCCCTACCC-TATTGTCGGGTGGCA
1 TTCCT-CCCATGTTGTTTGGAGGCA
* * *
6445839 TCCCTCCCATGTTGCTGGGAGGCA
1 TTCCTCCCATGTTGTTTGGAGGCA
6445863 TTCCTCCCATGTTGTTTGGAGGCA
1 TTCCTCCCATGTTGTTTGGAGGCA
6445887 TTCC
1 TTCC
6445891 AGCTGTATTA
Statistics
Matches: 104, Mismatches: 14, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
23 11 0.11
24 64 0.62
25 8 0.08
27 21 0.20
ACGTcount: A:0.11, C:0.30, G:0.24, T:0.35
Consensus pattern (24 bp):
TTCCTCCCATGTTGTTTGGAGGCA
Found at i:6448198 original size:4 final size:4
Alignment explanation
Indices: 6448189--6448215 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6448179 TATCTCTCAC
6448189 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
6448216 TTATAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:6448854 original size:21 final size:22
Alignment explanation
Indices: 6448828--6448884 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
6448818 CAATCCAAAA
6448828 TTAATA-AAATATTTTATTTTT
1 TTAATATAAATATTTTATTTTT
*
6448849 TTAATATAAA-ATATTATTTTT
1 TTAATATAAATATTTTATTTTT
*
6448870 TAAATATAAATATTT
1 TTAATATAAATATTT
6448885 AAAAATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 25 0.81
22 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATATAAATATTTTATTTTT
Found at i:6448870 original size:20 final size:20
Alignment explanation
Indices: 6448830--6448883 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 20
6448820 ATCCAAAATT
6448830 AATAAAATATTTTATTTTTTTA
1 AATAAAATA--TTATTTTTTTA
6448852 ATATAAAATATTA-TTTTTTA
1 A-ATAAAATATTATTTTTTTA
6448872 AATATAAATATT
1 AATA-AAATATT
6448884 TAAAAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 3 0.10
20 15 0.50
21 3 0.10
22 1 0.03
23 8 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AATAAAATATTATTTTTTTA
Found at i:6448892 original size:16 final size:16
Alignment explanation
Indices: 6448871--6448927 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
6448861 ATTATTTTTT
*
6448871 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
6448887 AAATATAATTATATAA
1 AAATATAAATATATAA
*
6448903 ATATATATAA-ATA-AA
1 AAATATA-AATATATAA
6448918 AAAT-TAAATA
1 AAATATAAATA
6448928 ATTAATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 5 0.15
16 23 0.68
17 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:6448918 original size:30 final size:30
Alignment explanation
Indices: 6448851--6448919 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
6448841 TTATTTTTTT
* * *
6448851 AATATAAAATATTATTTTTTAAATATAAATA
1 AATA-AAAATATAATTATATAAATATAAATA
** *
6448882 TTTAAAAATATAATTATATAAATATATATA
1 AATAAAAATATAATTATATAAATATAAATA
6448912 AATAAAAA
1 AATAAAAA
6448920 ATTAAATAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
AATAAAAATATAATTATATAAATATAAATA
Found at i:6449717 original size:32 final size:33
Alignment explanation
Indices: 6449672--6449736 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
6449662 TTAGGAAAAT
* *
6449672 TTTAAAATCTAAAACATTGA-ATCAAAT-TAAA
1 TTTAAAATATAAAACATTAATATCAAATATAAA
*
6449703 TTTAAACATATAAAATATTAATATCAAATATAAA
1 TTTAAA-ATATAAAACATTAATATCAAATATAAA
6449737 CTCAATTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 6 0.21
32 11 0.39
33 7 0.25
34 4 0.14
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34
Consensus pattern (33 bp):
TTTAAAATATAAAACATTAATATCAAATATAAA
Found at i:6453073 original size:17 final size:17
Alignment explanation
Indices: 6453047--6453080 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6453037 TTAGATACGT
*
6453047 GTATGCTAAGCAATTGA
1 GTATGATAAGCAATTGA
6453064 GTATGATAAGCAATTGA
1 GTATGATAAGCAATTGA
6453081 ATAAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (17 bp):
GTATGATAAGCAATTGA
Found at i:6458776 original size:18 final size:19
Alignment explanation
Indices: 6458743--6458779 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6458733 ATCTTCAAAA
6458743 CTTGAACTCGAACTCTTCT
1 CTTGAACTCGAACTCTTCT
*
6458762 CTTGAA-TCGAGCTCTTCT
1 CTTGAACTCGAACTCTTCT
6458780 AAGCTTACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.38
Consensus pattern (19 bp):
CTTGAACTCGAACTCTTCT
Found at i:6458951 original size:31 final size:31
Alignment explanation
Indices: 6458908--6458992 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
6458898 TTCAAACCTT
*
6458908 CAGCTCTGATACCACTTGTTGGGGAACACCA
1 CAGCTCTGATACCATTTGTTGGGGAACACCA
* *
6458939 CAGCTCTAATACCATTTGCTGGGGAACACCA
1 CAGCTCTGATACCATTTGTTGGGGAACACCA
6458970 CAGCTCTGATACCATTTGTTGGG
1 CAGCTCTGATACCATTTGTTGGG
6458993 CTAAAAGCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (31 bp):
CAGCTCTGATACCATTTGTTGGGGAACACCA
Found at i:6459567 original size:52 final size:52
Alignment explanation
Indices: 6459482--6459601 Score: 152
Period size: 52 Copynumber: 2.3 Consensus size: 52
6459472 TATAACCACA
* * * *
6459482 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCT-TCTGTAAGT
1 CAAACTTGCCTATTAAAAATCCCTCTCCCCTTAGAATTCTTCTCT-TGCAAGT
* * *
6459534 CAAACTTGCCTATTAAAAATCTCTTTCCCCTTAGAATTTTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAAAATCCCTCTCCCCTTAGAATTCTTCTCTTGCAAGT
*
6459586 CAAACTTACCTATTAA
1 CAAACTTGCCTATTAA
6459602 GAATAATCTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
52 58 0.98
53 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (52 bp):
CAAACTTGCCTATTAAAAATCCCTCTCCCCTTAGAATTCTTCTCTTGCAAGT
Found at i:6459634 original size:52 final size:52
Alignment explanation
Indices: 6459511--6459634 Score: 144
Period size: 52 Copynumber: 2.4 Consensus size: 52
6459501 TCCCTCTCCT
* * * *
6459511 CTTAGAATTCTTCTTCTGTAAGTCAAACTTGCCTATTAAAAATCTCTTTCCC
1 CTTAGAATTCTTCTTTTGCAAGTCAAACTTACCTATTAAAAATATCTTTCCC
* * * *
6459563 CTTAGAATTTTTCTCTTGCAAGTCAAACTTACCTATTAAGAATAATCTTT-CT
1 CTTAGAATTCTTCTTTTGCAAGTCAAACTTACCTATTAAAAAT-ATCTTTCCC
6459615 CTT-GAAATTCTTCTTTTGCA
1 CTTAG-AATTCTTCTTTTGCA
6459635 GGTCTTTTTG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
51 1 0.02
52 54 0.90
53 5 0.08
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (52 bp):
CTTAGAATTCTTCTTTTGCAAGTCAAACTTACCTATTAAAAATATCTTTCCC
Found at i:6460042 original size:52 final size:52
Alignment explanation
Indices: 6459980--6460083 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
6459970 AAATATTCAT
*
6459980 TTGAAAAAGCAACTAACAAACTAAATAAAATCAAACTATTGGAAAGTATGAA
1 TTGAAAAAGCAACTAACAAACTAAATAAAATCAAACTATTGAAAAGTATGAA
* * *
6460032 TTGAAAAAGCAATTGACAAACTAAATAAAATCAAACTATTGAAAAGTGTGAA
1 TTGAAAAAGCAACTAACAAACTAAATAAAATCAAACTATTGAAAAGTATGAA
6460084 GATAACCCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.55, C:0.11, G:0.12, T:0.22
Consensus pattern (52 bp):
TTGAAAAAGCAACTAACAAACTAAATAAAATCAAACTATTGAAAAGTATGAA
Found at i:6460620 original size:20 final size:19
Alignment explanation
Indices: 6460595--6460641 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
