Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, 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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 29 of 56
Found at i:6103459 original size:19 final size:19
Alignment explanation
Indices: 6103435--6103474 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6103425 CGAATAATTG
* *
6103435 AATCGAATATATAATTTTA
1 AATCGAATATAAAATCTTA
6103454 AATCGAATATAAAATCTTA
1 AATCGAATATAAAATCTTA
6103473 AA
1 AA
6103475 ATTCAATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (19 bp):
AATCGAATATAAAATCTTA
Found at i:6121171 original size:55 final size:55
Alignment explanation
Indices: 6121109--6121284 Score: 288
Period size: 55 Copynumber: 3.3 Consensus size: 55
6121099 TTAAAATATT
6121109 AAATAATTTAAAATAAATAATAAAATACTATTTTATCATTAATAAATTTTTTAAA
1 AAATAATTTAAAATAAATAATAAAATACTATTTTATCATTAATAAATTTTTTAAA
*
6121164 AAATAATTTAAAATAAATAATAAAAATACTATTTTATCATTAAT-AATTTTTTTAA
1 AAATAATTTAAAATAAATAAT-AAAATACTATTTTATCATTAATAAATTTTTTAAA
*
6121219 AAATAATTTAAAATAAATAATAAAATACTAATTTATCATTAATAAA--TTTTAAA
1 AAATAATTTAAAATAAATAATAAAATACTATTTTATCATTAATAAATTTTTTAAA
*
6121272 AAA-GATTTAAAAT
1 AAATAATTTAAAAT
6121285 GATAACCGCC
Statistics
Matches: 115, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
52 9 0.08
53 9 0.08
54 21 0.18
55 54 0.47
56 22 0.19
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (55 bp):
AAATAATTTAAAATAAATAATAAAATACTATTTTATCATTAATAAATTTTTTAAA
Found at i:6121980 original size:13 final size:13
Alignment explanation
Indices: 6121958--6121993 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
6121948 ATACTGATGC
6121958 ATGA-ATGTATGG
1 ATGATATGTATGG
6121970 ATGATATGTATGG
1 ATGATATGTATGG
*
6121983 ATGGTATGTAT
1 ATGATATGTAT
6121994 ATATGCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.39
Consensus pattern (13 bp):
ATGATATGTATGG
Found at i:6122158 original size:28 final size:29
Alignment explanation
Indices: 6122089--6122165 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
6122079 TGTATATATG
*
6122089 CATATCAA-ACATACATACATGCATCGATA
1 CATAT-AATACATACATACATGCATCAATA
* * *
6122118 -TTATAATATATACATGCATGCATCAATA
1 CATATAATACATACATACATGCATCAATA
6122146 CATAT-ATACATACATACATG
1 CATATAATACATACATACATG
6122166 GGCCAATAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
27 2 0.05
28 34 0.87
29 3 0.08
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.30
Consensus pattern (29 bp):
CATATAATACATACATACATGCATCAATA
Found at i:6122507 original size:31 final size:31
Alignment explanation
Indices: 6122471--6122551 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
6122461 GGTAAAATTG
*
6122471 AAAGTTTAGTGGTATAAAAGATACAACGCCT
1 AAAGTTCAGTGGTATAAAAGATACAACGCCT
* *
6122502 AAAGTTCAATGGTATAAACGATACAACGCCT
1 AAAGTTCAGTGGTATAAAAGATACAACGCCT
6122533 AAAGTTCAGTGGTATAAAA
1 AAAGTTCAGTGGTATAAAA
6122552 TATAACTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGTTCAGTGGTATAAAAGATACAACGCCT
Found at i:6122758 original size:25 final size:24
Alignment explanation
Indices: 6122721--6122771 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
6122711 ATAAATTTTG
*
6122721 ATTTAATATAATTATAAACATAAAA
1 ATTTAATAAAATTATAAA-ATAAAA
* * *
6122746 ATTTAGTAAAATTTTAAAATGAAA
1 ATTTAATAAAATTATAAAATAAAA
6122770 AT
1 AT
6122772 ATTCTCTTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (24 bp):
ATTTAATAAAATTATAAAATAAAA
Found at i:6122844 original size:47 final size:48
Alignment explanation
Indices: 6122747--6122845 Score: 114
Period size: 48 Copynumber: 2.1 Consensus size: 48
6122737 AACATAAAAA
**
6122747 TTTAGTAAAATTTTAAAATGAAAATATTCTCTTCACTCTTTTTAAATT
1 TTTAGTAAAATTTTAAAATGAAAATATTCTCTTCACTCTCCTTAAATT
* * *
6122795 TTTAGTGAATTTTTAAAATGAAAATCTTCCATCTTC-C-CTCCTT-AATT
1 TTTAGTAAAATTTTAAAATGAAAATATT-C-TCTTCACTCTCCTTAAATT
6122842 TTTA
1 TTTA
6122846 AAATTTTACT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
47 8 0.18
48 29 0.66
49 2 0.05
50 5 0.11
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.47
Consensus pattern (48 bp):
TTTAGTAAAATTTTAAAATGAAAATATTCTCTTCACTCTCCTTAAATT
Found at i:6123167 original size:17 final size:17
Alignment explanation
Indices: 6123145--6123177 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6123135 TTTCATTTTA
6123145 TATTATATTATAATAAG
1 TATTATATTATAATAAG
*
6123162 TATTATATTATTATAA
1 TATTATATTATAATAA
6123178 TTAATAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATTATATTATAATAAG
Found at i:6135776 original size:35 final size:35
Alignment explanation
Indices: 6135679--6135785 Score: 115
Period size: 35 Copynumber: 3.1 Consensus size: 35
6135669 AGAATCTTCT
* * *
6135679 CAATTCAATTTAGCCTTCACAAAAGAGTAGTGAAG
1 CAATCCAATCTAGCCTTCACAAAAGAGTAGTAAAG
* * * * **
6135714 CAATGCAATCCAACCTTTACAGCAGAGTAGTAAAG
1 CAATCCAATCTAGCCTTCACAAAAGAGTAGTAAAG
* *
6135749 TAATCCAATCTAGCCTTCACAAAAGAGTAGTGAAG
1 CAATCCAATCTAGCCTTCACAAAAGAGTAGTAAAG
6135784 CA
1 CA
6135786 GGAACATGTC
Statistics
Matches: 55, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (35 bp):
CAATCCAATCTAGCCTTCACAAAAGAGTAGTAAAG
Found at i:6136191 original size:16 final size:17
Alignment explanation
Indices: 6136160--6136192 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6136150 CAAATCTAGC
*
6136160 CCAAGATCCAATTACAA
1 CCAAGATCCAACTACAA
6136177 CCAAGA-CCAACTACAA
1 CCAAGATCCAACTACAA
6136193 GCAAAACCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.33, G:0.06, T:0.12
Consensus pattern (17 bp):
CCAAGATCCAACTACAA
Found at i:6140625 original size:21 final size:21
Alignment explanation
Indices: 6140600--6140654 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
6140590 CCGATAGATT
* * *
6140600 GCTACTTAAAATGTTATTTTT
1 GCTACCTAAAATGTTAATTTC
* *
6140621 TCTACCGAAAATGTTAATTTC
1 GCTACCTAAAATGTTAATTTC
6140642 GCTACCTAAAATG
1 GCTACCTAAAATG
6140655 AATATTTCTG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (21 bp):
GCTACCTAAAATGTTAATTTC
Found at i:6143553 original size:18 final size:18
Alignment explanation
Indices: 6143530--6143566 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6143520 CTGTTATATG
*
6143530 AAAATAATAATAGTAATA
1 AAAATAATAATAATAATA
*
6143548 AAAATAATACTAATAATA
1 AAAATAATAATAATAATA
6143566 A
1 A
6143567 GTTAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (18 bp):
AAAATAATAATAATAATA
Found at i:6144097 original size:66 final size:66
Alignment explanation
Indices: 6143998--6144383 Score: 474
Period size: 66 Copynumber: 5.8 Consensus size: 66
6143988 TTGATTGAAT
* * * *
6143998 CGAGACCAAATTTGTTTCAAGGGAAATAATCTCA-ATTGTTTATGTTTCAAGGAAAACTGTTTCA
1 CGAGACAAAATTTGTTTCAAGAGAAACAATCTCACA-TGTTTATGTTTCAAGGAAAACTGTCTCA
6144062 AG
65 AG
* *** * * *
6144064 CGAGACAAACTTTGAGCCTAGAGAAACAATCTCACAGGTTTATGTTTCAA-GAGAAATTGTCTCA
1 CGAGACAAAATTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGGA-AAACTGTCTCA
6144128 AG
65 AG
* * * *
6144130 TGAGACAAAATTTGTTTCAAGAGAAACAATCTCACAGGTTTATGTTCCAAGGGAAACTGTCTCAA
1 CGAGACAAAATTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGGAAAACTGTCTCAA
6144195 G
66 G
* * *
6144196 TGAGACAAAATTTATTTCAA-AGAAACAATTTCACATGTTTATGTTTCAA-GAGAAACTGTCTCA
1 CGAGACAAAATTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGGA-AAACTGTCTCA
6144259 AG
65 AG
* * * * *
6144261 AGATACAAACTTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGGGAAACTGTATCAA
1 CGAGACAAAATTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGGAAAACTGTCTCAA
6144326 G
66 G
* *
6144327 CGAGACAATAGTTGTTTCAAGAGAAACAATCTCACATGTTTTATGTTTCAAGAGAAA
1 CGAGACAAAATTTGTTTCAAGAGAAACAATCTCACATG-TTTATGTTTCAAG-GAAA
6144384 CAATCTCAAA
Statistics
Matches: 274, Mismatches: 38, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
64 1 0.00
65 57 0.21
66 197 0.72
67 16 0.06
68 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (66 bp):
CGAGACAAAATTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGGAAAACTGTCTCAA
G
Found at i:6144278 original size:131 final size:130
Alignment explanation
Indices: 6143999--6144384 Score: 506
Period size: 131 Copynumber: 2.9 Consensus size: 130
6143989 TGATTGAATC
* * * *
6143999 GAGACCAAATTTGTTTCAAGGGAAATAATCTCA-ATTGTTTATGTTTCAAGGAAAACTGTTTCAA
1 GAGA-CAAATTTGTTTCAAGAGAAACAATCTCACA-TGTTTATGTTTCAAGGGAAACTGTATCAA
* ** * * *
6144063 GCGAGACAAACTTTGA-GCCTAGAGAAACAATCTCACAGGTTTATGTTTCAAGAGAAATTGTCTC
64 GCGAGACAAAATTT-ATTTC-AAAGAAACAATCTCACATGTTTATGTTTCAAGAGAAACTGTCTC
*
6144127 AAGT
127 AAGA
* * *
6144131 GAGACAAAATTTGTTTCAAGAGAAACAATCTCACAGGTTTATGTTCCAAGGGAAACTGTCTCAAG
1 GAGAC-AAATTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGGGAAACTGTATCAAG
* *
6144196 TGAGACAAAATTTATTTCAAAGAAACAATTTCACATGTTTATGTTTCAAGAGAAACTGTCTCAAG
65 CGAGACAAAATTTATTTCAAAGAAACAATCTCACATGTTTATGTTTCAAGAGAAACTGTCTCAAG
6144261 A
130 A
*
6144262 GATACAAACTTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGGGAAACTGTATCAAG
1 GAGACAAA-TTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGGGAAACTGTATCAAG
* * *
6144327 CGAGACAATAGTTGTTTCAAGAGAAACAATCTCACATGTTTTATGTTTCAAGAGAAAC
65 CGAGACAAAATTTATTTCAA-AGAAACAATCTCACATG-TTTATGTTTCAAGAGAAAC
6144385 AATCTCAAAG
Statistics
Matches: 224, Mismatches: 24, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
130 3 0.01
131 118 0.53
132 83 0.37
133 20 0.09
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (130 bp):
GAGACAAATTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGGGAAACTGTATCAAGC
GAGACAAAATTTATTTCAAAGAAACAATCTCACATGTTTATGTTTCAAGAGAAACTGTCTCAAGA
Found at i:6144309 original size:30 final size:31
Alignment explanation
Indices: 6144273--6144544 Score: 119
Period size: 30 Copynumber: 8.5 Consensus size: 31
6144263 ATACAAACTT
6144273 TGTTTCAAGAGAAACAATCTCACATG-TTTA
1 TGTTTCAAGAGAAACAATCTCACATGATTTA
* ** * **
6144303 TGTTTCAAGGGAAACTGTATCAAGCGA-GACAATA
1 TGTTTCAAGAGAAACAATCTC-A-C-ATGA-TTTA
*
6144337 GTTGTTTCAAGAGAAACAATCTCACATGTTTTA
1 --TGTTTCAAGAGAAACAATCTCACATGATTTA
* *
6144370 TGTTTCAAGAGAAACAATCTCA-AAGGTTTA
1 TGTTTCAAGAGAAACAATCTCACATGATTTA
* ** * * *
6144400 TGTTTCAATAGAAACTGTCTCAAGAGAGACAAAATT-
1 TGTTTCAAGAGAAACAATCTC-ACA-TG----ATTTA
* * *
6144436 TGTTTCAAAAGAAACAATCTCA-AAGGTTTA
1 TGTTTCAAGAGAAACAATCTCACATGATTTA
*** *
6144466 TGTTTCAAGAGAAATTGTCTCA-ATAGAGACAATT-
1 TGTTTCAAGAGAAACAATCTCACAT---G--ATTTA
* *
6144500 TGTTTCAAGAGAAACAATCTTA-ATGGTTTA
1 TGTTTCAAGAGAAACAATCTCACATGATTTA
6144530 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
6144545 TGTCTCAAGA
Statistics
Matches: 182, Mismatches: 38, Indels: 44
0.69 0.14 0.17
Matches are distributed among these distances:
29 4 0.02
30 75 0.41
31 25 0.14
32 3 0.02
33 9 0.05
34 25 0.14
35 4 0.02
36 35 0.19
37 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (31 bp):
TGTTTCAAGAGAAACAATCTCACATGATTTA
Found at i:6144414 original size:97 final size:96
Alignment explanation
Indices: 6144273--6144479 Score: 306
Period size: 97 Copynumber: 2.1 Consensus size: 96
6144263 ATACAAACTT
* * * * *
6144273 TGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGGGAAACTGTATCAAGCGAGACAATAG
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTATCAAGAGAGACAAAAG
* * *
6144338 TTGTTTCAAGAGAAACAATCTCACATGTTTTA
66 TTGTTTCAAAAGAAACAATCTCA-AAGGTTTA
* * *
6144370 TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAATAGAAACTGTCTCAAGAGAGACAAAAT
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTATCAAGAGAGACAAAAG
6144435 TTGTTTCAAAAGAAACAATCTCAAAGGTTTA
66 TTGTTTCAAAAGAAACAATCTCAAAGGTTTA
6144466 TGTTTCAAGAGAAA
1 TGTTTCAAGAGAAA
6144480 TTGTCTCAAT
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
96 20 0.20
97 79 0.80
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (96 bp):
TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTATCAAGAGAGACAAAAG
TTGTTTCAAAAGAAACAATCTCAAAGGTTTA
Found at i:6144449 original size:36 final size:34
Alignment explanation
Indices: 6144400--6144814 Score: 232
Period size: 36 Copynumber: 12.4 Consensus size: 34
6144390 CAAAGGTTTA
*
6144400 TGTTTCAATAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC--AATT
* ** *
6144436 TGTTTCAAAAGAAACAATCTCAA-AG-G---TTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAATT
* *
6144465 ATGTTTCAAGAGAAATTGTCTCAATAGAGACAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAATT
** * * *
6144500 TGTTTCAAGAGAAACAATCTTAA-TG-G---TTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAATT
* * *
6144529 ATGTTTCAAGAGAAACTGTCTCAAGAGTAAAAAAAAT
1 -TGTTTCAAGAGAAACTGTCTCAAGAG--AGACAATT
6144566 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC--AATT
* ** *
6144602 TGTTTCAAGATAAACAATCTCAA-AG-G---TTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAATT
*
6144631 ATGTTTCAAGTGAAACTGTCTCAAGAGAGACAAACTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AA-TT
** *
6144668 TGTTTCAAGAGAAACAATCTCAA-AG-G---TTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAATT
*
6144697 ATGTTCCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGAC--AATT
** *
6144734 TGTTTCAAGAGAAACAATCTCAAG-G-G---TTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAATT
* * *
