Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 106 of 141
Found at i:30349654 original size:19 final size:19
Alignment explanation
Indices: 30349628--30349672 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
30349618 TGCAATAACA
*
30349628 TTAA-ATTTAATAATAATAT
1 TTAATATTTAAT-ATAAAAT
30349647 TT-ATATTTAATATAAAAT
1 TTAATATTTAATATAAAAT
30349665 TTAATATT
1 TTAATATT
30349673 ATTTTTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAATATTTAATATAAAAT
Found at i:30350389 original size:18 final size:18
Alignment explanation
Indices: 30350366--30350401 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30350356 TTTTATCTCT
* *
30350366 AAATAATTAATAAGAGAA
1 AAATAATAAATAAAAGAA
30350384 AAATAATAAATAAAAGAA
1 AAATAATAAATAAAAGAA
30350402 TTTGAATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (18 bp):
AAATAATAAATAAAAGAA
Found at i:30352975 original size:54 final size:54
Alignment explanation
Indices: 30352859--30353023 Score: 152
Period size: 54 Copynumber: 3.1 Consensus size: 54
30352849 ACATTTGTAG
* * * * * * * * *
30352859 AATGATCGTAATGCCCCTGTAA-GGTAAAATTACCTAAATACCCCCGATGGGAAA
1 AATGATCGAAATACCCCCG-AAGGGTAAAATGATCGAAATACCCTCGAAGGGTAA
* * * * *
30352913 AATTATCGAAATACCCTCGAAGGGTAAAATTATTGAAATGCCCTCGAAGGGTAA
1 AATGATCGAAATACCCCCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAA
* * * *
30352967 AATGATCGAATTACCCCCGATGGGTAAAATGATCGAAATACCCTTGATGGGTAA
1 AATGATCGAAATACCCCCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAA
30353021 AAT
1 AAT
30353024 AACAGATATA
Statistics
Matches: 89, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
53 2 0.02
54 87 0.98
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (54 bp):
AATGATCGAAATACCCCCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAA
Found at i:30353015 original size:27 final size:27
Alignment explanation
Indices: 30352894--30353023 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
30352884 AAAATTACCT
* * *
30352894 AAATACCCCCGATGGGAAAAATTATCG
1 AAATACCCTCGATGGGTAAAATGATCG
* * *
30352921 AAATACCCTCGAAGGGTAAAATTATTG
1 AAATACCCTCGATGGGTAAAATGATCG
* *
30352948 AAATGCCCTCGAAGGGTAAAATGATCG
1 AAATACCCTCGATGGGTAAAATGATCG
* *
30352975 AATTACCCCCGATGGGTAAAATGATCG
1 AAATACCCTCGATGGGTAAAATGATCG
*
30353002 AAATACCCTTGATGGGTAAAAT
1 AAATACCCTCGATGGGTAAAAT
30353024 AACAGATATA
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.22
Consensus pattern (27 bp):
AAATACCCTCGATGGGTAAAATGATCG
Found at i:30353034 original size:27 final size:27
Alignment explanation
Indices: 30352894--30353052 Score: 104
Period size: 27 Copynumber: 5.9 Consensus size: 27
30352884 AAAATTACCT
** * * *
30352894 AAATACCCCCGATGGGAAAAATTATCG
1 AAATACCCTTGATGGGTAAAATGAACG
* * * **
30352921 AAATACCCTCGAAGGGTAAAATTATTG
1 AAATACCCTTGATGGGTAAAATGAACG
* * * *
30352948 AAATGCCCTCGAAGGGTAAAATGATCG
1 AAATACCCTTGATGGGTAAAATGAACG
* ** *
30352975 AATTACCCCCGATGGGTAAAATGATCG
1 AAATACCCTTGATGGGTAAAATGAACG
30353002 AAATACCCTTGATGGGTAAAAT-AACAG
1 AAATACCCTTGATGGGTAAAATGAAC-G
* * * *
30353029 ATATACCCTTAAAGGGTAGAATGA
1 AAATACCCTTGATGGGTAAAATGA
30353053 CTATTTTGCC
Statistics
Matches: 111, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
26 2 0.02
27 108 0.97
28 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.22
Consensus pattern (27 bp):
AAATACCCTTGATGGGTAAAATGAACG
Found at i:30353044 original size:81 final size:81
Alignment explanation
Indices: 30352897--30353052 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 81
30352887 ATTACCTAAA
* * ** * *
30352897 TACCCCCGATGGGAAAAATTATCGAAATACCCTCGAAGGGTAAAATTATTGAAATGCCCTCGAAG
1 TACCCCCGATGGGAAAAATGATCGAAATACCCTCGAAGGGTAAAATAACAGAAATACCCTCAAAG
30352962 GGTAAAATGATCGAAT
66 GGTAAAATGATCGAAT
* * * * *
30352978 TACCCCCGATGGGTAAAATGATCGAAATACCCTTGATGGGTAAAATAACAGATATACCCTTAAAG
1 TACCCCCGATGGGAAAAATGATCGAAATACCCTCGAAGGGTAAAATAACAGAAATACCCTCAAAG
*
30353043 GGTAGAATGA
66 GGTAAAATGA
30353053 CTATTTTGCC
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.22
Consensus pattern (81 bp):
TACCCCCGATGGGAAAAATGATCGAAATACCCTCGAAGGGTAAAATAACAGAAATACCCTCAAAG
GGTAAAATGATCGAAT
Found at i:30354777 original size:152 final size:152
Alignment explanation
Indices: 30354501--30354801 Score: 523
Period size: 152 Copynumber: 2.0 Consensus size: 152
30354491 AACGAGAGCA
*
30354501 TAGTGTGGGAGGCGAGGATGTGCGACTGTTATGATAGTTGAAAATTTCGAGGACGAAATTTCTTT
1 TAGTGTGGGAGGCGAGGATGTGCGACTGTTATGATAGTTGAAAATTTCAAGGACGAAATTTCTTT
* *
30354566 AAGGGGGTAAAATTGTAATGCCCCAAAATTTGGGCCTAGAAGTATTGGGCCTTGAGCAAGGGAAC
66 AAGGGGGTAAAATTGTAACGCCCCAAAATTTGGGCCTAGAAGTATTGGGCCGTGAGCAAGGGAAC
30354631 GGTTAGGAAACTGTGCACAGTG
131 GGTTAGGAAACTGTGCACAGTG
*
30354653 TAGTGTGGGAGGCGAGGATGTGCGACTGTTATGATAGTTGCAAATTTCAAGGACGAAATTTCTTT
1 TAGTGTGGGAGGCGAGGATGTGCGACTGTTATGATAGTTGAAAATTTCAAGGACGAAATTTCTTT
*
30354718 AAGGGGGTAGAATTGTAACG-CCCAAGAATTTGGGCCTAGAAGTATTGGGCCGTGAGCAAGGGAA
66 AAGGGGGTAAAATTGTAACGCCCCAA-AATTTGGGCCTAGAAGTATTGGGCCGTGAGCAAGGGAA
* *
30354782 CGGTTAGGATACTTTGCACA
130 CGGTTAGGAAACTGTGCACA
30354802 AAAGTATGTC
Statistics
Matches: 141, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
151 5 0.04
152 136 0.96
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (152 bp):
TAGTGTGGGAGGCGAGGATGTGCGACTGTTATGATAGTTGAAAATTTCAAGGACGAAATTTCTTT
AAGGGGGTAAAATTGTAACGCCCCAAAATTTGGGCCTAGAAGTATTGGGCCGTGAGCAAGGGAAC
GGTTAGGAAACTGTGCACAGTG
Found at i:30356867 original size:27 final size:27
Alignment explanation
Indices: 30356750--30356879 Score: 131
Period size: 27 Copynumber: 4.8 Consensus size: 27
30356740 TGCCCCTATA
* * *
30356750 GGGTAAAATTATCAAAATACCCCCGAT
1 GGGTAAAATGATCGAAATACCCTCGAT
* *
30356777 GGGAAAAATTG-TCGAAATACCCTCGAA
1 GGGTAAAA-TGATCGAAATACCCTCGAT
*** *
30356804 GGGTAAAATGATTTTATTACCAC-CGAT
1 GGGTAAAATGATCGAAATACC-CTCGAT
30356831 GGGTAAAATGATCGAAATACCCTCGAT
1 GGGTAAAATGATCGAAATACCCTCGAT
30356858 GGGTAAAATGA-CGAATATACCC
1 GGGTAAAATGATCGAA-ATACCC
30356880 CTAATGGGTA
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
26 7 0.08
27 74 0.89
28 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (27 bp):
GGGTAAAATGATCGAAATACCCTCGAT
Found at i:30356886 original size:27 final size:26
Alignment explanation
Indices: 30356750--30356896 Score: 84
Period size: 27 Copynumber: 5.5 Consensus size: 26
30356740 TGCCCCTATA
* * * *
30356750 GGGTAAAATTATCAAAATACCCCCGAT
1 GGGTAAAATGA-CGAAATACCCTCAAT
* *
30356777 GGGAAAAATTGTCGAAATACCCTCGAA-
1 GGGTAAAA-TGACGAAATACCCTC-AAT
*** * *
30356804 GGGTAAAATGATTTTATTACCAC-CGAT
1 GGGTAAAATGA-CGAAATACC-CTCAAT
*
30356831 GGGTAAAATGATCGAAATACCCTCGAT
1 GGGTAAAATGA-CGAAATACCCTCAAT
30356858 GGGTAAAATGACGAATATACCC-CTAAT
