Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 280 of 378
Found at i:84361797 original size:12 final size:13
Alignment explanation
Indices: 84361780--84361816 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
84361770 GGGTTTTTTG
84361780 ATGAAGATGAT-A
1 ATGAAGATGATGA
*
84361792 ATGAAGGTGATGA
1 ATGAAGATGATGA
84361805 A-GAAGATGATGA
1 ATGAAGATGATGA
84361817 TGGTCTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 20 0.91
13 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.22
Consensus pattern (13 bp):
ATGAAGATGATGA
Found at i:84362214 original size:20 final size:18
Alignment explanation
Indices: 84362189--84362230 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
84362179 AGCCAAATAT
84362189 AAAAGTGAAAAAGCAGAAAA
1 AAAAGTGAAAAA--AGAAAA
*
84362209 AAAAGTTAAAAAAGAAAA
1 AAAAGTGAAAAAAGAAAA
84362227 AAAA
1 AAAA
84362231 AAAAGGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.07
Consensus pattern (18 bp):
AAAAGTGAAAAAAGAAAA
Found at i:84364678 original size:1 final size:1
Alignment explanation
Indices: 84364672--84364698 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
84364662 GTAAAAGGGC
84364672 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
84364699 CGTAATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:84366991 original size:17 final size:17
Alignment explanation
Indices: 84366942--84366991 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
84366932 TTAAAAAATT
*
84366942 TAAACAATATATTATT-A
1 TAAATAATATATT-TTAA
* *
84366959 TAAATAATTTAATTTAA
1 TAAATAATATATTTTAA
84366976 TAAATAATATATTTTA
1 TAAATAATATATTTTA
84366992 TAATTATGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 2 0.07
17 25 0.93
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATAATATATTTTAA
Found at i:84370246 original size:13 final size:13
Alignment explanation
Indices: 84370228--84370252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84370218 AATTTTAGTT
84370228 TAATTTTAATATA
1 TAATTTTAATATA
84370241 TAATTTTAATAT
1 TAATTTTAATAT
84370253 TTTACTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATTTTAATATA
Found at i:84370634 original size:21 final size:21
Alignment explanation
Indices: 84370600--84370650 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
84370590 CTAATTGATA
* *
84370600 TATCAT-TTTAATTTTTTTTC
1 TATCATATTTAATTTATTTAC
84370620 TAT-ATATTTATATTTATTTAC
1 TATCATATTTA-ATTTATTTAC
84370641 TATCATATTT
1 TATCATATTT
84370651 TCATATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 7 0.27
21 11 0.42
22 6 0.23
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
TATCATATTTAATTTATTTAC
Found at i:84371513 original size:28 final size:28
Alignment explanation
Indices: 84371482--84371536 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
84371472 AAGACTAAAA
84371482 TACCCTCAAATAATATAACATATTTTAG
1 TACCCTCAAATAATATAACATATTTTAG
84371510 TACCCTCAAATAATATAACATATTTTA
1 TACCCTCAAATAATATAACATATTTTA
84371537 ATTACGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (28 bp):
TACCCTCAAATAATATAACATATTTTAG
Found at i:84373847 original size:40 final size:40
Alignment explanation
Indices: 84373792--84374007 Score: 321
Period size: 40 Copynumber: 5.4 Consensus size: 40
84373782 GATGATAACT
* *
84373792 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
84373832 GGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
84373872 GGGCTAAGTCCCGAAGGCATTTGTGGGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
84373912 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
84373952 GGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
*
84373992 -GGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
84374008 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 145 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:84374486 original size:3 final size:3
Alignment explanation
Indices: 84374480--84374520 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
84374470 TGTTTTTTTT
*
84374480 ATC ATC ATC ATC ATC ATC ATT ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
84374521 TATTATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:84382521 original size:16 final size:17
Alignment explanation
Indices: 84382500--84382531 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
84382490 TAACATATAT
84382500 ATTATTAT-ATTATTAA
1 ATTATTATAATTATTAA
84382516 ATTATTATAATTATTA
1 ATTATTATAATTATTA
84382532 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATAATTATTAA
Found at i:84389628 original size:42 final size:41
Alignment explanation
Indices: 84389564--84389812 Score: 178
Period size: 42 Copynumber: 5.8 Consensus size: 41
84389554 TAGCCCAGCT
* *
84389564 ATGGTCTTACGCGAAATCTCATAACGATGCCATGTCTCAGAC
1 ATGGTCTTACACG-AATCTCATAACGATGCCATGTCCCAGAC
* * *
84389606 ATGGTCTTACATGTAATATCATACCGATGCCAATAG-CCCA-AC
1 ATGGTCTTACACG-AATCTCATAACGATGCC-AT-GTCCCAGAC
* * * *
84389648 AATGGTCTTACACAGAATCTCGTATCGATTCCATGTCCAAGAC
1 -ATGGTCTTACAC-GAATCTCATAACGATGCCATGTCCCAGAC
* * * * *
84389691 ATGGTCTTACACAAAATATCATATCAAAGCCATGTCCCAGAC
1 ATGGTCTTACAC-GAATCTCATAACGATGCCATGTCCCAGAC
*
84389733 ATGGTCTTACATGAAGTCTCATAACGGTGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACGAA-TCTCATAA------CGATGCCATGTCCCAGAC
* * * *
84389781 ATGGTCTTATACGGGACCTCATATCGATGCCA
1 ATGGTCTTACAC-GAATCTCATAACGATGCCA
84389813 ATGCCATATC
Statistics
Matches: 163, Mismatches: 30, Indels: 28
0.74 0.14 0.13
Matches are distributed among these distances:
41 3 0.02
42 93 0.57
43 31 0.19
44 2 0.01
48 32 0.20
49 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (41 bp):
ATGGTCTTACACGAATCTCATAACGATGCCATGTCCCAGAC
Found at i:84389653 original size:85 final size:85
Alignment explanation
Indices: 84389521--84389701 Score: 231
Period size: 85 Copynumber: 2.1 Consensus size: 85
84389511 TATCCTTGAT
* ** * * *
84389521 ATGGTCTTACATGTAATCTCATATTGAAGACAATAGCCCAGCTATGGTCTTACGC-GAAATCTCA
1 ATGGTCTTACATGTAATATCATACCGAAGACAATAGCCCAACAATGGTCTTACACAG-AATCTCA
84389585 TAACGATGCCATGTCTC-AGAC
65 TAACGATGCCATGTC-CAAGAC
* * *
84389606 ATGGTCTTACATGTAATATCATACCGATGCCAATAGCCCAACAATGGTCTTACACAGAATCTCGT
1 ATGGTCTTACATGTAATATCATACCGAAGACAATAGCCCAACAATGGTCTTACACAGAATCTCAT
* *
84389671 ATCGATTCCATGTCCAAGAC
66 AACGATGCCATGTCCAAGAC
84389691 ATGGTCTTACA
1 ATGGTCTTACA
84389702 CAAAATATCA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
84 1 0.01
85 81 0.98
86 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (85 bp):
ATGGTCTTACATGTAATATCATACCGAAGACAATAGCCCAACAATGGTCTTACACAGAATCTCAT
AACGATGCCATGTCCAAGAC
Found at i:84389709 original size:85 final size:85
Alignment explanation
Indices: 84389551--84389763 Score: 220
Period size: 85 Copynumber: 2.5 Consensus size: 85
84389541 ATATTGAAGA
* * *
84389551 CAATAGCCCAGCTATGGTCTTACGCGAAATCTCATAACGATGCCATGTCTCAGACATGGTCTTAC
1 CAATAGCCCAACAATGGTCTTACACGAAATCTCATAACGATGCCATGTCTCAGACATGGTCTTAC
***
84389616 ATGTAATATCATACCGATGC
66 ACAAAATATCATACCGATGC
* * *
84389636 CAATAGCCCAACAATGGTCTTACAC-AGAATCTCGTATCGATTCCATGTC-CAAGACATGGTCTT
1 CAATAGCCCAACAATGGTCTTACACGA-AATCTCATAACGATGCCATGTCTC-AGACATGGTCTT
* * *
84389699 ACACAAAATATCATATCAAAGC
64 ACACAAAATATCATACCGATGC
* * *
84389721 C-AT-GTCCCAGAC-ATGGTCTTACATGAAGTCTCATAACGGTGCC
1 CAATAG-CCCA-ACAATGGTCTTACACGAAATCTCATAACGATGCC
84389764 GATGCCATGT
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
83 1 0.01
84 31 0.30
85 73 0.70
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (85 bp):
CAATAGCCCAACAATGGTCTTACACGAAATCTCATAACGATGCCATGTCTCAGACATGGTCTTAC
ACAAAATATCATACCGATGC
Found at i:84389775 original size:48 final size:47
Alignment explanation
Indices: 84389719--84389885 Score: 176
Period size: 48 Copynumber: 3.5 Consensus size: 47
84389709 TCATATCAAA
* *
84389719 GCCATGTCCCAGACATGGTCTTACATGAAGTCTCATAACGGTGCCGAT
1 GCCATATCCCAGACATGGTCTTACATG-AGTCTCATAACGATGCCGAT
* * * * * * *
84389767 GCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCCAAT
1 GCCATATCCCAGACATGGTCTTACATGAG-TCTCATAACGATGCCGAT
*
84389815 GCCATATCCCAGATATGGTCTTACATTG-GATCTCAT-ACTGATGCCGAT
1 GCCATATCCCAGACATGGTCTTACA-TGAG-TCTCATAAC-GATGCCGAT
*
84389863 GCCATATCCCAGATATGGTCTTA
1 GCCATATCCCAGACATGGTCTTA
84389886 TACGGGATCT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
47 2 0.02
48 99 0.97
49 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (47 bp):
GCCATATCCCAGACATGGTCTTACATGAGTCTCATAACGATGCCGAT
Found at i:84389849 original size:96 final size:96
Alignment explanation
Indices: 84389719--84389897 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 96
84389709 TCATATCAAA
* * *
84389719 GCCATGTCCCAGACATGGTCTTACATGAAGTCTCATAAC-GGTGCCGATGCCATGTCCCAGACAT
1 GCCATATCCCAGACATGGTCTTACATGAAGTCTCAT-ACTGATGCCGATGCCATATCCCAGACAT
84389783 GGTCTTATACGGGACCTCATATCGATGCCAAT
65 GGTCTTATACGGGACCTCATATCGATGCCAAT
* * *
84389815 GCCATATCCCAGATATGGTCTTACATTGGA-TCTCATACTGATGCCGATGCCATATCCCAGATAT
1 GCCATATCCCAGACATGGTCTTACA-TGAAGTCTCATACTGATGCCGATGCCATATCCCAGACAT
*
84389879 GGTCTTATACGGGATCTCA
65 GGTCTTATACGGGACCTCA
84389898 ATACTCACAT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
95 2 0.03
96 69 0.93
97 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (96 bp):
GCCATATCCCAGACATGGTCTTACATGAAGTCTCATACTGATGCCGATGCCATATCCCAGACATG
GTCTTATACGGGACCTCATATCGATGCCAAT
Found at i:84389894 original size:48 final size:49
Alignment explanation
Indices: 84389760--84389903 Score: 202
Period size: 48 Copynumber: 3.0 Consensus size: 49
84389750 CTCATAACGG
* * *
84389760 TGCCGATGCCATGTCCCAGACATGGTCTTATACGGGACCTCATA-TCGA
1 TGCCGATGCCATATCCCAGATATGGTCTTATACGGGATCTCATACTCGA
* * **
84389808 TGCCAATGCCATATCCCAGATATGGTCTTACATTGGATCTCATACT-GA
1 TGCCGATGCCATATCCCAGATATGGTCTTATACGGGATCTCATACTCGA
84389856 TGCCGATGCCATATCCCAGATATGGTCTTATACGGGATCTCAATACTC
1 TGCCGATGCCATATCCCAGATATGGTCTTATACGGGATCTC-ATACTC
84389904 ACATGTCGTG
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
48 76 0.93
49 6 0.07