6144763 ATGTTTCAAGAGAAACTGTCTTAAGTGAGACAAAACT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGAC--AATT
6144800 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
6144815 AATCTCAAAA
Statistics
Matches: 288, Mismatches: 51, Indels: 80
0.69 0.12 0.19
Matches are distributed among these distances:
29 10 0.03
30 99 0.34
31 8 0.03
32 5 0.02
33 1 0.00
34 25 0.09
35 9 0.03
36 125 0.43
37 6 0.02
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (34 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAATT
Found at i:6144455 original size:66 final size:66
Alignment explanation
Indices: 6144370--6144580 Score: 320
Period size: 66 Copynumber: 3.2 Consensus size: 66
6144360 ACATGTTTTA
*
6144370 TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAATAGAAACTGTCTCAAGAGAGACAAAAT
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
6144435 T
66 T
* * *
6144436 TGTTTCAAAAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAATTGTCTCAATAGAGAC--AAT
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
6144499 T
66 T
* * *
6144500 TGTTTCAAGAGAAACAATCTTAATGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGTA-AAAAAA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGAG-AGACAAAA
*
6144564 AT
65 TT
6144566 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
6144581 TGTCTCAAGA
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
64 56 0.43
65 1 0.01
66 74 0.56
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (66 bp):
TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
T
Found at i:6144636 original size:30 final size:30
Alignment explanation
Indices: 6144602--6144778 Score: 124
Period size: 30 Copynumber: 5.5 Consensus size: 30
6144592 AGACAAAATT
*
6144602 TGTTTCAAGATAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
* ** *
6144632 TGTTTCAAGTGAAACTGTCTCAAGAGAGACAAACTT-
1 TGTTTCAAGAGAAACAATCTCAA-AG-G-----TTTA
6144668 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
* ** *
6144698 TGTTCCAAGAGAAACTGTCTCAAGAGAGACAAAATT-
1 TGTTTCAAGAGAAACAATCTCAA-AG-G-----TTTA
*
6144734 TGTTTCAAGAGAAACAATCTCAAGGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
6144764 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
6144779 TGTCTTAAGT
Statistics
Matches: 113, Mismatches: 18, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
29 4 0.04
30 54 0.48
31 4 0.04
32 2 0.02
34 2 0.02
35 3 0.03
36 40 0.35
37 4 0.04
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (30 bp):
TGTTTCAAGAGAAACAATCTCAAAGGTTTA
Found at i:6144637 original size:66 final size:66
Alignment explanation
Indices: 6144566--6144823 Score: 444
Period size: 66 Copynumber: 3.9 Consensus size: 66
6144556 TAAAAAAAAT
*
6144566 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGATAAACAATCTCAAAGGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
6144631 A
66 A
* *
6144632 TGTTTCAAGTGAAACTGTCTCAAGAGAGACAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
6144697 A
66 A
* *
6144698 TGTTCCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAGGGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
6144763 A
66 A
* * *
6144764 TGTTTCAAGAGAAACTGTCTTAAGTGAGACAAAACTTGTTTCAAGAGAAACAATCTCAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAA
6144824 AATGACAGAA
Statistics
Matches: 180, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 180 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.28
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
A
Found at i:6144664 original size:232 final size:233
Alignment explanation
Indices: 6144370--6144814 Score: 734
Period size: 232 Copynumber: 1.9 Consensus size: 233
6144360 ACATGTTTTA
6144370 TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAATAGAAACTGTCTCAAGAGAGACAAAAT
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAATAGAAACTGTCTCAAGAGAGACAAAAT
* * *
6144435 TTGTTTCAAAAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAATTGTCTCAATAGAGAC-AAT
66 TTGTTTCAAAAGAAACAATCTCAAAGGTTTATGTTCCAAGAGAAACTGTCTCAAGAGAGACAAAT
* *
6144499 TTGTTTCAAGAGAAACAATCTTAATGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGTA-AAAAA
131 TTGTTTCAAGAGAAACAATCTCAAGGGTTTATGTTTCAAGAGAAACTGTCTCAAGAG-AGAAAAA
6144563 AATTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
195 AATTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
6144602 TGTTTCAAGATAAACAATCTCAAAGGTTTATGTTTCAAGT-GAAACTGTCTCAAGAGAGACAAAC
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAA-TAGAAACTGTCTCAAGAGAGACAAAA
*
6144666 TTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTCCAAGAGAAACTGTCTCAAGAGAGACAAA
65 TTTGTTTCAAAAGAAACAATCTCAAAGGTTTATGTTCCAAGAGAAACTGTCTCAAGAGAGAC-AA
* * *
6144731 ATTTGTTTCAAGAGAAACAATCTCAAGGGTTTATGTTTCAAGAGAAACTGTCTTAAGTGAGACAA
129 ATTTGTTTCAAGAGAAACAATCTCAAGGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGAAAA
*
6144796 AACTTGTTTCAAGAGAAAC
194 AAATTGTTTCAAGAGAAAC
6144815 AATCTCAAAA
Statistics
Matches: 197, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
232 118 0.60
233 2 0.01
234 77 0.39
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (233 bp):
TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAATAGAAACTGTCTCAAGAGAGACAAAAT
TTGTTTCAAAAGAAACAATCTCAAAGGTTTATGTTCCAAGAGAAACTGTCTCAAGAGAGACAAAT
TTGTTTCAAGAGAAACAATCTCAAGGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAA
ATTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:6144690 original size:102 final size:100
Alignment explanation
Indices: 6144466--6144682 Score: 319
Period size: 102 Copynumber: 2.1 Consensus size: 100
6144456 CAAAGGTTTA
* * * *
6144466 TGTTTCAAGAGAAATTGTCTCAATAGAGACAATTTGTTTCAAGAGAAACAATCTTAATGGTTTAT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTAT
6144531 GTTTCAAGAGAAACTGTCTCAAGAGTAAAAAAAAT
66 GTTTCAAGAGAAACTGTCTCAAGAGTAAAAAAAAT
*
6144566 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGATAAACAATCTCAAAGGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC--AATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
* * **
6144631 ATGTTTCAAGTGAAACTGTCTCAAGAG-AGACAAACTT
64 ATGTTTCAAGAGAAACTGTCTCAAGAGTA-AAAAAAAT
6144668 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
6144683 AATCTCAAAG
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
100 28 0.27
101 1 0.01
102 76 0.72
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (100 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTAT
GTTTCAAGAGAAACTGTCTCAAGAGTAAAAAAAAT
Found at i:6144709 original size:132 final size:132
Alignment explanation
Indices: 6143999--6144823 Score: 613
Period size: 132 Copynumber: 6.3 Consensus size: 132
6143989 TGATTGAATC
* * * * ** * *
6143999 GAGACCAAATTTGTTTCAAGGGAAATAATCTCAATTGTTTATGTTTCAAG-GAAAACTGTTTCAA
1 GAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTCCAAGAG-AAACTGTCTCAA
* * *** * * *
6144063 GCGAGACAAACTTTGAGCCTAGAGAAACAATCTCACAGGTTTATGTTTCAAGAGAAATTGTCTCA
65 GAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCA
*
6144128 AGT
130 AGA
* * *
6144131 GAGACAAAATTTGTTTCAAGAGAAACAATCTCACAGGTTTATGTTCCAAGGGAAACTGTCTCAAG
1 GAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTCCAAGAGAAACTGTCTCAAG
* * * * *
6144196 TGAGACAAAATTTATTTCAA-AGAAACAATTTCACATGTTTATGTTTCAAGAGAAACTGTCTCAA
66 AGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAA
6144260 GA
131 GA
* * * * * *
6144262 GATAC-AAACTTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGGGAAACTGTATCAA
1 GAGACAAAAC-TTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTCCAAGAGAAACTGTCTCAA
* * * * * **
6144326 GCGAGACAATAGTTGTTTCAAGAGAAACAATCTCACATGTTTTATGTTTCAAGAGAAACAATCTC
65 GAGAGACAAAATTTGTTTCAAGAGAAACAATCTCA-AAGGTTTATGTTTCAAGAGAAACTGTCTC
6144391 AA-A
129 AAGA
*** * ** * * * **
6144394 G-G--TTTA--TGTTTCAATAGAAACTGTCTCAAGAGAGACAAAATT-TGTTTCAAAAGAAACAA
1 GAGACAAAACTTGTTTCAAGAGAAACAATCTCAA-AG-G-----TTTATGTTCCAAGAGAAACTG
* *** *
6144453 TCTCAA-AG-G-----TTTATGTTTCAAGAGAAATTGTCTCAATAGAGACAATT-TGTTTCAAGA
59 TCTCAAGAGAGACAAAATT-TGTTTCAAGAGAAACAATCTCAA-AG-G---TTTATGTTTCAAGA
** * *
6144510 GAAACAATCTTAA-T
118 GAAACTGTCTCAAGA
*** ** ** *
6144524 G-G--TTTA--TGTTTCAAGAGAAACTGTCTC-AAGAGTAAAAAAAATTGTTTCAAGAGAAACTG
1 GAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAG-GT-----TTA-TGTTCCAAGAGAAACTG
* *
6144583 TCTCAAGAGAGACAAAATTTGTTTCAAGATAAACAATCTCAAAGGTTTATGTTTCAAGTGAAACT
59 TCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACT
6144648 GTCTCAAGA
124 GTCTCAAGA
6144657 GAGAC-AAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTCCAAGAGAAACTGTCTCAA
1 GAGACAAAAC-TTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTCCAAGAGAAACTGTCTCAA
* *
6144721 GAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAGGGTTTATGTTTCAAGAGAAACTGTCTTA
65 GAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCA
*
6144786 AGT
130 AGA
6144789 GAGACAAAACTTGTTTCAAGAGAAACAATCTCAAA
1 GAGACAAAACTTGTTTCAAGAGAAACAATCTCAAA
6144824 AATGACAGAA
Statistics
Matches: 561, Mismatches: 90, Indels: 84
0.76 0.12 0.11
Matches are distributed among these distances:
126 2 0.00
127 39 0.07
128 5 0.01
129 2 0.00
130 72 0.13
131 121 0.22
132 218 0.39
133 50 0.09
134 4 0.01
135 3 0.01
136 19 0.03
137 2 0.00
138 21 0.04
139 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.29
Consensus pattern (132 bp):
GAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTCCAAGAGAAACTGTCTCAAG
AGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAA
GA
Found at i:6151814 original size:18 final size:18
Alignment explanation
Indices: 6151791--6151827 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6151781 CTGTTATATG
* *
6151791 AAAATAATATTAGTAATA
1 AAAATAATACTAATAATA
6151809 AAAATAATACTAATAATA
1 AAAATAATACTAATAATA
6151827 A
1 A
6151828 GTTAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
AAAATAATACTAATAATA
Found at i:6152345 original size:66 final size:65
Alignment explanation
Indices: 6152248--6152884 Score: 461
Period size: 66 Copynumber: 9.5 Consensus size: 65
6152238 ATAAATTGAT
* * * * * *
6152248 TCAATCGAGACCAAATTTGTTTCAAGGGAAACAACCTTAATTATTTATGTTTCAAGGAAAACTAT
1 TCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTTAA-TGTTTATGTTTCAAGGAAAACTGT
*
6152313 T
65 C
* * * * *
6152314 TCAAGCGAGACAAAATTTGTGTCTAGAGAAACAATCTCACAGGTTTATGTTTCAA-GAGAAATTG
1 TCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTTA-ATGTTTATGTTTCAAGGA-AAACTG
6152378 TC
64 TC
* * * *
6152380 TCAAGTGAGACAAAATTTGTTTCAAGAGAAACAATCTCATAGGTTTATGTTTCAAGGGAAACTGT
1 TCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTTA-ATGTTTATGTTTCAAGGAAAACTGT
6152445 C
65 C
* * *
6152446 TCAAGTGAGACAAAATTTATTTCAA-AGAAACAAT-TTCACATGTTTAT-TTTCAA-GAGAAATT
1 TCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTT-A-ATGTTTATGTTTCAAGGA-AAACT
6152507 GTC
63 GTC
* * * * * *
6152510 TCAAGAGATACAAACTTTGTTTCCAGAGAAACAATCTAATATGTTTATGTTTCAAGGGAAACTGT
1 TCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTTA-ATGTTTATGTTTCAAGGAAAACTGT
*
6152575 A
65 C
* * *
6152576 TCAAGCGAGACAATATTTGTTTCAAGAGAAACAATCTCACAGGTTTATGTTTCAA-GAGAAACTG
1 TCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTTA-ATGTTTATGTTTCAAGGA-AAACTG
6152640 TC
64 TC
** * * *
6152642 TCAAAAGAGAC--AATTTGTTTTAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGCAACAAA
1 TCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCT-TAATGTTTATGTTTCAAG-G----AAA
* *
6152705 ATTTGTT
60 A-CTGTC
** * * * *
6152712 TCAAAAGAAACAATCTCAAAGGTATATGTTTCAAGAGAAACAATCTCAAAGGTTTATATTTCAA-
1 TCAAGCGAGAC-A----AAA--T-T-TGTTTCAAGAGAAACAATCT-TAATGTTTATGTTTCAAG
* *
6152776 GAGAAATTATC
56 GA-AAACTGTC
** *
6152787 TCAATAGAGAC--AATTTGTTTCAAGAGAAACAATCTTAAAGGTTTATGTTTCAA-GAGAAACTG
1 TCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTT-AATGTTTATGTTTCAAGGA-AAACTG
6152849 TC
64 TC
* * * *
6152851 TCAAGAGTGAAAAAATTTGTTTCAAGAGAGACAA
1 TCAAGCGAGACAAAATTTGTTTCAAGAGAAACAA
6152885 AATTTGTTTC
Statistics
Matches: 472, Mismatches: 66, Indels: 66
0.78 0.11 0.11
Matches are distributed among these distances:
63 1 0.00
64 123 0.26
65 40 0.08
66 229 0.49
67 3 0.01
68 2 0.00
69 3 0.01
70 14 0.03
75 13 0.03
76 3 0.01
77 2 0.00
79 2 0.00
80 1 0.00
81 36 0.08
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (65 bp):
TCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTTAATGTTTATGTTTCAAGGAAAACTGTC
Found at i:6152418 original size:36 final size:36
Alignment explanation
Indices: 6152361--6152479 Score: 92
Period size: 36 Copynumber: 3.5 Consensus size: 36
6152351 CACAGGTTTA
***
6152361 TGTTTCAAGAGAAATTGTCTCAAGTGAGACAAAATT
1 TGTTTCAAGAGAAACAATCTCAAGTGAGACAAAATT
**
6152397 TGTTTCAAGAGAAACAATCTC-A-T-AG----GTTT
1 TGTTTCAAGAGAAACAATCTCAAGTGAGACAAAATT
* **
6152426 ATGTTTCAAGGGAAACTGTCTCAAGTGAGACAAAATT
1 -TGTTTCAAGAGAAACAATCTCAAGTGAGACAAAATT
*
6152463 TATTTCAA-AGAAACAAT
1 TGTTTCAAGAGAAACAAT
6152480 TTCACATGTT
Statistics
Matches: 61, Mismatches: 14, Indels: 17
0.66 0.15 0.18
Matches are distributed among these distances:
29 2 0.03
30 18 0.30
31 1 0.02
32 1 0.02
33 4 0.07
34 1 0.02
35 7 0.11
36 25 0.41
37 2 0.03
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (36 bp):
TGTTTCAAGAGAAACAATCTCAAGTGAGACAAAATT