1 GGGTAAAATGACGAA-ATACCCTC-AAT
*
30356885 GGGTAGAATGAC
1 GGGTAAAATGAC
30356897 TATTTTACCT
Statistics
Matches: 93, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
26 9 0.10
27 81 0.87
28 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (26 bp):
GGGTAAAATGACGAAATACCCTCAAT
Found at i:30356887 original size:54 final size:52
Alignment explanation
Indices: 30356770--30356895 Score: 137
Period size: 54 Copynumber: 2.3 Consensus size: 52
30356760 ATCAAAATAC
* ***
30356770 CCCCGATGGGAAAAATTG-TCGAAATACCCTCGAAGGGTAAAATGATTTTATTA
1 CCCCGATGGGTAAAA-TGATCGAAATACCCTCGAAGGGTAAAATGAGAATA-TA
*
30356823 CCACCGATGGGTAAAATGATCGAAATACCCTCGATGGGTAAAATGACGAATATA
1 CC-CCGATGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGA-GAATATA
* *
30356877 CCCCTAATGGGTAGAATGA
1 CCCC-GATGGGTAAAATGA
30356896 CTATTTTACC
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
53 6 0.10
54 54 0.87
55 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (52 bp):
CCCCGATGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGAGAATATA
Found at i:30356905 original size:81 final size:81
Alignment explanation
Indices: 30356750--30356905 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
30356740 TGCCCCTATA
* *
30356750 GGGTAAAATTATCAAAATACCCCCGATGGGAAAAATTGTCGAAATACCCTCGAAGGGTAAAATGA
1 GGGTAAAATGATCAAAATACCCCCGATGGGAAAAATTGACGAAATACCCTCGAAGGGTAAAATGA
*
30356815 TTTTATTACCACCGAT
66 TATTATTACCACCGAT
* * * * *
30356831 GGGTAAAATGATCGAAATACCCTCGATGGGTAAAA-TGACGAATATACCC-CTAATGGGTAGAAT
1 GGGTAAAATGATCAAAATACCCCCGATGGGAAAAATTGACGAA-ATACCCTCGAA-GGGTAAAAT
30356894 GACTATT-TTACC
64 GA-TATTATTACC
30356906 TTTCGAGGTT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 9 0.14
81 52 0.81
82 3 0.05
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (81 bp):
GGGTAAAATGATCAAAATACCCCCGATGGGAAAAATTGACGAAATACCCTCGAAGGGTAAAATGA
TATTATTACCACCGAT
Found at i:30359497 original size:22 final size:20
Alignment explanation
Indices: 30359447--30359489 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
30359437 TCCATTCCAA
*
30359447 TCCATTTCACATATTACATT
1 TCCATTTCACATATTAAATT
30359467 TCCATTTCACATATATAAATT
1 TCCATTTCACATAT-TAAATT
30359488 TC
1 TC
30359490 ATAATTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (20 bp):
TCCATTTCACATATTAAATT
Found at i:30365583 original size:21 final size:22
Alignment explanation
Indices: 30365543--30365583 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
30365533 GATTAAATTG
**
30365543 TGAAATGTGCAAATTGATGGGT
1 TGAAATGTGCAAATAAATGGGT
30365565 TGAAATGTG-AAATAAATGG
1 TGAAATGTGCAAATAAATGG
30365584 AATTTATGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.39, C:0.02, G:0.29, T:0.29
Consensus pattern (22 bp):
TGAAATGTGCAAATAAATGGGT
Found at i:30374516 original size:13 final size:13
Alignment explanation
Indices: 30374498--30374527 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
30374488 AGCCCAAACT
30374498 CAATTACCCAACC
1 CAATTACCCAACC
30374511 CAATTACCCAACC
1 CAATTACCCAACC
30374524 CAAT
1 CAAT
30374528 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:30374647 original size:13 final size:13
Alignment explanation
Indices: 30374629--30374658 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
30374619 AGCCCAAACT
30374629 CAATTACCCAACC
1 CAATTACCCAACC
30374642 CAATTACCCAACC
1 CAATTACCCAACC
30374655 CAAT
1 CAAT
30374659 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:30374682 original size:131 final size:131
Alignment explanation
Indices: 30374448--30374705 Score: 516
Period size: 131 Copynumber: 2.0 Consensus size: 131
30374438 CGAAACCGGA
30374448 CGGTTAACCGAAAAAATTAATAAATAAAATTATCCAACCCAGCCCAAACTCAATTACCCAACCCA
1 CGGTTAACCGAAAAAATTAATAAATAAAATTATCCAACCCAGCCCAAACTCAATTACCCAACCCA
30374513 ATTACCCAACCCAATAAAACTAAAACTAAAGTTTACCCAATTACCCAATCCAATAAAATTAATTT
66 ATTACCCAACCCAATAAAACTAAAACTAAAGTTTACCCAATTACCCAATCCAATAAAATTAATTT
30374578 T
131 T
30374579 CGGTTAACCGAAAAAATTAATAAATAAAATTATCCAACCCAGCCCAAACTCAATTACCCAACCCA
1 CGGTTAACCGAAAAAATTAATAAATAAAATTATCCAACCCAGCCCAAACTCAATTACCCAACCCA
30374644 ATTACCCAACCCAATAAAACTAAAACTAAAGTTTACCCAATTACCCAATCCAATAAAATTAA
66 ATTACCCAACCCAATAAAACTAAAACTAAAGTTTACCCAATTACCCAATCCAATAAAATTAA
30374706 AACTAAAAGA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 127 1.00
ACGTcount: A:0.47, C:0.27, G:0.04, T:0.22
Consensus pattern (131 bp):
CGGTTAACCGAAAAAATTAATAAATAAAATTATCCAACCCAGCCCAAACTCAATTACCCAACCCA
ATTACCCAACCCAATAAAACTAAAACTAAAGTTTACCCAATTACCCAATCCAATAAAATTAATTT
T
Found at i:30374840 original size:9 final size:9
Alignment explanation
Indices: 30374824--30374866 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
30374814 GGTATTTTTC
30374824 GGTAATTCG
1 GGTAATTCG
* *
30374833 GTTAATTCA
1 GGTAATTCG
*
30374842 GTTAATTCG
1 GGTAATTCG
30374851 GGTAATTCG
1 GGTAATTCG
30374860 GGTAATT
1 GGTAATT
30374867 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (9 bp):
GGTAATTCG
Found at i:30380414 original size:13 final size:13
Alignment explanation
Indices: 30380396--30380420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30380386 TAATTTATAT
30380396 GTGTGAAAATTTC
1 GTGTGAAAATTTC
30380409 GTGTGAAAATTT
1 GTGTGAAAATTT
30380421 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:30393017 original size:21 final size:21
Alignment explanation
Indices: 30392991--30393037 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
30392981 GGTAGGCAAC
* *
30392991 TTTTTTTTTGCGCTTTTTTCT
1 TTTTTTTTTGCGCTATTTGCT
30393012 TTTTTTTTTGCGCTATTTGCT
1 TTTTTTTTTGCGCTATTTGCT
30393033 TTTTT
1 TTTTT
30393038 CTGCTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.13, G:0.11, T:0.74
Consensus pattern (21 bp):
TTTTTTTTTGCGCTATTTGCT
Found at i:30410152 original size:14 final size:14
Alignment explanation
Indices: 30410133--30410162 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
30410123 TGATTGTTTT
30410133 TAATCTAATTTAAC
1 TAATCTAATTTAAC
30410147 TAATCTAATTTAAC
1 TAATCTAATTTAAC
30410161 TA
1 TA
30410163 CGAACGCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATCTAATTTAAC
Found at i:30415809 original size:14 final size:14
Alignment explanation
Indices: 30415790--30415819 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
30415780 TGATTGTTTT
30415790 TAATCTAATTTAAC
1 TAATCTAATTTAAC
30415804 TAATCTAATTTAAC
1 TAATCTAATTTAAC
30415818 TA
1 TA
30415820 CGAACACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATCTAATTTAAC
Found at i:30416679 original size:30 final size:30
Alignment explanation
Indices: 30416643--30416703 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
30416633 CACGGGCTGG