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (49 bp):
TGCCGATGCCATATCCCAGATATGGTCTTATACGGGATCTCATACTCGA
Found at i:84392908 original size:13 final size:13
Alignment explanation
Indices: 84392890--84392915 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84392880 ACATGGATTC
84392890 ATTGTAATTATAA
1 ATTGTAATTATAA
84392903 ATTGTAATTATAA
1 ATTGTAATTATAA
84392916 GACATTAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTGTAATTATAA
Found at i:84393415 original size:49 final size:49
Alignment explanation
Indices: 84393288--84393424 Score: 136
Period size: 49 Copynumber: 2.8 Consensus size: 49
84393278 GCAACTCAAA
* * *
84393288 ATCCTTGTTCATAGTGGTTATACGATCA-TGAGTTGAAGTATAACTAGGG
1 ATCCTAGTTGATAGTGGTTATACGATCACAG-GTTGAAGTATAACTAGGG
* * * *
84393337 CTCTTAGTTGAT-GATGGTTATACAATCACAGGTTGGAGTATAACTCA-GG
1 ATCCTAGTTGATAG-TGGTTATACGATCACAGGTTGAAGTATAACT-AGGG
* * *
84393386 ATCCTAGTTGATAGTGGTTATGCGGTCACAGGTTCAAGT
1 ATCCTAGTTGATAGTGGTTATACGATCACAGGTTGAAGT
84393425 TTCATGATAT
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
48 1 0.01
49 66 0.94
50 3 0.04
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (49 bp):
ATCCTAGTTGATAGTGGTTATACGATCACAGGTTGAAGTATAACTAGGG
Found at i:84397787 original size:25 final size:26
Alignment explanation
Indices: 84397756--84397813 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
84397746 TACCCTCAAC
84397756 AAAATTTAGACAAT-TTTACC-TTGGA
1 AAAATTTAGACAATATTT-CCTTTGGA
* *
84397781 AAAATTTTGACAATATTTCCTTTGGC
1 AAAATTTAGACAATATTTCCTTTGGA
84397807 AAAATTT
1 AAAATTT
84397814 TGAGAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 15 0.52
26 14 0.48
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (26 bp):
AAAATTTAGACAATATTTCCTTTGGA
Found at i:84397812 original size:26 final size:25
Alignment explanation
Indices: 84397755--84397816 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
84397745 TTACCCTCAA
*
84397755 CAAAATTTAGACAATTTTACCTTGG
1 CAAAATTTTGACAATTTTACCTTGG
*
84397780 AAAAATTTTGACAATATTT-CCTTTGG
1 CAAAATTTTGACAAT-TTTACC-TTGG
84397806 CAAAATTTTGA
1 CAAAATTTTGA
84397817 GAAAATATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.47
26 17 0.53
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (25 bp):
CAAAATTTTGACAATTTTACCTTGG
Found at i:84399752 original size:11 final size:11
Alignment explanation
Indices: 84399736--84399767 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
84399726 CAAAACTAAC
84399736 CATTCATTCAT
1 CATTCATTCAT
84399747 CATTCATTCAT
1 CATTCATTCAT
*
84399758 CATTAATTCA
1 CATTCATTCA
84399768 AGATTAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (11 bp):
CATTCATTCAT
Found at i:84401762 original size:27 final size:27
Alignment explanation
Indices: 84401743--84401915 Score: 249
Period size: 27 Copynumber: 6.4 Consensus size: 27
84401733 ATTACCAAAG
*
84401743 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
84401770 CACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
84401797 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
**
84401824 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
84401851 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
84401878 TACCCTC-AGTTTATAAAATTACCATTT
1 TACCCTCGA-TTTACAGAATTACCATTT
84401905 TACCCTCGATT
1 TACCCTCGATT
84401916 ATGAAATTAC
Statistics
Matches: 131, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 129 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:84401833 original size:81 final size:81
Alignment explanation
Indices: 84401719--84401915 Score: 306
Period size: 81 Copynumber: 2.4 Consensus size: 81
84401709 ACTAAAATGT
* * ***
84401719 CCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
1 CCTCAGTTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
84401784 AAAATTACCATTTTAC
66 AAAATTACCATTTTAC
* * *
84401800 CCTC-GATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTA
1 CCTCAG-TTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
84401864 CAAAATTACCATTTTAC
65 CAAAATTACCATTTTAC
84401881 CCTCAGTTTATAAAATTACCATTTTACCCTCGATT
1 CCTCAGTTTATAAAATTACCATTTTACCCTCGATT
84401916 ATGAAATTAC
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
81 104 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (81 bp):
CCTCAGTTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
AAAATTACCATTTTAC
Found at i:84401961 original size:52 final size:52
Alignment explanation
Indices: 84401891--84402040 Score: 153
Period size: 52 Copynumber: 2.8 Consensus size: 52
84401881 CCTCAGTTTA
** *
84401891 TAAAATTACCATTTTACCCTCGA-TTATGAAATTACTGAAATACCTCCAGTTG
1 TAAAATTACCA-AATACCCTCGAGTTATAAAATTACTGAAATACCTCCAGTTG
* ** * *
84401943 TAAAATTACCAAAGTACCCT-GATTTATAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTACCAAA-TACCCTCGAGTTATAAAATTACTGAAATA-CCTCCAGTTG
*
84401996 TAAAATTACCGAAATACCCTC-AGTTTTCAAAATTACTGAAATACC
1 TAAAATTACC-AAATACCCTCGAGTTAT-AAAATTACTGAAATACC
84402041 CTCGATCAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
51 2 0.02
52 33 0.41
53 30 0.37
54 16 0.20
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (52 bp):
TAAAATTACCAAATACCCTCGAGTTATAAAATTACTGAAATACCTCCAGTTG
Found at i:84401993 original size:27 final size:27
Alignment explanation
Indices: 84401719--84402068 Score: 204
Period size: 27 Copynumber: 13.1 Consensus size: 27
84401709 ACTAAAATGT
* *
84401719 CCTCAATTTGTAAAATTACC-AAAGTAC
1 CCTCGATTTATAAAATTACCGAAA-TAC
* * **
84401746 CCTCGATTTACAGAATTACCG-TTTCAC
1 CCTCGATTTATAAAATTACCGAAAT-AC
* **
84401773 CCTCGATTTACAAAATTACC-ATTTTAC
1 CCTCGATTTATAAAATTACCGA-AATAC
* **
84401800 CCTCGATTTATAGAATTACC-ATTTTAC
1 CCTCGATTTATAAAATTACCGA-AATAC
* * * ***
84401827 CCTCGATTTACAGAATTACTGTTTTAC
1 CCTCGATTTATAAAATTACCGAAATAC
* **
84401854 CCTCGATTTACAAAATTACC-ATTTTAC
1 CCTCGATTTATAAAATTACCGA-AATAC
**
84401881 CCTC-AGTTTATAAAATTACC-ATTTTAC
1 CCTCGA-TTTATAAAATTACCGA-AATAC
* *
84401908 CCTCGA-TTATGAAATTACTGAAATA-
1 CCTCGATTTATAAAATTACCGAAATAC
* * *
84401933 CCTCCAGTTGTAAAATTACC-AAAGTAC
1 CCTCGATTTATAAAATTACCGAAA-TAC
* *
84401960 CCT-GATTTATAAAATTACCCAAATAT
1 CCTCGATTTATAAAATTACCGAAATAC
*
84401986 CCTCGATTTGTAAAATTACCGAAATAC
1 CCTCGATTTATAAAATTACCGAAATAC
*
84402013 CCTC-AGTTT-TCAAAATTACTGAAATAC
1 CCTCGA-TTTAT-AAAATTACCGAAATAC
** *
84402040 CCTCGATCAATAAAATTACCAAAATAC
1 CCTCGATTTATAAAATTACCGAAATAC
84402067 CC
1 CC
84402069 CTGTAGGGTA
Statistics
Matches: 269, Mismatches: 36, Indels: 36
0.79 0.11 0.11
Matches are distributed among these distances:
25 8 0.03
26 47 0.17
27 208 0.77
28 6 0.02
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (27 bp):
CCTCGATTTATAAAATTACCGAAATAC
Found at i:84402083 original size:27 final size:27
Alignment explanation
Indices: 84402053--84402356 Score: 387
Period size: 27 Copynumber: 11.3 Consensus size: 27
84402043 CGATCAATAA
84402053 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
84402080 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
84402107 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* **
84402134 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
84402161 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
84402188 AAATA-CAGAAATACCCCTGTAGGGTAG
1 AATTACCA-AAATACCCCTGTAGGGTAG
* **
84402215 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
84402242 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * *
84402269 AATTACTAAAATACCCATATAAGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
84402296 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * *
84402323 AATTACCAAGATA-CCTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
84402349 AATTACCA
1 AATTACCA
84402357 TTTTGCGCTT
Statistics
Matches: 246, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
26 18 0.07
27 227 0.92
28 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:84402833 original size:22 final size:22
Alignment explanation
Indices: 84402781--84402845 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
84402771 TTAAAGCCTT
* *
84402781 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
84402803 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
84402825 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
84402846 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:84403033 original size:27 final size:27
Alignment explanation
Indices: 84403003--84403104 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
84402993 ATTCTGTTAA
* *
84403003 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
84403030 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
84403057 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
84403084 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
84403105 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.80
28 6 0.09
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:84403270 original size:6 final size:6
Alignment explanation
Indices: 84403261--84403422 Score: 156
Period size: 6 Copynumber: 26.8 Consensus size: 6
84403251 CTGTCACGTA
* *
84403261 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* *
84403309 ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
84403358 ATTCTG TTTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCT- ATTACTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
*
84403406 ATTTTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
84403423 CATTTTGGTT
Statistics
Matches: 130, Mismatches: 13, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
5 11 0.08
6 108 0.83
7 9 0.07
8 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:84403300 original size:30 final size:30
Alignment explanation
Indices: 84403236--84403422 Score: 215
Period size: 30 Copynumber: 6.4 Consensus size: 30
84403226 TTGCATTCAC
* * *
84403236 ATTCTGGTTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATACTG
84403267 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
84403297 ATTCTGATTCTGATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