6460585 ATAAAAATAT
*
6460595 TTATTTTATTTATTTTATTA
1 TTATTTTATTGA-TTTATTA
6460615 TTATTTTAATTGATTTATTA
1 TTATTTT-ATTGATTTATTA
6460635 -TATTTTA
1 TTATTTTA
6460642 AATATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 6 0.24
20 14 0.56
21 4 0.16
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TTATTTTATTGATTTATTA
Found at i:6467638 original size:111 final size:111
Alignment explanation
Indices: 6467439--6467656 Score: 400
Period size: 111 Copynumber: 2.0 Consensus size: 111
6467429 CCAGGCATGT
*
6467439 TACCAGACCACCCTTGATTTGGTGGCACATTCCCCATATTCTGTTGCTTTCCTGGCATTCCTCCC
1 TACCAGACCACCCTTGATTTGGTGGCACATTCCCCATATTCTGCTGCTTTCCTGGCATTCCTCCC
*
6467504 ATGTTTGGTGGCATTCCTCCTCCCATGTTGTTTGGAGGAATTTCTC
66 ATGTTTGATGGCATTCCTCCTCCCATGTTGTTTGGAGGAATTTCTC
*
6467550 TACCGGACCACCCTTGATTTGGTGGCACATTCCCCATATTCTGCTGCTTTCCTGGCATTCCTCCC
1 TACCAGACCACCCTTGATTTGGTGGCACATTCCCCATATTCTGCTGCTTTCCTGGCATTCCTCCC
*
6467615 ATGTTTGATGGCATTCCTCCTCCCATGTTGTTTGGTGGAATT
66 ATGTTTGATGGCATTCCTCCTCCCATGTTGTTTGGAGGAATT
6467657 GCTCCTCCCA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 103 1.00
ACGTcount: A:0.14, C:0.30, G:0.19, T:0.37
Consensus pattern (111 bp):
TACCAGACCACCCTTGATTTGGTGGCACATTCCCCATATTCTGCTGCTTTCCTGGCATTCCTCCC
ATGTTTGATGGCATTCCTCCTCCCATGTTGTTTGGAGGAATTTCTC
Found at i:6467673 original size:24 final size:24
Alignment explanation
Indices: 6467608--6467691 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 24
6467598 TTCCTGGCAT
* *
6467608 TCCTCCCATGTTTGATGGCATTCC
1 TCCTCCCATGTTTGGTGGAATTCC
*
6467632 TCCTCCCATGTTGTTTGGTGGAATTGC
1 TCCTCCCA---TGTTTGGTGGAATTCC
*
6467659 TCCTCCCATGTTTGGTGGGA-TCC
1 TCCTCCCATGTTTGGTGGAATTCC
6467682 T--TCCCATGTT
1 TCCTCCCATGTT
6467692 ATTGGGTGGC
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
21 9 0.17
23 3 0.06
24 19 0.37
27 21 0.40
ACGTcount: A:0.11, C:0.29, G:0.21, T:0.39
Consensus pattern (24 bp):
TCCTCCCATGTTTGGTGGAATTCC
Found at i:6467699 original size:24 final size:24
Alignment explanation
Indices: 6467667--6467751 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 24
6467657 GCTCCTCCCA
* *
6467667 TGTTTGGTGGGATCCTTCCCATGT
1 TGTTGGGTGGCATCCTTCCCATGT
*
6467691 TATTGGGTGGCATCCTTCCCATGT
1 TGTTGGGTGGCATCCTTCCCATGT
* *
6467715 TGTTGGGAGGCATCCCTCCCATGT
1 TGTTGGGTGGCATCCTTCCCATGT
*
6467739 TGTTGGGAGGCAT
1 TGTTGGGTGGCAT
6467752 TCCAGCTCTA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.12, C:0.22, G:0.31, T:0.35
Consensus pattern (24 bp):
TGTTGGGTGGCATCCTTCCCATGT
Found at i:6478390 original size:22 final size:22
Alignment explanation
Indices: 6478336--6478381 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
6478326 TACTCTCAAC
6478336 TTGTAAGCATCTTTCTATGTAA
1 TTGTAAGCATCTTTCTATGTAA
6478358 TTGTAAGCATCTTTCTATGTAA
1 TTGTAAGCATCTTTCTATGTAA
6478380 TT
1 TT
6478382 TCTTTCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (22 bp):
TTGTAAGCATCTTTCTATGTAA
Found at i:6483097 original size:19 final size:19
Alignment explanation
Indices: 6483073--6483114 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
6483063 TTCTTAAAGT
6483073 GAACTTCGTAGAAGTAAGG
1 GAACTTCGTAGAAGTAAGG
6483092 GAACTTCGTAGAAGTAAGG
1 GAACTTCGTAGAAGTAAGG
6483111 GAAC
1 GAAC
6483115 ATTGCGCCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (19 bp):
GAACTTCGTAGAAGTAAGG
Found at i:6488138 original size:78 final size:78
Alignment explanation
Indices: 6488009--6488159 Score: 275
Period size: 78 Copynumber: 1.9 Consensus size: 78
6487999 TGGGAACCAA
*
6488009 AATCAAAGCTAGTGATGCACATATACTCGGTAGGTCTTTTAGCTTGCTTGTTTGTGCAGTTCACA
1 AATCAAAGCTAGGGATGCACATATACTCGGTAGGTCTTTTAGCTTGCTTGTTTGTGCAGTTCACA
*
6488074 ATCTTCTTGCCAG
66 AGCTTCTTGCCAG
*
6488087 AATCAAAGCTAGGGATGTACATATACTCGGTAGGTCTTTTAGCTTGCTTGTTTGTGCAGTTCACA
1 AATCAAAGCTAGGGATGCACATATACTCGGTAGGTCTTTTAGCTTGCTTGTTTGTGCAGTTCACA
6488152 AGCTTCTT
66 AGCTTCTT
6488160 CGGGTTGAGG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (78 bp):
AATCAAAGCTAGGGATGCACATATACTCGGTAGGTCTTTTAGCTTGCTTGTTTGTGCAGTTCACA
AGCTTCTTGCCAG
Found at i:6500407 original size:20 final size:20
Alignment explanation
Indices: 6500382--6500421 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6500372 TTTTTTGTAG
*
6500382 TATAAAGTTAAAAAATATAA
1 TATAAAATTAAAAAATATAA
* *
6500402 TATAAAATTTAAATATATAA
1 TATAAAATTAAAAAATATAA
6500422 AAATAAAGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
TATAAAATTAAAAAATATAA
Found at i:6519291 original size:66 final size:66
Alignment explanation
Indices: 6519210--6519341 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
6519200 CACGAAGGAC
6519210 TGCGAGCTTAGAACAATCAGAGATGTACAAAGATTGATGAGTGGTGAGGTTTTGAAAGCCCTTGG
1 TGCGAGCTTAGAACAATCAGAGATGTACAAAGATTGATGAGTGGTGAGGTTTTGAAAGCCCTTGG
6519275 A
66 A
6519276 TGCGAGCTTAGAACAATCAGAGATGTACAAAGATTGATGAGTGGTGAGGTTTTGAAAGCCCTTGG
1 TGCGAGCTTAGAACAATCAGAGATGTACAAAGATTGATGAGTGGTGAGGTTTTGAAAGCCCTTGG
6519341 A
66 A
6519342 GAACATGTAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (66 bp):
TGCGAGCTTAGAACAATCAGAGATGTACAAAGATTGATGAGTGGTGAGGTTTTGAAAGCCCTTGG
A
Found at i:6526221 original size:15 final size:15
Alignment explanation
Indices: 6526203--6526232 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6526193 TTTAAAAATA
6526203 ATTTAATATTTATTT
1 ATTTAATATTTATTT
6526218 ATTTAATATTTATTT
1 ATTTAATATTTATTT
6526233 TTATTTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTAATATTTATTT
Found at i:6526248 original size:12 final size:11
Alignment explanation
Indices: 6526211--6526253 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 11
6526201 TAATTTAATA
6526211 TTTATTTATTT
1 TTTATTTATTT
**
6526222 AATATTTA-TT
1 TTTATTTATTT
6526232 TTTATTTATTCT
1 TTTATTTATT-T
6526244 TTTATTTATT
1 TTTATTTATT
6526254 ATTATTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 8 0.31
11 7 0.27
12 11 0.42
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:6526330 original size:30 final size:31
Alignment explanation
Indices: 6526296--6526371 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 31
6526286 TTATTTTAAA
6526296 ATTTATTTATATTCATTTTATAATTTAT-T-T
1 ATTTATTTATATTCA-TTTATAATTTATATAT
* * *
6526326 ATTTAATTATAATTTATTTATTATTTATAAATAT
1 ATTTATTTAT-ATTCATTTATAATTTAT--ATAT
6526360 ATTTATTTATAT
1 ATTTATTTATAT
6526372 ATTTTTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
30 20 0.54
31 4 0.11
33 3 0.08
34 10 0.27
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTATTTATATTCATTTATAATTTATATAT
Found at i:6526337 original size:19 final size:19
Alignment explanation
Indices: 6526313--6526368 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
6526303 TATATTCATT
6526313 TTATAATTTATTTATTTAA
1 TTATAATTTATTTATTTAA
*
6526332 TTATAATTTATTTA-TTAT
1 TTATAATTTATTTATTTAA
*
6526350 TTATAAATATATTTATTTA