30416643 CACATGGGCATGTAGCCAACCCGTGTGGAT
1 CACATGGGCATGTAGCCAACCCGTGTGGAT
* *
30416673 CACATGGGCGTGTAGCCAGCCCGTGTGGAT
1 CACATGGGCATGTAGCCAACCCGTGTGGAT
30416703 C
1 C
30416704 CTGGAAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.28, G:0.33, T:0.20
Consensus pattern (30 bp):
CACATGGGCATGTAGCCAACCCGTGTGGAT
Found at i:30425238 original size:96 final size:95
Alignment explanation
Indices: 30424937--30425242 Score: 299
Period size: 96 Copynumber: 3.3 Consensus size: 95
30424927 ATAGGGTTAA
*
30424937 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTAATTTATAACTTCAATCTGCTCCACTGCA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTAATTTAT-ACTTCAATCTGCTCCACTGCA
* * *
30425002 ACTTCAAAGAAATAATATTCGCTATCTTTAG
65 ACTTCAAGGAAATAAGATTCGCTATCTTCAG
* * * * ** * *
30425033 TCTACTCTATTGCAACTTCAGGGAGATAAGA--T-T--TGCA-ACTTCAACCTGCTCCACTACAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTAATTTATACTTCAATCTGCTCCACTGCAA
* * * * * * *
30425092 CTTTATGGAGATAAGGTTTG--AT-ATGA-
66 CTTCAAGGAAATAAGATTCGCTATCTTCAG
** * *
30425118 TCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCTCTGCA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTAATTTATA-CTTCAATCTGCTCCACTGCA
*
30425183 ACTTCAGGGAAATAAGATTCGCTATCTTCAG
65 ACTTCAAGGAAATAAGATTCGCTATCTTCAG
*
30425214 TTTGCTCCACTGCAACTTCAGAGAGATAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAA
30425243 AACTTGTAAC
Statistics
Matches: 163, Mismatches: 36, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
85 27 0.17
86 2 0.01
87 3 0.02
88 1 0.01
89 33 0.20
90 2 0.01
91 3 0.02
92 32 0.20
93 1 0.01
94 3 0.02
95 2 0.01
96 54 0.33
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (95 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTAATTTATACTTCAATCTGCTCCACTGCAA
CTTCAAGGAAATAAGATTCGCTATCTTCAG
Found at i:30425352 original size:89 final size:89
Alignment explanation
Indices: 30425252--30425421 Score: 250
Period size: 89 Copynumber: 1.9 Consensus size: 89
30425242 AAACTTGTAA
* * * * * *
30425252 CTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTATCTTCAGTCTACTCCGCTGCA
1 CTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTATCGTCAATCTACTCCGCTGCA
30425317 AACTCAGGGAGGCAAGGCTGGTGT
66 AACTCAGGGAGGCAAGGCTGGTGT
* * * *
30425341 CTTCGATCTACTTCACTGCTAGTACAAGAAGACAAGATCTGCTATCGTCAATCTGCTCTGCTGCA
1 CTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTATCGTCAATCTACTCCGCTGCA
30425406 AACTCAGGGAGGCAAG
66 AACTCAGGGAGGCAAG
30425422 ACTTGTAACT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (89 bp):
CTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTATCGTCAATCTACTCCGCTGCA
AACTCAGGGAGGCAAGGCTGGTGT
Found at i:30425447 original size:89 final size:89
Alignment explanation
Indices: 30425279--30425448 Score: 223
Period size: 89 Copynumber: 1.9 Consensus size: 89
30425269 GCCAATATAG
* * * * **
30425279 GAAGACAAGATCTGTTATCTTCAGTCTACTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTT
1 GAAGACAAGATCTGCTATCGTCAATCTACTCCGCTGCAAACTCAGGGAGGCAAGACTGGTAACTT
* *
30425344 CGATCTACTTCACTGCTAGTACAA
66 CAATCTACTCCACTGCTAGTACAA
* * *
30425368 GAAGACAAGATCTGCTATCGTCAATCTGCTCTGCTGCAAACTCAGGGAGGCAAGACTTGTAACTT
1 GAAGACAAGATCTGCTATCGTCAATCTACTCCGCTGCAAACTCAGGGAGGCAAGACTGGTAACTT
* *
30425433 TAATCTGCTCCACTGC
66 CAATCTACTCCACTGC
30425449 AACCTCAGGG
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (89 bp):
GAAGACAAGATCTGCTATCGTCAATCTACTCCGCTGCAAACTCAGGGAGGCAAGACTGGTAACTT
CAATCTACTCCACTGCTAGTACAA
Found at i:30425552 original size:45 final size:45
Alignment explanation
Indices: 30425434--30425903 Score: 283
Period size: 44 Copynumber: 10.5 Consensus size: 45
30425424 TTGTAACTTT
* *
30425434 AATCTGCTCCACTGCAACCTCAGGGAGAT-AGAATTATTGGC-T-TT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG-ATT-TT-CCATCTTC
* *
30425478 AATCTGCTCCACT-AAACTTTAGGGAGATAAGATTTTCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTC
* * * ** * ** *
30425522 AGTCTGCCCCACTGCAACTTCAGGGGGATAAGACCTGCTTTCGTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTC
* * * * *
30425567 AATCTACTCCACTGCAACTTCAAGGAGATAAGACTTGT--AACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTTCCATCTTC
* * *
30425611 AATCCGCTCCACTGCAACCTCAGGGAGAT-AGAATTATTGGC-T-TT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG-ATT-TT-CCATCTTC
*
30425655 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCCTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTC
* * * *
30425700 AGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGTT--TTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT-TTCCATCTTC
* * * * *
30425745 AGTCTGCTCCACTGCTACTTCAGGGAGATAAGACTTGT--AACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTTCCATCTTC
* * * * * * *
30425789 AATCCGTTCCACTGAAACTTTAGAGAGATAGGATTATTGGC-T-TT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TT-CCATCTTC
* * **
30425833 AATATGCTCTACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCA---TCTTC
**
30425881 AATCTATTCCACTGCAACTTCAG
1 AATCTGCTCCACTGCAACTTCAG
30425904 TGGTATAGGA
Statistics
Matches: 324, Mismatches: 75, Indels: 50
0.72 0.17 0.11
Matches are distributed among these distances:
41 1 0.00
42 5 0.02
43 26 0.08
44 143 0.44
45 123 0.38
46 3 0.01
47 4 0.01
48 19 0.06
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTC
Found at i:30425611 original size:133 final size:133
Alignment explanation
Indices: 30425434--30425737 Score: 312
Period size: 133 Copynumber: 2.3 Consensus size: 133
30425424 TTGTAACTTT
* * * ** * *
30425434 AATCTGCTCCACTGCAACCTCAGGGAGAT-AGAATTATTGGCTTTAATCTGCTCCACT-AAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTTAATCCGCTCCACTGAAACCT
* * *
30425497 TAGGGAGATA-AGATT-TT-CCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACCTG
65 CAGGGAGATAGA-ATTATTGCC-T-TT-AATCTGCCCCACTGCAACTTCAGGGAGATAAGACCTG
** *
30425559 CTTTCGTC
126 CCATCCTC
* * *
30425567 AATCTACTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACCTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGAAACCTC
* * ** *
30425632 AGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATC
66 AGGGAGATAGAATTATTGCCTTTAATCTGCCCCACTGCAACTTCAGGGAGATAAGACCTGCCATC
30425697 CTC
131 CTC
* * *
30425700 AGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
30425738 TTTCTTCAGT
Statistics
Matches: 140, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
133 112 0.80
134 23 0.16
135 4 0.03
136 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (133 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGAAACCTC
AGGGAGATAGAATTATTGCCTTTAATCTGCCCCACTGCAACTTCAGGGAGATAAGACCTGCCATC
CTC
Found at i:30425774 original size:178 final size:178