Found at i:6152541 original size:130 final size:130
Alignment explanation
Indices: 6152261--6152884 Score: 678
Period size: 130 Copynumber: 4.7 Consensus size: 130
6152251 ATCGAGACCA
* * * *** * * * *
6152261 AATTTGTTTCAAGGGAAACAACCTTAATTATTTATGTTTCAAGGAAAACTATTTCAAGCGAGACA
1 AATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGGGAAACTGTCTCAAGAGAGACA
* * *
6152326 AAATTTGTGTCTAGAGAAACAATCTCACAGGTTTATGTTTCAAGAGAAATTGTCTCAAGTGAGAC
66 AAATTTGTTTCAAGAGAAACAATCTCACAGGTTTATGTTTCAAGAGAAATTGTCTCAAGAGAGAC
* *
6152391 AAAATTTGTTTCAAGAGAAACAATCTCATAGGTTTATGTTTCAAGGGAAACTGTCTCAAGTGAGA
1 --AATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGGGAAACTGTCTCAAGAGAGA
* * * *
6152456 CAAAATTTATTTCAA-AGAAACAATTTCACATGTTTAT-TTTCAAGAGAAATTGTCTCAAGAGAT
64 CAAAATTTGTTTCAAGAGAAACAATCTCACAGGTTTATGTTTCAAGAGAAATTGTCTCAAGAGAG
6152519 AC
129 AC
* * * *
6152521 AAACTTTGTTTCCAGAGAAACAATCT-AATATGTTTATGTTTCAAGGGAAACTGTATCAAGCGAG
1 -AA-TTTGTTTCAAGAGAAACAATCTCAA-AGGTTTATGTTTCAAGGGAAACTGTCTCAAGAGAG
* * *
6152585 ACAATATTTGTTTCAAGAGAAACAATCTCACAGGTTTATGTTTCAAGAGAAACTGTCTCAAAAGA
63 ACAAAATTTGTTTCAAGAGAAACAATCTCACAGGTTTATGTTTCAAGAGAAATTGTCTCAAGAGA
6152650 GAC
128 GAC
* * * * *
6152653 AATTTGTTTTAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGCAACAAAATTTGTTTCAAAA
1 AATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAG-G----GAAA-CTGTCTCAAGA
* * *
6152718 GAAACAATCTCAAAGGTATATGTTTCAAGAGAAACAATCTCAAAGGTTTATATTTCAAGAGAAAT
60 GAGAC-A----AAA--T-T-TGTTTCAAGAGAAACAATCTCACAGGTTTATGTTTCAAGAGAAAT
* *
6152783 TATCTCAATAGAGAC
116 TGTCTCAAGAGAGAC
* * * *
6152798 AATTTGTTTCAAGAGAAACAATCTTAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGTGAAA
1 AATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGGGAAACTGTCTCAAGAGAGACA
*
6152863 AAATTTGTTTCAAGAGAGACAA
66 AAATTTGTTTCAAGAGAAACAA
6152885 AATTTGTTTC
Statistics
Matches: 416, Mismatches: 56, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
129 4 0.01
130 144 0.35
131 46 0.11
132 90 0.22
134 3 0.01
135 3 0.01
136 11 0.03
137 1 0.00
138 1 0.00
139 10 0.02
140 3 0.01
141 2 0.00
143 1 0.00
144 1 0.00
145 96 0.23
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.31
Consensus pattern (130 bp):
AATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGGGAAACTGTCTCAAGAGAGACA
AAATTTGTTTCAAGAGAAACAATCTCACAGGTTTATGTTTCAAGAGAAATTGTCTCAAGAGAGAC
Found at i:6152629 original size:30 final size:30
Alignment explanation
Indices: 6152593--6152703 Score: 116
Period size: 30 Copynumber: 3.6 Consensus size: 30
6152583 AGACAATATT
*
6152593 TGTTTCAAGAGAAACAATCTCACAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
** *
6152623 TGTTTCAAGAGAAACTGTCTCAAAAGAGACAATT-
1 TGTTTCAAGAGAAACAATCTC-AAAG-G---TTTA
*
6152657 TGTTTTAAGAGAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
*
6152687 TGTTTCAAGAGCAACAA
1 TGTTTCAAGAGAAACAA
6152704 AATTTGTTTC
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
29 2 0.03
30 34 0.52
31 3 0.05
32 2 0.03
33 4 0.06
34 18 0.28
35 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (30 bp):
TGTTTCAAGAGAAACAATCTCAAAGGTTTA
Found at i:6152631 original size:196 final size:198
Alignment explanation
Indices: 6152254--6152884 Score: 652
Period size: 196 Copynumber: 3.1 Consensus size: 198
6152244 TGATTCAATC
* * * * *** *
6152254 GAGACCAAATTTGTTTCAAGGGAAACAACCTTAATTATTTATGTTTCAAG-GAAAACTAT-T-TC
1 GAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAAA-TTTGTCTC
* * * * *
6152316 AAGCGAGACAAAATTTGTGTCTAGAGAAACAATCTCACAGGTTTATGTTTCAAGAGAAATTGTCT
65 AAGAGATACAAAATTTGTTTCAAGAGAAACAATCT-AAAGGTTTATGTTTCAAGAGAAATTGTCT
* * *
6152381 CAAGTGAGACAAAATTTGTTTCAAGAGAAACAATCTCATAGGTTTATGTTTCAAGGGAAACTGTC
129 CAAGAGAGAC-AAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTC
*
6152446 TCAAGT
193 TCAAGA
* * * *
6152452 GAGACAAAATTTATTTCAA-AGAAACAATTTCACATGTTTAT-TTTCAAGAG-AAA-TTGTCTCA
1 GAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAAATTTGTCTCA
* * * * * *
6152513 AGAGATACAAACTTTGTTTCCAGAGAAACAATCTAATATGTTTATGTTTCAAGGGAAACTGTATC
66 AGAGATACAAAATTTGTTTCAAGAGAAACAATCTAA-AGGTTTATGTTTCAAGAGAAATTGTCTC
* *
6152578 AAGCGAGACAATATTTGTTTCAAGAGAAACAATCTCACAGGTTTATGTTTCAAGAGAAACTGTCT
130 AAGAGAGACAA-ATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCT
*
6152643 CAAAA
194 CAAGA
*
6152648 GAGAC--AATTTGTTTTAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGCAACAAAATTTGT
1 GAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAG----AAAATTTGT
* * * *
6152711 TTCAAAAGAAACAATCTCAAAGGTATATGTTTCAAGAGAAACAATCTCAAAGGTTTATATTTCAA
62 CTCAAGAGATAC-A----AAA--T-T-TGTTTCAAGAGAAACAATCT-AAAGGTTTATGTTTCAA
* * *
6152776 GAGAAATTATCTCAATAGAGAC-AATTTGTTTCAAGAGAAACAATCTTAAAGGTTTATGTTTCAA
117 GAGAAATTGTCTCAAGAGAGACAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAA
6152840 GAGAAACTGTCTCAAGA
182 GAGAAACTGTCTCAAGA
* * *
6152857 GTGAAAAAATTTGTTTCAAGAGAGACAA
1 GAGACAAAATTTGTTTCAAGAGAAACAA
6152885 AATTTGTTTC
Statistics
Matches: 358, Mismatches: 50, Indels: 37
0.80 0.11 0.08
Matches are distributed among these distances:
194 11 0.03
195 23 0.06
196 142 0.40
197 16 0.04
198 17 0.05
201 3 0.01
202 13 0.04
203 1 0.00
207 2 0.01
209 59 0.16
210 2 0.01
211 67 0.19
212 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (198 bp):
GAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAAATTTGTCTCA
AGAGATACAAAATTTGTTTCAAGAGAAACAATCTAAAGGTTTATGTTTCAAGAGAAATTGTCTCA
AGAGAGACAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCA
AGA
Found at i:6152721 original size:51 final size:51
Alignment explanation
Indices: 6152653--6152754 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
6152643 CAAAAGAGAC
* * * *
6152653 AATTTGTTTTAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGCAACAA
1 AATTTGTTTCAAAAGAAACAATCTCAAAGGTATATGTTTCAAGAGAAACAA
6152704 AATTTGTTTCAAAAGAAACAATCTCAAAGGTATATGTTTCAAGAGAAACAA
1 AATTTGTTTCAAAAGAAACAATCTCAAAGGTATATGTTTCAAGAGAAACAA
6152755 TCTCAAAGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (51 bp):
AATTTGTTTCAAAAGAAACAATCTCAAAGGTATATGTTTCAAGAGAAACAA
Found at i:6152742 original size:30 final size:30
Alignment explanation
Indices: 6152708--6152846 Score: 161
Period size: 30 Copynumber: 4.5 Consensus size: 30
6152698 CAACAAAATT
*
6152708 TGTTTCAAAAGAAACAATCTCAAAGGTATA
1 TGTTTCAAGAGAAACAATCTCAAAGGTATA
*
6152738 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTATA
* ** * *
6152768 TATTTCAAGAGAAATTATCTCAATAGAGACAATT
1 TGTTTCAAGAGAAACAATCTCAA-AG-G--TATA
* *
6152802 TGTTTCAAGAGAAACAATCTTAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTATA
6152832 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
6152847 TGTCTCAAGA
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
30 64 0.71
31 2 0.02
32 2 0.02
33 2 0.02
34 20 0.22
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (30 bp):
TGTTTCAAGAGAAACAATCTCAAAGGTATA
Found at i:6152781 original size:145 final size:145
Alignment explanation
Indices: 6152593--6153012 Score: 501
Period size: 145 Copynumber: 2.8 Consensus size: 145
6152583 AGACAATATT
*
6152593 TGTTTCAAGAGAAACAATCTCACAGGTTTATGTTTCAAGAGAAACTGTCTCAAAAGAGACAATTT
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAAAGAGACAATTT
* * *
6152658 GTTTTAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGCAACAAAATTTGTTTCAA-A-AGAA
66 GTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAG-----AAA-CTGTCTCAAGAGAGAA
* *
6152721 ACAA-TCTCAA-AG-G-TATA
125 AAAATTCTCAAGAGAGAAATA
* * * *
6152738 TGTTTCAAGAGAAACAATCTCAAAGGTTTATATTTCAAGAGAAATTATCTCAATAGAGACAATTT
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAAAGAGACAATTT
* *
6152803 GTTTCAAGAGAAACAATCTTAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGTGAAAAAATT
66 GTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAA--
* *
6152868 TGTTTCAAGAGAGACAAAATT
129 T-TCTCAAGAGAG---AAATA
* * * *
6152889 TGTTTCAATAGAAACAATCTCAAAGGTTTATGTTTAAAGTGAAACTGTCTCAAGAGAGACAAAAT
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAAAGAGAC--AAT
*
6152954 TTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTATCTCAAGAGAG
64 TTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAG
6153013 GAGACAAAAA
Statistics
Matches: 237, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
139 7 0.03
140 4 0.02
141 6 0.03
145 103 0.43
146 2 0.01
147 1 0.00
151 55 0.23
153 59 0.25
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (145 bp):
TGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAAAGAGACAATTT
GTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATT
CTCAAGAGAGAAATA
Found at i:6152806 original size:115 final size:112
Alignment explanation
Indices: 6152576--6152818 Score: 251
Period size: 115 Copynumber: 2.1 Consensus size: 112
6152566 GGAAACTGTA
* * * * * * **
6152576 TCAAGCGAGACAATATTTGTTTCAAGAGAAACAATCTCACAGGTTTATGTTTCAAGAGAAACTGT
1 TCAAGAGAAACAAAATTTGTTTCAAAAGAAACAATCTCAAAGGTATATGTTTCAAGAGAAACAAT
* *
6152641 CTCAAAAGAGACAATTTGTTTTAAGAGAAACAATCTCAAAGGTTTATGTT
66 CTCAAAAGAG---ATTTATTTTAAGAGAAACAATCTCAAAGGATTATGTT
*
6152691 TCAAGAGCAACAAAATTTGTTTCAAAAGAAACAATCTCAAAGGTATATGTTTCAAGAGAAACAAT
1 TCAAGAGAAACAAAATTTGTTTCAAAAGAAACAATCTCAAAGGTATATGTTTCAAGAGAAACAAT
**
6152756 CTC-AAAG-G-TTTATATTTCAAGAGAAATTATCTCAATAGAGACAATT-TGTT
66 CTCAAAAGAGATTTAT-TTT-AAGAGAAACAATCTCAA-AG-G---ATTATGTT
6152806 TCAAGAGAAACAA
1 TCAAGAGAAACAA
6152819 TCTTAAAGGT
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
109 4 0.04
110 3 0.03
111 15 0.14
112 2 0.02
113 2 0.02
114 4 0.04
115 75 0.70
116 2 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.29
Consensus pattern (112 bp):
TCAAGAGAAACAAAATTTGTTTCAAAAGAAACAATCTCAAAGGTATATGTTTCAAGAGAAACAAT
CTCAAAAGAGATTTATTTTAAGAGAAACAATCTCAAAGGATTATGTT
Found at i:6152877 original size:21 final size:21
Alignment explanation
Indices: 6152851--6152896 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
6152841 AGAAACTGTC
*
6152851 TCAAGAGTGAAAAAATTTGTT
1 TCAAGAGAGAAAAAATTTGTT
*
6152872 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGAAAAAATTTGTT
6152893 TCAA
1 TCAA
6152897 TAGAAACAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (21 bp):
TCAAGAGAGAAAAAATTTGTT
Found at i:6152905 original size:21 final size:21
Alignment explanation
Indices: 6152862--6152905 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
6152852 CAAGAGTGAA
*
6152862 AAAATTTGTTTCAAGAGAGAC
1 AAAATTTGTTTCAAGAGAAAC
*
6152883 AAAATTTGTTTCAATAGAAAC
1 AAAATTTGTTTCAAGAGAAAC
6152904 AA
1 AA
6152906 TCTCAAAGGT
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:0.48, C:0.09, G:0.14, T:0.30
Consensus pattern (21 bp):
AAAATTTGTTTCAAGAGAAAC
Found at i:6152923 original size:30 final size:30
Alignment explanation
Indices: 6152889--6153054 Score: 105
Period size: 30 Copynumber: 5.5 Consensus size: 30
6152879 AGACAAAATT
*
6152889 TGTTTCAATAGAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
* * ** *
6152919 TGTTTAAAGTGAAACTGTCTCAAGAGAGACAAAATT-
1 TGTTTCAAGAGAAACAATCTCAA-AG-G-----TTTA
6152955 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
* *
6152985 TGTTTCAAGAGAAACTATCTCAAGAGAG--GA
1 TGTTTCAAGAGAAACAATCTCAA-AG-GTTTA
* *
6153015 -G--ACAA-A-AAACAATCTCAAGGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
6153040 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
6153055 TGTCTTCAGC
Statistics
Matches: 101, Mismatches: 18, Indels: 34
0.66 0.12 0.22
Matches are distributed among these distances:
23 1 0.01
24 1 0.01
25 12 0.12
26 2 0.02
27 3 0.03
28 3 0.03
29 4 0.04
30 45 0.45
31 4 0.04
32 2 0.02
34 1 0.01
35 2 0.02
36 19 0.19
37 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (30 bp):
TGTTTCAAGAGAAACAATCTCAAAGGTTTA
Found at i:6152942 original size:66 final size:66
Alignment explanation
Indices: 6152872--6153012 Score: 246
Period size: 66 Copynumber: 2.1 Consensus size: 66
6152862 AAAATTTGTT
* * *
6152872 TCAAGAGAGACAAAATTTGTTTCAATAGAAACAATCTCAAAGGTTTATGTTTAAAGTGAAACTGT
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTAAAGAGAAACTAT
6152937 C
66 C
*
6152938 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTAT
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTAAAGAGAAACTAT
6153003 C
66 C
6153004 TCAAGAGAG
1 TCAAGAGAG
6153013 GAGACAAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 71 1.00
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.28
Consensus pattern (66 bp):
TCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTAAAGAGAAACTAT
C
Found at i:6152944 original size:87 final size:87
Alignment explanation
Indices: 6152798--6152971 Score: 285
Period size: 87 Copynumber: 2.0 Consensus size: 87
6152788 CAATAGAGAC
* * *
6152798 AATTTGTTTCAAGAGAAACAATCTTAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGTGAAA
1 AATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTAAAGAGAAACTGTCTCAAGAGAGAAA
*
6152863 AAATTTGTTTCAAGAGAGACAA
66 AAATTTGTTTCAAGAGAAACAA
* * *
6152885 AATTTGTTTCAATAGAAACAATCTCAAAGGTTTATGTTTAAAGTGAAACTGTCTCAAGAGAGACA
1 AATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTAAAGAGAAACTGTCTCAAGAGAGAAA
6152950 AAATTTGTTTCAAGAGAAACAA