84403321 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
* *
84403352 ATTCTGATTCTGTTTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* * **
84403382 ATTCTGATTCTGATTCTATTACTGATTTTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
84403412 ATTCTGATTCT
1 ATTCTGATTCT
84403423 CATTTTGGTT
Statistics
Matches: 137, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
24 23 0.17
26 1 0.01
29 1 0.01
30 69 0.50
31 43 0.31
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:84403384 original size:85 final size:85
Alignment explanation
Indices: 84403236--84403422 Score: 320
Period size: 85 Copynumber: 2.2 Consensus size: 85
84403226 TTGCATTCAC
* *
84403236 ATTCTGGTTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
*
84403301 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTATTACTG
* *
84403321 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
84403386 TGATTCTGATTCTATTACTG
66 TGATTCTGATTCTATTACTG
*
84403406 ATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
84403423 CATTTTGGTT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 96 1.00
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTATTACTG
Found at i:84404579 original size:53 final size:53
Alignment explanation
Indices: 84404392--84404638 Score: 211
Period size: 55 Copynumber: 4.7 Consensus size: 53
84404382 TTAAGAATAC
* * *
84404392 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGAAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGCAAGGATAT
* * * **
84404447 CATGTAAGACCATGTCAAGACATGGTATTGATAAGTTACTATAAGGCAAAGG-TCC
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC-AAGGATAT
* * *
84404502 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAAGCAAGGATAT
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAGGATAT
* * * *
84404555 CATGTAAGACCACGTCAAGACATGGCAATGGTAAGTT--TCAA---AAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGCAAGGATAT
* * * *
84404604 CACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAG
84404639 GTGCCCGCAT
Statistics
Matches: 160, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
49 38 0.24
51 1 0.01
52 8 0.05
53 41 0.26
54 8 0.05
55 60 0.38
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAGGATAT
Found at i:84404590 original size:108 final size:110
Alignment explanation
Indices: 84404391--84404591 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
84404381 TTTAAGAATA
*
84404391 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAAGAAAGGAAATCATGTAAGA
* * *
84404456 CCATGTCAAGACATGGTATTGATAAGTTACTATAAGGCAAAGGTC
66 CCACGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
84404501 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAAGCAAGGATATCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAAGAAAGGAAATCATGTAAG
*
84404563 ACCACGTCAAGACATGGCAATGGTAAGTT
65 ACCACGTCAAGACATGGCAATGATAAGTT
84404592 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.55
109 7 0.09
110 27 0.33
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAAGAAAGGAAATCATGTAAGA
CCACGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:84404851 original size:16 final size:16
Alignment explanation
Indices: 84404830--84404860 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84404820 ATAAATTTGA
84404830 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
84404846 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
84404861 AGTGAAGAAG
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:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:84411114 original size:26 final size:29
Alignment explanation
Indices: 84411077--84411132 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
84411067 ACAGGACTTA
84411077 TTTCATAAAT-AAT-CA-TCACAATCAAT
1 TTTCATAAATAAATGCATTCACAATCAAT
*
84411103 TTTCATATATAAAATGCATTCACAATCAAT
1 TTTCATAAAT-AAATGCATTCACAATCAAT
84411133 CACAATGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 9 0.36
28 3 0.12
29 2 0.08
30 11 0.44
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.36
Consensus pattern (29 bp):
TTTCATAAATAAATGCATTCACAATCAAT
Found at i:84415214 original size:40 final size:40
Alignment explanation
Indices: 84415129--84415279 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
84415119 AATTGAATGA
* * * **
84415129 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTT
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
84415169 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
84415210 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
84415249 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
84415280 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 77 0.85
41 5 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:84415293 original size:40 final size:40
Alignment explanation
Indices: 84415169--84415295 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
84415159 CTGGAAATTT
* * * * *
84415169 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
84415209 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
84415249 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
84415289 TATCCGG
1 TATCCGG
84415296 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:84427281 original size:22 final size:20
Alignment explanation
Indices: 84427237--84427281 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
84427227 CTTCAGACGT
*
84427237 GGATATCGCGATACTCAAAG
1 GGATATCGCGATACACAAAG
84427257 GGATATCGCGATACCACTAAAG
1 GGATATCGCGATA-CAC-AAAG
84427279 GGA
1 GGA
84427282 ATCTTGATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 7 0.32
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.18
Consensus pattern (20 bp):
GGATATCGCGATACACAAAG
Found at i:84431000 original size:47 final size:47
Alignment explanation
Indices: 84430946--84431371 Score: 273
Period size: 47 Copynumber: 9.0 Consensus size: 47
84430936 TTAGGATTTT
* * *
84430946 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAAGCCGAATGGCCA
** * * *
84430993 ATGTGATGAATGTGAGCATGCATATGTATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAAGCCGAATGGCCA
* * * * * *
84431040 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCTAATGGCTA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAAGCCGAATGGCCA
** * * * *
84431087 ATGTGAAAAAGGTATGAGAAATG--TATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAA--TGTGA-ATATGCATATATGTGATAAAGCCGAATGGCCA
* * * *
84431135 ATGTGA-AATATGTATGAGATATGC--ATATGTGGTAAAGCTGAATGGTCA
1 ATGTGATGA-ATG--TGA-ATATGCATATATGTGATAAAGCCGAATGGCCA
* * * *
84431183 ATGTGAAATATATATATGGGATATGC--ATATGTGATAAGGCCGAATGGCCA
1 ATGTG--AT-GA-ATGT-GAATATGCATATATGTGATAAAGCCGAATGGCCA
** * *
84431233 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAAGCCGAATGGCCA
* * * *
84431280 ATGTGGTGAATATGAGATATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGA-ATATGCATATATGTGATAAAGCCGAATGGCCA
* *
84431326 ATGTGAAAT-ATATATGAGATATG--TATATGTGGTAAAGCCGAATGGC
1 ATGTG--ATGA-ATGTGA-ATATGCATATATGTGATAAAGCCGAATGGC
84431372 TAGTGTGAAA
Statistics
Matches: 312, Mismatches: 48, Indels: 37
0.79 0.12 0.09
Matches are distributed among these distances:
45 5 0.02
46 29 0.09
47 126 0.40
48 105 0.34
49 5 0.02
50 37 0.12
51 1 0.00
52 4 0.01
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAATATGCATATATGTGATAAAGCCGAATGGCCA
Found at i:84431260 original size:143 final size:141
Alignment explanation
Indices: 84430946--84431371 Score: 409
Period size: 143 Copynumber: 3.0 Consensus size: 141
84430936 TTAGGATTTT
*** * * * * *
84430946 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAG-C
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAAGCCGAATGGCCAATGTGATGAATATGAGAT
* * * * * *
84431010 ATGCATATGTATGATAAGGCCGAATGGCCAATGTG--GTGA-ATATGA-ACATGCATATATGTGG
66 ATGCATATG--TGGTAAAGCCGAATGGTCAATGTGAAAT-ATATATGAGATATGC--ATATGTGA
* *
84431071 TAAAGCCTAATGGCTA
126 TAAAGCCGAATGGCCA
** * * * * *
84431087 ATGTGAAAAAGGTATGAGAAATGTATATGTG-G-TAAAGCCGAATGGCTAATGTGAAAT-ATGTA
1 ATGTGATGAA--TGTGAG-CATGCATATGTGTGATAAAGCCGAATGGCCAATGTG--ATGA-ATA
* *
84431149 TGAGATATGCATATGTGGTAAAGCTGAATGGTCAATGTGAAATATATATATGGGATATGCATATG
60 TGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTG-AA-ATATATATGAGATATGCATATG
*
84431214 TGATAAGGCCGAATGGCCA
123 TGATAAAGCCGAATGGCCA
* *
84431233 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAGAT
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAAGCCGAATGGCCAATGTGATGAATATGAGAT
* *
84431298 ATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATGAGATATGTATATGTGGTAAAG
66 ATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATGAGATATGCATATGTGATAAAG
84431363 CCGAATGGC
131 CCGAATGGC
84431372 TAGTGTGAAA
Statistics
Matches: 231, Mismatches: 38, Indels: 32
0.77 0.13 0.11
Matches are distributed among these distances:
141 43 0.19
142 21 0.09
143 77 0.33
144 22 0.10
145 28 0.12
146 29 0.13
147 6 0.03
148 5 0.02
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (141 bp):
ATGTGATGAATGTGAGCATGCATATGTGTGATAAAGCCGAATGGCCAATGTGATGAATATGAGAT
ATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATGAGATATGCATATGTGATAAAG
CCGAATGGCCA
Found at i:84431288 original size:25 final size:25
Alignment explanation
Indices: 84431213--84431288 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
84431203 ATATGCATAT
84431213 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
84431238 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
84431260 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
84431285 GTGA
1 GTGA
84431289 ATATGAGATA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:84431347 original size:191 final size:193
Alignment explanation
Indices: 84431010--84431384 Score: 533
Period size: 191 Copynumber: 1.9 Consensus size: 193
84431000 GAATGTGAGC
* *
84431010 ATGCATATGTATGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAA
1 ATGCATATG-ATGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAA
* * *
84431075 GCCTAATGGCTAATGTGAAAAAGGTATGAGAAATGTATATGTGGTAAAGCCGAATGGCTAATGTG
65 GCCGAATGGCCAATGTGAAAAA-GTATGAGAAATGCATATGTGGTAAAGCCGAATGGCTAATGTG
* *
84431140 AAATATGTATGAGATATGCATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGGGA
129 AAATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATGGGA
84431204 T
193 T
* * * *
84431205 ATGCATATG-TGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGG
1 ATGCATATGATGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAG
*** *
84431269 CCGAATGGCCAATGTGGTGAA-TATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGA
66 CCGAATGGCCAATGTGAAAAAGTATGAGAAATGCATATGTGGTAAAGCCGAATGGCT-AATGTGA
* *
84431332 AATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
130 AATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
84431385 GTAGGCGATG
Statistics
Matches: 161, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
190 1 0.01
191 85 0.53
192 1 0.01
193 65 0.40
195 9 0.06
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (193 bp):
ATGCATATGATGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAG
CCGAATGGCCAATGTGAAAAAGTATGAGAAATGCATATGTGGTAAAGCCGAATGGCTAATGTGAA
ATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGGGAT
Found at i:84431382 original size:48 final size:48
Alignment explanation
Indices: 84431063--84431384 Score: 338
Period size: 48 Copynumber: 6.7 Consensus size: 48
84431053 GAACATGCAT
* * ** * *
84431063 ATATGTGGTAAAGCCTAATGGCTAATGTGAAAAAGGTATGAGAAATGT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGC
*
84431111 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGC
* *
84431159 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGGGATATGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGC
* * * * *
84431209 ATATGTGATAAGGCCGAATGGCCAATGTG--ATGA-ATGTGAG-CATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATATATGAGATATGC
* * *
84431254 ATATGTGTGATAAGGCCGAATGGCCAATGTG--GTGA-ATATGAGATATGC
1 ATATGTG-G-TAAAGCCGAATGGCTAATGTGAAAT-ATATATGAGATATGC
*
84431302 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATGAGATATGC
*
84431350 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
84431385 GTAGGCGATG
Statistics
Matches: 237, Mismatches: 24, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
45 11 0.05
46 25 0.11
47 34 0.14
48 125 0.53
49 3 0.01
50 39 0.16
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGC
Found at i:84431575 original size:37 final size:37
Alignment explanation
Indices: 84431534--84431641 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
84431524 GGAAATATAT
84431534 TACGTGTGGAGATTATGTCCGGGTAAGACCCGATGAC
1 TACGTGTGGAGATTATGTCCGGGTAAGACCCGATGAC
*
84431571 TACGTGTGGAGAGTATGTCCGGGTAAGACCCGATGAC
1 TACGTGTGGAGATTATGTCCGGGTAAGACCCGATGAC
* *
84431608 TATGTGTGGAGATTTTGTCCGGGTAAGACCCGAT
1 TACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
84431642 AACTTCGTAT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
TACGTGTGGAGATTATGTCCGGGTAAGACCCGATGAC
Found at i:84431659 original size:37 final size:37
Alignment explanation
Indices: 84431536--84431658 Score: 176
Period size: 37 Copynumber: 3.3 Consensus size: 37
84431526 AAATATATTA
*
84431536 CGTGTGGAGATTATGTCCGGGTAAGACCCGATGACTA
1 CGTGTGGAGATTATGTCCGGGTAAGACCCGATGACTT
*
84431573 CGTGTGGAGAGTATGTCCGGGTAAGACCCGATGACTAT
1 CGTGTGGAGATTATGTCCGGGTAAGACCCGATGACT-T
* *
84431611 -GTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTT
1 CGTGTGGAGATTATGTCCGGGTAAGACCCGATGACTT
* *
84431647 CGTATGGTGATT
1 CGTGTGGAGATT
84431659 TCGTCTGAGC
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
36 1 0.01
37 76 0.99
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.28
Consensus pattern (37 bp):
CGTGTGGAGATTATGTCCGGGTAAGACCCGATGACTT
Found at i:84434329 original size:40 final size:39
Alignment explanation
Indices: 84434278--84434411 Score: 178
Period size: 40 Copynumber: 3.4 Consensus size: 39
84434268 TTAACAAGCT
* * * * *
84434278 TTTTTAACCTTTTAATTGGATATCCGTTTCACATATATCC
1 TTTTCAACCTTTTCATTTGATATCCATTTCAGATATA-CC
84434318 TTTTCAACCTTTTCATTTGATATCCATTTCAGATATACCC
1 TTTTCAACCTTTTCATTTGATATCCATTTCAGATATA-CC
* *
84434358 TTTTCAACCTTTTCATTTGATATCTATTTCGGATATACC
1 TTTTCAACCTTTTCATTTGATATCCATTTCAGATATACC
*
84434397 TTTTTAACCTTTTCA
1 TTTTCAACCTTTTCA
84434412 AGAATTCAGA
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
39 16 0.19
40 69 0.81
ACGTcount: A:0.24, C:0.22, G:0.06, T:0.49
Consensus pattern (39 bp):
TTTTCAACCTTTTCATTTGATATCCATTTCAGATATACC
Found at i:84437906 original size:13 final size:13
Alignment explanation
Indices: 84437890--84437922 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
84437880 TTTAATTAAA
*
84437890 TTAGTTAATTAGT
1 TTAGATAATTAGT
84437903 TTAGATAATTAGT
1 TTAGATAATTAGT
84437916 TTA-ATAA
1 TTAGATAA
84437923 AAAACCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:84443299 original size:5 final size:5
Alignment explanation
Indices: 84443273--84443360 Score: 58
Period size: 5 Copynumber: 16.8 Consensus size: 5
84443263 TGCTCCTATT
*
84443273 TTTTA -TTTA TTCTTA TTTTTA TTTTA TTTTA -TTTA TTTTTA TTTTTC
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA
*
84443320 TTTTGA TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTT-A -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
84443361 GAAAGACATA
Statistics
Matches: 68, Mismatches: 4, Indels: 22
0.72 0.04 0.23
Matches are distributed among these distances:
3 3 0.04
4 8 0.12
5 27 0.40
6 24 0.35
7 6 0.09
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:84443304 original size:26 final size:28
Alignment explanation
Indices: 84443272--84443334 Score: 94
Period size: 26 Copynumber: 2.3 Consensus size: 28
84443262 ATGCTCCTAT
84443272 TTTTTATTTATTCTTATTTTTATTTT-A
1 TTTTTATTTATTCTTATTTTTATTTTGA
* *
84443299 -TTTTATTTATTTTTATTTTTCTTTTGA
1 TTTTTATTTATTCTTATTTTTATTTTGA
84443326 TTTTTATTT
1 TTTTTATTT
84443335 TCATTTCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 23 0.72
27 1 0.03
28 8 0.25
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (28 bp):
TTTTTATTTATTCTTATTTTTATTTTGA
Found at i:84443330 original size:7 final size:6
Alignment explanation
Indices: 84443269--84443340 Score: 65
Period size: 6 Copynumber: 11.8 Consensus size: 6
84443259 TGAATGCTCC
* * *
84443269 TATTTT T-TATT TATTCT TATTTT TATTTT ATTTTATT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT -TATT-TT TATTTT TATTTT
* * *
84443318 TCTTTT GATTTT TATTTT CATTT
1 TATTTT TATTTT TATTTT TATTT
84443341 CAATTTTATT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
5 4 0.08
6 40 0.77
7 6 0.12
8 2 0.04
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:84443335 original size:44 final size:42
Alignment explanation
Indices: 84443269--84443360 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 42
84443259 TGAATGCTCC
* *
84443269 TATTTTTTATTTATTCTTATTTTTATTT-TATTTTATTTATTTT
1 TATTTTTTATTTATTCTTATTTTCATTTCAATTTTA-TTA-TTT
*
84443312 TATTTTTCT-TTTGATTTTTATTTTCATTTCAATTTTATTATTT
1 TATTTTT-TATTT-ATTCTTATTTTCATTTCAATTTTATTATTT
84443355 TATTTT
1 TATTTT
84443361 GAAAGACATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
43 19 0.44
44 18 0.42
45 6 0.14
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (42 bp):
TATTTTTTATTTATTCTTATTTTCATTTCAATTTTATTATTT
Found at i:84446256 original size:13 final size:13
Alignment explanation
Indices: 84446240--84446272 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
84446230 TTTAATTAAA
*
84446240 TTAGTTAATTAGT
1 TTAGATAATTAGT
84446253 TTAGATAATTAGT
1 TTAGATAATTAGT
84446266 TTA-ATAA
1 TTAGATAA
84446273 AAAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:84471299 original size:40 final size:40
Alignment explanation
Indices: 84471240--84471408 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
84471230 CGGGACTTTA
* * *
84471240 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
84471280 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
84471320 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
84471360 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
84471400 CCCGGATAT
1 CCCGGATAT
84471409 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:84479335 original size:40 final size:40
Alignment explanation
Indices: 84479276--84479444 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
84479266 CGGGACTTTA
* * *
84479276 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
84479316 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
84479356 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
84479396 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
84479436 CCCGGATAT
1 CCCGGATAT
84479445 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:84482549 original size:25 final size:25
Alignment explanation
Indices: 84482532--84482651 Score: 136
Period size: 25 Copynumber: 4.8 Consensus size: 25
84482522 CAGCTCGTAT
*
84482532 GAGCTTATTGTTATTCAGCTCAGAG
1 GAGCTTACTGTTATTCAGCTCAGAG
*
84482557 GAGCTTACTATTATTCAGCTCAGAG
1 GAGCTTACTGTTATTCAGCTCAGAG
* * *
84482582 GATCTTACTATTATTCTGCTCA-AG
1 GAGCTTACTGTTATTCAGCTCAGAG
* * *
84482606 AGAGCTTACCGTTATTTAGCTCGGAG
1 -GAGCTTACTGTTATTCAGCTCAGAG
*
84482632 GAGCTTACTGTT-TACAGCTC
1 GAGCTTACTGTTATTCAGCTC
84482652 GTATGAGCAT
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
24 8 0.10
25 70 0.88
26 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (25 bp):
GAGCTTACTGTTATTCAGCTCAGAG
Found at i:84484968 original size:43 final size:42
Alignment explanation
Indices: 84484852--84484968 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 42
84484842 CTTCCATGTT
*
84484852 ATCACATATCAATGCCATTGTCCCAGACAGGGCCTTACACGAA
1 ATCACATA-CAATGCCATTGTCCCAGACATGGCCTTACACGAA
* * * * *
84484895 ATCATATAACGATGCCAATGTCCCAAACATGGTCTTACACGAA
1 ATCACAT-ACAATGCCATTGTCCCAGACATGGCCTTACACGAA
84484938 ATCACAATACAATGCCATTGTCCCAGACATG
1 ATCAC-ATACAATGCCATTGTCCCAGACATG