Alignment explanation
Indices: 30425374--30425867 Score: 731
Period size: 178 Copynumber: 2.8 Consensus size: 178
30425364 ACAAGAAGAC
* * * ** **
30425374 AAGATCTGCTATCGTCAATCTGCTCTGCTGCAAAC-TCAGGGAGGCAAGACTTGTAACTTTAATC
1 AAGACCTGCTTTCGTCAATCTACTCCACTGC-AACTTCAGGGAGATAAGACTTGTAACTTTAATC
* * *
30425438 TGCTCCACTGCAACCTCAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACT-AAACTTTAGGG
65 CGCTCCACTGCAACCTCAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGG
*
30425502 AGATAAGATTTTCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGAT
130 AGATAAGATTTTCCATCCTCAGTCTGCCCCACTGCAACTTCAGGGGGAT
*
30425551 AAGACCTGCTTTCGTCAATCTACTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCC
1 AAGACCTGCTTTCGTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCC
30425616 GCTCCACTGCAACCTCAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
66 GCTCCACTGCAACCTCAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
30425681 GATAAGATTTTCCATCCTCAGTCTGCCCCACTGCAACTTCAGGGGGAT
131 GATAAGATTTTCCATCCTCAGTCTGCCCCACTGCAACTTCAGGGGGAT
* * * * * *
30425729 AAGACTTGTTTTCTTCAGTCTGCTCCACTGCTACTTCAGGGAGATAAGACTTGTAACTTTAATCC
1 AAGACCTGCTTTCGTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCC
* * * * * * * *
30425794 GTTCCACTGAAACTTTAGAGAGATAGGATTATTGGCTTTAATATGCTCTACTGCAACTTCAGGGA
66 GCTCCACTGCAACCTCAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
30425859 GATAAGATT
131 GATAAGATT
30425868 CGCCATCTTC
Statistics
Matches: 288, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
176 3 0.01
177 104 0.36
178 181 0.63
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (178 bp):
AAGACCTGCTTTCGTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCC
GCTCCACTGCAACCTCAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
GATAAGATTTTCCATCCTCAGTCTGCCCCACTGCAACTTCAGGGGGAT
Found at i:30435731 original size:17 final size:17
Alignment explanation
Indices: 30435705--30435738 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30435695 CTATTATCTC
30435705 TTTCAATGGTGAATAGT
1 TTTCAATGGTGAATAGT
*
30435722 TTTCAGTGGTGAATAGT
1 TTTCAATGGTGAATAGT
30435739 CATCCCAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.41
Consensus pattern (17 bp):
TTTCAATGGTGAATAGT
Found at i:30437809 original size:55 final size:55
Alignment explanation
Indices: 30437723--30437840 Score: 191
Period size: 55 Copynumber: 2.1 Consensus size: 55
30437713 AACAAGGAGA
* *
30437723 ATTGAAGCTCAGTAAGTTAGGGCACAATCTTCTTGAGAATCTTGGATACCAAGTAT
1 ATTGAAAC-CAGTAAGTTAGGGCACAATCTTCTCGAGAATCTTGGATACCAAGTAT
* *
30437779 CTTGAAACCAGTAAGTTAGGGCATAATCTTCTCGAGAATCTTGGATACCAAGTAT
1 ATTGAAACCAGTAAGTTAGGGCACAATCTTCTCGAGAATCTTGGATACCAAGTAT
30437834 ATTGAAA
1 ATTGAAA
30437841 ATTTATGGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 51 0.89
56 6 0.11
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (55 bp):
ATTGAAACCAGTAAGTTAGGGCACAATCTTCTCGAGAATCTTGGATACCAAGTAT
Found at i:30438163 original size:24 final size:25
Alignment explanation
Indices: 30438119--30438165 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
30438109 TAACAAGTTT
*
30438119 TAAAATAAAAAAATATTGAAATAGA
1 TAAAATAAAAAAATATAGAAATAGA
30438144 TAAAA-AAAAAAAGT-TAGAAATA
1 TAAAATAAAAAAA-TATAGAAATA
30438166 AATACTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (25 bp):
TAAAATAAAAAAATATAGAAATAGA
Found at i:30440700 original size:20 final size:20
Alignment explanation
Indices: 30440677--30440714 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30440667 TTTTATTAAT
*
30440677 TTAATATCAAAGTGATTATC
1 TTAATATCAAAGCGATTATC
*
30440697 TTAATATTAAAGCGATTA
1 TTAATATCAAAGCGATTA
30440715 AGTTTAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
TTAATATCAAAGCGATTATC
Found at i:30444154 original size:18 final size:18
Alignment explanation
Indices: 30444128--30444167 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
30444118 AAACGTTTTT
*
30444128 TTTTTAATTTATGAAAAA-
1 TTTTAAATTT-TGAAAAAG
30444146 TTTTAAATTTTGAAAAAG
1 TTTTAAATTTTGAAAAAG
30444164 TTTT
1 TTTT
30444168 GCGTACTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (18 bp):
TTTTAAATTTTGAAAAAG
Found at i:30456896 original size:54 final size:54
Alignment explanation
Indices: 30456826--30456931 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
30456816 ACGGCTTGGG
* * * * *
30456826 ACACGGGCTATCACACGGCCTTGTG-TATCAAGTCAGTGAGTTACACGGTTTAGC
1 ACACGGCCTATCACACGACCATGTGACAT-AACTCAGTGAGTTACACGGTTTAGC
*
30456880 ACACGGCCTATGACACGACCATGTGACATAACTCAGTGAGTTACACGGTTTA
1 ACACGGCCTATCACACGACCATGTGACATAACTCAGTGAGTTACACGGTTTA
30456932 AAACATGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 43 0.96
55 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (54 bp):
ACACGGCCTATCACACGACCATGTGACATAACTCAGTGAGTTACACGGTTTAGC
Found at i:30458989 original size:35 final size:35
Alignment explanation
Indices: 30458943--30459013 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
30458933 GTAGTACAAC
30458943 TGCTTTATCTTTACAATTGATTTATAAAAACGGGG
1 TGCTTTATCTTTACAATTGATTTATAAAAACGGGG
30458978 TGCTTTATCTTTACAATTGATTTATAAAAACGGGG
1 TGCTTTATCTTTACAATTGATTTATAAAAACGGGG
30459013 T
1 T
30459014 ATAGAGAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (35 bp):
TGCTTTATCTTTACAATTGATTTATAAAAACGGGG
Found at i:30459414 original size:37 final size:37
Alignment explanation
Indices: 30459364--30459437 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
30459354 CTACTACCTA
30459364 GGTACTTAATTTGTTCGTTAATAATATGAATTAATCT
1 GGTACTTAATTTGTTCGTTAATAATATGAATTAATCT
30459401 GGTACTTAATTTGTTCGTTAATAATATGAATTAATCT
1 GGTACTTAATTTGTTCGTTAATAATATGAATTAATCT
30459438 ATCAAACCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (37 bp):
GGTACTTAATTTGTTCGTTAATAATATGAATTAATCT
Found at i:30466068 original size:11 final size:11
Alignment explanation
Indices: 30466052--30466077 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30466042 TTTACATGTT
30466052 TAATTTTAAAA
1 TAATTTTAAAA
30466063 TAATTTTAAAA
1 TAATTTTAAAA
30466074 TAAT
1 TAAT
30466078 GTATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:30470343 original size:3 final size:3
Alignment explanation
Indices: 30470337--30470369 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
30470327 ATTTTTGTTC
30470337 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30470370 ATGAAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30470722 original size:31 final size:30
Alignment explanation
Indices: 30470649--30470723 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 30
30470639 TTTTTTGGTC
*
30470649 TGGTACCTAAACTTGACACTTTTCCTAATT
1 TGGTACCTAAACTTGACACTTTTCCTAAGT