66 AAATTTGTTTCAAGAGAAACAA
6152972 TCTCAAAGGT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (87 bp):
AATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTAAAGAGAAACTGTCTCAAGAGAGAAA
AAATTTGTTTCAAGAGAAACAA
Found at i:6152976 original size:36 final size:36
Alignment explanation
Indices: 6152872--6152977 Score: 100
Period size: 36 Copynumber: 3.1 Consensus size: 36
6152862 AAAATTTGTT
*
6152872 TCAAGAGAGACAAAATTTGTTTCAATAGAAACAATC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATC
* * * **
6152908 TCAA-AG-G-----TTTATGTTTAAAGTGAAACTGTC
1 TCAAGAGAGACAAAATT-TGTTTCAAGAGAAACAATC
6152938 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATC
6152974 TCAA
1 TCAA
6152978 AGGTTTATGT
Statistics
Matches: 51, Mismatches: 11, Indels: 16
0.65 0.14 0.21
Matches are distributed among these distances:
29 2 0.04
30 18 0.35
31 2 0.04
32 1 0.02
34 1 0.02
35 2 0.04
36 23 0.45
37 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.27
Consensus pattern (36 bp):
TCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATC
Found at i:6158667 original size:64 final size:65
Alignment explanation
Indices: 6158596--6158778 Score: 214
Period size: 64 Copynumber: 2.9 Consensus size: 65
6158586 GATTTAATTG
*
6158596 AACATCGAATGCATTTCATGCACCGATGCACTCTCCATGCATCGATGCACTC-GGA-ATATTTTC
1 AACATCGAATGCATTTCATGCATCGATGCACTCTCCATGCATCGATGCACTCAGGATAT-TTTTC
6158659 A
65 A
* *** *
6158660 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACTCTCCATGCATCGATGCACTCAGGATATTTTTCA
** * * *
6158724 AACATCGAATGCACATCATGCATCAATGCACTCT-TAGTGCACCGATGCACT-AGGA
1 AACATCGAATGCATTTCATGCATCGATGCACTCTCCA-TGCATCGATGCACTCAGGA
6158779 GTCCAACGGT
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
63 2 0.02
64 95 0.96
65 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACTCTCCATGCATCGATGCACTCAGGATATTTTTCA
Found at i:6167252 original size:64 final size:64
Alignment explanation
Indices: 6167177--6167300 Score: 180
Period size: 64 Copynumber: 1.9 Consensus size: 64
6167167 GAATGCATTT
* *
6167177 CATGCACCGATGCACTC-GGA-ATATTTTCAAACATCGAATGCATTTGATGCATCGATGCACAAG
1 CATGCACCGATGCAC-CAGGATAT-TTTTCAAACATCGAATGCACTTCATGCATCGATGCACAAG
6167240 C
64 C
* *
6167241 CATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCACTTCATGCATCGATGCAC
1 CATGCACCGATGCACCAGGATATTTTTCAAACATCGAATGCACTTCATGCATCGATGCAC
6167301 TCTTAGTGCA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
63 1 0.02
64 51 0.94
65 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (64 bp):
CATGCACCGATGCACCAGGATATTTTTCAAACATCGAATGCACTTCATGCATCGATGCACAAGC
Found at i:6167300 original size:17 final size:19
Alignment explanation
Indices: 6167272--6167320 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
6167262 ATTTTTCAAA
6167272 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
6167290 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
6167309 CACCGATGCACT
1 CATCGATGCACT
6167321 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:6170417 original size:18 final size:18
Alignment explanation
Indices: 6170394--6170428 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6170384 GTTATATGAT
*
6170394 AATAATAGTAATAATAAA
1 AATAATACTAATAATAAA
6170412 AATAATACTAATAATAA
1 AATAATACTAATAATAA
6170429 GTTAATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AATAATACTAATAATAAA
Found at i:6170727 original size:17 final size:17
Alignment explanation
Indices: 6170693--6170728 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6170683 AAACATTTGC
*
6170693 TCCATGCATGTGCCCTT
1 TCCATGCATGCGCCCTT
*
6170710 TCCATGCATGCGCTCTT
1 TCCATGCATGCGCCCTT
6170727 TC
1 TC
6170729 TCATTACAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.36, G:0.17, T:0.36
Consensus pattern (17 bp):
TCCATGCATGCGCCCTT
Found at i:6170848 original size:77 final size:77
Alignment explanation
Indices: 6170762--6170915 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
6170752 AATGTTTATC
6170762 CTTGAAGTCCATTCAACTTTCCCAAACAATCCACGCTCAGTTAATCAAATTCGGGTTCAGTGGCA
1 CTTGAAGTCCATTCAACTTTCCCAAACAATCCACGCTCAGTTAATCAAATTCGGGTTCAGTGGCA
6170827 TAACCTTTCTGG
66 TAACCTTTCTGG
6170839 CTTGAAGTCCATTCAACTTTCCCAAACAATCCACGCTCAGTTAATCAAATTCGGGTTCAGTGGCA
1 CTTGAAGTCCATTCAACTTTCCCAAACAATCCACGCTCAGTTAATCAAATTCGGGTTCAGTGGCA
6170904 TAACCTTTCTGG
66 TAACCTTTCTGG
6170916 GTAATCGTTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (77 bp):
CTTGAAGTCCATTCAACTTTCCCAAACAATCCACGCTCAGTTAATCAAATTCGGGTTCAGTGGCA
TAACCTTTCTGG
Found at i:6176588 original size:21 final size:21
Alignment explanation
Indices: 6176564--6176634 Score: 115
Period size: 21 Copynumber: 3.4 Consensus size: 21
6176554 AAGTGGTACT
6176564 GATACTACTCAATGTATTTCC
1 GATACTACTCAATGTATTTCC
6176585 GATACTACTCAATGTATTTCC
1 GATACTACTCAATGTATTTCC
* *
6176606 AATACTACTCAATGCATTTCC
1 GATACTACTCAATGTATTTCC
*
6176627 GATTCTAC
1 GATACTAC
6176635 CTATTGTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (21 bp):
GATACTACTCAATGTATTTCC
Found at i:6179093 original size:18 final size:19
Alignment explanation
Indices: 6179052--6179096 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
6179042 TTTGGTTCAC
*
6179052 GGAATATAAGATTACCAGTA
1 GGAATAAAAGATTACCAG-A
*
6179072 GGAATAAAAGATTACGAG-
1 GGAATAAAAGATTACCAGA
6179090 GGAATAA
1 GGAATAA
6179097 GATTAATGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.49, C:0.07, G:0.24, T:0.20
Consensus pattern (19 bp):
GGAATAAAAGATTACCAGA
Found at i:6180484 original size:72 final size:72
Alignment explanation
Indices: 6180359--6180494 Score: 179
Period size: 72 Copynumber: 1.9 Consensus size: 72
6180349 TGGGACCTAT
** * *
6180359 TGAATCATCATATTTTCGAGTTTTTTAATAAAAAAATGATGTTTAAAATATTTTTTAATTATTAG
1 TGAATCATCATATTTTCGAGTTTTAAAATAAAAAAATGATGTTAAAAACATTTTTTAATTATTAG
6180424 AGCCCAC
66 AGCCCAC
*
6180431 TGAATTATCATATTTTTC-AGTGTTTAAAATAAAAAATAT-AT-TTAAAAACATTTTTTAATTAT
1 TGAATCATCATA-TTTTCGAGT-TTTAAAATAAAAAA-ATGATGTTAAAAACATTTTTTAATTAT
6180493 TA
63 TA
6180495 AACTTAAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
72 35 0.62
73 19 0.34
74 2 0.04
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (72 bp):
TGAATCATCATATTTTCGAGTTTTAAAATAAAAAAATGATGTTAAAAACATTTTTTAATTATTAG
AGCCCAC
Found at i:6181589 original size:77 final size:76
Alignment explanation
Indices: 6181373--6181882 Score: 455
Period size: 77 Copynumber: 6.6 Consensus size: 76
6181363 AGTTGTGTAT
* * * * *
6181373 AAAAATGTCATAGTTCACTAAGAAACA-AGTTGTGATTTGGAATGTTAATATTTTTATTAATAAA
1 AAAAATGTCATGGTTCACTAAGAAATAGA-TTGCGATCTAGAATGTTAATATTTTT-TTAATAAA
6181437 ATGGGTTGGGTTGCGCCC
64 ATGGGTT--G-T--GCCC
* *
6181455 AAGAATGTCATGGTTCACTAAGAAATAGGTTGCGATCTTA-AA---TAATA-TTTTTTAATAAAA
1 AAAAATGTCATGGTTCACTAAGAAATAGATTGCGATC-TAGAATGTTAATATTTTTTTAATAAAA
6181515 TGGGTTGTGCCC
65 TGGGTTGTGCCC
* *
6181527 AAAAATGTCATGGTTCACTAAGAAATAGATTACGATCTAGAATGCTAATAATTTTTTTAATAAAA
1 AAAAATGTCATGGTTCACTAAGAAATAGATTGCGATCTAGAATGTTAAT-ATTTTTTTAATAAAA
* *
6181592 TGTGTTGCGCCC
65 TGGGTTGTGCCC
* * * * *
6181604 ATAAATATCATGGTTCATTAAGAAATA-AGTTGCAATAT-GTAATGTTAATATTTTTATTAATAA
1 AAAAATGTCATGGTTCACTAAGAAATAGA-TTGCGATCTAG-AATGTTAATATTTTT-TTAATAA
** *
6181667 AATAAGTTGCGCCC
63 AATGGGTTGTGCCC
* * *
6181681 AAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATCTAGAATGTTAATATTTTTTTAATAAAAT
1 AAAAATGTCATGGTTCACTAAGAAATAGATTGCGATCTAGAATGTTAATATTTTTTTAATAAAAT
**
6181746 GTATTGTGCCC
66 GGGTTGTGCCC
* * * * * *
6181757 AAGAATGTAATTGTTTACTAAGAAATATG-TTGCGATCTAGAATATTAATAATTTTATTAATAAA
1 AAAAATGTCATGGTTCACTAAGAAATA-GATTGCGATCTAGAATGTTAAT-ATTTTTTTAATAAA
*** *
6181821 ATGGGTTGCATCT
64 ATGGGTTGTGCCC
* * * * * *
6181834 AAGAATGTCATTGTTCACGAATAAATAGGTTGTGATCTTA-AATGTTAAT
1 AAAAATGTCATGGTTCACTAAGAAATAGATTGCGATC-TAGAATGTTAAT
6181883 TTTCTATTAT
Statistics
Matches: 360, Mismatches: 51, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
71 2 0.01
72 40 0.11
74 1 0.00
75 5 0.01
76 69 0.19
77 198 0.55
78 7 0.02
79 5 0.01
82 32 0.09
83 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (76 bp):
AAAAATGTCATGGTTCACTAAGAAATAGATTGCGATCTAGAATGTTAATATTTTTTTAATAAAAT
GGGTTGTGCCC
Found at i:6181781 original size:230 final size:227
Alignment explanation
Indices: 6181375--6181829 Score: 601
Period size: 230 Copynumber: 2.0 Consensus size: 227
6181365 TTGTGTATAA
* ** *
6181375 AAATGTCATAGTTCACTAAGAAACAAGTTGTGATTTGGAATGTTAATATTTTTATTAATAAAATG
1 AAATATCATAGTTCACTAAGAAACAAGTTGCAATATGGAATGTTAATATTTTTATTAATAAAA--
**
6181440 GGTTGGGTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGCGATCTTAAATAATATTT
64 -G-TAAGTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGCGATCTTAAATAATATTT
* *
6181505 TTTAATAAAATGGGTTGTGCCCAAAAATGTCATGGTTCACTAAGAAATA-GATTACGATCTAGAA
127 TTTAATAAAATGGATTGTGCCCAAAAATGTAATGGTTCACTAAGAAATATG-TTACGATCTAGAA
* * *
6181569 TGCTAATAATTTTTTTAATAAAATGTGTTGCGCCCAT
191 TACTAATAATTTTATTAATAAAATGGGTTGCGCCCAT
* * * *
6181606 AAATATCATGGTTCATTAAGAAATAAGTTGCAATATGTAATGTTAATATTTTTATTAATAAAA-T
1 AAATATCATAGTTCACTAAGAAACAAGTTGCAATATGGAATGTTAATATTTTTATTAATAAAAGT
*
6181670 AAGTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATC-TAGAATGTTAATATTT
66 AAGTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGCGATCTTA-AA---TAATA-TT
* * * * *
6181734 TTTTAATAAAATGTATTGTGCCCAAGAATGTAATTGTTTACTAAGAAATATGTTGCGATCTAGAA
126 TTTTAATAAAATGGATTGTGCCCAAAAATGTAATGGTTCACTAAGAAATATGTTACGATCTAGAA
*
6181799 TATTAATAATTTTATTAATAAAATGGGTTGC
191 TACTAATAATTTTATTAATAAAATGGGTTGC
6181830 ATCTAAGAAT
Statistics
Matches: 196, Mismatches: 22, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
225 2 0.01
226 48 0.24
229 5 0.03
230 85 0.43
231 56 0.29
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (227 bp):
AAATATCATAGTTCACTAAGAAACAAGTTGCAATATGGAATGTTAATATTTTTATTAATAAAAGT
AAGTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGCGATCTTAAATAATATTTTTTA
ATAAAATGGATTGTGCCCAAAAATGTAATGGTTCACTAAGAAATATGTTACGATCTAGAATACTA
ATAATTTTATTAATAAAATGGGTTGCGCCCAT
Found at i:6181829 original size:153 final size:152
Alignment explanation
Indices: 6181376--6181882 Score: 576
Period size: 153 Copynumber: 3.3 Consensus size: 152
6181366 TGTGTATAAA
* * * * *
6181376 AATGTCATAGTTCACTAAGAAACAAGTTGTGATTTGGAATGTTAATATTTTTATTAATAAAATGG
1 AATGTCATGGTTCACTAAGAAATAGGTTGTGATCTAGAATGTTAATATTTTT-TTAATAAAAT--
* *
6181441 GTTGGGTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGCGATCTTAA-A-TAAT-AT
63 G-T--GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGCGATCTGAATATTAATAAT
* *
6181503 TTT-TTAATAAAATGGGTTGTGCCCAAA
125 TTTATTAATAAAATGGGTTGCGCCCAAG
* ** *
6181530 AATGTCATGGTTCACTAAGAAATAGATTACGATCTAGAATGCTAATAATTTTTTTAATAAAATGT
1 AATGTCATGGTTCACTAAGAAATAGGTTGTGATCTAGAATGTTAAT-ATTTTTTTAATAAAATGT
* * * * * *
6181595 GTTGCGCCCATA-AATATCATGGTTCATTAAGAAATAAGTTGCAATATGTAATGTTAATATTTTT
65 GTTGCGCCCA-AGAATGTCATGGTTCACTAAGAAATAAGTTGCGATCTG-AATATTAATAATTTT
**
6181659 ATTAATAAAATAAGTTGCGCCCAAG
128 ATTAATAAAATGGGTTGCGCCCAAG
*
6181684 AATGTCATGGTTCACTAAGAAATAGGTTGTGATCTAGAATGTTAATATTTTTTTAATAAAATGTA
1 AATGTCATGGTTCACTAAGAAATAGGTTGTGATCTAGAATGTTAATATTTTTTTAATAAAATGTG
* * * * *
6181749 TTGTGCCCAAGAATGTAATTGTTTACTAAGAAATATGTTGCGATCTAGAATATTAATAATTTTAT
66 TTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGCGATCT-GAATATTAATAATTTTAT
** *
6181814 TAATAAAATGGGTTGCATCTAAG
130 TAATAAAATGGGTTGCGCCCAAG
* * *
6181837 AATGTCATTGTTCACGAATAAATAGGTTGTGATCTTA-AATGTTAAT
1 AATGTCATGGTTCACTAAGAAATAGGTTGTGATC-TAGAATGTTAAT
6181883 TTTCTATTAT
Statistics
Matches: 298, Mismatches: 45, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
149 40 0.13
150 3 0.01
151 1 0.00
152 6 0.02
153 130 0.44
154 112 0.38
155 6 0.02
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (152 bp):
AATGTCATGGTTCACTAAGAAATAGGTTGTGATCTAGAATGTTAATATTTTTTTAATAAAATGTG
TTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGCGATCTGAATATTAATAATTTTATT
AATAAAATGGGTTGCGCCCAAG
Found at i:6182225 original size:82 final size:80
Alignment explanation
Indices: 6182133--6182289 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 80
6182123 ATATTGCAAT
* * * * * * *
6182133 GTATCGATACTTTTAACTTCCAAAGTTAAAATATTATTTTTTATTTTTTTTAAAATTTAAAAATA
1 GTATCAATACTTTTAAATTCAAAAGTTAAAATATCATTTTTCA-TTTTCTT-AAATTCAAAAATA
6182198 TCAATATTTTTTCAAAA
64 TCAATATTTTTTCAAAA
* *
6182215 GTATCAATACTTTTAAATTCAAAAGTTAAAATATCATTTTTCATTTTCTTAAATTCAAAAGTATG
1 GTATCAATACTTTTAAATTCAAAAGTTAAAATATCATTTTTCATTTTCTTAAATTCAAAAATATC
6182280 AATATTTTTT
66 AATATTTTTT
6182290 AAAGAGTTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
80 22 0.33
81 6 0.09
82 38 0.58
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (80 bp):
GTATCAATACTTTTAAATTCAAAAGTTAAAATATCATTTTTCATTTTCTTAAATTCAAAAATATC
AATATTTTTTCAAAA
Found at i:6187282 original size:21 final size:21
Alignment explanation
Indices: 6187258--6187333 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
6187248 TCGTACCAAG
* *
6187258 GACGAGAAGAGCATTCGTCAA
1 GACGAGAAGACCATTCATCAA
*
6187279 GACGAGAATG-TCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
* **
6187300 GATGAGAATTCCATTCATCAA
1 GACGAGAAGACCATTCATCAA