84484969 CAATCACACC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 59 0.95
44 3 0.05
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (42 bp):
ATCACATACAATGCCATTGTCCCAGACATGGCCTTACACGAA
Found at i:84485356 original size:20 final size:21
Alignment explanation
Indices: 84485331--84485370 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
84485321 CCCTTGAAAC
84485331 AGGGC-ACACTCCCGTGTGGA
1 AGGGCAACACTCCCGTGTGGA
84485351 AGGGCAACACTCCCGTGTGG
1 AGGGCAACACTCCCGTGTGG
84485371 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.35, T:0.15
Consensus pattern (21 bp):
AGGGCAACACTCCCGTGTGGA
Found at i:84488087 original size:39 final size:39
Alignment explanation
Indices: 84488044--84488172 Score: 143
Period size: 40 Copynumber: 3.3 Consensus size: 39
84488034 CGGAATATAA
84488044 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAC
* *** * *
84488083 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTA-C
* * *
84488123 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTT-AC
84488163 CCGGATATAA
1 CCGGATATAA
84488173 TTTCCAGCAT
Statistics
Matches: 71, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
38 1 0.01
39 31 0.44
40 38 0.54
41 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAC
Found at i:84488187 original size:40 final size:40
Alignment explanation
Indices: 84488060--84488210 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
84488050 ATAACCACGT
* * *
84488060 GCACAAATGCCTTCGGGTCTT-ACCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTC-CA
* * ** * *
84488099 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATCTCCA
*
84488139 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTCCA
* * * *
84488179 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATAT
84488211 CATTCAATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 20 0.22
40 69 0.78
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTCCA
Found at i:84488207 original size:80 final size:79
Alignment explanation
Indices: 84488060--84488208 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
84488050 ATAACCACGT
*
84488060 GCACAAATGCCTTCGGGTCTTACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCCC
84488125 GGATGTAGCCACTA
66 GGATGTAGCCACTA
* * * * *
84488139 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTT-ACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
84488202 CCCGGAT
63 CCCGGAT
84488209 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 23 0.38
80 38 0.62
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:84489958 original size:45 final size:45
Alignment explanation
Indices: 84489893--84490015 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 45
84489883 TCTCTATCGT
* *
84489893 GCCGATGCCATGTCCTAGACATGGTCTTACATTGAC-ACATCTTGCA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGACTACATCTCG-AG
* *
84489939 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACATTGAC-TACATCTCGAG
* *
84489985 GCCAATGCATGTCCCAAACATGTCTTACATT
1 GCCGATGCATGTCCCAGACATGTCTTACATT
84490016 AGCTTTCGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
44 11 0.16
45 14 0.21
46 42 0.63
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACATTGACTACATCTCGAG
Found at i:84502341 original size:25 final size:25
Alignment explanation
Indices: 84502313--84502370 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
84502303 CAGCTCATAT
*
84502313 GAGCTTACCATTATTTATCTCGGAG
1 GAGCTTACCATTATTTAGCTCGGAG
* * *
84502338 GAGCTTATCGTTATTTAGCTTGGAG
1 GAGCTTACCATTATTTAGCTCGGAG
84502363 GAGCTTAC
1 GAGCTTAC
84502371 TGTTTATAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (25 bp):
GAGCTTACCATTATTTAGCTCGGAG
Found at i:84504287 original size:14 final size:14
Alignment explanation
Indices: 84504268--84504295 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
84504258 ACTGGGTTAC
84504268 CACCCAAGTTTCCT
1 CACCCAAGTTTCCT
84504282 CACCCAAGTTTCCT
1 CACCCAAGTTTCCT
84504296 TGAGCACCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.07, T:0.29
Consensus pattern (14 bp):
CACCCAAGTTTCCT
Found at i:84506497 original size:46 final size:46
Alignment explanation
Indices: 84506430--84506604 Score: 221
Period size: 46 Copynumber: 3.8 Consensus size: 46
84506420 AACCCGCCCC
* *
84506430 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACATCCA
*
84506476 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTCACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCACATCCA
* * ** *
84506524 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACATCCA
84506569 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
84506605 CTCAATCATC
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACATCCA
Found at i:84506542 original size:93 final size:93
Alignment explanation
Indices: 84506435--84506605 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
84506425 GCCCCTAAGT
***
84506435 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
84506500 CGAGTTCGGATGCCTAGTCACATTTCAC
66 CGAGTTCGGATGCCTAGTCACATTTCAC
* *
84506528 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
84506593 CGAGTTCGGATGC
66 CGAGTTCGGATGC
84506606 TCAATCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTCACATTTCAC
Found at i:84507059 original size:30 final size:30
Alignment explanation
Indices: 84507025--84507084 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
84507015 ATTTAATATG
84507025 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
84507055 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
84507085 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:84519085 original size:33 final size:33
Alignment explanation
Indices: 84519023--84519159 Score: 125
Period size: 33 Copynumber: 4.1 Consensus size: 33
84519013 ACAATGCATA
* *
84519023 CAGTAACAGTCTGGGCCTGAGCCATATCCAGTAT
1 CAGTAA-AGTCTGGGCCTTAGCCCTATCCAGTAT
* *
84519057 CAGTAAAATCTGAGCCTTAGCCCTATCCAGTAT
1 CAGTAAAGTCTGGGCCTTAGCCCTATCCAGTAT
* * * *
84519090 TAGTACAGTCTGGGCCTTAGCCCTA-CATAGTAA
1 CAGTAAAGTCTGGGCCTTAGCCCTATC-CAGTAT
* * * *
84519123 CAG-AACAGTCTGGGCTTTAGCCTTATACAGTAA
1 CAGTAA-AGTCTGGGCCTTAGCCCTATCCAGTAT
84519156 CAGT
1 CAGT
84519160 GTGGGCCTAA
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
32 2 0.02
33 75 0.90
34 6 0.07
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (33 bp):
CAGTAAAGTCTGGGCCTTAGCCCTATCCAGTAT
Found at i:84519401 original size:27 final size:26
Alignment explanation
Indices: 84519338--84519428 Score: 87
Period size: 27 Copynumber: 3.5 Consensus size: 26
84519328 AACATAGGTG
* * *
84519338 CCAGAAACAGTAAATGTGGCA-AGCCA
1 CCAGTAACAGT-AATGTGGTATAGTCA
*
84519364 CCAGTATCAGTAATTGTGGTATAGTCA
1 CCAGTAACAGTAA-TGTGGTATAGTCA
*
84519391 CCAGTAACAGTGAATGTGATATAGTCA
1 CCAGTAACAGT-AATGTGGTATAGTCA
*
84519418 CCAAT-ACAGTA
1 CCAGTAACAGTA
84519429 CTTCCTCCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
25 3 0.05
26 20 0.36
27 30 0.55
28 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (26 bp):
CCAGTAACAGTAATGTGGTATAGTCA
Found at i:84519594 original size:27 final size:27
Alignment explanation
Indices: 84519564--84519678 Score: 137
Period size: 27 Copynumber: 4.4 Consensus size: 27
84519554 GGGCATAATC
*
84519564 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
84519591 GTCATTTTACCCTACAGAGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * **
84519618 GTCAATTTACCCTACAAGGG--CCAC-
1 GTCATTTTACCCTACAGGGGTATTACG
* *
84519642 GTCATTTTACCCTATAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
84519669 GTCATTTTAC
1 GTCATTTTAC
84519679 AAATTGGGGT
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
24 17 0.24
25 2 0.03
26 1 0.01
27 52 0.72
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:84519701 original size:26 final size:26
Alignment explanation
Indices: 84519658--84519813 Score: 129
Period size: 27 Copynumber: 5.9 Consensus size: 26
84519648 TTACCCTATA
*
84519658 GGGGTATTAT-GGTCATTTTACAAATT
1 GGGGTATT-TCGGTAATTTTACAAATT
84519684 GGGGTATTTCGGTAATTTTACAAATT
1 GGGGTATTTCGGTAATTTTACAAATT
84519710 GGGGGTATTTCGGTAATTTTACAAATT
1 -GGGGTATTTCGGTAATTTTACAAATT
* * * * * *
84519737 AGAGGTACTTCTGTAATTTCAAAAATCA
1 -GGGGTATTTCGGTAATTTTACAAAT-T
* * *
84519765 GGGGTA-TTCAGTAATTTT-CAACTC
1 GGGGTATTTCGGTAATTTTACAAATT
* * *
84519789 GAGCGCATTTCAGTAATTTTACAAA
1 G-GGGTATTTCGGTAATTTTACAAA
84519814 GGGGTCTTAA
Statistics
Matches: 107, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
24 1 0.01
25 7 0.07
26 45 0.42
27 54 0.50
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.38
Consensus pattern (26 bp):
GGGGTATTTCGGTAATTTTACAAATT
Found at i:84519722 original size:27 final size:27
Alignment explanation
Indices: 84519656--84519782 Score: 143
Period size: 27 Copynumber: 4.8 Consensus size: 27
84519646 TTTTACCCTA
*
84519656 TAGGGGTATTAT-GGTCATTTTACAAAT
1 TAGGGGTATT-TCGGTAATTTTACAAAT
84519683 T-GGGGTATTTCGGTAATTTTACAAAT
1 TAGGGGTATTTCGGTAATTTTACAAAT
*
84519709 TGGGGGTATTTCGGTAATTTTACAAAT
1 TAGGGGTATTTCGGTAATTTTACAAAT
* * * * *
84519736 TAGAGGTACTTCTGTAATTTCAAAAAT
1 TAGGGGTATTTCGGTAATTTTACAAAT
* *
84519763 CAGGGGTA-TTCAGTAATTTT
1 TAGGGGTATTTCGGTAATTTT
84519783 CAACTCGAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.01
26 33 0.38
27 53 0.61
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
TAGGGGTATTTCGGTAATTTTACAAAT
Found at i:84522280 original size:12 final size:12
Alignment explanation
Indices: 84522251--84522281 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
84522241 CCTGTGTGCC
*
84522251 AGGCCATGTGTT
1 AGGCCGTGTGTT
84522263 AGGCCGTGTGTT
1 AGGCCGTGTGTT
84522275 AGGCCGT
1 AGGCCGT
84522282 ATAACTCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.19, G:0.39, T:0.29
Consensus pattern (12 bp):
AGGCCGTGTGTT
Found at i:84535292 original size:29 final size:28
Alignment explanation
Indices: 84535244--84535298 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
84535234 CTCTATAGTA
* *
84535244 CTGATATCATGGCTCGAAGCCAAATCAG