* * *
30470679 TAGTACCAAAACTTGACACTTTTTCTTAAGT
1 TGGTACCTAAACTTGACAC-TTTTCCTAAGT
*
30470710 TGGTACTTAAACTT
1 TGGTACCTAAACTT
30470724 TTGGGGGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 17 0.46
31 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (30 bp):
TGGTACCTAAACTTGACACTTTTCCTAAGT
Found at i:30471337 original size:72 final size:72
Alignment explanation
Indices: 30471220--30471356 Score: 265
Period size: 72 Copynumber: 1.9 Consensus size: 72
30471210 ACGAGAATAC
*
30471220 AATTCACTGGACCAATCTTGGAATAGTGAAATCCCATAAATTGGTGGATTAATCTTTTATGTATC
1 AATTCACTGGACCAATCTTGGAATAGTGAAAGCCCATAAATTGGTGGATTAATCTTTTATGTATC
30471285 GGAATGT
66 GGAATGT
30471292 AATTCACTGGACCAATCTTGGAATAGTGAAAGCCCATAAATTGGTGGATTAATCTTTTATGTATC
1 AATTCACTGGACCAATCTTGGAATAGTGAAAGCCCATAAATTGGTGGATTAATCTTTTATGTATC
30471357 TTATTATTAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (72 bp):
AATTCACTGGACCAATCTTGGAATAGTGAAAGCCCATAAATTGGTGGATTAATCTTTTATGTATC
GGAATGT
Found at i:30473701 original size:39 final size:39
Alignment explanation
Indices: 30473657--30473781 Score: 92
Period size: 39 Copynumber: 3.4 Consensus size: 39
30473647 AAAATTTATT
30473657 TTAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
* ***
30473696 TTAAAAAATATTTTAAAA-TATTTT-AAAATA----AAAA
1 TTAAAAATTA-AAAAAAAGTATTTTAAAAATATTTTAAAA
* *
30473730 --AATAA-T--AAAAAAGTATTTTAAAAGTATTTTAAAA
1 TTAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
30473764 TTAAAAAAATTAAAAAAA
1 TT--AAAAATTAAAAAAA
30473782 TAAATATATT
Statistics
Matches: 63, Mismatches: 9, Indels: 26
0.64 0.09 0.27
Matches are distributed among these distances:
28 4 0.06
29 6 0.10
30 5 0.08
31 1 0.02
32 4 0.06
34 8 0.13
38 10 0.16
39 16 0.25
40 4 0.06
41 5 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (39 bp):
TTAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:30473713 original size:10 final size:10
Alignment explanation
Indices: 30473670--30473764 Score: 63
Period size: 10 Copynumber: 9.5 Consensus size: 10
30473660 AAAATTAAAA
30473670 AAAAGTATTTT
1 AAAA-TATTTT
30473681 AAAAATATTTT
1 -AAAATATTTT
**
30473692 -AAA-ATTAA
1 AAAATATTTT
30473700 AAAATATTTT
1 AAAATATTTT
30473710 AAAATATTTT
1 AAAATATTTT
**
30473720 AAAATA--AA
1 AAAATATTTT
* **
30473728 AAAATAATAA
1 AAAATATTTT
30473738 AAAAGTATTTT
1 AAAA-TATTTT
30473749 AAAAGTATTTT
1 AAAA-TATTTT
30473760 AAAAT
1 AAAAT
30473765 TAAAAAAATT
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
8 9 0.13
9 6 0.09
10 26 0.38
11 24 0.35
12 4 0.06
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
AAAATATTTT
Found at i:30473733 original size:18 final size:18
Alignment explanation
Indices: 30473681--30473715 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30473671 AAAGTATTTT
*
30473681 AAAAATATTTTAAAATTA
1 AAAAATATTTTAAAATAA
30473699 AAAAATATTTTAAAATA
1 AAAAATATTTTAAAATA
30473716 TTTTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATATTTTAAAATAA
Found at i:30481528 original size:132 final size:132
Alignment explanation
Indices: 30481291--30481839 Score: 920
Period size: 132 Copynumber: 4.2 Consensus size: 132
30481281 ACTGGTGAAA
* *
30481291 CACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGTAGGTTGAAGATTGTAGATCTTATCTCTCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
30481356 GCAGTAGTGGAGCAGATCGAATACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
30481421 GC
131 GC
*
30481423 CACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
30481488 GTAGTAGAT-GAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
66 GCAGTAG-TGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
30481552 AGC
130 AGC
* *
30481555 CACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
30481620 GCAGTAGTGGAGCTGATCGAAGATGACAAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
30481685 GC
131 GC
*
30481687 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGAAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
30481752 GCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTGAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
30481817 GC
131 GC
*
30481819 CACAAAGCCTTGTCTCCCTGA
1 CACCAAGCCTTGTCTCCCTGA
30481840 AGTTGCAGTG
Statistics
Matches: 388, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 386 0.99
133 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:30481785 original size:44 final size:44
Alignment explanation
Indices: 30481341--30481789 Score: 171
Period size: 44 Copynumber: 10.2 Consensus size: 44
30481331 AAGATTGTAG
* * * *
30481341 ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAATACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * * * *
30481385 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAAATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCAA
** * * * * * ** * *
30481429 GCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* ** *
30481473 ATCTTATCTCCCTAAGTAGTAGAT-GAGCAGATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAG-TGGAGCAGATTGAAGACAGCAA
* * * *
30481517 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCAA
** * * * ** * * ** * *
30481561 GCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * *
30481605 ATCTTATCTCCCTAAGCAGTAGTGGAGCTGATCGAAGA-TGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAG-CAA
** * * *
30481649 ATCTTATCTTTCTAAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCAA
** * * * * * * * ** * *
30481693 GCCTTGTCTCCCTGAGCAGCAGCGAAGTAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
*
30481737 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
30481781 ATCTTATCT
1 ATCTTATCT
30481790 TTCCAAGATA
Statistics
Matches: 270, Mismatches: 115, Indels: 40
0.64 0.27 0.09
Matches are distributed among these distances:
41 1 0.00
42 11 0.04
43 16 0.06
44 223 0.83
45 12 0.04
46 7 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
Found at i:30481971 original size:44 final size:45
Alignment explanation
Indices: 30481908--30482794 Score: 276
Period size: 44 Copynumber: 20.4 Consensus size: 45
30481898 GATCGCATCT
*
30481908 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGTAAG-CA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAGACA
* *
30481952 AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATGACA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGAAGACA
* * * * **
30481997 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCCGACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGACA
* * * * *
30482042 A-TCCTATCTCCCTGAAGTTGCAGTGGAACGGA-TTAA-AA-TCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGACA
* * * * * * *
30482083 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T--CGCA-TCT