6187321 GACGAGAAGACCA
1 GACGAGAAGACCA
6187334 CATCGCATGG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 44 0.98
22 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.18
Consensus pattern (21 bp):
GACGAGAAGACCATTCATCAA
Found at i:6189901 original size:17 final size:17
Alignment explanation
Indices: 6189881--6189919 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
6189871 AGAGAAGTGT
6189881 AGAAAGAGAA-AAAGAAA
1 AGAAA-AGAAGAAAGAAA
6189898 AGAAAAGAAGAAAGAAA
1 AGAAAAGAAGAAAGAAA
*
6189915 TGAAA
1 AGAAA
6189920 TGAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (17 bp):
AGAAAAGAAGAAAGAAA
Found at i:6189937 original size:15 final size:15
Alignment explanation
Indices: 6189907--6189949 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
6189897 AAGAAAAGAA
*
6189907 GAAAGAAATG-AAAT
1 GAAAAAAATGAAAAT
*
6189921 GAAAAAATTGAAAAT
1 GAAAAAAATGAAAAT
6189936 GAAAAAAATGAAAA
1 GAAAAAAATGAAAA
6189950 AAGAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (15 bp):
GAAAAAAATGAAAAT
Found at i:6191418 original size:128 final size:127
Alignment explanation
Indices: 6191188--6191596 Score: 565
Period size: 128 Copynumber: 3.2 Consensus size: 127
6191178 AAGTTGCGAT
* * *
6191188 ATGTTGTGGCACGGCTGAACCCACATTAGGTTGAGATGACAAGATTCAGAAGAAGAAGAAGGCAT
1 ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGA-AAAATTCAGAAGAAGAAGAAGGCAT
* * * * *
6191253 GAAGAATAAGCCTTACAATCTGAGGTGATTGGACATTTTGAAGGCTCGTACCAGTACAAGATA
65 GAAGAATGAGCCTTACAATCTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
* *
6191316 ATGTTGGGGCATGACTAAACCCACATTAGGTTGAGATGATAAAATTCAGAAGAAGAAGAAGGCAT
1 ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGA-AAAATTCAGAAGAAGAAGAAGGCAT
* *
6191381 GAAGAATGAGCCTTACACA-CTAAGGTGATGGGGCATTTTGAAGGCCCGTACCATTATAAGATA
65 GAAGAATGAGCCTTACA-ATCTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
* * **
6191444 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAG--G-AGGCAT
1 ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGAAAA-ATTCAGAAGAAGAAGAAGGCAT
* * *
6191506 GAAGAATGAGCCTTACAATTTGAGGTAATAGGGGCATTTTCAAAGGCCCGTACCAGTATAAGATA
65 GAAGAATGAGCCTTACAATCTGAGGTGAT-GGGGCATTTT-GAAGGCCCGTACCAGTATAAGATA
6191571 ATGTTGGGGCACGACTGAACCCACAT
1 ATGTTGGGGCACGACTGAACCCACAT
6191597 CATGATGAGA
Statistics
Matches: 252, Mismatches: 24, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
124 1 0.00
125 30 0.12
126 11 0.04
127 51 0.20
128 158 0.63
129 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (127 bp):
ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGAAAAATTCAGAAGAAGAAGAAGGCATG
AAGAATGAGCCTTACAATCTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
Found at i:6191668 original size:127 final size:126
Alignment explanation
Indices: 6191188--6191658 Score: 373
Period size: 128 Copynumber: 3.7 Consensus size: 126
6191178 AAGTTGCGAT
* * * * * * * **
6191188 ATGTTGTGGCACGGCTGAACCCACATTAGGTTGAGATGACAAGATTCAGAAGAAGAAGAAGGCAT
1 ATGTTGGGGCACGACTGAACCCACATCATGATGAGATAAAAAGATTC---AGACCAAGAAGGCAT
* ** * * * * * * *
6191253 GAAGAATAAGCCTTACAA-TCTGAGGTGAT-TGGACATTTTGAAGGCTCGTACCAGTACAAGATA
63 GAAGAATGAGCCGCACAACTC-GAAGTAATAGGGGCATTTTAAAGGCCCGTACCAGTATAAGATA
* * * * * * **
6191316 ATGTTGGGGCATGACTAAACCCACATTAGGTTGAGATGATAAA-ATTCAGAAGAAGAAGAAGGCA
1 ATGTTGGGGCACGACTGAACCCACATCATGATGAGAT-AAAAAGATTC---AGACCAAGAAGGCA
** * * *
6191380 TGAAGAATGAGCCTTACACACT--AAGGTGAT-GGGGCATTTTGAAGGCCCGTACCATTATAAGA
62 TGAAGAATGAGCCGCACA-ACTCGAA-GTAATAGGGGCATTTTAAAGGCCCGTACCAGTATAAGA
6191442 TA
125 TA
* * *
6191444 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCATGATGAGATAAAAAGATTCAGACCAAGAAGGCATGAA
** * * *
6191509 GAATGAGCCTTACAATTTGAGGTAATAGGGGCATTTTCAAAGGCCCGTACCAGTATAAGATA
66 GAATGAGCCGCACAACTCGAAGTAATAGGGGCATTTT-AAAGGCCCGTACCAGTATAAGATA
**
6191571 ATGTTGGGGCACGACTGAACCCACATCATGATGAGA-AAATAAGATTCAGACCAAGAAGTTATTG
1 ATGTTGGGGCACGACTGAACCCACATCATGATGAGATAAA-AAGATTCAGACCAAGAAGGCA-TG
* *
6191635 -AGAATGAGTCGCGCAACTCGAAGT
64 AAGAATGAGCCGCACAACTCGAAGT
6191659 GTCAGGGGCA
Statistics
Matches: 292, Mismatches: 40, Indels: 23
0.82 0.11 0.06
Matches are distributed among these distances:
124 2 0.01
125 33 0.11
126 13 0.04
127 96 0.33
128 144 0.49
129 3 0.01
130 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (126 bp):
ATGTTGGGGCACGACTGAACCCACATCATGATGAGATAAAAAGATTCAGACCAAGAAGGCATGAA
GAATGAGCCGCACAACTCGAAGTAATAGGGGCATTTTAAAGGCCCGTACCAGTATAAGATA
Found at i:6192970 original size:108 final size:108
Alignment explanation
Indices: 6192370--6192955 Score: 1064
Period size: 108 Copynumber: 5.4 Consensus size: 108
6192360 TGAAGTAAAA
*
6192370 GAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTG
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTG
6192435 GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTT
66 GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTT
*
6192478 GAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTG
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTG
*
6192543 GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTT
66 GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTT
* *
6192586 AAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGATGAAGATTGTG
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTG
6192651 GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTT
66 GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTT
*
6192694 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTG
* *
6192759 GGCCTTATACTCTATGAAGAAATAGGGGGCAGACGCAATCGTT
66 GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTT
* * * *
6192802 GAAGATTGTTCGAGTCTTATACTCTCTAAAGAAATAGGGGGCATATGCGATTGATGAAGATTATG
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTG
6192867 GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTT
66 GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTT
6192910 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
6192956 AAGTTTGTTG
Statistics
Matches: 458, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 458 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (108 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTG
GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTT
Found at i:6196779 original size:25 final size:25
Alignment explanation
Indices: 6196751--6196801 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
6196741 TGATGAACAT
6196751 TTTTAGTATGGTTTAGTTGTCAGTG
1 TTTTAGTATGGTTTAGTTGTCAGTG
6196776 TTTTAGTATGGTTTAGTTGTCAGTG
1 TTTTAGTATGGTTTAGTTGTCAGTG
6196801 T
1 T
6196802 GGTACTGGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.04, G:0.27, T:0.53
Consensus pattern (25 bp):
TTTTAGTATGGTTTAGTTGTCAGTG
Found at i:6197735 original size:90 final size:90
Alignment explanation
Indices: 6197581--6197756 Score: 291
Period size: 90 Copynumber: 2.0 Consensus size: 90
6197571 TCTAACACAC
* * *
6197581 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTTATTATTTCAAATTAATTAAATCTA
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGTATTTTATTATTTCAAATTAATTAAATCTA
*
6197646 TATTTAATTAATTAGAATTTAATAAT
66 TATTTAATTAATT-GAAATTAATAAT
*
6197672 CCTTTTATATCCAAGTTACCCTAATCATATCAGGG-ATTTTATTATTTCAAATTAATTAAATCTA
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGTATTTTATTATTTCAAATTAATTAAATCTA
6197736 TATTTAATTAATTGAAATTAA
66 TATTTAATTAATTGAAATTAA
6197757 ATATTTGGGA
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 7 0.09
90 41 0.51
91 32 0.40
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGTATTTTATTATTTCAAATTAATTAAATCTA
TATTTAATTAATTGAAATTAATAAT
Found at i:6200935 original size:20 final size:20
Alignment explanation
Indices: 6200898--6200935 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6200888 TTGACTATCA
6200898 AGAATCGATATCTCATTCAT
1 AGAATCGATATCTCATTCAT
*
6200918 AGAATTGATGATCT-ATTC
1 AGAATCGAT-ATCTCATTC
6200936 GACCAGCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (20 bp):
AGAATCGATATCTCATTCAT
Found at i:6202465 original size:14 final size:13
Alignment explanation
Indices: 6202433--6202480 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
6202423 AAAGAAAGAA
*
6202433 AATTAGAAT-ACT
1 AATTAAAATAACT
*
6202445 TATTAAAATAATCT
1 AATTAAAATAA-CT
6202459 AATTAAAATAACT
1 AATTAAAATAACT
6202472 AATTTAAAA
1 AA-TTAAAA
6202481 GAAGAGAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 7 0.23
13 5 0.17
14 18 0.60
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.35
Consensus pattern (13 bp):
AATTAAAATAACT
Found at i:6204437 original size:9 final size:9
Alignment explanation
Indices: 6204425--6204449 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6204415 CATAATTTAT
6204425 TTAATATAA
1 TTAATATAA
6204434 TTAATATAA
1 TTAATATAA
6204443 TTAATAT
1 TTAATAT
6204450 CAAAGCTAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTAATATAA
Found at i:6204879 original size:43 final size:44
Alignment explanation
Indices: 6204824--6204925 Score: 136
Period size: 43 Copynumber: 2.3 Consensus size: 44
6204814 GAGTGAGATA
* *
6204824 ATGCTAATCCAACTCCTTATGTGATGGAATCGA-CGAAATAATG
1 ATGCTGATCCAACTCCTTATGTGATAGAATCGAGCGAAATAATG
* * *
6204867 ATGCTGATCCAACTCCTTGTGTGATAGAATCTAGCGAAATAGTG
1 ATGCTGATCCAACTCCTTATGTGATAGAATCGAGCGAAATAATG
6204911 -TCGCTGATCCAACTC
1 AT-GCTGATCCAACTC
6204926 TTTGCGTAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
43 30 0.58
44 22 0.42
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
ATGCTGATCCAACTCCTTATGTGATAGAATCGAGCGAAATAATG
Found at i:6207945 original size:44 final size:44
Alignment explanation
Indices: 6207845--6207946 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 44
6207835 TGATATTACA
*
6207845 CCTTATGCGATGGAATCGAGAGAAATAATGATGCTGATCAAACT
1 CCTTATGCGATGGAATCGAGAAAAATAATGATGCTGATCAAACT
* * *
6207889 CCTTATACGATGGAATCGAGAAAAATGATGATGCTGATCCAACT
1 CCTTATGCGATGGAATCGAGAAAAATAATGATGCTGATCAAACT
* *
6207933 TCTTATGTGATGGA
1 CCTTATGCGATGGA
6207947 CTAGCAGAGG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (44 bp):
CCTTATGCGATGGAATCGAGAAAAATAATGATGCTGATCAAACT
Found at i:6208462 original size:9 final size:9
Alignment explanation
Indices: 6208450--6208536 Score: 61
Period size: 10 Copynumber: 8.9 Consensus size: 9
6208440 ATTTGTATTA
6208450 TTTTTTTTC
1 TTTTTTTTC
6208459 TTTTTTTTC
1 TTTTTTTTC
6208468 TTTTTTCTCTC
1 TTTTTT-T-TC
**
6208479 TTTTATAACTC
1 TTTT-T-TTTC
6208490 TTTTTTTTC
1 TTTTTTTTC
6208499 ATTCATTTTTTC
1 -TT--TTTTTTC
6208511 --TTTTTTC
1 TTTTTTTTC
6208518 TATTTTTTTC
1 T-TTTTTTTC
6208528 TATTTTTTT
1 T-TTTTTTT
6208537 TTTAATTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
7 7 0.11
9 17 0.27
10 20 0.31
11 12 0.19
12 8 0.12
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:6208536 original size:22 final size:22
Alignment explanation
Indices: 6208511--6208557 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
6208501 TCATTTTTTC
* **
6208511 TTTTTTCT-ATTTTTTTCTATT
1 TTTTTTTTAATTTTTTAATATT
6208532 TTTTTTTTAATTTTTTAATATT
1 TTTTTTTTAATTTTTTAATATT
6208554 TTTT
1 TTTT
6208558 ATTAAATGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTTTTAATTTTTTAATATT
Found at i:6208538 original size:30 final size:31
Alignment explanation
Indices: 6208491--6208557 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
6208481 TTATAACTCT
* *
6208491 TTTTTTTCATTCATTTTTT-CTTTTTT-CTA
1 TTTTTTTCATTCATTTTTTAATTTTTTAATA
**
6208520 TTTTTTTCTATTTTTTTTTTAATTTTTTAATA
1 TTTTTTTC-ATTCATTTTTTAATTTTTTAATA
6208552 TTTTTT
1 TTTTTT
6208558 ATTAAATGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 8 0.26
30 9 0.29
31 6 0.19
32 8 0.26
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.79
Consensus pattern (31 bp):
TTTTTTTCATTCATTTTTTAATTTTTTAATA
Found at i:6208740 original size:83 final size:82
Alignment explanation
Indices: 6208596--6208881 Score: 279
Period size: 83 Copynumber: 3.5 Consensus size: 82
6208586 TCTTATTTTT
* * * * * **
6208596 TTTAAACATCATGCACGAAGGTCTTACATATGGCTCTAAGGACTTATCACCCTGTTCAAAAGACT
1 TTTAAACATCATGCACGAAAGACTTACAGATGGCTCGAAAGACTTATCACTATGTT-AAAAGACT
6208661 TACAGAGGACCCGAAGGA
65 TACAGAGGACCCGAAGGA
* * * *
6208679 TTTAAACATCATGCACAAAAGACTTACACATGGCTCGAAAGACTTATCACTTTACTTAAAAGACT
1 TTTAAACATCATGCACGAAAGACTTACAGATGGCTCGAAAGACTTATCACTAT-GTTAAAAGACT
* * **
6208744 TAGAGGGGAATCGAAGGA
65 TACAGAGGACCCGAAGGA
* * ** *
6208762 TTTAATCATCATGCTCGAAAGACTTATTGATGGAC-C-AAATGACTTATCACTATGGTCAAAAGA
1 TTTAAACATCATGCACGAAAGACTTACAGATGG-CTCGAAA-GACTTATCACTAT-GTTAAAAGA
* * *
6208825 CTTACATAGGACCCTAAGTA
63 CTTACAGAGGACCCGAAGGA
* * *
6208845 TTTAATCATCATGCTCGAAAGACTTACTGATGGCTCG
1 TTTAAACATCATGCACGAAAGACTTACAGATGGCTCG
6208882 GAGAACTTAT
Statistics
Matches: 167, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
82 4 0.02
83 160 0.96
84 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (82 bp):
TTTAAACATCATGCACGAAAGACTTACAGATGGCTCGAAAGACTTATCACTATGTTAAAAGACTT
ACAGAGGACCCGAAGGA
Found at i:6208869 original size:42 final size:43
Alignment explanation
Indices: 6208760--6208877 Score: 115
Period size: 41 Copynumber: 2.8 Consensus size: 43
6208750 GGAATCGAAG
*