1 CTGATATCATGGCCCAAAGCCAAATCAG
84535272 CTGATATGCATGGCCCAAAGCCAAATC
1 CTGATAT-CATGGCCCAAAGCCAAATC
84535299 GGTATAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (28 bp):
CTGATATCATGGCCCAAAGCCAAATCAG
Found at i:84542988 original size:51 final size:50
Alignment explanation
Indices: 84542905--84543016 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 50
84542895 CTGATCACAT
84542905 TTATCACTTGTCACTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
84542955 TTATCACTTGTCACTTGTTACTGATCAGATAAGTGTAGCTGAGGCTACCAC
1 TTATCACTTGTCAC-TGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
84543006 TTATCACTTGT
1 TTATCACTTGT
84543017 TATTGATCAG
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
50 14 0.24
51 44 0.76
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (50 bp):
TTATCACTTGTCACTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:84547646 original size:27 final size:27
Alignment explanation
Indices: 84547616--84547692 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 27
84547606 ATTACTTTGA
84547616 TTTGGCTTCGAGCCATGATATTAGCAC
1 TTTGGCTTCGAGCCATGATATTAGCAC
* * *
84547643 TTTGGGTGCGAG---TTATATT-G-A-
1 TTTGGCTTCGAGCCATGATATTAGCAC
*
84547664 TTTGGCTTCGGGCCATGATATTAGCAC
1 TTTGGCTTCGAGCCATGATATTAGCAC
84547691 TT
1 TT
84547693 AGTGTGCGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
21 9 0.24
22 1 0.03
23 1 0.03
24 12 0.32
25 1 0.03
26 1 0.03
27 12 0.32
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (27 bp):
TTTGGCTTCGAGCCATGATATTAGCAC
Found at i:84547700 original size:48 final size:48
Alignment explanation
Indices: 84547563--84547702 Score: 185
Period size: 48 Copynumber: 2.9 Consensus size: 48
84547553 TAGGGAATAC
* * * *
84547563 ATTGATTTGGCTTCGGGCCATGATATCAGTACTTCAGGTGCAAATTACT
1 ATTGATTTGGCTTCGGGCCATGATATTAGCACTT-AGGTGCGAGTTACT
* *
84547612 -TTGATTTGGCTTCGAGCCATGATATTAGCACTTTGGGTGCGAGTTA-T
1 ATTGATTTGGCTTCGGGCCATGATATTAGCAC-TTAGGTGCGAGTTACT
84547659 ATTGATTTGGCTTCGGGCCATGATATTAGCACTTAGTGTGCGAG
1 ATTGATTTGGCTTCGGGCCATGATATTAGCACTTAG-GTGCGAG
84547703 ACTCCTAAGT
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
47 4 0.05
48 74 0.93
49 2 0.03
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.36
Consensus pattern (48 bp):
ATTGATTTGGCTTCGGGCCATGATATTAGCACTTAGGTGCGAGTTACT
Found at i:84550985 original size:43 final size:44
Alignment explanation
Indices: 84550937--84551088 Score: 168
Period size: 43 Copynumber: 3.5 Consensus size: 44
84550927 ATATCCTAGA
* * *
84550937 TATGGTCTTACATGTTATCACATATCGATGCCGATAG-CCCAG-C
1 TATGGTCTTACATGTAATCACATAACGATGCCAAT-GTCCCAGAC
* * *
84550980 TATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGAC
1 TATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGAC
* * *
84551024 -ATGGTCTTACATATAATCACATAATGATGTCAATGTCCCAGAC
1 TATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGAC
**
84551067 -ATGGTCTTACACATAATCACAT
1 TATGGTCTTACATGTAATCACAT
84551089 CTTGTTAATC
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
42 1 0.01
43 92 0.98
44 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (44 bp):
TATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGAC
Found at i:84554252 original size:40 final size:39
Alignment explanation
Indices: 84554207--84554414 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
84554197 CGGAATACAA
*
84554207 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
84554247 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
84554287 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
84554327 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
84554367 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
84554407 CCGGATAT
1 CCGGATAT
84554415 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:84554347 original size:80 final size:80
Alignment explanation
Indices: 84554207--84554413 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
84554197 CGGAATACAA
* * *
84554207 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
84554271 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
84554287 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
84554351 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
84554367 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
84554414 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:84562304 original size:40 final size:39
Alignment explanation
Indices: 84562259--84562466 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
84562249 CGGAATACAA
*
84562259 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
84562299 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
84562339 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
84562379 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
84562419 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
84562459 CCGGATAT
1 CCGGATAT
84562467 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:84562399 original size:80 final size:80
Alignment explanation
Indices: 84562259--84562465 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
84562249 CGGAATACAA
* * *
84562259 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
84562323 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
84562339 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
84562403 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
84562419 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
84562466 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:84565963 original size:20 final size:20
Alignment explanation
Indices: 84565926--84565964 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
84565916 TAAACCGAGC
*
84565926 ACATACAAATTTTCTCAAAA
1 ACATACAAAATTTCTCAAAA
84565946 ACATAACAAAATTT-TCAAA
1 ACAT-ACAAAATTTCTCAAA
84565965 GTTTCACAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (20 bp):
ACATACAAAATTTCTCAAAA
Found at i:84571270 original size:21 final size:22
Alignment explanation
Indices: 84571224--84571277 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
84571214 TGCAAGGCTC
**
84571224 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGACCCAAGGG
*
84571246 ACACGCCCGTGTGACCCTA-GG
1 ACACGCCCGTGTGACCCAAGGG
84571267 ACACGCCCGTG
1 ACACGCCCGTG
84571278 CTAGAGGTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.19, C:0.37, G:0.31, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGG
Found at i:84574208 original size:29 final size:29
Alignment explanation
Indices: 84574166--84574224 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
84574156 GAGACAGGGG
84574166 TAACCCCGATACAAAGTCATAGTAATTCT
1 TAACCCCGATACAAAGTCATAGTAATTCT
*
84574195 TAACCCCGTTACAAAGTCATAGTAATTCT
1 TAACCCCGATACAAAGTCATAGTAATTCT
84574224 T
1 T
84574225 TCCCATTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.31
Consensus pattern (29 bp):
TAACCCCGATACAAAGTCATAGTAATTCT
Found at i:84586177 original size:39 final size:38
Alignment explanation
Indices: 84586133--84586258 Score: 126
Period size: 40 Copynumber: 3.2 Consensus size: 38
84586123 CGGAACATAA
84586133 CCGGATATAACATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAT-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
84586172 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAT-T-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
84586212 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACA-TTGCACAAATGCCTTCGGGTCTTAGC
84586252 CCGGATA
1 CCGGATA
84586259 AAATTTCCAG
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
39 11 0.16
40 57 0.83
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (38 bp):
CCGGATATAACATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:84586239 original size:40 final size:39
Alignment explanation
Indices: 84586148--84586298 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
84586138 TATAACATGT
* *
84586148 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
84586188 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * ** *
84586228 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
84586268 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAA-TGCCTTCGGG-TCTTAGCCCGGATA
84586299 TCATTCAATT
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 85 0.92
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:84586282 original size:80 final size:80
Alignment explanation
Indices: 84586148--84586297 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
84586138 TATAACATGT
* *
84586148 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
84586212 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
84586228 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
84586291 CCCGGAT
64 CCCGGAT
84586298 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:84594194 original size:40 final size:39
Alignment explanation
Indices: 84594149--84594276 Score: 159
Period size: 40 Copynumber: 3.3 Consensus size: 39
84594139 CGGAATATAA
84594149 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
84594189 CCGGATAGAATCTC-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
* * * *
84594227 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
84594267 CCGGATATAA
1 CCGGATATAA
84594277 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
38 32 0.44
40 40 0.56
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:84594291 original size:40 final size:40
Alignment explanation
Indices: 84594165--84594313 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
84594155 ATAACCACGT
* *
84594165 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATCT-C-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* ** * *
84594203 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
84594243 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
84594283 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
84594314 CATTCAATTT
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
38 29 0.32
39 17 0.19