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGACA
* * * *
30482125 AGTCTTATCTCCCTAAAGTTGTAATAGAGCAGACT-AAGTAAG-CA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAGACA
* * *
30482169 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGATTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGAAGACA
* * ** * ** *
30482214 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTAAAGCCGATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGACA
* * * ** * * *
30482259 A-TCCTATCTTCCTAAAGTTGCAGTGGAGTGGA-TTAA-AA-CCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGAC-A
* * * * * *
30482301 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCA-TCA
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGACA
* *
30482342 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGAAGACA
* ** * ** *
30482387 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGACA
* * ** * * *
30482432 A-TCCTATCTTCCTGAAGTTGCAGTGGAGTGGA-TTAA-AA-CCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGAC-A
* * * * * * * *
30482474 GGATCTTATCTCTCTGAAGTTACAG-AGAGCAGA-T--CGCA-TCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGACA
* *
30482515 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACT-AAGTAA-TCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAGACA
* * *
30482559 AGTCTTATC-CTCCTGAAGTTGCACT-GAGGCAGACTGAAGATGGCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGAAGAC-A
* * ** * *
30482605 A-TCTTATCTCCTTGAAGTTGTAGTGTG-GCTTACTAAATAA-ACA
1 AGTCTTATCTCCCTGAAGTTGCAGTG-GAGCAGACTGAAGAAGACA
* * * * * *
30482648 AATCCTGTCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AA-CCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGACA
** * * * * * *
30482690 TAGATCTTATCTCTATGAAGTTGCAGTAGAGTAGA-T-CA-CA-TCG
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGACA
* * *
30482733 AGTCTCATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAA-AGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGA-CA
* *
30482778 AGCCTTATCCCCCTGAA
1 AGTCTTATCTCCCTGAA
30482795 ATAGCAGTAG
Statistics
Matches: 621, Mismatches: 164, Indels: 115
0.69 0.18 0.13
Matches are distributed among these distances:
39 1 0.00
40 59 0.10
41 50 0.08
42 18 0.03
43 48 0.08
44 276 0.44
45 156 0.25
46 12 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGACA
Found at i:30482056 original size:217 final size:217
Alignment explanation
Indices: 30481831--30482412 Score: 857
Period size: 217 Copynumber: 2.7 Consensus size: 217
30481821 CAAAGCCTTG
*
30481831 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATATCTCTGAAGTTGCAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
*
30481896 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATC
66 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
* *
30481961 CTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAGGTTGCAGTGGAG
131 CTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTACAGTGGAG
30482026 CAGATTAAAGCCGACAATCCTA
196 CAGATTAAAGCCGACAATCCTA
* * ***
30482048 TCTCCCTGAAGTTGCAGTGGAACGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
* * * * *
30482113 TAGATCGCATCTAGTCTTATCTCCCTAAAGTTGTAATAGAGCAGACTAAGTAAGCAAGTCTTATC
66 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
* * *
30482178 CTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAG
131 CTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTACAGTGGAG
* *
30482243 CAGGTTAAAGCCGATAATCCTA
196 CAGATTAAAGCCGACAATCCTA
* * *
30482265 TCTTCCTAAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
* * *
30482330 CAGATCGCATCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAATCT
66 CAGATCGCATCTAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAGTCT
*
30482392 TAT-CTCCCTGAAGTTGCAGTG
127 TATCCT-CCTAAAGTTGCAGTG
30482413 GAGCAGGTTA
Statistics
Matches: 326, Mismatches: 34, Indels: 9
0.88 0.09 0.02
Matches are distributed among these distances:
216 3 0.01
217 295 0.90
218 28 0.09
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (217 bp):
TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
CTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTACAGTGGAG
CAGATTAAAGCCGACAATCCTA
Found at i:30482354 original size:390 final size:390
Alignment explanation
Indices: 30481950--30482772 Score: 1163
Period size: 390 Copynumber: 2.1 Consensus size: 390
30481940 GCTAAGTAAG
*
30481950 CAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAGG
1 CAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAG
30482015 TTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAA
66 TTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAA
* * *
30482080 TCACAGATCTTATCTCTCTGAAGTTGCAGAGAGTAGATCGCATCTAGTCTTATCTCCCTAAAGTT
131 CCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTT
* * *
30482145 GTAATAGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGATTGAAGAT
196 GCAATAGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCACTGAGGCAGACTGAAGAT
* * ** *
30482210 GGCAAATCTTATCTCCCTGAAGTTACAGTG-GAGC-AGGTTAA-AGCCGATAATCCTATCTTCCT
261 GGCAAATCTTATCTCCCTGAAGTTACAGTGTG-GCTA-CTAAATAAAC-A-AATCCTATCTCCCT
* * * *
30482272 AAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATC
322 AAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTATGAAGTTGCAGTAGAGCAGATC
*
30482336 GCAT
387 ACAT
* *
30482340 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAG
* * * **
30482405 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 TTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAA
*** *
30482470 CCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTT
131 CCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTT
* * * *
30482535 GCAGTGGAGCGGACTAAGTAATCAAGTCTTATCCTCCTGAAGTTGCACTGAGGCAGACTGAAGAT
196 GCAATAGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCACTGAGGCAGACTGAAGAT
* * ** * *
30482600 GGCGAATCTTATCTCCTTGAAGTTGTAGTGTGGCTTACTAAATAAACAAATCCTGTCTCCCTGAA
261 GGCAAATCTTATCTCCCTGAAGTTACAGTGTGGC-TACTAAATAAACAAATCCTATCTCCCTAAA
*
30482665 GTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTATGAAGTTGCAGTAGAGTAGATCACA
325 GTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTATGAAGTTGCAGTAGAGCAGATCACA
30482730 T
390 T
* * *
30482731 CGAGTCTCAT-CTCCCTAAAGTTGCAGTG-GAGCAGACTCAAGA
1 CAAGTCTTATCCT-CCTAAAGTTGCAGTGAG-GCAGACTGAAGA
30482773 AAGCAAGCCT
Statistics
Matches: 383, Mismatches: 43, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
390 330 0.86
391 50 0.13
392 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (390 bp):
CAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAA
CCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTT
GCAATAGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCACTGAGGCAGACTGAAGAT
GGCAAATCTTATCTCCCTGAAGTTACAGTGTGGCTACTAAATAAACAAATCCTATCTCCCTAAAG
TTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTATGAAGTTGCAGTAGAGCAGATCACAT
Found at i:30482538 original size:84 final size:84
Alignment explanation
Indices: 30482263--30482543 Score: 277
Period size: 84 Copynumber: 3.3 Consensus size: 84
30482253 CCGATAATCC
* *
30482263 TATCTTCCTAAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAG
*
30482328 AGCAGATCGCATCAAGTCT
66 AGCAGATCGCATCTAGTCT
* * *
30482347 TATC-CTCCTGAAGTTGCAGT-GAG-GCAGACTGAAGA---TGGCAAATCTTATCTCCCTGAAGT
1 TATCTC-CCTGAAGTTGCAGTGGAGTG--GA-TTAAAACCTTGG---ATCTTATCTCTCTGAAGT
* ** *** * *
30482406 TGCAGTGGAGCAGGTTAAAGCCGATAATCC
59 TGCAG-AGAGCA-G--ATCGCATCTAGTCT
* *
30482436 TATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAG
30482501 AGCAGATCGCATCTAGTCT
66 AGCAGATCGCATCTAGTCT
30482520 TATCTCCCTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
30482544 CGGACTAAGT
Statistics
Matches: 152, Mismatches: 28, Indels: 34
0.71 0.13 0.16
Matches are distributed among these distances:
82 4 0.03
83 3 0.02
84 49 0.32
85 26 0.17
86 6 0.04
87 6 0.04
88 25 0.16
89 26 0.17
90 3 0.02
91 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAG
AGCAGATCGCATCTAGTCT
Found at i:30482561 original size:217 final size:218
Alignment explanation
Indices: 30482338--30482794 Score: 609
Period size: 217 Copynumber: 2.1 Consensus size: 218
30482328 AGCAGATCGC
*
30482338 ATCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGA
1 ATCAAGTCTTATCCTCCTGAAGTTGCACTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGA
* * ** * *
30482403 AGTTGCAGTG-GAGC-AGGTTAA-AGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGAT
66 AGTTGCAGTGTG-GCTA-CTAAATAAAC-A-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
* * * * * *
30482465 TAAAACCTTGGATCTTATCTCTCTGAAGTTACAG-AGAGCAGATCGCATCTAGTCTTATCTCCCT
127 TAAAACCATAGATCTTATCTCTATGAAGTTACAGTAGAGCAGATCACATCGAGTCTCATCTCCCT
* * *
30482529 GAAGTTGCAGTGGAGCGGACT-AAGTA
192 AAAGTTGCAGTGGAGCAGACTCAAGAA
* *
30482555 ATCAAGTCTTATCCTCCTGAAGTTGCACTGAGGCAGACTGAAGATGGCGAATCTTATCTCCTTGA
1 ATCAAGTCTTATCCTCCTGAAGTTGCACTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGA
* *
30482620 AGTTGTAGTGTGGCTTACTAAATAAACAAATCCTGTCTCCCTGAAGTTGCAGTGGAGCGGATTAA
66 AGTTGCAGTGTGGC-TACTAAATAAACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA
* *
30482685 AACCATAGATCTTATCTCTATGAAGTTGCAGTAGAGTAGATCACATCGAGTCTCATCTCCCTAAA
130 AACCATAGATCTTATCTCTATGAAGTTACAGTAGAGCAGATCACATCGAGTCTCATCTCCCTAAA
30482750 GTTGCAGTGGAGCAGACTCAAGAA
195 GTTGCAGTGGAGCAGACTCAAGAA
* * *
30482774 AGCAAGCCTTATCCCCCTGAA
1 ATCAAGTCTTATCCTCCTGAA
30482795 ATAGCAGTAG
Statistics
Matches: 209, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
217 134 0.64
218 50 0.24
219 25 0.12
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (218 bp):
ATCAAGTCTTATCCTCCTGAAGTTGCACTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGA
AGTTGCAGTGTGGCTACTAAATAAACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
ACCATAGATCTTATCTCTATGAAGTTACAGTAGAGCAGATCACATCGAGTCTCATCTCCCTAAAG
TTGCAGTGGAGCAGACTCAAGAA
Found at i:30482565 original size:84 final size:83
Alignment explanation
Indices: 30481831--30482581 Score: 260
Period size: 84 Copynumber: 8.7 Consensus size: 83
30481821 CAAAGCCTTG
* * ** *
30481831 TCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTTGGATCTTATATCTCTGAAGTTGCAGAGA
1 TCTCCCTGAAGTTGCAGTGGAGCGGACTAAGAATC-AAG-TCTTATCTCTCTGAAGTTGCAGAGA
30481895 GCAGATCGCATCTAGTCTTA
64 GCAGATCGCATCTAGTCTTA
* * *
30481915 TCTCCCTGAAGTTGCAGTGGAGCAGG-CTAAGTAAGCAAGTCTTATC-CTCCTAAAGTTGCAGTG
1 TCTCCCTGAAGTTGCAGTGGAGC-GGACTAAG-AATCAAGTCTTATCTCT-CTGAAGTTGCAGAG
* * *
30481978 AGGCAGA-CTGAAGATGACAAATCTTA
63 A-GCAGATC-G--CAT--CTAGTCTTA
* * * * * * *
30482004 TCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCCGA-CAA-TCCTATCTCCCTGAAGTTGCAGTG
1 TCTCCCTGAAGTTGCAGTGGAGCGGACT-AAG--AATCAAGTCTTATCTCTCTGAAGTTGCAG-A
* * *** *
30482067 GAACGGATTAAAATCACAGATCTTA
62 GAGCAGA-TCGCATC-TAG-TCTTA
* * ** * * * * * * *
30482092 TCTCTCTGAAGTTGCAG-AGAGTAGA-T-CGCATCTAGTCTTATCTCCCTAAAGTTGTAATAGAG
1 TCTCCCTGAAGTTGCAGTGGAGCGGACTAAGAATCAAGTCTTATCTCTCTGAAGTTG-CAGAGAG
* * * *
30482154 CAGACTAAGTAAGCAAGTCTTA
65 CAGA-T-CG-CATCTAGTCTTA
* * * * *
30482176 TC-CTCCTGAAGTTGCAGT-GAGGCAGATTGAAG-ATGGCAAATCTTATCTCCCTGAAGTTACAG
1 TCTC-CCTGAAGTTGCAGTGGA-GCGGACT-AAGAAT--CAAGTCTTATCTCTCTGAAGTTGCAG
* ** *** * *
30482238 TGGAGCAGGTTAAAGCCGATAATCCTA
61 -AGAGCA-G--ATCGCATCTAGTCTTA
* * * * * **
30482265 TCTTCCTAAAGTTGCAGTGGAGTGGATTAA-AACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
1 TCTCCCTGAAGTTGCAGTGGAGCGGACTAAGAATC-AAG-TCTTATCTCTCTGAAGTTGCAGAGA
*
30482329 GCAGATCGCATCAAGTCTTA
64 GCAGATCGCATCTAGTCTTA
* * *
30482349 TC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAATCTTATCTCCCTGAAGTTGCAG
1 TCTC-CCTGAAGTTGCAGTGGA-GCGGACT-AAGAAT--CAAGTCTTATCTCTCTGAAGTTGCAG
* ** *** * *
30482411 TGGAGCAGGTTAAAGCCGATAATCCTA
61 -AGAGCA-G--ATCGCATCTAGTCTTA
* * * * ** *
30482438 TCTTCCTGAAGTTGCAGTGGAGTGGATTAA-AACCTTGGATCTTATCTCTCTGAAGTTACAGAGA
1 TCTCCCTGAAGTTGCAGTGGAGCGGACTAAGAATC-AAG-TCTTATCTCTCTGAAGTTGCAGAGA
30482502 GCAGATCGCATCTAGTCTTA
64 GCAGATCGCATCTAGTCTTA
30482522 TCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAATCAAGTCTTATC-CTCCTGAAGTTGCA
1 TCTCCCTGAAGTTGCAGTGGAGCGGACTAAG-AATCAAGTCTTATCTCT-CTGAAGTTGCA
30482582 CTGAGGCAGA
Statistics
Matches: 484, Mismatches: 124, Indels: 118
0.67 0.17 0.16
Matches are distributed among these distances:
82 1 0.00
83 9 0.02
84 171 0.35
85 42 0.09
86 21 0.04
87 23 0.05
88 71 0.15
89 128 0.26
90 16 0.03
91 1 0.00
92 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (83 bp):
TCTCCCTGAAGTTGCAGTGGAGCGGACTAAGAATCAAGTCTTATCTCTCTGAAGTTGCAGAGAGC
AGATCGCATCTAGTCTTA
Found at i:30482624 original size:173 final size:171
Alignment explanation
Indices: 30482167--30482584 Score: 603
Period size: 173 Copynumber: 2.4 Consensus size: 171
30482157 ACTAAGTAAG
*
30482167 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT-GCAAATCTTATCTCCCTGAAG
* * * * *
30482232 TTACAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTAAAGTTGCAGTGGAGTGGATTAAAA
65 TTGCACTGGAGCAGCTGAAAGCCGA-AATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
*
30482297 CCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAT
129 CCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCAT
30482340 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT-GCAAATCTTATCTCCCTGAAG
* * *
30482405 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