1 TTAT-AATTTATTTATTTA
6526369 TATATTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 7 0.21
19 23 0.70
20 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATAATTTATTTATTTAA
Found at i:6526378 original size:26 final size:27
Alignment explanation
Indices: 6526337--6526388 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
6526327 TTTAATTATA
*
6526337 ATTTATTTATTATTTATAAATATATTT
1 ATTTATATATTATTTATAAATATATTT
6526364 ATTTATATATT-TTTATAAATATATT
1 ATTTATATATTATTTATAAATATATT
6526389 CGTTTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTATATATTATTTATAAATATATTT
Found at i:6526394 original size:26 final size:26
Alignment explanation
Indices: 6526337--6526400 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
6526327 TTTAATTATA
* *
6526337 ATTTATTTATTATTTATAAATATATTT
1 ATTTATATATT-TTTATAAATATATTC
6526364 ATTTATATATTTTTATAAATATATTC
1 ATTTATATATTTTTATAAATATATTC
*
6526390 GTTTA-ATATTT
1 ATTTATATATTT
6526401 ATGAATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 6 0.18
26 18 0.53
27 10 0.29
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTTATATATTTTTATAAATATATTC
Found at i:6526418 original size:23 final size:23
Alignment explanation
Indices: 6526337--6526418 Score: 85
Period size: 23 Copynumber: 3.4 Consensus size: 23
6526327 TTTAATTATA
*
6526337 ATTTATTTATTATTTATAAATAT
1 ATTTATTTAATATTTATAAATAT
6526360 ATTTATTTATATATTTTTATAAATAT
1 ATTTATTTA-ATA--TTTATAAATAT
** *
6526386 ATTCGTTTAATATTTATGAATA-
1 ATTTATTTAATATTTATAAATAT
6526408 ATTTTATTTAA
1 A-TTTATTTAA
6526419 CTTAATTAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
22 1 0.02
23 25 0.51
24 2 0.04
25 3 0.06
26 18 0.37
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (23 bp):
ATTTATTTAATATTTATAAATAT
Found at i:6528311 original size:20 final size:19
Alignment explanation
Indices: 6528288--6528330 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
6528278 TTTTAATATT
*
6528288 AATAAAAATATTATTTTAA
1 AATAAAAATACTATTTTAA
**
6528307 GAATAGTAATACTATTTTAA
1 -AATAAAAATACTATTTTAA
6528327 AATA
1 AATA
6528331 TTAGTACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (19 bp):
AATAAAAATACTATTTTAA
Found at i:6528454 original size:36 final size:34
Alignment explanation
Indices: 6528354--6528455 Score: 95
Period size: 36 Copynumber: 3.0 Consensus size: 34
6528344 TAATAAATAG
* *
6528354 TTTTAAT-TTAAGTATTTTTATATTAACATAA-TA
1 TTTTAATATTAA-TATTTTAATAATAACATAATTA
* *
6528387 TTTTAATATTAATATTATTATTAA-AATATAATTA
1 TTTTAATATTAATATT-TTAATAATAACATAATTA
6528421 TTCTTGAATATTAATAATTTTAATAATAA-ATAATT
1 TT-TT-AATATTAAT-ATTTTAATAATAACATAATT
6528456 TCAATATACT
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
33 17 0.30
34 12 0.21
35 2 0.04
36 21 0.37
37 5 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (34 bp):
TTTTAATATTAATATTTTAATAATAACATAATTA
Found at i:6529558 original size:19 final size:20
Alignment explanation
Indices: 6529536--6529576 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6529526 TATTATCATA
* *
6529536 ATTATTTAT-TATTTGTATG
1 ATTATTAATATATTTGCATG
6529555 ATTATTAATATATTTGCATG
1 ATTATTAATATATTTGCATG
6529575 AT
1 AT
6529577 AGTTGTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (20 bp):
ATTATTAATATATTTGCATG
Found at i:6529966 original size:20 final size:21
Alignment explanation
Indices: 6529941--6529996 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
6529931 ATTAAAATTA
6529941 ATAAAATATTAATTTTT-AAT
1 ATAAAATATTAATTTTTAAAT
*
6529961 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTAATTTTTAAAT
*
6529982 ATAAATATATAAATT
1 ATAAA-ATATTAATT
6529997 AAATAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 16 0.52
21 8 0.26
22 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATATTAATTTTTAAAT
Found at i:6531537 original size:28 final size:28
Alignment explanation
Indices: 6531505--6531561 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
6531495 CCTTTTGCCC
6531505 TGGACCAAAGCAGAGTACAACCAGTGTT
1 TGGACCAAAGCAGAGTACAACCAGTGTT
6531533 TGGACCAAAGCAGAGTACAACCAGTGTT
1 TGGACCAAAGCAGAGTACAACCAGTGTT
6531561 T
1 T
6531562 AGCCAAGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (28 bp):
TGGACCAAAGCAGAGTACAACCAGTGTT
Found at i:6533705 original size:18 final size:19
Alignment explanation
Indices: 6533666--6533705 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
6533656 TTCCCTATAA
*
6533666 AAAAAAAAAACTAAATCTG
1 AAAAAAAAAACTAAATCGG
*
6533685 AAAAAAATAACTAAAT-GG
1 AAAAAAAAAACTAAATCGG
6533703 AAA
1 AAA
6533706 TAAGTACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (19 bp):
AAAAAAAAAACTAAATCGG
Found at i:6549791 original size:18 final size:18
Alignment explanation
Indices: 6549753--6549788 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6549743 GATATATAAA
*
6549753 ATTTATTTTTAATTTATT
1 ATTTAATTTTAATTTATT
6549771 ATTTAATTTTATATTTAT
1 ATTTAATTTTA-ATTTAT
6549789 ATTAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTAATTTTAATTTATT
Found at i:6549807 original size:22 final size:22
Alignment explanation
Indices: 6549774--6549816 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6549764 ATTTATTATT
*
6549774 TAATTTTATATTTATATTAAAA
1 TAATTTTATATTAATATTAAAA
*
6549796 TAATATTT-TATTAATTTTAAA
1 TAAT-TTTATATTAATATTAAA
6549817 TAAAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TAATTTTATATTAATATTAAAA
Found at i:6553218 original size:14 final size:14
Alignment explanation
Indices: 6553199--6553225 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6553189 ATTATGGGTT
6553199 TTAATTTTAATTTA
1 TTAATTTTAATTTA
6553213 TTAATTTTAATTT
1 TTAATTTTAATTT
6553226 TTTTTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAATTTTAATTTA
Found at i:6554043 original size:24 final size:25
Alignment explanation
Indices: 6553992--6554044 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
6553982 TAAATTCAAG
*
6553992 TTTGAGTATAAATAATCAAAATTTT
1 TTTGAATATAAATAATCAAAATTTT
*
6554017 TTTGAATATAAA-AATCAAATTTATT
1 TTTGAATATAAATAATCAAAATT-TT
6554042 TTT
1 TTT
6554045 ACATGTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (25 bp):
TTTGAATATAAATAATCAAAATTTT
Found at i:6557113 original size:18 final size:20
Alignment explanation
Indices: 6557090--6557131 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6557080 ATGATAAATA
*
6557090 ATATATT-TTT-TATATTAT
1 ATATATTATTTATAAATTAT
6557108 ATATATTATTTATAAATTAT
1 ATATATTATTTATAAATTAT
6557128 ATAT
1 ATAT
6557132 TATAAGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 3 0.14
20 11 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATATATTATTTATAAATTAT
Found at i:6557132 original size:18 final size:18
Alignment explanation
Indices: 6557083--6557134 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
6557073 AAACTGAATG
* *
6557083 ATAAATAATATATTTTTT
1 ATAAATTATATATTATTT