6208760 GATTTAATCATCATGCTCGAAAGACTTA-TTGATGGACCAAAT
1 GATTTAATCATCATGCTCGAAAGACTTACATGATGGACCAAAT
* * * *
6208802 GACTT-ATCA-CTATGGTCAAAAGACTTACAT-A-GGACCCTAA-
1 GATTTAATCATC-ATGCTCGAAAGACTTACATGATGGA-CCAAAT
6208842 GTATTTAATCATCATGCTCGAAAGACTTAC-TGATGG
1 G-ATTTAATCATCATGCTCGAAAGACTTACATGATGG
6208878 CTCGGAGAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
40 5 0.08
41 27 0.45
42 25 0.42
43 3 0.05
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (43 bp):
GATTTAATCATCATGCTCGAAAGACTTACATGATGGACCAAAT
Found at i:6209024 original size:76 final size:76
Alignment explanation
Indices: 6208926--6209069 Score: 216
Period size: 76 Copynumber: 1.9 Consensus size: 76
6208916 AATTGGCTTC
* * * *
6208926 TTTAAAAATTCATTGGAAAACATCATATCAATCAAGCAATCATTAGGAAACCTCTGAAAATCAGA
1 TTTAAAAATTCATTGGAAAACATCATATCAATCAAGCAATCATCAAGAAACCTATGAAAATAAGA
6208991 CTTGGTTTTTT
66 CTTGGTTTTTT
* * * *
6209002 TTTATAAATTCATTTGAAAACATCATATCAATCAAGTAATCATCAATAAACCTATGAAAATAAGA
1 TTTAAAAATTCATTGGAAAACATCATATCAATCAAGCAATCATCAAGAAACCTATGAAAATAAGA
6209067 CTT
66 CTT
6209070 AGCTTCTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (76 bp):
TTTAAAAATTCATTGGAAAACATCATATCAATCAAGCAATCATCAAGAAACCTATGAAAATAAGA
CTTGGTTTTTT
Found at i:6212147 original size:79 final size:79
Alignment explanation
Indices: 6211980--6212147 Score: 228
Period size: 79 Copynumber: 2.1 Consensus size: 79
6211970 CTCTAAAATG
** * * *
6211980 AACATAAAAGAATAATCCATATGGGTGCATAATTGGCATGAAAGGATGCCATAGATGAAATGTAT
1 AACATAAAAGAATAATCCATATGAATGCATAATTGGCATGAAAGGAGGCCAGAGATGAAATGCAT
*
6212045 ATGGGTACATTGTC
66 ATGGGTACATTATC
* * * *
6212059 AGCATAAAAGAATAATGCATATGAATGCATTATTGGCATGAAAGGAGGCCAGAGTTGAAATGCAT
1 AACATAAAAGAATAATCCATATGAATGCATAATTGGCATGAAAGGAGGCCAGAGATGAAATGCAT
*
6212124 ATGGGTTCATTATC
66 ATGGGTACATTATC
*
6212138 AACAAAAAAG
1 AACATAAAAG
6212148 TATACGATAG
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (79 bp):
AACATAAAAGAATAATCCATATGAATGCATAATTGGCATGAAAGGAGGCCAGAGATGAAATGCAT
ATGGGTACATTATC
Found at i:6212160 original size:45 final size:45
Alignment explanation
Indices: 6212111--6212414 Score: 364
Period size: 45 Copynumber: 6.8 Consensus size: 45
6212101 AGGAGGCCAG
* *
6212111 AGTTGAAATGCATATGGGTTCATTATCAACAAAAAAGTATACGAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAAAAAAGTATACTAT
* * * * * *
6212156 AGTTGAAATGTATATAGTTACATTATCAACATAAAAGTATACAAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAAAAAAGTATACTAT
* * *
6212201 AGTTGAAATGCATATGGGTGCATTGTCAACAAGAAAAGTATGCTAG
1 AGTTGAAATGCATATGGGTGCATTATCAACAA-AAAAGTATACTAT
* * **
6212247 AGTTGAAATGTATATGGGTACATTATCAACTGAAAAGTATACTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAAAAAAGTATACTAT
*
6212292 AGTTG-AA---ATATGGGTACATTATCAACAAAAAAGTATACTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAAAAAAGTATACTAT
* * * *
6212333 AGTTGAAATGCATATGAGTGCATTATCAACAGAAAAGTATATTAA
1 AGTTGAAATGCATATGGGTGCATTATCAACAAAAAAGTATACTAT
* *
6212378 AATTGAAATGAATATGGGTGCATTATCAACAGAAAAA
1 AGTTGAAATGCATATGGGTGCATTATCAACA-AAAAA
6212415 TATGTTATAG
Statistics
Matches: 220, Mismatches: 33, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
41 37 0.17
42 2 0.01
44 2 0.01
45 138 0.63
46 41 0.19
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (45 bp):
AGTTGAAATGCATATGGGTGCATTATCAACAAAAAAGTATACTAT
Found at i:6214912 original size:2 final size:2
Alignment explanation
Indices: 6214905--6214963 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
6214895 TGTCAGAAAG
6214905 AT AT AT 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 AT AT AT
6214947 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
6214964 GATTTTATGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6217235 original size:13 final size:13
Alignment explanation
Indices: 6217217--6217241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6217207 ACGTATGGTA
6217217 AGGGTATCGATAT
1 AGGGTATCGATAT
6217230 AGGGTATCGATA
1 AGGGTATCGATA
6217242 CGGGGCCACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (13 bp):
AGGGTATCGATAT
Found at i:6217295 original size:19 final size:21
Alignment explanation
Indices: 6217278--6217338 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
6217268 GTATTGATAC
*
6217278 TAGTGGAGGGTATCGATACCA
1 TAGTAGAGGGTATCGATACCA
* *
6217299 TAGTAGAGTAGTATCGATATCA
1 TAGTAGAG-GGTATCGATACCA
6217321 TAGTAG-GGGTATCGATAC
1 TAGTAGAGGGTATCGATAC
6217339 TGAAGGGCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 9 0.26
21 8 0.24
22 17 0.50
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (21 bp):
TAGTAGAGGGTATCGATACCA
Found at i:6217884 original size:79 final size:79
Alignment explanation
Indices: 6217738--6217905 Score: 237
Period size: 79 Copynumber: 2.1 Consensus size: 79
6217728 CTCTAAAACG
* * ** *
6217738 AACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAATGATGCCATTGATGAAATGTAT
1 AACATAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGCCAGAGATGAAATGCAT
* *
6217803 ATGGGTATATTGTC
66 ATGGGTACATTATC
* *
6217817 AACATAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGCCAGAGTTGATATGCAT
1 AACATAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGCCAGAGATGAAATGCAT
*
6217882 ATGGGTGCATTATC
66 ATGGGTACATTATC
*
6217896 AACAGAAAAG
1 AACATAAAAG
6217906 TATACGATAG
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (79 bp):
AACATAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGCCAGAGATGAAATGCAT
ATGGGTACATTATC
Found at i:6218183 original size:45 final size:45
Alignment explanation
Indices: 6217869--6218168 Score: 379
Period size: 45 Copynumber: 6.7 Consensus size: 45
6217859 AGGATGCCAG
* *
6217869 AGTTGATATGCATATGGGTGCATTATCAACAGAAAAGTATACGAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
* * * *
6217914 AGTTGAAATGTATATGGGTACATTATCAACATAAAAGTATACAAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
* * * *
6217959 AATTGAAATGCATATGGGTGCATTGTCAACAGAAAAGCACT-CTAG
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTA-TACTAT
* * *
6218004 AGTTGAAATGTATATGGGTACATTATCAACTGAAAAGTATACTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
* ** * *
6218049 AGTTGAAATGTATATGGGCACATTATCAATA-AAAAATATACTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
* * *
6218093 AGTTGGAATGCATATGGGTGCATTATCAATAGAAAAGTATATTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
*
6218138 AATTGAAATGCATATGGGTGCATTATCAACA
1 AGTTGAAATGCATATGGGTGCATTATCAACA
6218169 ACAAAATATG
Statistics
Matches: 219, Mismatches: 33, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
44 40 0.18
45 178 0.81
46 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.30
Consensus pattern (45 bp):
AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
Found at i:6218820 original size:2 final size:2
Alignment explanation
Indices: 6218813--6218856 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
6218803 TGAAGGGAGG
6218813 AT AT AT 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 AT AT AT
6218855 AT
1 AT
6218857 TGTATAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6227021 original size:2 final size:2
Alignment explanation
Indices: 6227014--6227043 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6227004 TTTTAAAACA
6227014 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
6227044 TCTTCTCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6227381 original size:22 final size:22
Alignment explanation
Indices: 6227351--6227403 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
6227341 GTAAAACATA
*
6227351 AAAATATTATCGTAAATACAAT
1 AAAACATTATCGTAAATACAAT
6227373 AAAACATTATCGTAAATACAAT
1 AAAACATTATCGTAAATACAAT
6227395 AAAACATTA
1 AAAACATTA
6227404 AAAATAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.28
Consensus pattern (22 bp):
AAAACATTATCGTAAATACAAT
Found at i:6232011 original size:23 final size:24
Alignment explanation
Indices: 6231964--6232007 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6231954 TTTGTTTTTT
6231964 TATAAAACATTATATTTAAACTAA
1 TATAAAACATTATATTTAAACTAA
6231988 TATAAAACATT-TA-TTAAACT
1 TATAAAACATTATATTTAAACT
6232008 TAATTACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (24 bp):
TATAAAACATTATATTTAAACTAA
Found at i:6232359 original size:55 final size:55
Alignment explanation
Indices: 6232281--6232918 Score: 935
Period size: 55 Copynumber: 11.6 Consensus size: 55
6232271 ATCAATACAT
* * * * * **
6232281 AAATTTATACACTTAGTATGAATTTCCT-AGTTTTGCACATATAGTGGCCATACAT
1 AAATTCATCCACTTAGTATGAATTTCTTAAG-TTTACACATATAGTGCCCATACGG
* ** *
6232336 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCTTATACAG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGG
6232391 AAATTCATCCACTTAGTATGAA-TTCTTAAGTTTACACAT-TATGTGCCCATACGG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATA-GTGCCCATACGG
* * * *
6232445 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACATATATAGTACTCATACGA
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGG
* *
6232500 AAATTCATCCACTTAGT-GGAAATTTCTTAAGTTTACACATATAGTGCCCATATGG
1 AAATTCATCCACTTAGTATG-AATTTCTTAAGTTTACACATATAGTGCCCATACGG
* *
6232555 AAATTCATCTACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATATGG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGG
*
6232610 AAATCCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGG
6232665 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGG
* * * *
6232720 AAATTCATCCACTTATTTTGAATTTCTTAGGTTTACACATATAATGCCCATACGG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGG
6232775 AAATT-ATTCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGG
1 AAATTCA-TCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGG
* * * * *
6232830 AAATTCATCCAGTTAGTTTGAATTTCTTAAGTTCACACATATAGTTCCCATACAG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGG
*
6232885 AAATTCATCCACTTAGTTTGAATTTCTTAAGTTT
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTT
6232919 TTGCACACTT
Statistics
Matches: 531, Mismatches: 44, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
53 1 0.00
54 50 0.09
55 474 0.89
56 6 0.01
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (55 bp):
AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGG
Found at i:6239056 original size:23 final size:24
Alignment explanation
Indices: 6239009--6239052 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
6238999 TGTTTCTTTT
6239009 TATAAAACATTGTAATTAAACTAA
1 TATAAAACATTGTAATTAAACTAA
*
6239033 TATAAAATA-TGT-ATTAAACT
1 TATAAAACATTGTAATTAAACT
6239053 TAATTACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 8 0.42
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (24 bp):
TATAAAACATTGTAATTAAACTAA
Found at i:6239616 original size:55 final size:55
Alignment explanation
Indices: 6239444--6239959 Score: 711
Period size: 55 Copynumber: 9.4 Consensus size: 55
6239434 AATTTATACG
* ** * *
6239444 CTTAGTATGAATTTCCT-AGTTTTTTACATATAGTTCCCATACATAAATTCATCCA
1 CTTAGTATGAATTTCTTAAG-TTTACACATATAGTGCCCATACAGAAATTCATCCA
* * * **
6239499 CCTAGTATGAATTTCTTTAGTTTACACA-A-AGTGGCCGCAC-GAAAATTCATCCA
1 CTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACAG-AAATTCATCCA
* *
6239552 GTTATTATGAATTTCTTAAGTTTACACAT-TAAGTGCCCATACAGAAATTCATCCA
1 CTTAGTATGAATTTCTTAAGTTTACACATAT-AGTGCCCATACAGAAATTCATCCA
* *
6239607 CTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCACACGGAAATTCATCCA
1 CTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACAGAAATTCATCCA
6239662 CTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACAGAAATTCATCCA
1 CTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACAGAAATTCATCCA
* * *
6239717 CTTATTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGGAAATTCATCCT
1 CTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACAGAAATTCATCCA
* * * *
6239772 CTTAATATGAATTTCTTAAGTTTAGACATATAATGCCCATATAGAAATTCATCCA
1 CTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACAGAAATTCATCCA
* * * *
6239827 CTTAGTTTGAATTTCTTAAGTTTACACATATAATGTCCATACGGAAATTCATCCA
1 CTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACAGAAATTCATCCA
*
6239882 CTTAGTATGAATTTCTTAAGTTTACACATATAGTGACCATAC-GTAAATTCATCCA
1 CTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACAG-AAATTCATCCA
*
6239937 CTTAGTATGATTTTCTTAAGTTT
1 CTTAGTATGAATTTCTTAAGTTT
6239960 TTTTCACACT
Statistics
Matches: 412, Mismatches: 41, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
53 42 0.10
54 2 0.00
55 364 0.88
56 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (55 bp):
CTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACAGAAATTCATCCA
Found at i:6240371 original size:19 final size:19
Alignment explanation
Indices: 6240301--6240371 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 19
6240291 TGGCTCCTCA
* *
6240301 GTATCGATACCCCTACCATG
1 GTATCGATA-CTCTACTATG
6240321 GTATCGATACTACTATACTATG
1 GTATCGATACT-C--TACTATG
* *
6240343 GTACCAATACTCTACTATG
1 GTATCGATACTCTACTATG
6240362 GTATCGATAC
1 GTATCGATAC
6240372 CATTTTTGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 16 0.38
20 10 0.24
21 1 0.02
22 15 0.36
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (19 bp):