40 45 0.49
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:84598025 original size:33 final size:32
Alignment explanation
Indices: 84597988--84598060 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 32
84597978 CCAGCACGTA
84597988 CTTCGGGATATTAACCGGAT-ATACGCAC-AATGC
1 CTTCGGG-TATTAACCGGATGAT--GCACAAATGC
* *
84598021 CTTCGGGTCTTACCCGGATGATGCACAAATGC
1 CTTCGGGTATTAACCGGATGATGCACAAATGC
84598053 CTTCGGGT
1 CTTCGGGT
84598061 CTTAGCCCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 4 0.11
32 23 0.64
33 9 0.25
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (32 bp):
CTTCGGGTATTAACCGGATGATGCACAAATGC
Found at i:84598052 original size:32 final size:32
Alignment explanation
Indices: 84598012--84598112 Score: 114
Period size: 40 Copynumber: 2.9 Consensus size: 32
84598002 CCGGATATAC
84598012 GCACAATGCCTTCGGGTCTTA-CCCGGATGAT
1 GCACAATGCCTTCGGGTCTTAGCCCGGATGAT
84598043 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGTACAACT
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-G----A-T
84598082 CGCACGAATGCCTTCGGGTCTTAGCCCGGAT
1 -GCAC-AATGCCTTCGGGTCTTAGCCCGGAT
84598113 ATAATTTCAC
Statistics
Matches: 60, Mismatches: 1, Indels: 9
0.86 0.01 0.13
Matches are distributed among these distances:
31 4 0.07
32 17 0.28
33 7 0.12
34 1 0.02
38 1 0.02
39 1 0.02
40 29 0.48
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.24
Consensus pattern (32 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAT
Found at i:84606013 original size:40 final size:39
Alignment explanation
Indices: 84605968--84606093 Score: 121
Period size: 40 Copynumber: 3.2 Consensus size: 39
84605958 CGGAACATAA
84605968 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
84606008 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
84606048 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTA-A
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
84606087 CCGGATA
1 CCGGATA
84606094 AATTTCCAGC
Statistics
Matches: 69, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
38 1 0.01
39 6 0.09
40 60 0.87
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:84608099 original size:46 final size:46
Alignment explanation
Indices: 84608049--84608217 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
84608039 TGAGCATCCA
*
84608049 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
84608095 AACTCGTTGAGTTGAGTCTGAGTT--C--GTGGAATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG-ATGCGAA-T--G--TCCG
* *
84608142 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
84608188 AGCTCGTTGAGTTAAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
84608218 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 1 0.01
45 1 0.01
46 55 0.53
47 27 0.26
48 1 0.01
49 1 0.01
50 3 0.03
51 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:84608211 original size:93 final size:93
Alignment explanation
Indices: 84608042--84608212 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
84608032 GGATGGTTGA
* * *
84608042 GCATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
* *
84608107 TGAGTCTGAGTTCGTGGAATGTAACTAG
66 TAAGTCCGAGTTCGTGGAATGTAACTAG
* *
84608135 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84608200 TAAGTCCGAGTTC
66 TAAGTCCGAGTTC
84608213 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TAAGTCCGAGTTCGTGGAATGTAACTAG
Found at i:84610625 original size:25 final size:25
Alignment explanation
Indices: 84610597--84610673 Score: 82
Period size: 25 Copynumber: 3.1 Consensus size: 25
84610587 TGCTCACTAG
* *
84610597 AGCTCTAGATTGGTATACTCTCACA
1 AGCTGTAGATTGGTATGCTCTCACA
* ** * *
84610622 AGCTGTAAATCAGTATGCTCACACG
1 AGCTGTAGATTGGTATGCTCTCACA
*
84610647 AGCTGTAGATTGGCATGCTCTCACA
1 AGCTGTAGATTGGTATGCTCTCACA
84610672 AG
1 AG
84610674 TTGTGGATCG
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AGCTGTAGATTGGTATGCTCTCACA
Found at i:84610650 original size:50 final size:50
Alignment explanation
Indices: 84610572--84610673 Score: 143
Period size: 50 Copynumber: 2.0 Consensus size: 50
84610562 TGCTCATACG
* * *
84610572 AGCTGTGAATCGGTATGCTCACTAGAGCTCTAGATTGGTATACTCTCACA
1 AGCTGTAAATCAGTATGCTCACTAGAGCTCTAGATTGGCATACTCTCACA
* *
84610622 AGCTGTAAATCAGTATGCTCAC-ACGAGCTGTAGATTGGCATGCTCTCACA
1 AGCTGTAAATCAGTATGCTCACTA-GAGCTCTAGATTGGCATACTCTCACA
84610672 AG
1 AG
84610674 TTGTGGATCG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.02
50 45 0.98
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (50 bp):
AGCTGTAAATCAGTATGCTCACTAGAGCTCTAGATTGGCATACTCTCACA
Found at i:84615520 original size:46 final size:46
Alignment explanation
Indices: 84615455--84615630 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
84615445 TATTTGGGCA
* *
84615455 TCCGAACTCATTGAATTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
84615501 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
84615548 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
84615594 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84615631 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 65 0.60
47 31 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:84615610 original size:93 final size:93
Alignment explanation
Indices: 84615451--84615622 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
84615441 GGGATATTTG
* * *
84615451 GGCATCCGAACTCATTGAATTGAGTCCGAGTTCACTTATGGATGCGAGCGTCTGAACTCGTTGAG
1 GGCATCCGAACTCATTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
84615516 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
84615544 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
84615609 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
84615623 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:84620295 original size:27 final size:28
Alignment explanation
Indices: 84620235--84620334 Score: 121
Period size: 28 Copynumber: 3.6 Consensus size: 28
84620225 GCCCCTTTAA
* * *
84620235 GCCCAATCTCATTCACATGGCCCATCGG
1 GCCCAATCACATTCATATGGCCCATCAG
* *
84620263 GACCAATCAAATTCATAT-GCCCATCAG
1 GCCCAATCACATTCATATGGCCCATCAG
* *
84620290 GCCCAATCACTTTCATATGGCCCGTCAG
1 GCCCAATCACATTCATATGGCCCATCAG
*
84620318 GCGCAATCACATTCATA
1 GCCCAATCACATTCATA
84620335 GTCATGCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 23 0.38
28 37 0.62
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (28 bp):
GCCCAATCACATTCATATGGCCCATCAG
Found at i:84620416 original size:17 final size:18
Alignment explanation
Indices: 84620394--84620427 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84620384 TGCCTATTAT
84620394 GGGCCC-TTCAGCCCATC
1 GGGCCCATTCAGCCCATC
*
84620411 GGGCCCATTTAGCCCAT
1 GGGCCCATTCAGCCCAT
84620428 TCTGGCCCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.41, G:0.24, T:0.21
Consensus pattern (18 bp):
GGGCCCATTCAGCCCATC
Found at i:84620853 original size:21 final size:21
Alignment explanation
Indices: 84620824--84620863 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
84620814 AACTAAACAC
*
84620824 AAGTGACTCGCAAATCATCTT
1 AAGTCACTCGCAAATCATCTT
**
84620845 AAGTCACTCTTAAATCATC
1 AAGTCACTCGCAAATCATC
84620864 CATGACCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (21 bp):
AAGTCACTCGCAAATCATCTT
Found at i:84622491 original size:203 final size:203
Alignment explanation
Indices: 84622141--84622552 Score: 662
Period size: 203 Copynumber: 2.0 Consensus size: 203
84622131 TTCCCCTTCT
*
84622141 GTCCAAACCTTAATACCTTCTTCCACAGAGAGACCTTAAGAAAAACTAAGTCCCCCACTGCATAC
1 GTCCAAACCTTAATACCTTCTTCCACAGAGAGACCTTAAGAAAAACTAAGTCCCCCACTACATAC
* * * * *
84622206 TCTATCTCTCGATGCCTAAGGTCAGCATACGACTTCTGCCTATCTGAGGCCTCCTTCAAACGATC
66 TCTATCTCTCAAAGCCTAAGGTCAGAATACAACTTCTGCCTATCCGAGGCCTCCTTCAAACGATC
* * *
84622271 CCGAATCAATTTTACCTTACCCTCAGTATCTGTTACTAAATCAGGGCCCAAAACTTTTCGTTCGC
131 CCGAATCAATCTTACCTTACCCTCAGTATCTGCTACTAAATCAGGGCCCAAAACTCTTCGTTCGC
84622336 CCAATTCC
196 CCAATTCC
84622344 GTCCAAACCTTAATACCTTCTTCCACAGAGAGACCTTAAGAAAAACTAAGTCCCCCACTACATAC
1 GTCCAAACCTTAATACCTTCTTCCACAGAGAGACCTTAAGAAAAACTAAGTCCCCCACTACATAC
* * * *
84622409 TCTATCTCTCAAAGCTTAAGGTCAGAATATAACTTTTGCCTATCCGAGGCCTCCTTCAACCGATC
66 TCTATCTCTCAAAGCCTAAGGTCAGAATACAACTTCTGCCTATCCGAGGCCTCCTTCAAACGATC
* * * *
84622474 CCGAATCAATCTTACCTTGCCCTCAGTATCTGCTACTAACTTAGGGCCTAAAACTCTTCGTTCGC
131 CCGAATCAATCTTACCTTACCCTCAGTATCTGCTACTAAATCAGGGCCCAAAACTCTTCGTTCGC
*
84622539 CCAATTTC
196 CCAATTCC
84622547 GTCCAA
1 GTCCAA
84622553 CATGTTGGAG
Statistics
Matches: 191, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
203 191 1.00
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (203 bp):
GTCCAAACCTTAATACCTTCTTCCACAGAGAGACCTTAAGAAAAACTAAGTCCCCCACTACATAC
TCTATCTCTCAAAGCCTAAGGTCAGAATACAACTTCTGCCTATCCGAGGCCTCCTTCAAACGATC
CCGAATCAATCTTACCTTACCCTCAGTATCTGCTACTAAATCAGGGCCCAAAACTCTTCGTTCGC
CCAATTCC
Found at i:84630786 original size:46 final size:46
Alignment explanation
Indices: 84630736--84630895 Score: 184
Period size: 46 Copynumber: 3.5 Consensus size: 46
84630726 TGGCTGAGCA
84630736 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
84630782 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
84630827 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
84630875 CCCGAGCGAGTTGAGTTGAGT
1 TCCGAACTCGTTGAGTTGAGT
84630896 TGAGTTCGAG
Statistics
Matches: 96, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 47 0.49
47 30 0.31
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:84635437 original size:27 final size:27
Alignment explanation
Indices: 84635405--84635466 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
84635395 CAAAATAGTC
* * *
84635405 ATTTTACCCTATAGGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
*
84635432 ATTTTACATTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
*
84635459 ATCTTACA
1 ATTTTACA
84635467 AACTGGGGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:84642711 original size:34 final size:34
Alignment explanation