*
6557101 AT-ATTATATATATTATTT
1 ATAAAT-TATATATTATTT
6557119 ATAAATTATATATTAT
1 ATAAATTATATATTAT
6557135 AAGTATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.07
18 24 0.86
19 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATAAATTATATATTATTT
Found at i:6557203 original size:14 final size:14
Alignment explanation
Indices: 6557184--6557210 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6557174 ATTATGGGTT
6557184 TTAATTTTAATTTA
1 TTAATTTTAATTTA
6557198 TTAATTTTAATTT
1 TTAATTTTAATTT
6557211 TTTTAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAATTTTAATTTA
Found at i:6558029 original size:24 final size:25
Alignment explanation
Indices: 6557978--6558030 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
6557968 TAAATTCAAG
*
6557978 TTTGAGTATAAATAATCAAAATTTT
1 TTTGAATATAAATAATCAAAATTTT
*
6558003 TTTGAATATAAA-AATCAAATTTATT
1 TTTGAATATAAATAATCAAAATT-TT
6558028 TTT
1 TTT
6558031 ACATGTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (25 bp):
TTTGAATATAAATAATCAAAATTTT
Found at i:6574149 original size:9 final size:9
Alignment explanation
Indices: 6574135--6574177 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
6574125 AAGATAATAT
6574135 TTAAATTTA
1 TTAAATTTA
6574144 TTAAATTTA
1 TTAAATTTA
6574153 TTAAATTTA
1 TTAAATTTA
6574162 --AAATTT-
1 TTAAATTTA
6574168 TT-AATTTA
1 TTAAATTTA
6574176 TT
1 TT
6574178 CATTTATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 11 0.35
8 2 0.06
9 18 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTAAATTTA
Found at i:6574936 original size:23 final size:24
Alignment explanation
Indices: 6574892--6574937 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
6574882 ATATAATTAT
*
6574892 TTTAATATATTTTTAGAGTTTAAA
1 TTTAATATATTTTTAGACTTTAAA
* *
6574916 TTTAA-ATTTTTTTTGACTTTAA
1 TTTAATATATTTTTAGACTTTAA
6574938 GTCATTTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (24 bp):
TTTAATATATTTTTAGACTTTAAA
Found at i:6575616 original size:21 final size:21
Alignment explanation
Indices: 6575592--6575633 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6575582 CCCTCCTCAC
6575592 CTTCGC-CATCGCCTCTTTCCT
1 CTTCGCAC-TCGCCTCTTTCCT
*
6575613 CTTCGCACTCTCCTCTTTCCT
1 CTTCGCACTCGCCTCTTTCCT
6575634 TTCCTCCGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.05, C:0.48, G:0.07, T:0.40
Consensus pattern (21 bp):
CTTCGCACTCGCCTCTTTCCT
Found at i:6580747 original size:21 final size:21
Alignment explanation
Indices: 6580722--6580765 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
6580712 GATTATGCTT
*
6580722 TTAGATAATCGAACATCGACA
1 TTAGACAATCGAACATCGACA
*
6580743 TTAGACAATCGAACATTGACA
1 TTAGACAATCGAACATCGACA
6580764 TT
1 TT
6580766 TTCTATGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (21 bp):
TTAGACAATCGAACATCGACA
Found at i:6581824 original size:28 final size:28
Alignment explanation
Indices: 6581792--6581846 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
6581782 TTATATATCT
*
6581792 GTATTTGATAAATTTATAATAAATGTGA
1 GTATTTGATAAATATATAATAAATGTGA
6581820 GTATTTGATAAATATATAATAAATGTG
1 GTATTTGATAAATATATAATAAATGTG
6581847 GATACGAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (28 bp):
GTATTTGATAAATATATAATAAATGTGA
Found at i:6583065 original size:12 final size:12
Alignment explanation
Indices: 6583030--6583070 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
6583020 TCGGGTAAAG
*
6583030 ATATATAAATAA
1 ATATATAAATAT
*
6583042 ATAAATAAATAT
1 ATATATAAATAT
*
6583054 ATATATATATAT
1 ATATATAAATAT
6583066 ATATA
1 ATATA
6583071 ATTTTAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATATAAATAT
Found at i:6584618 original size:15 final size:16
Alignment explanation
Indices: 6584579--6584619 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
6584569 GGTAATATTT
6584579 ACTTACAAATTATTTTA
1 ACTTA-AAATTATTTTA
*
6584596 ACTTAAAATTATTTTT
1 ACTTAAAATTATTTTA
6584612 A-TTAAAAT
1 ACTTAAAAT
6584620 ATAATATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 11 0.48
17 5 0.22
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (16 bp):
ACTTAAAATTATTTTA
Found at i:6584651 original size:26 final size:27
Alignment explanation
Indices: 6584599--6584688 Score: 78
Period size: 30 Copynumber: 3.2 Consensus size: 27
6584589 TATTTTAACT
*
6584599 TAAAATTATTTTTATTAAAATAT--AATA
1 TAAAAATATTTTTA--AAAATATAAAATA
*
6584626 T-CAAATATTTTTAAAAATATAAAATAA
1 TAAAAATATTTTTAAAAATATAAAAT-A
*
6584653 TAAAAATATTTTAAAAAAATTATAAAATA
1 TAAAAATATTTT-TAAAAA-TATAAAATA
6584682 TTAAAAA
1 -TAAAAA
6584689 AATATTATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
24 7 0.13
26 13 0.25
27 3 0.06
28 9 0.17
29 6 0.12
30 14 0.27
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (27 bp):
TAAAAATATTTTTAAAAATATAAAATA
Found at i:6584669 original size:11 final size:11
Alignment explanation
Indices: 6584652--6584706 Score: 60
Period size: 11 Copynumber: 5.1 Consensus size: 11
6584642 ATATAAAATA
6584652 ATAAAAATATT
1 ATAAAAATATT
* *
6584663 TTAAAAAAATT
1 ATAAAAATATT
6584674 AT-AAAATATT
1 ATAAAAATATT
*
6584684 AAAAAAATATT
1 ATAAAAATATT
6584695 ATATAAAA-ATT
1 ATA-AAAATATT
6584706 A
1 A
6584707 GATCTAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 8 0.22
11 24 0.67
12 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAAAAATATT
Found at i:6584679 original size:21 final size:20
Alignment explanation
Indices: 6584655--6584697 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
6584645 TAAAATAATA
*
6584655 AAAATATTTTAAAAAAATTAT
1 AAAATA-TTAAAAAAAATTAT
6584676 AAAATATTAAAAAAATATTAT
1 AAAATATTAAAAAAA-ATTAT
6584697 A
1 A
6584698 TAAAAATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATATTAAAAAAAATTAT
Found at i:6584679 original size:30 final size:31
Alignment explanation
Indices: 6584614--6584706 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 31
6584604 TTATTTTTAT
*
6584614 TAAAATATAATATCAAATATTTT-TAAAAA-TA
1 TAAAATATAA-A-AAAATATTTTATAAAAATTA
* *
6584645 TAAAATA-ATAAAAATATTTTAAAAAAATTA
1 TAAAATATAAAAAAATATTTTATAAAAATTA
*
6584675 TAAAATATTAAAAAAATATTATATAAAAATTA
1 TAAAATA-TAAAAAAATATTTTATAAAAATTA
6584707 GATCTAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
28 9 0.17
29 6 0.12
30 10 0.19
31 7 0.13
32 20 0.38
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (31 bp):
TAAAATATAAAAAAATATTTTATAAAAATTA
Found at i:6588412 original size:11 final size:10
Alignment explanation
Indices: 6588378--6588416 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 10
6588368 CTAGATTTTA
6588378 TTTATTTATCT
1 TTTATTTAT-T
6588389 ATTTATTTATT
1 -TTTATTTATT
6588400 TTTATTATATT
1 TTTATT-TATT
6588411 TTTATT
1 TTTATT
6588417 GAATTATTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 6 0.23
11 11 0.42
12 9 0.35
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTATTTATT
Found at i:6590371 original size:99 final size:99
Alignment explanation
Indices: 6590200--6590399 Score: 321
Period size: 99 Copynumber: 2.0 Consensus size: 99
6590190 GGTCATTTAT
* * *
6590200 TTGTCTTTCATTTCTATAAAATGGCAAGTGCATTTCATCATATGTTTCTTTCTTCATCCTTGCTT
1 TTGTCTTTCATTTCAATAAAATGGCAAGTGCATTTCATCACATGTTTCTTTCTTCATCCTTACTT
6590265 TTACACACCCTTTCACACTTCACCCATTCTCACA
66 TTACACACCCTTTCACACTTCACCCATTCTCACA
*
6590299 TTGTCTTTCATTTTCAATAAAATGGCAAGTGCATTTCATCACATGTTT-TTTTTTCATCCTTACT
1 TTGTCTTTCA-TTTCAATAAAATGGCAAGTGCATTTCATCACATGTTTCTTTCTTCATCCTTACT
* * *
6590363 TTTACACACCCTTTCATACTTTACTCATTCTCACA
65 TTTACACACCCTTTCACACTTCACCCATTCTCACA
6590398 TT
1 TT
6590400 CCAGATAATG
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 58 0.62
100 35 0.38
ACGTcount: A:0.23, C:0.26, G:0.07, T:0.45
Consensus pattern (99 bp):
TTGTCTTTCATTTCAATAAAATGGCAAGTGCATTTCATCACATGTTTCTTTCTTCATCCTTACTT
TTACACACCCTTTCACACTTCACCCATTCTCACA
Found at i:6591283 original size:14 final size:13
Alignment explanation
Indices: 6591266--6591307 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
6591256 AGTAAAAATG
6591266 ATGAGTGAAAGAAA
1 ATGAGTGAAA-AAA
6591280 ATGA-TGAAAAAA
1 ATGAGTGAAAAAA
*
6591292 ATGAG-AAAAAAA
1 ATGAGTGAAAAAA
6591304 ATGA
1 ATGA
6591308 AAAATGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 17 0.65
13 5 0.19
14 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.14
Consensus pattern (13 bp):
ATGAGTGAAAAAA
Found at i:6591294 original size:12 final size:12
Alignment explanation
Indices: 6591266--6591311 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 12
6591256 AGTAAAAATG
6591266 ATGAGTGAAAGAAA
1 ATGA-TGAAA-AAA
6591280 ATGATGAAAAAA
1 ATGATGAAAAAA
6591292 ATGA-GAAAAAA
1 ATGATGAAAAAA
6591303 A--ATGAAAAA
1 ATGATGAAAAA
6591312 TGAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 1 0.03
10 6 0.19
11 8 0.26
12 7 0.23
13 5 0.16
14 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (12 bp):
ATGATGAAAAAA
Found at i:6591318 original size:17 final size:16
Alignment explanation
Indices: 6591296--6591327 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6591286 AAAAAAATGA
6591296 GAAAAAAAATGAAAAAT
1 GAAAAAAAA-GAAAAAT
6591313 GAAAAAAAAGAAAAA
1 GAAAAAAAAGAAAAA
6591328 AGGAACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (16 bp):
GAAAAAAAAGAAAAAT
Found at i:6592753 original size:85 final size:87
Alignment explanation
Indices: 6592658--6592847 Score: 242
Period size: 85 Copynumber: 2.2 Consensus size: 87
6592648 TAGAGAAGCC
* * * *
6592658 TTTAAAATTTTTTAAATTTCATAGCCTTTGATGAAAAAAG-CATTTTATATTTTTCAAAAGTTGT
1 TTTAAAATTTTTAAAATTTCATAACCTCTGATGAAAAAAGTC-TTTTATATTTTTCAAAAGTTAT
** * *
6592722 TGAGTCTCTAATGAGAA-AA-GT
65 TGAACCTCTAATAAGAAGAACCT
* * *
6592743 TTTAAAATTTTTAAAATTTTATAACCTCTGATGAGAAGAGTCTTTTATATTTTTCAAAAGTTATT
1 TTTAAAATTTTTAAAATTTCATAACCTCTGATGAAAAAAGTCTTTTATATTTTTCAAAAGTTATT
6592808 GAACCTCTAATAAGAAGAACCT
66 GAACCTCTAATAAGAAGAACCT
*
6592830 TTTAAAATTTTAAAAATT
1 TTTAAAATTTTTAAAATT
6592848 GTTGAGTCTC
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
85 69 0.77
86 3 0.03
87 18 0.20
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (87 bp):
TTTAAAATTTTTAAAATTTCATAACCTCTGATGAAAAAAGTCTTTTATATTTTTCAAAAGTTATT
GAACCTCTAATAAGAAGAACCT
Found at i:6592815 original size:44 final size:42
Alignment explanation
Indices: 6592700--6592825 Score: 130
Period size: 41 Copynumber: 3.0 Consensus size: 42
6592690 GAAAAAAGCA
** *
6592700 TTTTATATTTTTCAAAAGTTGTTGAGTCTCTAATGAGAAAAGT
1 TTTTATATTTTTCAAAAGTT-TTGAACCTCTAATGAGAAGAGT
* * * *
6592743 TTTAAAATTTTT-AAAA-TTTTATAACCTCTGATGAGAAGAGT
1 TTTTATATTTTTCAAAAGTTTT-GAACCTCTAATGAGAAGAGT
*
6592784 CTTTTATATTTTTCAAAAGTTATTGAACCTCTAATAAGAAGA
1 -TTTTATATTTTTCAAAAGTT-TTGAACCTCTAATGAGAAGA
6592826 ACCTTTTAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
40 2 0.03
41 17 0.26
42 14 0.21
43 14 0.21
44 17 0.26
45 2 0.03
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.42
Consensus pattern (42 bp):
TTTTATATTTTTCAAAAGTTTTGAACCTCTAATGAGAAGAGT
Found at i:6592832 original size:44 final size:42
Alignment explanation
Indices: 6592700--6592926 Score: 122
Period size: 43 Copynumber: 5.3 Consensus size: 42
6592690 GAAAAAAGCA
* ** * *
6592700 TTTTATATTTTTCAAAAGTTGTTGAGTCTCTAATGAGAA-AAG
1 TTTTAAATTTTT-AAAAGTTGTTGAACCTCTAATAAGAAGAAC
* * * *
6592742 TTTTAAAATTTTTAAAA-TT-TTATAACCTCTGATGAGAAGAGTC
1 TTTT-AAATTTTTAAAAGTTGTT-GAACCTCTAATAAGAAGA-AC
* *
6592785 TTTTATATTTTTCAAAAGTTATTGAACCTCTAATAAGAAGAACC
1 TTTTAAATTTTT-AAAAGTTGTTGAACCTCTAATAAGAAGAA-C
* * ** * *
6592829 TTTTAAAATTTTAAAAATTGTTGAGTCTCTAATAAGATGAGC
1 TTTTAAATTTTTAAAAGTTGTTGAACCTCTAATAAGAAGAAC
* ** * *
6592871 TTTCTAAACTTTCCAAAGTTATT-AAGCCTCTAACAAGAA-AAGCTC
1 TTT-TAAATTTTTAAAAGTTGTTGAA-CCTCTAATAAGAAGAA---C
6592916 TTTTAAATTTT
1 TTTTAAATTTT
6592927 CCTAAGTTTC
Statistics
Matches: 141, Mismatches: 31, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
40 2 0.01
41 14 0.10
42 22 0.16
43 62 0.44
44 35 0.25
45 6 0.04
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (42 bp):
TTTTAAATTTTTAAAAGTTGTTGAACCTCTAATAAGAAGAAC
Found at i:6593979 original size:20 final size:20
Alignment explanation
Indices: 6593940--6594030 Score: 71
Period size: 20 Copynumber: 4.6 Consensus size: 20
6593930 TTTATCCAGA
*
6593940 ATAAATAAATAAATATGAAAT
1 ATAAATAAA-AAATACGAAAT
*
6593961 ATAAATATAAAATACGAAAT
1 ATAAATAAAAAATACGAAAT
* * *
6593981 A-CAATAAAAAAATACAAAAA
1 ATAAAT-AAAAAATACGAAAT
* * *
6594001 AT-AATATAAAATACAAAAC
1 ATAAATAAAAAATACGAAAT
6594020 A-AAATAAAAAA
1 ATAAATAAAAAA
6594031 AAACACAAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
19 24 0.41
20 26 0.45
21 8 0.14
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (20 bp):
ATAAATAAAAAATACGAAAT
Found at i:6594001 original size:12 final size:13
Alignment explanation
Indices: 6593957--6594029 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 13
6593947 AATAAATATG
* *
6593957 AAATATAAATATA
1 AAATAAAAATACA
*
6593970 AAATACGAAATACA
1 AAATA-AAAATACA
6593984 ATAA-AAAAATACA
1 A-AATAAAAATACA
* *
6593997 AAA-AATAATATA
1 AAATAAAAATACA
*
6594009 AAATACAAA-ACA
1 AAATAAAAATACA
6594021 AAATAAAAA
1 AAATAAAAA
6594030 AAAACACAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
12 22 0.46
13 16 0.33
14 8 0.17
15 2 0.04
ACGTcount: A:0.74, C:0.07, G:0.01, T:0.18
Consensus pattern (13 bp):
AAATAAAAATACA
Found at i:6594009 original size:22 final size:22
Alignment explanation
Indices: 6593984--6594039 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 22
6593974 ACGAAATACA
6593984 ATAAAAAAATACAAAA-AATAAT
1 ATAAAAAAATACAAAACAA-AAT
6594006 AT---AAAATACAAAACAAAAT
1 ATAAAAAAATACAAAACAAAAT
* *
6594025 AAAAAAAAACACAAA
1 ATAAAAAAATACAAA
6594040 GTAGAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 15 0.54