GTATCGATACTCTACTATG
Found at i:6240432 original size:19 final size:20
Alignment explanation
Indices: 6240398--6240442 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
6240388 TTGAATGGTC
*
6240398 TCGATACCTTCCCTTCAGTA
1 TCGATACCTCCCCTTCAGTA
*
6240418 TCGATA-CTCCCCTTCGGTA
1 TCGATACCTCCCCTTCAGTA
6240437 TCGATA
1 TCGATA
6240443 ATGATTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.33
Consensus pattern (20 bp):
TCGATACCTCCCCTTCAGTA
Found at i:6253157 original size:27 final size:27
Alignment explanation
Indices: 6253127--6253226 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
6253117 ACAAAGGTGG
*
6253127 GAATGCAAATGTAAAATGCAAAAATGA
1 GAATGAAAATGTAAAATGCAAAAATGA
* *
6253154 GAATGAAAATGTAAAATG-AAAAGGTGT
1 GAATGAAAATGTAAAATGCAAAA-ATGA
*
6253181 GACTGAAAATGTAAAATGCAAAAATGTA
1 GAATGAAAATGTAAAATGCAAAAATG-A
* *
6253209 -AATGCAAATGCAAAATGC
1 GAATGAAAATGTAAAATGC
6253227 GAAGATGCAA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
26 4 0.07
27 53 0.87
28 4 0.07
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (27 bp):
GAATGAAAATGTAAAATGCAAAAATGA
Found at i:6253191 original size:54 final size:54
Alignment explanation
Indices: 6253119--6253225 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
6253109 ATGTGAATAC
* *
6253119 AAAGGTGGGAATGCAAATGTAAAATGCAAAAATG-AGAATGAAAATGTAAAATGA
1 AAAGGTGGGAATGAAAATGTAAAATGCAAAAATGTA-AATGAAAATGCAAAATGA
* * *
6253173 AAAGGTGTGACTGAAAATGTAAAATGCAAAAATGTAAATGCAAATGCAAAATG
1 AAAGGTGGGAATGAAAATGTAAAATGCAAAAATGTAAATGAAAATGCAAAATG
6253226 CGAAGATGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 46 0.98
55 1 0.02
ACGTcount: A:0.52, C:0.06, G:0.22, T:0.20
Consensus pattern (54 bp):
AAAGGTGGGAATGAAAATGTAAAATGCAAAAATGTAAATGAAAATGCAAAATGA
Found at i:6253238 original size:27 final size:27
Alignment explanation
Indices: 6253128--6253238 Score: 82
Period size: 27 Copynumber: 4.1 Consensus size: 27
6253118 CAAAGGTGGG
*
6253128 AATGCAAATGTAAAATGCAAAAATG-A
1 AATGCAAATGCAAAATGCAAAAATGCA
* * * **
6253154 GAATGAAAATGTAAAATG-AAAAGGTGTG
1 -AATGCAAATGCAAAATGCAAAA-ATGCA
* * * *
6253182 ACTGAAAATGTAAAATGCAAAAATGTA
1 AATGCAAATGCAAAATGCAAAAATGCA
* *
6253209 AATGCAAATGCAAAATGCGAAGATGCA
1 AATGCAAATGCAAAATGCAAAAATGCA
6253236 AAT
1 AAT
6253239 ACAGAATACA
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 4 0.06
27 61 0.88
28 4 0.06
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (27 bp):
AATGCAAATGCAAAATGCAAAAATGCA
Found at i:6257921 original size:15 final size:16
Alignment explanation
Indices: 6257901--6257930 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6257891 TTGAAGACCG
6257901 CTTGGATTG-TGTTTT
1 CTTGGATTGTTGTTTT
6257916 CTTGGATTGTTGTTT
1 CTTGGATTGTTGTTT
6257931 GGGGTTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.07, G:0.27, T:0.60
Consensus pattern (16 bp):
CTTGGATTGTTGTTTT
Found at i:6260199 original size:64 final size:64
Alignment explanation
Indices: 6260085--6260228 Score: 175
Period size: 64 Copynumber: 2.2 Consensus size: 64
6260075 GTGCACTAAG
**
6260085 TGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGTCT
1 TGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGAT
* ** * *
6260149 TGTGCATCGATGCATCAAATGCATTCGATG-TTCAATTTATTCATTG-GTGCATCGATGCATGGA
1 TGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATA-GC-CTGAGTGCATCGATGCATGGA
6260212 T
64 T
*
6260213 TGGTGCATCGGTGCAT
1 T-GTGCATCGATGCAT
6260229 TCCTTTGAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
63 7 0.10
64 47 0.68
65 15 0.22
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (64 bp):
TGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGAT
Found at i:6260216 original size:20 final size:20
Alignment explanation
Indices: 6260191--6260228 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6260181 CAATTTATTC
6260191 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
6260211 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
6260229 TCCTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:6260596 original size:15 final size:16
Alignment explanation
Indices: 6260576--6260606 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6260566 CCCCCTTACT
6260576 ATAACAC-TTCTCCCC
1 ATAACACTTTCTCCCC
6260591 ATAACACTTTCTCCCC
1 ATAACACTTTCTCCCC
6260607 CTTTAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.26, C:0.45, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAACACTTTCTCCCC
Found at i:6262944 original size:24 final size:24
Alignment explanation
Indices: 6262867--6262992 Score: 101
Period size: 24 Copynumber: 5.6 Consensus size: 24
6262857 CATAGCTTTG
*
6262867 TGCATCGATACACATTC-AA-GGA
1 TGCATCGATGCACATTCAAAGGGA
* * *
6262889 GTGCATCGGTGCACCTTC--ATGG-
1 -TGCATCGATGCACATTCAAAGGGA
*
6262911 TGTATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTCAAAGGGA
*
6262935 TGCATTGATGCACAGTT--AA--G-
1 TGCATCGATGCACA-TTCAAAGGGA
*
6262955 TGTATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTCAAAGGGA
6262979 TGCATCGATGCACA
1 TGCATCGATGCACA
6262993 GTTAAGTGTA
Statistics
Matches: 81, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
19 2 0.02
20 12 0.15
21 17 0.21
22 1 0.01
23 22 0.27
24 25 0.31
25 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (24 bp):
TGCATCGATGCACATTCAAAGGGA
Found at i:6262958 original size:44 final size:44
Alignment explanation
Indices: 6262910--6263010 Score: 193
Period size: 44 Copynumber: 2.3 Consensus size: 44
6262900 CACCTTCATG
*
6262910 GTGTATCGATGCACATTCAAAGGGATGCATTGATGCACAGTTAA
1 GTGTATCGATGCACATTCAAAGGGATGCATCGATGCACAGTTAA
6262954 GTGTATCGATGCACATTCAAAGGGATGCATCGATGCACAGTTAA
1 GTGTATCGATGCACATTCAAAGGGATGCATCGATGCACAGTTAA
6262998 GTGTATCGATGCA
1 GTGTATCGATGCA
6263011 TGAAGCACAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (44 bp):
GTGTATCGATGCACATTCAAAGGGATGCATCGATGCACAGTTAA
Found at i:6262966 original size:20 final size:20
Alignment explanation
Indices: 6262941--6263010 Score: 79
Period size: 20 Copynumber: 3.3 Consensus size: 20
6262931 GGGATGCATT
6262941 GATGCACAGTTAAGTGTATC
1 GATGCACAGTTAAGTGTATC
*
6262961 GATGCACA-TTCAAAGGGATGCATC
1 GATGCACAGTT--AA--G-TGTATC
6262985 GATGCACAGTTAAGTGTATC
1 GATGCACAGTTAAGTGTATC
6263005 GATGCA
1 GATGCA
6263011 TGAAGCACAG
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
19 2 0.05
20 19 0.45
21 3 0.07
23 3 0.07
24 13 0.31
25 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (20 bp):
GATGCACAGTTAAGTGTATC
Found at i:6268840 original size:64 final size:65
Alignment explanation
Indices: 6268772--6268896 Score: 175
Period size: 65 Copynumber: 1.9 Consensus size: 65
6268762 GAGCACTAAG
* *
6268772 TGTGCATCAATGCAT-AAATTGCATTCGATG-TTTCA-AAATAGCCTGAGTGCATCGATGCATGT
1 TGTGCATCAATGCATCAAA-TGCATTCGATGTTTTCATAAA-ACCCTGAGCGCATCGATGCATGT
6268834 CT
64 CT
* *
6268836 TGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCTTAGCGCATCGATGCAT
1 TGTGCATCAATGCATCAAATGCATTCGATGTTTTCATAAAACCCTGAGCGCATCGATGCAT
6268897 AAAATGCATT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
64 25 0.46
65 26 0.48
66 3 0.06
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (65 bp):
TGTGCATCAATGCATCAAATGCATTCGATGTTTTCATAAAACCCTGAGCGCATCGATGCATGTCT
Found at i:6269671 original size:55 final size:55
Alignment explanation
Indices: 6269597--6269896 Score: 433
Period size: 55 Copynumber: 5.5 Consensus size: 55
6269587 TTCGCATTCG
* * * * * *
6269597 TAGTGCCAATACGGTAATTCACAAACTCATTATGAATTACATGGGGTTGCACACA
1 TAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACA
* * *
6269652 TAGTACCAATATAGAAATTCATAAACTCGTTATGAATTTCGTGAGGTTGCACACA
1 TAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACA
*
6269707 TAGTGCCAAAACAGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACA
1 TAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACA
*
6269762 TAGTTCCAATAC-GAAAATTCATAAACTCATTATGAATTTCGT-ATGGTTGCACACA
1 TAGTGCCAATACAG-AAATTCATAAACTCATTATGAATTTCGTGA-GGTTGCACACA
* * *
6269817 TAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTTGTGAGGTTGCACATA
1 TAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACA
*
6269872 TAGTTCCAATACAGAAATTCATAAA
1 TAGTGCCAATACAGAAATTCATAAA
6269897 GATACAACTA
Statistics
Matches: 221, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
54 2 0.01
55 217 0.98
56 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (55 bp):
TAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACA
Found at i:6271043 original size:29 final size:29
Alignment explanation
Indices: 6271001--6271058 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
6270991 GATTTTTCCT
6271001 TTTCATTGCGACTAGGAGGGTTCGATAGG
1 TTTCATTGCGACTAGGAGGGTTCGATAGG
*
6271030 TTTCATTGTGACTAGGAGGGTTCGATAGG
1 TTTCATTGCGACTAGGAGGGTTCGATAGG
6271059 ACATTTATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.12, G:0.34, T:0.33
Consensus pattern (29 bp):
TTTCATTGCGACTAGGAGGGTTCGATAGG
Found at i:6273020 original size:15 final size:15
Alignment explanation
Indices: 6273000--6273035 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
6272990 TGGACTTAAA
6273000 CCACCAACATCGGGT
1 CCACCAACATCGGGT
6273015 CCACCAACATCGGGT
1 CCACCAACATCGGGT
6273030 CCACCA
1 CCACCA
6273036 CTCTGACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.44, G:0.17, T:0.11
Consensus pattern (15 bp):
CCACCAACATCGGGT
Found at i:6275674 original size:41 final size:42
Alignment explanation
Indices: 6275610--6275773 Score: 194
Period size: 41 Copynumber: 3.9 Consensus size: 42
6275600 TTGGTTAATA
*
6275610 AATGGTAAG--TATGAAAATAAGCTTACGAGCTTATGG-AAT
1 AATGGTAAGTATATTAAAATAAGCTTACGAGCTTATGGAAAT
* * *
6275649 AATGGCAAGTATATTAAAATAAGCTTACGAGCTTGTGGAAAGA
1 AATGGTAAGTATATTAAAATAAGCTTACGAGCTTATGGAAA-T
*
6275692 AATGGTAAG--TATTAAAATAAGCTTACGAGCTTGTGGAAAT
1 AATGGTAAGTATATTAAAATAAGCTTACGAGCTTATGGAAAT
*
6275732 AAATGGTAAGTATGTTGGTAAAATAAGCTTACGAGCTTATGG
1 -AATGGTAAGTAT-AT--TAAAATAAGCTTACGAGCTTATGG
6275774 GATAAATGAT
Statistics
Matches: 107, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
39 8 0.07
41 64 0.60
42 2 0.02
43 9 0.08
44 1 0.01
46 23 0.21
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (42 bp):
AATGGTAAGTATATTAAAATAAGCTTACGAGCTTATGGAAAT
Found at i:6282588 original size:41 final size:43
Alignment explanation
Indices: 6282525--6282711 Score: 190
Period size: 41 Copynumber: 4.4 Consensus size: 43
6282515 TTTATTGGTT
* *
6282525 AATAAATGGTAAG--TATGAAAATAAGCTTACGAGCTTATGG-
1 AATAAATGATAAGTATATTAAAATAAGCTTACGAGCTTATGGA
* *
6282565 AAT-AATGACAAGTATATTAAAATAAGCTTACGAGCTTGTGGA
1 AATAAATGATAAGTATATTAAAATAAGCTTACGAGCTTATGGA
* * * *
6282607 AAGAAATGGTAAG--TATTAAAATAAGCTTATGAGCTTGTGGA
1 AATAAATGATAAGTATATTAAAATAAGCTTACGAGCTTATGGA
* *
6282648 AATAAATGGTAAGTATGTTGGTAAAATAAGCTTACGAGCTTATGG-
1 AATAAATGATAAGTAT-AT--TAAAATAAGCTTACGAGCTTATGGA
* *
6282693 GATAAATGATATGTATATT
1 AATAAATGATAAGTATATT
6282712 GGTAAGAGAG
Statistics
Matches: 122, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
39 7 0.06
40 3 0.02
41 64 0.52
42 3 0.02
43 8 0.07
44 2 0.02
45 13 0.11
46 22 0.18
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.30
Consensus pattern (43 bp):
AATAAATGATAAGTATATTAAAATAAGCTTACGAGCTTATGGA
Found at i:6284029 original size:49 final size:50
Alignment explanation
Indices: 6283972--6284088 Score: 209
Period size: 52 Copynumber: 2.3 Consensus size: 50
6283962 TGAAATTAAG
6283972 GATTGAGGAAATAACTTAATC-ATAATTTATAAGAATATGCTCAATTCGT
1 GATTGAGGAAATAACTTAATCAATAATTTATAAGAATATGCTCAATTCGT
6284021 GATTGAGGAAATAACTTAATCATAATAATTTATAAGAATATGCTCAATTCGT
1 GATTGAGGAAATAACTTAATC--AATAATTTATAAGAATATGCTCAATTCGT
6284073 GATTGAGGAAATAACT
1 GATTGAGGAAATAACT
6284089 CTTAATTATA
Statistics
Matches: 65, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
49 21 0.32
52 44 0.68
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.33
Consensus pattern (50 bp):
GATTGAGGAAATAACTTAATCAATAATTTATAAGAATATGCTCAATTCGT
Found at i:6288433 original size:42 final size:43
Alignment explanation
Indices: 6288152--6288436 Score: 238
Period size: 43 Copynumber: 6.7 Consensus size: 43
6288142 AATAAAAATT
* *
6288152 CCGCAAAAAGTCAGATCTATAGCGGCGTTTTT-TATACAAACG
1 CCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATACAAACA
** * * * ** *
6288194 CCGCAAAAGAACGAAATCTATAGCGACATTTGTTCCA-A-AAACG
1 CCGCAAAAGGTC-AGATCTATAGCGGCGTTT-TTGTATACAAACA
* * * * *
6288237 CCGCTATAGGCCAGATCTATAGCGGCATTTTT-TATACAAACG
1 CCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATACAAACA
* * * *
6288279 CCGTAAAAGGTCAGATCCATAGTGGCATTTTTGTATACAAACA
1 CCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATACAAACA
* * * ** *
6288322 CTGCAAAAGGTCAAATTTATAGTAGTGTTTTTGTATACAAACA
1 CCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATACAAACA
* * *
6288365 CCGCAAAAGGTCAGATCTGTAGCGGCGTTTTTGGA-ACAAACG
1 CCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATACAAACA
* * *
6288407 CCGTAAAATGTCAGATTTATAGCGGCGTTT
1 CCGCAAAAGGTCAGATCTATAGCGGCGTTT
6288437 GTGGATATAA
Statistics
Matches: 195, Mismatches: 42, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
42 88 0.45
43 99 0.51
44 3 0.02