Indices: 84642645--84642727 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
84642635 CTGTATCGAT
**
84642645 ATGGGCTAAGGCCCAGACTAATTTTATCACTGAA
1 ATGGGCTAAGGCCCAGACTAATACTATCACTGAA
* * * *
84642679 ATGGGTTAAGGCCCAGACTACTACTGTTACTGAA
1 ATGGGCTAAGGCCCAGACTAATACTATCACTGAA
*
84642713 AAGAGGCTAAGGCCC
1 ATG-GGCTAAGGCCC
84642728 TAACTGAAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 30 0.75
35 10 0.25
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (34 bp):
ATGGGCTAAGGCCCAGACTAATACTATCACTGAA
Found at i:84647154 original size:22 final size:23
Alignment explanation
Indices: 84647117--84647159 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
84647107 TCTAAATTTG
84647117 TTGATGAATTTGTGAG-TTTTCA
1 TTGATGAATTTGTGAGCTTTTCA
84647139 TTGATGAATGTT-TGAGCTTTT
1 TTGATGAAT-TTGTGAGCTTTT
84647160 GAATGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.21, C:0.05, G:0.23, T:0.51
Consensus pattern (23 bp):
TTGATGAATTTGTGAGCTTTTCA
Found at i:84647258 original size:28 final size:29
Alignment explanation
Indices: 84647227--84647286 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
84647217 GATTTTTGAC
84647227 AAAAATGTCAAA-T-AGGGATTAAATTGTG
1 AAAAATGT-AAATTAAGGGATTAAATTGTG
* *
84647255 AAAAGTGTAAATTAAGGGGTTAAATTGTG
1 AAAAATGTAAATTAAGGGATTAAATTGTG
84647284 AAA
1 AAA
84647287 TAAATGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 3 0.11
28 8 0.29
29 17 0.61
ACGTcount: A:0.47, C:0.02, G:0.23, T:0.28
Consensus pattern (29 bp):
AAAAATGTAAATTAAGGGATTAAATTGTG
Found at i:84651555 original size:20 final size:20
Alignment explanation
Indices: 84651518--84651560 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
84651508 AGTAGTTGAA
*
84651518 ATGATTGTGAATAGATT-GC
1 ATGATTGTGAATAAATTGGC
*
84651537 ATGATATGTGTATAAATTGGC
1 ATGAT-TGTGAATAAATTGGC
84651558 ATG
1 ATG
84651561 TTTTGGTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 10 0.50
21 5 0.25
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.37
Consensus pattern (20 bp):
ATGATTGTGAATAAATTGGC
Found at i:84657574 original size:47 final size:47
Alignment explanation
Indices: 84657508--84657847 Score: 504
Period size: 47 Copynumber: 7.2 Consensus size: 47
84657498 AAGATATATG
84657508 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * * *
84657555 TATGTGATAAGGCCTAATGGCCCATGTGACT-AATGTGAAAGTGCATA
1 TGTGTGATAAGGCCGAATGGCCAATGTGA-TGAATGTGAAAGTGTATA
* *
84657602 TGCGTGATAAGGCCGAATGGCCAATGTGAGGAATGTGAAAGTGTATA
1 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * * *
84657649 TATGTGATAAGGCCTAATGGCCCATGTGACT-AATGTGAAAGTGCATA
1 TGTGTGATAAGGCCGAATGGCCAATGTGA-TGAATGTGAAAGTGTATA
84657696 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
84657743 TGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * * * *
84657790 TATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGCATA
1 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
84657837 TGTGTGATAAG
1 TGTGTGATAAG
84657848 TCCCGAAGGG
Statistics
Matches: 261, Mismatches: 28, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
46 1 0.00
47 259 0.99
48 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:84657723 original size:24 final size:24
Alignment explanation
Indices: 84657695--84657770 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 24
84657685 GAAAGTGCAT
84657695 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * * *
84657719 A--TGTGATGAATG-TGAAAGTG-TA
1 ATGTGTGAT-AAGGCCGAATG-GCCA
84657741 TATGTGTGATAAGGCCGAATGGCCA
1 -ATGTGTGATAAGGCCGAATGGCCA
84657766 ATGTG
1 ATGTG
84657771 ATGGATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 11 0.30
23 5 0.14
24 10 0.27
25 11 0.30
ACGTcount: A:0.30, C:0.11, G:0.33, T:0.26
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:84659512 original size:40 final size:40
Alignment explanation
Indices: 84659447--84659690 Score: 303
Period size: 40 Copynumber: 6.1 Consensus size: 40
84659437 CGGAATACAA
* ** * * *
84659447 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
84659487 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
84659527 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
84659567 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
84659607 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
84659647 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
84659687 CCGG
1 CCGG
84659691 GTATCATTCA
Statistics
Matches: 182, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 181 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:84659845 original size:64 final size:64
Alignment explanation
Indices: 84659777--84659965 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
84659767 GAACACAAAC
84659777 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
84659841 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
84659898 AC
63 AT
84659900 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
84659964 AT
1 AT
84659966 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:84659878 original size:123 final size:123
Alignment explanation
Indices: 84659659--84659997 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
84659649 GGATATAATT
* * * * * * *
84659659 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
84659724 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
84659782 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
84659847 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
84659905 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
84659970 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
84659998 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:84666440 original size:40 final size:40
Alignment explanation
Indices: 84666375--84666618 Score: 303
Period size: 40 Copynumber: 6.1 Consensus size: 40
84666365 CGGAATACAA
* ** * * *
84666375 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
84666415 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
84666455 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
84666495 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
84666535 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
84666575 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
84666615 CCGG
1 CCGG
84666619 GTATCATTCA
Statistics
Matches: 182, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 181 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:84666773 original size:64 final size:64
Alignment explanation
Indices: 84666705--84666893 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
84666695 GAACACAAAC
84666705 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
84666769 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
84666826 AC
63 AT
84666828 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
84666892 AT
1 AT
84666894 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:84666806 original size:123 final size:123
Alignment explanation
Indices: 84666587--84666925 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
84666577 GGATATAATT
* * * * * * *
84666587 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
84666652 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
84666710 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
84666775 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
84666833 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
84666898 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
84666926 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:84677164 original size:48 final size:48
Alignment explanation
Indices: 84677112--84677284 Score: 247
Period size: 48 Copynumber: 3.6 Consensus size: 48
84677102 TATCGAGGTT
* *
84677112 GATGCCATATCCTAGATATGGTCTTACACTGGCACACATATCAATGTC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAATGTC
* * * *
84677160 GATGCCATGTCTTAGACATGGTCTTACACTGGCTCTCATATCAACGTC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAATGTC
* * * *
84677208 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAATGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAATGTC
*
84677256 GATGCCATGTCCCAGACATGGTCTTACAC
1 GATGCCATGTCCTAGACATGGTCTTACAC
84677285 AGGATCTTAT
Statistics
Matches: 115, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 115 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAATGTC
Found at i:84681048 original size:23 final size:24
Alignment explanation
Indices: 84681017--84681069 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
84681007 TACCAATAGA
**
84681017 AATGAGATGCCCTGAACAAACATC
1 AATGAGATGCCCCAAACAAACATC
84681041 -ATGAGATGCCCCAAACAAACATC
1 AATGAGATGCCCCAAACAAACATC
84681064 AATGAG
1 AATGAG
84681070 GTAGAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.43, C:0.25, G:0.17, T:0.15
Consensus pattern (24 bp):
AATGAGATGCCCCAAACAAACATC
Found at i:84682386 original size:16 final size:15
Alignment explanation
Indices: 84682359--84682392 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
84682349 ATAACTAGTA
*
84682359 TATAATTATATTTAT
1 TATAATTATATTAAT
84682374 TATAATATATATTAAT
1 TATAAT-TATATTAAT
84682390 TAT
1 TAT
84682393 TACCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:84689171 original size:29 final size:29
Alignment explanation
Indices: 84689143--84689302 Score: 248
Period size: 29 Copynumber: 5.5 Consensus size: 29
84689133 CCTCCGAGCT
** * * *
84689143 CGCACACACAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
84689172 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
84689201 CGTACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
84689230 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
84689259 CGCACACTTAGTGCCATATATTTCCAGTA
1 CGCACACTTAGTGCCATATATTTCCAGCA
84689288 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
84689303 GATCTCGTCA
Statistics
Matches: 121, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 121 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Done.