20 2 0.07
22 11 0.39
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (22 bp):
ATAAAAAAATACAAAACAAAAT
Found at i:6594030 original size:19 final size:19
Alignment explanation
Indices: 6593963--6594030 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
6593953 TATGAAATAT
*
6593963 AAATATAAAATACGAAATACA
1 AAATAAAAAATAC-AAA-ACA
*
6593984 ATA-AAAAAATACAAAA-A
1 AAATAAAAAATACAAAACA
*
6594001 ATAATATAAAATACAAAACA
1 A-AATAAAAAATACAAAACA
6594021 AAATAAAAAA
1 AAATAAAAAA
6594031 AAACACAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
17 2 0.05
18 2 0.05
19 23 0.59
20 10 0.26
21 2 0.05
ACGTcount: A:0.75, C:0.07, G:0.01, T:0.16
Consensus pattern (19 bp):
AAATAAAAAATACAAAACA
Found at i:6594445 original size:22 final size:23
Alignment explanation
Indices: 6594418--6594469 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
6594408 CACGAAGAAG
**
6594418 AAAAAATGGGTCAGTTTA-AAAA
1 AAAAAATGGGTCAGAATACAAAA
* *
6594440 AAAAAAGGGGTTAGAATACAAAA
1 AAAAAATGGGTCAGAATACAAAA
6594463 AAAAAAT
1 AAAAAAT
6594470 CTCACCAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.62, C:0.04, G:0.17, T:0.17
Consensus pattern (23 bp):
AAAAAATGGGTCAGAATACAAAA
Found at i:6595077 original size:16 final size:15
Alignment explanation
Indices: 6595035--6595087 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
6595025 AGGTAAAAAA
6595035 ATTT-TTTTTTTGAAT
1 ATTTATTTTTTT-AAT
* *
6595050 TTTTCTTATTTTTAAT
1 ATTTATT-TTTTTAAT
6595066 ATATTATTTTTTTAAT
1 AT-TTATTTTTTTAAT
6595082 ATTTAT
1 ATTTAT
6595088 GCATATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 7 0.22
16 16 0.50
17 9 0.28
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (15 bp):
ATTTATTTTTTTAAT
Found at i:6596462 original size:25 final size:26
Alignment explanation
Indices: 6596428--6596477 Score: 84
Period size: 25 Copynumber: 1.9 Consensus size: 26
6596418 ATTATTTGTT
6596428 GATCCAAAAAGAC-ATTTAGTTTATA
1 GATCCAAAAAGACAATTTAGTTTATA
6596453 GATCCAAAAAGACATATTTAGTTTA
1 GATCCAAAAAGACA-ATTTAGTTTA
6596478 AGTATTTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 13 0.57
27 10 0.43
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (26 bp):
GATCCAAAAAGACAATTTAGTTTATA
Found at i:6604465 original size:28 final size:28
Alignment explanation
Indices: 6604425--6604480 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
6604415 ATGCATAACT
6604425 AGTTGAGAGATTGGTAAAATAATTAAGG
1 AGTTGAGAGATTGGTAAAATAATTAAGG
* *
6604453 AGTTGTGAGATTGGTAAGATAATTAAGG
1 AGTTGAGAGATTGGTAAAATAATTAAGG
6604481 TAAAATATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (28 bp):
AGTTGAGAGATTGGTAAAATAATTAAGG
Found at i:6606186 original size:17 final size:17
Alignment explanation
Indices: 6606147--6606192 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
6606137 ATGCATCAAT
*
6606147 ATATAAAAAAATACTTA
1 ATATAAAAAAATACATA
*
6606164 AAATAATAAAAATA-ATA
1 ATATAA-AAAAATACATA
6606181 ATATAAAAAAAT
1 ATATAAAAAAAT
6606193 TCAAAAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 12 0.48
18 7 0.28
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATAAAAAAATACATA
Found at i:6606894 original size:18 final size:18
Alignment explanation
Indices: 6606857--6606895 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6606847 TTGTGTTTTA
**
6606857 GTTTCTGGTGGGTGAAGG
1 GTTTCTGGTGGACGAAGG
*
6606875 GTTTCTGGTGGACGAGGG
1 GTTTCTGGTGGACGAAGG
6606893 GTT
1 GTT
6606896 GATTGGGGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.10, C:0.08, G:0.49, T:0.33
Consensus pattern (18 bp):
GTTTCTGGTGGACGAAGG
Found at i:6607301 original size:12 final size:12
Alignment explanation
Indices: 6607284--6607315 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6607274 AAATTGTTGT
6607284 TATTATTATTAA
1 TATTATTATTAA
6607296 TATTATTATTAA
1 TATTATTATTAA
*
6607308 AATTATTA
1 TATTATTA
6607316 ATATTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:6607581 original size:22 final size:22
Alignment explanation
Indices: 6607556--6607597 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6607546 AATTTATACT
*
6607556 CGGAGGTTTTAAAAATCATGTC
1 CGGAGGTCTTAAAAATCATGTC
*
6607578 CGGAGGTCTTAAGAATCATG
1 CGGAGGTCTTAAAAATCATG
6607598 CTCGAAGATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (22 bp):
CGGAGGTCTTAAAAATCATGTC
Found at i:6607743 original size:131 final size:131
Alignment explanation
Indices: 6607496--6607847 Score: 367
Period size: 131 Copynumber: 2.7 Consensus size: 131
6607486 GATTGGGATG
* * * * *
6607496 ACACCGCAAGTCGAAAAATAATGAATCGATC-ATGATAACACCGTAAATCAAATTTATACTCGGA
1 ACACCACAAGTC-AAAAATAATGAATCAATCGA-GATAACACCGTGAATCAAATTTATGCCCGGA
* * * * * *
6607560 GGTTTTAAAAATCATGTCCGGAGGTCTTAAGAATCATGCTCGAAGATCTTACAGAATTGA-TCAA
64 GGTCTTAGAAATCATGTCTGGAAGTCTTAAAAATCATGCTCGAAGATCTTACAGAATTAACT-AA
6607624 GATA
128 GATA
*** *
6607628 ACACTGTAAGTCAAAAATAATGAATCAATCGGGATAACACCGTGAATCAAATTTATGCCCGGAGG
1 ACACCACAAGTCAAAAATAATGAATCAATCGAGATAACACCGTGAATCAAATTTATGCCCGGAGG
* * * *
6607693 TCTTAGAAATCATGTCTGGAAGTCTTAAAAATCATG-TCCGGAGGTTTTACAGAATTAACTGAGA
66 TCTTAGAAATCATGTCTGGAAGTCTTAAAAATCATGCT-CGAAGATCTTACAGAATTAACTAAGA
6607757 TA
130 TA
* ** * **
6607759 ACACCACAAGT-TAAAA-AAT-AAAGAATCGAGATAACACCGCGAATCAAATTTATGCCCAAAGG
1 ACACCACAAGTCAAAAATAATGAATCAATCGAGATAACACCGTGAATCAAATTTATGCCCGGAGG
* *
6607821 TCTTAGAAACCATG-CTCGAAGGTCTTA
66 TCTTAGAAATCATGTCTGGAA-GTCTTA
6607848 CAGAATTGAT
Statistics
Matches: 187, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
127 5 0.03
128 56 0.30
129 3 0.02
130 5 0.03
131 107 0.57
132 11 0.06
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (131 bp):
ACACCACAAGTCAAAAATAATGAATCAATCGAGATAACACCGTGAATCAAATTTATGCCCGGAGG
TCTTAGAAATCATGTCTGGAAGTCTTAAAAATCATGCTCGAAGATCTTACAGAATTAACTAAGAT
A
Found at i:6608039 original size:110 final size:108
Alignment explanation
Indices: 6607714--6608044 Score: 386
Period size: 109 Copynumber: 3.1 Consensus size: 108
6607704 ATGTCTGGAA
* * * * * * *
6607714 GTCTTAAAAATCATGTCCGGAGGTTTTACAGAATTAACTGAGATAACACCACAAGTTAAAAAATA
1 GTCTTAGAAATCATGCCCGAAGGTCTTACAGAATTGACTGTGA-AATACCACAAGTTAAAAAATA
* *
6607779 AAGAATCGA---GATAACACCGCGAATCAAATTTATGCCCAAAG
65 AAGAATCGATGGGATAACACTGCGAATCAAATTTATGCCCAGAG
* *
6607820 GTCTTAGAAACCATGCTCGAAGGTCTTACAGAATTGA---TGAAATGACACTACAAGTTAAAAAA
1 GTCTTAGAAATCATGCCCGAAGGTCTTACAGAATTGACTGTGAAAT-AC-C-ACAAGTTAAAAAA
* *
6607882 TAAAGAATCGATTGGGATAACACTGCGAATCGAATTTATGCCTAGAG
63 TAAAGAATCGA-TGGGATAACACTGCGAATCAAATTTATGCCCAGAG
* * * * *
6607929 GTCTTAGAAATCATGCCCAAAGGTCTTACAGAATCGACTGTGACAATACCATAAGTCAAAAAATC
1 GTCTTAGAAATCATGCCCGAAGGTCTTACAGAATTGACTGTGA-AATACCACAAGTTAAAAAATA
*
6607994 AAGAATCGATCGGGATAACACTGCGAATCAAATTTATACCCAGAG
65 AAGAATCGAT-GGGATAACACTGCGAATCAAATTTATGCCCAGAG
6608039 GTCTTA
1 GTCTTA
6608045 CAGAATTGAC
Statistics