45 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (43 bp):
CCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATACAAACA
Found at i:6288587 original size:23 final size:22
Alignment explanation
Indices: 6288561--6288607 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
6288551 AGAACAACCA
*
6288561 TAAATTTTAAAAACAATATAAAT
1 TAAAATTTAAAAACAATA-AAAT
* *
6288584 TAAAATTTATAAACATTAAAAT
1 TAAAATTTAAAAACAATAAAAT
6288606 TA
1 TA
6288608 TATGTAATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAATTTAAAAACAATAAAAT
Found at i:6290341 original size:42 final size:40
Alignment explanation
Indices: 6290294--6290388 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 40
6290284 GTTTTTATAT
* *
6290294 AAACGCCACTAA-ACTACGTGTGTTTAGTGGCGTTTGCTGAAA
1 AAACGCCACTAAGACTAC-TCTG-TT-GCGGCGTTTGCTGAAA
*
6290336 AAACGCCACTAAAGTACTACTCTGTTGCGGCGTTTGTTGAAA
1 AAACGCCACT-AAG-ACTACTCTGTTGCGGCGTTTGCTGAAA
6290378 AAACGCCACTA
1 AAACGCCACTA
6290389 TATATGAATC
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
41 1 0.02
42 34 0.72
43 4 0.09
44 3 0.06
45 5 0.11
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (40 bp):
AAACGCCACTAAGACTACTCTGTTGCGGCGTTTGCTGAAA
Found at i:6290440 original size:83 final size:82
Alignment explanation
Indices: 6290334--6290674 Score: 383
Period size: 83 Copynumber: 4.2 Consensus size: 82
6290324 CGTTTGCTGA
* * *
6290334 AAAAACGCCACTAAAGTACTACTCTGTTGCGGCGTTTGTTGAAAAAACGCCACTATATATGAATC
1 AAAAACGCCGCTAAAGTACTACTCTTTTGCGGCGTTTGTTGAAAAAACGCCACTATAGATGAA-C
*
6290399 CTATTGCGGTGTTTGTAT
65 CTATTGCGGCGTTTGTAT
* * * * *
6290417 AAAAACGCTGCTAAAGTATTACTCTTTTGCGGCGTTTGTTGAAAAAACACTACTATAAATGAACC
1 AAAAACGCCGCTAAAGTACTACTCTTTTGCGGCGTTTGTTGAAAAAACGCCACTATAGATGAACC
* *
6290482 GTATTACGGCGTTTGAAT
66 -TATTGCGGCGTTTGTAT
* * * * *
6290500 AAAAATGCCGCTAAAGTACTA-T-TTTTCCACGGCGTTT-TTTAAGAAACGGCACTATAGATGAA
1 AAAAACGCCGCTAAAGTACTACTCTTTT--GCGGCGTTTGTTGAAAAAACGCCACTATAGATGAA
* *
6290562 CCTATTGTGGTGTTTGTAT
64 CCTATTGCGGCGTTTGTAT
* *
6290581 AAAAACGCCGCTAAAGTACTACTC-----CGACGTTTGTTGAAAAGACGCCACTATAGATGAACC
1 AAAAACGCCGCTAAAGTACTACTCTTTTGCGGCGTTTGTTGAAAAAACGCCACTATAGATGAACC
* *
6290641 AATTGCGGCGTTTTTAT
66 TATTGCGGCGTTTGTAT
*
6290658 ATAAACGCCGCTAAAGT
1 AAAAACGCCGCTAAAGT
6290675 CACCATTTTA
Statistics
Matches: 217, Mismatches: 35, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
76 7 0.03
77 52 0.24
81 37 0.17
82 25 0.12
83 96 0.44
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGTACTACTCTTTTGCGGCGTTTGTTGAAAAAACGCCACTATAGATGAACC
TATTGCGGCGTTTGTAT
Found at i:6290462 original size:41 final size:42
Alignment explanation
Indices: 6290322--6290464 Score: 157
Period size: 42 Copynumber: 3.4 Consensus size: 42
6290312 TGTGTTTAGT
* * *
6290322 GGCGTTTGCTGAAAAAACGCCACTAAAGTACTACTCTGTTGC
1 GGCGTTTGTTGAAAAAACGCCACTAAAGTATTACTCTATTGC
* * *
6290364 GGCGTTTGTTGAAAAAACGCCACTATA-TATGAATCCTATTGC
1 GGCGTTTGTTGAAAAAACGCCACTAAAGTATTACT-CTATTGC
* ** *
6290406 GGTGTTTG-T-ATAAAAACGCTGCTAAAGTATTACTCTTTTGC
1 GGCGTTTGTTGA-AAAAACGCCACTAAAGTATTACTCTATTGC
6290447 GGCGTTTGTTGAAAAAAC
1 GGCGTTTGTTGAAAAAAC
6290465 ACTACTATAA
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
40 1 0.01
41 30 0.37
42 50 0.61
43 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (42 bp):
GGCGTTTGTTGAAAAAACGCCACTAAAGTATTACTCTATTGC
Found at i:6292015 original size:2 final size:2
Alignment explanation
Indices: 6292008--6292036 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6291998 AAATTTATTA
6292008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6292037 ATTATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6292172 original size:36 final size:36
Alignment explanation
Indices: 6292097--6292173 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
6292087 CCCGTCCCCG
*
6292097 TCCCCGTCCCCGTTTAATATAAACGGTTTTTCTCTA
1 TCCCCGTCCCCGTTTAATATAAACGGTTTTTCTCCA
* * *
6292133 TCCCCGTCCCCTTTTAGTATAAACGATTTTT-TCCCA
1 TCCCCGTCCCCGTTTAATATAAACGGTTTTTCT-CCA
6292169 TCCCC
1 TCCCC
6292174 TTTTAATTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 1 0.03
36 35 0.97
ACGTcount: A:0.18, C:0.35, G:0.09, T:0.38
Consensus pattern (36 bp):
TCCCCGTCCCCGTTTAATATAAACGGTTTTTCTCCA
Found at i:6294866 original size:16 final size:16
Alignment explanation
Indices: 6294841--6294871 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6294831 TTAATTATTA
*
6294841 AATAATTATTATTTTG
1 AATAAATATTATTTTG
6294857 AATAAATATTATTTT
1 AATAAATATTATTTT
6294872 ATATTTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
AATAAATATTATTTTG
Found at i:6300204 original size:2 final size:2
Alignment explanation
Indices: 6300197--6300238 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
6300187 AATATCACAA
6300197 AT AT AT 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 AT AT AT
6300239 CGATACTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6300244 original size:171 final size:173
Alignment explanation
Indices: 6300054--6300364 Score: 581
Period size: 171 Copynumber: 1.8 Consensus size: 173
6300044 ACGCACCCAC
*
6300054 ATATATATATATATCGATACTAAATTTAGTTTAAATTATAAATAAGATGGATAATGTTTCCGTTT
1 ATATATATATATATCGATACTAAATTTAGTTTAAATTATAAATAAGATGGATAATGTTTCCATTT
*
6300119 CACATTTCAACCCTAAAATTAT-A-ATATATATATATTTCGAACATAAAATTGATTATTTATTTA
66 CACATTTCAACCCTAAAATTATAATATATATATATATTTCAAACATAAAATTGATTATTTATTTA
6300182 ATGTAAATATCACAAATATATATATATATATATATATATATAT
131 ATGTAAATATCACAAATATATATATATATATATATATATATAT
6300225 ATATATATATATATCGATACTAAATTTAGTTTAAATTATAAATAAGATGGATAATGTTTCCATTT
1 ATATATATATATATCGATACTAAATTTAGTTTAAATTATAAATAAGATGGATAATGTTTCCATTT
*
6300290 CACATTTCAACCCTAAAATTATAATATATATATATATTTCAAACTTAAAATTGATTATTTATTTA
66 CACATTTCAACCCTAAAATTATAATATATATATATATTTCAAACATAAAATTGATTATTTATTTA
6300355 ATGTAAATAT
131 ATGTAAATAT
6300365 TATAAAATAA
Statistics
Matches: 135, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
171 86 0.64
172 1 0.01
173 48 0.36
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.42
Consensus pattern (173 bp):
ATATATATATATATCGATACTAAATTTAGTTTAAATTATAAATAAGATGGATAATGTTTCCATTT
CACATTTCAACCCTAAAATTATAATATATATATATATTTCAAACATAAAATTGATTATTTATTTA
ATGTAAATATCACAAATATATATATATATATATATATATATAT
Found at i:6302434 original size:43 final size:44
Alignment explanation
Indices: 6302214--6302521 Score: 406
Period size: 45 Copynumber: 7.0 Consensus size: 44
6302204 CCATTTAATC
* * *
6302214 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAATC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTA-TAATTT
* * * *
6302259 CCTAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAATC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTA-TAATTT
* ** * * *
6302304 CATAAGCTTGTAAGCTTATTTTATAAATATACTTACCATTATTC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
* *
6302348 CATAAGCTCGTAAGCTTATTTTTATCAATATACTTATTATAATTT
1 CATAAGCTCGTAAGCTTA-TTTTACCAATATACTTACTATAATTT
6302393 CATAAGCTCGTAAGCTTA-TTTACCAATATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
* *
6302436 CATAAGCTCGTAAGCTT-GTTTACCAATATACTTTCTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
*
6302479 CATAAGCTCGTAAGC-TAATTTACCAATATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
6302522 GCATCACTGA
Statistics
Matches: 242, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.00
43 103 0.43
44 21 0.09
45 117 0.48
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (44 bp):
CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
Found at i:6302488 original size:86 final size:87
Alignment explanation
Indices: 6302214--6302520 Score: 395
Period size: 86 Copynumber: 3.5 Consensus size: 87
6302204 CCATTTAATC
* *
6302214 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAATCCCTAAGCTCGTAAGCTTATT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA-TAATTCCATAAGCTCGTAAGCTT-TT
* * * *
6302279 TTACCAATATACTTACCATTAAATC
64 TTACCAATATACTTTCTA-TAATTT
* ** *
6302304 CATAAGCTTGTAAGCTTATTTTATAAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATAATTCCATAAGCTCGTAAGC-T-TTT
*
6302369 TTATCAATATACTTAT-TATAATTT
64 TTACCAATATACTT-TCTATAATTT
* * *
6302393 CATAAGCTCGTAAGCTTA-TTTACCAATATACTTACTATAATTTCATAAGCTCGTAAGCTTGTTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATAATTCCATAAGCTCGTAAGCTTTTTT
6302457 ACCAATATACTTTCTATAATTT
66 ACCAATATACTTTCTATAATTT
* *
6302479 CATAAGCTCGTAAGC-TAATTTACCAATATACTTACTATAATT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATAATT
6302521 TGCATCACTG
Statistics
Matches: 193, Mismatches: 19, Indels: 14
0.85 0.08 0.06
Matches are distributed among these distances:
85 3 0.02
86 62 0.32
87 1 0.01
88 35 0.18
89 39 0.20
90 52 0.27
91 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (87 bp):
CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATAATTCCATAAGCTCGTAAGCTTTTTT
ACCAATATACTTTCTATAATTT
Found at i:6302718 original size:59 final size:60
Alignment explanation
Indices: 6302655--6302817 Score: 185
Period size: 60 Copynumber: 2.7 Consensus size: 60
6302645 TATCATATAC
6302655 TTAATATGATTTCCTTCT-CA-TTTTAGCACAC-GAAGTGCCCTATCCAAGAATCCATACCA
1 TTAATATGATTTCCTT-TACATTTTTAGCAC-CTGAAGTGCCCTATCCAAGAATCCATACCA
* * * *
6302714 TTAATACGA-TTCCTTTACCATTTTTAGCACCTGAAGTGTCCTATTCGAGAATCCATACCA
1 TTAATATGATTTCCTTTA-CATTTTTAGCACCTGAAGTGCCCTATCCAAGAATCCATACCA
* *
6302774 TTAGTATGA--TCCGTTTACCATTTTTAGCACTTGAAGTGCCCTAT
1 TTAATATGATTTCC-TTTA-CATTTTTAGCACCTGAAGTGCCCTAT
6302818 ATGAAAATCC
Statistics
Matches: 91, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
57 1 0.01
58 6 0.07
59 14 0.15
60 70 0.77
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.36
Consensus pattern (60 bp):
TTAATATGATTTCCTTTACATTTTTAGCACCTGAAGTGCCCTATCCAAGAATCCATACCA
Found at i:6302757 original size:60 final size:60
Alignment explanation
Indices: 6302675--6302817 Score: 200
Period size: 60 Copynumber: 2.4 Consensus size: 60
6302665 TTCCTTCTCA
6302675 TTTTAGCACAC-GAAGTGCCCTATCCAAGAATCCATACCATTAATACGATTCC-TTTACCAT
1 TTTTAGCAC-CTGAAGTGCCCTATCCAAGAATCCATACCATTAATACGA-TCCGTTTACCAT
* * * * *
6302735 TTTTAGCACCTGAAGTGTCCTATTCGAGAATCCATACCATTAGTATGATCCGTTTACCAT
1 TTTTAGCACCTGAAGTGCCCTATCCAAGAATCCATACCATTAATACGATCCGTTTACCAT
*
6302795 TTTTAGCACTTGAAGTGCCCTAT
1 TTTTAGCACCTGAAGTGCCCTAT
6302818 ATGAAAATCC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
59 4 0.05
60 70 0.95
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (60 bp):
TTTTAGCACCTGAAGTGCCCTATCCAAGAATCCATACCATTAATACGATCCGTTTACCAT
Found at i:6302899 original size:59 final size:59
Alignment explanation
Indices: 6302838--6303175 Score: 227
Period size: 59 Copynumber: 5.6 Consensus size: 59
6302828 ATATTGTTAG
* * * * *
6302838 TATGATTTTCTTATCCTTGTAGCACCCTTAGTGCTTTTTCTGGAAATCCATACACTCAG
1 TATGATTTCCTTATCCTTTTAGCACCCTTAGTGCTCTATCTGGAAATCCATACACTCAA
* * * * * *
6302897 TATGATTCCCTTA-CCATTTTAGCA-CATATAATGCCCTATCTGGAAATCCATATATTCAA
1 TATGATTTCCTTATCC-TTTTAGCACCCT-TAGTGCTCTATCTGGAAATCCATACACTCAA
* * * * *
6302956 TATGATTTCCTTATCCTTTTATCACACTCAGTGCTCCATATGGAAATCCATACACTCAA
1 TATGATTTCCTTATCCTTTTAGCACCCTTAGTGCTCTATCTGGAAATCCATACACTCAA
* * *
6303015 TATGATTTCTTTATCATTTTAGCA-CATATAGTGCTCCATATGGAAATCAT-GAAATCCATACAC
1 TATGATTTCCTTATCCTTTTAGCACCCT-TAGTGCT-C---T----ATC-TGGAAATCCATACAC
*
6303078 TCAG
56 TCAA
* ** * ** * ***
6303082 CATGATTTCCTTATCAATTTAGCA-CATATAGTGCTCCGTATGGAAATCCATACACTTTG
1 TATGATTTCCTTATCCTTTTAGCACCCT-TAGTGCTCTATCTGGAAATCCATACACTCAA
* * *
6303141 TATGATTTCCTTATCATTTTAGCACACTCAGTGCT
1 TATGATTTCCTTATCCTTTTAGCACCCTTAGTGCT
6303176 ACATTCAATA
Statistics
Matches: 219, Mismatches: 44, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
58 6 0.03
59 156 0.71
60 5 0.02
66 1 0.00
67 50 0.23
68 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.37
Consensus pattern (59 bp):
TATGATTTCCTTATCCTTTTAGCACCCTTAGTGCTCTATCTGGAAATCCATACACTCAA
Found at i:6302962 original size:118 final size:118
Alignment explanation
Indices: 6302763--6303062 Score: 324
Period size: 118 Copynumber: 2.5 Consensus size: 118
6302753 CCTATTCGAG
* *
6302763 AATCCATAC-CATTAGTATGA-TCCGTTTACCATTTTTAGCAC-T-TGAAGTGCCCTATATGAAA
1 AATCCATACAC-TCAGTATGATTCC-TTTACCA-TTTTAGCACATAT-AA-TGCCCTATATGGAA
* * * * * *** *
6302824 ATCCATATTGTTAGTATGATTTTCTTATCCTTGTAGCACCCTTAGTGCTTTTTCTGGA
61 ATCCATATTGTCAATATGATTTCCTTATCCTTGTAGCACACTCAGTGCTCCATATGGA
* *
6302882 AATCCATACACTCAGTATGATTCCCTTACCATTTTAGCACATATAATGCCCTATCTGGAAATCCA
1 AATCCATACACTCAGTATGATTCCTTTACCATTTTAGCACATATAATGCCCTATATGGAAATCCA
* *
6302947 TATAT-TCAATATGATTTCCTTATCCTTTTATCACACTCAGTGCTCCATATGGA
66 TAT-TGTCAATATGATTTCCTTATCCTTGTAGCACACTCAGTGCTCCATATGGA
* * * *
6303000 AATCCATACACTCAATATGATTTCTTTATCATTTTAGCACATATAGTGCTCC-ATATGGAAATC
1 AATCCATACACTCAGTATGATTCCTTTACCATTTTAGCACATATAATGC-CCTATATGGAAATC
6303063 ATGAAATCCA
Statistics
Matches: 154, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
118 120 0.78
119 29 0.19
120 5 0.03
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (118 bp):
AATCCATACACTCAGTATGATTCCTTTACCATTTTAGCACATATAATGCCCTATATGGAAATCCA
TATTGTCAATATGATTTCCTTATCCTTGTAGCACACTCAGTGCTCCATATGGA
Done.