Matches: 190, Mismatches: 23, Indels: 20
0.82 0.10 0.09
Matches are distributed among these distances:
102 2 0.01
103 4 0.02
104 1 0.01
105 24 0.13
106 30 0.16
109 62 0.33
110 58 0.31
111 1 0.01
112 5 0.03
113 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (108 bp):
GTCTTAGAAATCATGCCCGAAGGTCTTACAGAATTGACTGTGAAATACCACAAGTTAAAAAATAA
AGAATCGATGGGATAACACTGCGAATCAAATTTATGCCCAGAG
Found at i:6608179 original size:88 final size:86
Alignment explanation
Indices: 6607936--6608276 Score: 396
Period size: 87 Copynumber: 3.9 Consensus size: 86
6607926 GAGGTCTTAG
* * * * *
6607936 AAATCATGCCCAAAGGTCTTACAGAATCGACTGTGACAATACCATAAGTCAAAAAATCAAGAATC
1 AAATTATGCCCGAAGGTCTTACAGAATCGACTG-GATAACACCATAAGTCAAAAAATAAAGAATC
*
6608001 GATCGGGATAACACTGCGAATCA
65 GATCGGGATAACAC-GTGAATCA
* * * * * * *
6608024 AATTTATACCC-AGAGGTCTTACAGAATTGACTGGATAACATCGTAAGTCAAAAGATAAGGAATC
1 AAATTATGCCCGA-AGGTCTTACAGAATCGACTGGATAACACCATAAGTCAAAAAATAAAGAATC
*
6608088 GATCGAGATAACATCGTGAATCA
65 GATCGGGATAACA-CGTGAATCA
* * * * *
6608111 AAATTATGCCCGAAGGTCTTATAGAATCGATTGGAATAACACCATAAGTCGAAAGATAAAAAATC
1 AAATTATGCCCGAAGGTCTTACAGAATCGACTGG-ATAACACCATAAGTCAAAAAATAAAGAATC
6608176 GATCGGGATAACACCGTGAATCA
65 GATCGGGATAACA-CGTGAATCA
* * * *
6608199 AAATTATGCCTGGAGGTCTTACATAATCGACTGGATAACACCATAAGTCAAAAAATTAAGAATCG
1 AAATTATGCCCGAAGGTCTTACAGAATCGACTGGATAACACCATAAGTCAAAAAATAAAGAATCG
* *
6608264 ATTGGCATAACAC
66 ATCGGGATAACAC
6608277 CACGTCTTAC
Statistics
Matches: 213, Mismatches: 36, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
86 1 0.00
87 108 0.51
88 104 0.49
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.22
Consensus pattern (86 bp):
AAATTATGCCCGAAGGTCTTACAGAATCGACTGGATAACACCATAAGTCAAAAAATAAAGAATCG
ATCGGGATAACACGTGAATCA
Found at i:6608199 original size:175 final size:175
Alignment explanation
Indices: 6607936--6608265 Score: 439
Period size: 175 Copynumber: 1.9 Consensus size: 175
6607926 GAGGTCTTAG
* * *
6607936 AAATCATGCCCAAAGGTCTTACAGAATCGACTGTGACAATACCATAAGTCAAAAAATCAAGAATC
1 AAATCATGCCCAAAGGTCTTACAGAATCGACTGTGACAACACCATAAGTCAAAAAATAAAAAATC
* * * *
6608001 GATCGGGATAACACTGCGAATCAAATTTATACCCAGAGGTCTTACAGAATTGACTGGATAACATC
66 GATCGGGATAACACCGCGAATCAAAATTATACCCAGAGGTCTTACAGAATCGACTGGATAACACC
* *
6608066 GTAAGTCAAAAGA-TAAGGAATCGATCGAGATAACATCGTGAATCA
131 ATAAGTCAAAAAATTAA-GAATCGATCGAGATAACATCGTGAATCA
* * * * * * *
6608111 AAATTATGCCCGAAGGTCTTATAGAATCGATTG-GAATAACACCATAAGTCGAAAGATAAAAAAT
1 AAATCATGCCCAAAGGTCTTACAGAATCGACTGTG-ACAACACCATAAGTCAAAAAATAAAAAAT
* * ** *
6608175 CGATCGGGATAACACCGTGAATCAAAATTATGCCTGGAGGTCTTACATAATCGACTGGATAACAC
65 CGATCGGGATAACACCGCGAATCAAAATTATACCCAGAGGTCTTACAGAATCGACTGGATAACAC
6608240 CATAAGTCAAAAAATTAAGAATCGAT
130 CATAAGTCAAAAAATTAAGAATCGAT
6608266 TGGCATAACA
Statistics
Matches: 132, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
174 1 0.01
175 128 0.97
176 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (175 bp):
AAATCATGCCCAAAGGTCTTACAGAATCGACTGTGACAACACCATAAGTCAAAAAATAAAAAATC
GATCGGGATAACACCGCGAATCAAAATTATACCCAGAGGTCTTACAGAATCGACTGGATAACACC
ATAAGTCAAAAAATTAAGAATCGATCGAGATAACATCGTGAATCA
Found at i:6608314 original size:67 final size:66
Alignment explanation
Indices: 6608214--6608343 Score: 154
Period size: 67 Copynumber: 2.0 Consensus size: 66
6608204 ATGCCTGGAG
* * *
6608214 GTCTTACATAATCGACTGGATAACACCATAAGTCAAAAAATTAA-GAATCGATTGGCATAACACC
1 GTCTTACAGAATCGACTGGATAACACCACAAGTCAAAAAA-TAAGGAATCGATCGGCATAACACC
6608278 AC
65 AC
* * * * * *
6608280 GTCTTACAGAATTGACTTGGATAACATCGCAAGTCGAAAGATAAGGAATCGATCGGGATAACAC
1 GTCTTACAGAATCGAC-TGGATAACACCACAAGTCAAAAAATAAGGAATCGATCGGCATAACAC
6608344 TGTAAATCGA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
66 17 0.32
67 36 0.68
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.22
Consensus pattern (66 bp):
GTCTTACAGAATCGACTGGATAACACCACAAGTCAAAAAATAAGGAATCGATCGGCATAACACCA
C
Found at i:6612322 original size:12 final size:11
Alignment explanation
Indices: 6612292--6612337 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
6612282 ATTTTTTAAA
6612292 TATAAATAT-T
1 TATAAATATAT
*
6612302 TAAAAATATCAT
1 TATAAATAT-AT
6612314 TATAAATATAT
1 TATAAATATAT
6612325 ATATAAATA-AT
1 -TATAAATATAT
6612336 TA
1 TA
6612338 ATTTAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 10 0.32
11 4 0.13
12 17 0.55
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (11 bp):
TATAAATATAT
Found at i:6612346 original size:13 final size:13
Alignment explanation
Indices: 6612328--6612365 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
6612318 AATATATATA
6612328 TAAATAATTAATT
1 TAAATAATTAATT
6612341 TAAATAATTAA-T
1 TAAATAATTAATT
*
6612353 TAAA-AAATAATT
1 TAAATAATTAATT
6612365 T
1 T
6612366 TTTATATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 5 0.22
12 7 0.30
13 11 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TAAATAATTAATT
Found at i:6613126 original size:132 final size:132
Alignment explanation
Indices: 6612887--6613146 Score: 421
Period size: 132 Copynumber: 2.0 Consensus size: 132
6612877 GTGAACCTAA
*
6612887 ATGGATACAATGGTGTTTCAACAGCTATTTCTTCCCTTGTCTTGTGCGTCTCAACAACTCTTTAT
1 ATGGATACAATGGTGTTTCAACAGCTATTTCTTCCCTTGTCCTGTGCGTCTCAACAACTCTTTAT
* * *
6612952 CTTTTTGTTAATTCCACTATCATCTGTTTTAATTCTATTAGTTGTCTATTTATGTTCTATTACCC
66 CTTTTTGTCAATTCCACTATCATCTGTTTTAATTCTACTAGTTGTCTATTCATGTTCTATTACCC
6613017 AG
131 AG
* * ** *
6613019 ATGGATACAATGGTGTTTCAACAGTTGTTTCTTCTTTTGTCCTGTGCGTCTCAACAACTCTTTTT
1 ATGGATACAATGGTGTTTCAACAGCTATTTCTTCCCTTGTCCTGTGCGTCTCAACAACTCTTTAT
* *
6613084 CTTTTTGTCAATTCCACTATCATCTGTTTTAATTCTACTAGTTGTCTGTTCATGTTCTGTTAC
66 CTTTTTGTCAATTCCACTATCATCTGTTTTAATTCTACTAGTTGTCTATTCATGTTCTATTAC
6613147 ATTCTTATGA
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 117 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (132 bp):
ATGGATACAATGGTGTTTCAACAGCTATTTCTTCCCTTGTCCTGTGCGTCTCAACAACTCTTTAT
CTTTTTGTCAATTCCACTATCATCTGTTTTAATTCTACTAGTTGTCTATTCATGTTCTATTACCC
AG
Found at i:6617434 original size:16 final size:17
Alignment explanation
Indices: 6617408--6617483 Score: 72
Period size: 16 Copynumber: 4.7 Consensus size: 17
6617398 AGGTTCTAAG
6617408 GTTTCGAATTTTAGGGA
1 GTTTCGAATTTTAGGGA
*
6617425 GTTT-GAATTTAAGGGA
1 GTTTCGAATTTTAGGGA
*
6617441 -TTTTG-ATTTT--GGA
1 GTTTCGAATTTTAGGGA
* *
6617454 GTTTGGAGATTTTAGGGG
1 GTTTCGA-ATTTTAGGGA
6617472 GTTTCGAATTTT
1 GTTTCGAATTTT
6617484 TGGGTCTGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
13 3 0.06
14 4 0.08
15 7 0.15
16 17 0.35
17 9 0.19
18 8 0.17
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.46
Consensus pattern (17 bp):
GTTTCGAATTTTAGGGA
Found at i:6617797 original size:12 final size:12
Alignment explanation
Indices: 6617730--6617804 Score: 53
Period size: 12 Copynumber: 5.9 Consensus size: 12
6617720 ATAATAAAAA
*
6617730 TTATTATCATTT
1 TTATTATTATTT
**
6617742 TT-TTAGCATTT
1 TTATTATTATTT
*
6617753 TTAATATATATTT
1 TTATTAT-TATTT
6617766 TTAATTATTATCTT
1 TT-ATTATTAT-TT
*
6617780 ACTTATTTTTATTT
1 --TTATTATTATTT
6617794 TTATTATTATT
1 TTATTATTATT
6617805 AAAACAATTA
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
11 10 0.20
12 14 0.28
13 9 0.18
14 8 0.16
15 7 0.14
16 2 0.04
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:6618597 original size:18 final size:18
Alignment explanation
Indices: 6618574--6618613 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6618564 TTTATGTTTT
* *
6618574 GGTTTCTGGTGGGTGAGG
1 GGTTTCTGATGGGTGAAG
6618592 GGTTTCTGATGGGTGAAG
1 GGTTTCTGATGGGTGAAG
6618610 GGTT
1 GGTT
6618614 GATTGGGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.05, G:0.50, T:0.35
Consensus pattern (18 bp):
GGTTTCTGATGGGTGAAG
Found at i:6619301 original size:25 final size:26
Alignment explanation
Indices: 6619273--6619324 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
6619263 TAATTATTTG
6619273 TAAAT-CAAAGAAGAC-ATTTAGTTTA
1 TAAATCCAAA-AAGACAATTTAGTTTA
6619298 TAAATCCAAAAAGACATATTTAGTTTA
1 TAAATCCAAAAAGACA-ATTTAGTTTA
6619325 AGTATTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 10 0.42
26 4 0.17
27 10 0.42
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (26 bp):
TAAATCCAAAAAGACAATTTAGTTTA
Found at i:6625507 original size:11 final size:11
Alignment explanation
Indices: 6625491--6625520 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
6625481 AGGATAATAA
6625491 CTAAAAAAATG
1 CTAAAAAAATG
6625502 CT-AAAAAATG
1 CTAAAAAAATG
6625512 CTAAAAAAA
1 CTAAAAAAA
6625521 AAATAGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (11 bp):
CTAAAAAAATG
Found at i:6625924 original size:30 final size:30
Alignment explanation
Indices: 6625831--6625969 Score: 126
Period size: 31 Copynumber: 4.7 Consensus size: 30
6625821 AAATTAAAAT
* *
6625831 CAAACCTTAAAATCAAAACTCC-AAA-CCTT
1 CAAACCCTAAAATCAAAA-TCCTAAACCCTC
* *
6625860 CAAACCCTAAAA-CTAAA-CTCTGAA-CCTC
1 CAAACCCTAAAATCAAAATC-CTAAACCCTC
*
6625888 CAAACCCTAAAATTAAAATCCTAAACCCTC
1 CAAACCCTAAAATCAAAATCCTAAACCCTC
* * *
6625918 CGAACCCTAAAATCAAAAACCTTAAACCATC
1 CAAACCCTAAAATCAAAATCC-TAAACCCTC
* *
6625949 TAAACCTTAAAATCAAAATCC
1 CAAACCCTAAAATCAAAATCC
6625970 CAAAATCCAA
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
26 1 0.01
27 1 0.01
28 21 0.24
29 18 0.20
30 23 0.26
31 25 0.28
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.19
Consensus pattern (30 bp):
CAAACCCTAAAATCAAAATCCTAAACCCTC
Found at i:6625960 original size:31 final size:30
Alignment explanation
Indices: 6625831--6625966 Score: 111
Period size: 28 Copynumber: 4.6 Consensus size: 30
6625821 AAATTAAAAT
* * *
6625831 CAAACCTTAAAATC-AAAACTCCAAACC-TT
1 CAAACCCTAAAATCAAAAAC-CTAAACCATC
* *
6625860 CAAACCCTAAAA-C-TAAACTCTGAACC-TC
1 CAAACCCTAAAATCAAAAAC-CTAAACCATC
* * *
6625888 CAAACCCTAAAATTAAAATCCTAAACCCTC
1 CAAACCCTAAAATCAAAAACCTAAACCATC
*
6625918 CGAACCCTAAAATCAAAAACCTTAAACCATC
1 CAAACCCTAAAATCAAAAACC-TAAACCATC
* *
6625949 TAAACCTTAAAATCAAAA
1 CAAACCCTAAAATCAAAA
6625967 TCCCAAAATC
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
28 24 0.28
29 17 0.20
30 23 0.26
31 23 0.26
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (30 bp):
CAAACCCTAAAATCAAAAACCTAAACCATC
Found at i:6626009 original size:15 final size:15
Alignment explanation
Indices: 6625920--6626009 Score: 64
Period size: 15 Copynumber: 6.1 Consensus size: 15
6625910 AAACCCTCCG
*
6625920 AACCCTAAAATCAAA
1 AACCCTAAAATCCAA
* *
6625935 AACCTTAAACCAT-CTA
1 AACCCTAAA--ATCCAA
*
6625951 AACCTTAAAAT-CAA
1 AACCCTAAAATCCAA
6625965 AATCCC-AAAATCCAA
1 AA-CCCTAAAATCCAA
* *
6625980 AACTC-GAAA-CCAA
1 AACCCTAAAATCCAA
6625993 AACCCTAAAATCCAA
1 AACCCTAAAATCCAA
6626008 AA
1 AA
6626010 TCCCAAGCCC
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
13 8 0.13
14 19 0.32
15 21 0.35
16 10 0.17
17 2 0.03
ACGTcount: A:0.54, C:0.29, G:0.01, T:0.16
Consensus pattern (15 bp):
AACCCTAAAATCCAA
Found at i:6626063 original size:7 final size:7
Alignment explanation
Indices: 6625957--6626047 Score: 62
Period size: 7 Copynumber: 12.7 Consensus size: 7
6625947 TCTAAACCTT
6625957 AAAAT-C
1 AAAATCC
6625963 AAAATCCC
1 AAAAT-CC
6625971 AAAATCC
1 AAAATCC
6625978 AAAA-CTC
1 AAAATC-C
*
6625985 GAAA-CC
1 AAAATCC
*
6625991 AAAACCC
1 AAAATCC
6625998 TAAAATCC
1 -AAAATCC
6626006 AAAATCC
1 AAAATCC
* **
6626013 CAAGCCC
1 AAAATCC
6626020 TAAAATCC
1 -AAAATCC
*
6626028 AAAATCGT
1 AAAATC-C
6626036 AAAATCC
1 AAAATCC
6626043 AAAAT
1 AAAAT
6626048 TTTAAAAATC
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
6 10 0.15
7 35 0.52
8 22 0.33
ACGTcount: A:0.54, C:0.29, G:0.03, T:0.14
Consensus pattern (7 bp):
AAAATCC
Found at i:6626080 original size:15 final size:16
Alignment explanation
Indices: 6626021--6626077 Score: 89
Period size: 16 Copynumber: 3.6 Consensus size: 16
6626011 CCCAAGCCCT
**
6626021 AAAATCCAAAATCGT-
1 AAAATCCAAAATTTTA
6626036 AAAATCCAAAATTTTA
1 AAAATCCAAAATTTTA
6626052 AAAATCCAAAATTTTA
1 AAAATCCAAAATTTTA
6626068 AAAATCCAAA
1 AAAATCCAAA
6626078 TTTGATATGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 13 0.33
16 26 0.67
ACGTcount: A:0.58, C:0.16, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAATCCAAAATTTTA
Found at i:6632714 original size:22 final size:22
Alignment explanation
Indices: 6632689--6632748 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
6632679 GTCAATTCTG
*
6632689 TAAGATCTTCGGGCATGATTCC
1 TAAGAACTTCGGGCATGATTCC
* * * *
6632711 TAAGACCTCCGAGCATGATTTC
1 TAAGAACTTCGGGCATGATTCC
6632733 TAA-AACTTTCGGGCAT
1 TAAGAAC-TTCGGGCAT
6632749 AAATTTGATT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (22 bp):
TAAGAACTTCGGGCATGATTCC
Found at i:6632903 original size:87 final size:88
Alignment explanation
Indices: 6632812--6633000 Score: 211
Period size: 87 Copynumber: 2.2 Consensus size: 88
6632802 GTTATCCCAA
* * *
6632812 TCAATTTTATAAGACCTCCGAGCATAATTTCCATTCGCGATGTTGTCTT-GATTGA-TTCTTTAT
1 TCAATTCTATAAGACCTCCGAGCATAATTTCCATTCGCAATGTTGT-TTCGATCGATTTCTTTAT
* ** *
6632875 TTTTTACCTATGGTGTTATCTTGG
65 TTTTGACCTACAGTGTTATCTCGG
* * * * ** * *
6632899 TCAATTCTGTAAGACTTTCGGGCATAATTTTGATTCGTAATGTTGTTTCGATCGATTTTTTTATT
1 TCAATTCTATAAGACCTCCGAGCATAATTTCCATTCGCAATGTTGTTTCGATCGATTTCTTTATT
*
6632964 TTTGACCTGCAGTGTTATCTCGG
66 TTTGACCTACAGTGTTATCTCGG
6632987 TCAATTCTATAAGA
1 TCAATTCTATAAGA
6633001 TCTTCGAATA
Statistics
Matches: 83, Mismatches: 17, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
86 2 0.02
87 42 0.51
88 39 0.47
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.46
Consensus pattern (88 bp):
TCAATTCTATAAGACCTCCGAGCATAATTTCCATTCGCAATGTTGTTTCGATCGATTTCTTTATT
TTTGACCTACAGTGTTATCTCGG
Done.