65 TTGCACTGGAGCAGCTGAAAGCCGA-AATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
30482470 CCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCAT
129 CCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCAT
* * *
30482513 CTAGTCTTAT-CTCCCTGAAGTTGCAGTG-GAGCGGACT-AAGTAAT-CAAGTCTTATC-CTCCT
1 CAAGTCTTATCCT-CCTGAAGTTGCAGTGAG-GCAGACTGAAG--ATGCAAATCTTATCTC-CCT
30482573 GAAGTTGCACTG
61 GAAGTTGCACTG
30482585 AGGCAGACTG
Statistics
Matches: 232, Mismatches: 8, Indels: 11
0.92 0.03 0.04
Matches are distributed among these distances:
171 1 0.00
172 30 0.13
173 199 0.86
174 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (171 bp):
CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGCAAATCTTATCTCCCTGAAGT
TGCACTGGAGCAGCTGAAAGCCGAAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACC
TTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCAT
Found at i:30482842 original size:217 final size:217
Alignment explanation
Indices: 30482340--30482846 Score: 526
Period size: 217 Copynumber: 2.3 Consensus size: 217
30482330 CAGATCGCAT
* * * * * ** *
30482340 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGCCTTATCCCCCTGAAATAGCACTGAGGCAGACTGAAGATAACAAATCCTATCTCCCTGAAG
* * * ** * *
30482405 TTGCAGTG-GAGC--AGGTTAA-AGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATT
66 TTGTAGTGTG-GCTTA-CTAAATAAAC-A-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT
* * * * * * *
30482466 AAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGA
127 AAAACCATAGATCTTATCTCTATGAAGTTACAGAGAGCAGATCACATCGAGTCTCATCTCCCTAA
* * *
30482531 AGTTGCAGTGGAGCGGACTAAGTAAT
192 AGTTGCAGTGGAGCAGACTAAGAAAG
* * * * ** * * *
30482557 CAAGTCTTATCCTCCTGAAGTTGCACTGAGGCAGACTGAAGATGGCGAATCTTATCTCCTTGAAG
1 CAAGCCTTATCCCCCTGAAATAGCACTGAGGCAGACTGAAGATAACAAATCCTATCTCCCTGAAG
*
30482622 TTGTAGTGTGGCTTACTAAATAAACAAATCCTGTCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
66 TTGTAGTGTGGCTTACTAAATAAACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
* *
30482687 CCATAGATCTTATCTCTATGAAGTTGCAGTAGAGTAGATCACATCGAGTCTCATCTCCCTAAAGT
131 CCATAGATCTTATCTCTATGAAGTTACAG-AGAGCAGATCACATCGAGTCTCATCTCCCTAAAGT
30482752 TGCAGTGGAGCAGACTCAAGAAAG
195 TGCAGTGGAGCAGACT-AAGAAAG
* * *
30482776 CAAGCCTTATCCCCCTGAAATAGCAGT-AGGGCATACT-AA-ATAAACAAATCCTGTCTCCCT-A
1 CAAGCCTTATCCCCCTGAAATAGCACTGA-GGCAGACTGAAGAT-AACAAATCCTATCTCCCTGA
30482837 AGTTGTAGTG
64 AGTTGTAGTG
30482847 GGGTGGATTA
Statistics
Matches: 247, Mismatches: 35, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
217 145 0.59
218 65 0.26
219 37 0.15
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (217 bp):
CAAGCCTTATCCCCCTGAAATAGCACTGAGGCAGACTGAAGATAACAAATCCTATCTCCCTGAAG
TTGTAGTGTGGCTTACTAAATAAACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
CCATAGATCTTATCTCTATGAAGTTACAGAGAGCAGATCACATCGAGTCTCATCTCCCTAAAGTT
GCAGTGGAGCAGACTAAGAAAG
Found at i:30482855 original size:390 final size:390
Alignment explanation
Indices: 30481950--30482888 Score: 1047
Period size: 390 Copynumber: 2.4 Consensus size: 390
30481940 GCTAAGTAAG
* * * * * *
30481950 CAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAG-ATGACAAATCTTATCTCCCTGAG
1 CAAGTCTCATCCTCCTAAAGTTGCAGTGAGGCAGACTCAAGAAAG-CAAACCTTATCCCCCTGAA
* * * ** * **
30482014 GTTGCAGTGGAGCAGA-TTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAA
65 ATAGCAGTGGAGCA-ACTAAAAAACGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAA
* ** * *
30482078 AATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGTAGATCGCATCTAGTCTTATCTCCCTAAAG
129 AACCATGGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAG
* * *
30482143 TTGTAATAGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGATTGAAG
194 TTGCAATAGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCACTGAGGCAGACTGAAG
* * ** *
30482208 ATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTA
259 ATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGCTAAAAAACGATAATCCTATCTCCCTA
* * * * *
30482273 AAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGC
324 AAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTATGAAGTTGCAGAGAGCAGATCAC
30482338 AT
389 AT
* * * ** * * *
30482340 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTCATCCTCCTAAAGTTGCAGTGAGGCAGACTCAAGAAAGCAAACCTTATCCCCCTGAAA
* ** * ** *
30482405 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 TAGCAGTGGAGCAACTAAAAAACGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA
* *
30482470 CCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTT
131 CCATGGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTT
* * * *
30482535 GCAGTGGAGCGGACTAAGTAATCAAGTCTTATCCTCCTGAAGTTGCACTGAGGCAGACTGAAGAT
196 GCAATAGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCACTGAGGCAGACTGAAGAT
* * ** *
30482600 GGCGAATCTTATCTCCTTGAAGTTGTAGTGTG-GCTTA-CTAAATAAAC-A-AATCCTGTCTCCC
261 GGCAAATCTTATCTCCCTGAAGTTACAGTG-GAGC--AGCTAAA-AAACGATAATCCTATCTCCC
* *
30482661 TGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTATGAAGTTGCAGTAGAGTAGAT
322 TAAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTATGAAGTTGCAG-AGAGCAGAT
30482726 CACAT
386 CACAT
* *
30482731 CGAGTCTCAT-CTCCCTAAAGTTGCAGTG-GAGCAGACTCAAGAAAGCAAGCCTTATCCCCCTGA
1 CAAGTCTCATCCT-CCTAAAGTTGCAGTGAG-GCAGACTCAAGAAAGCAAACCTTATCCCCCTGA
* * *
30482794 AATAGCAGTAGG-GCATACTAAATAAAC-A-AATCCTGTCTCCCT-AAGTTGTAGTGGGGTGGAT
64 AATAGCAGT-GGAGCA-ACTAAA-AAACGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT
* *** * *
30482855 TAGAGTGATGGATTTTATCTCTCTGAAATTACAG
126 TAAAACCATGGATCTTATCTCTCTGAAGTTACAG
30482889 TTAAGCAGAT
Statistics
Matches: 470, Mismatches: 67, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
390 370 0.79
391 89 0.19
392 9 0.02
393 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (390 bp):
CAAGTCTCATCCTCCTAAAGTTGCAGTGAGGCAGACTCAAGAAAGCAAACCTTATCCCCCTGAAA
TAGCAGTGGAGCAACTAAAAAACGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA
CCATGGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTT
GCAATAGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCACTGAGGCAGACTGAAGAT
GGCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGCTAAAAAACGATAATCCTATCTCCCTAAA
GTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTATGAAGTTGCAGAGAGCAGATCACAT
Found at i:30483171 original size:17 final size:18
Alignment explanation
Indices: 30483157--30483240 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 18
30483147 ATAATCTTCG
30483157 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
30483175 TATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
*
30483194 TATGATATATGCAATCTTAGA
1 -A-G-GATATGCAATCTTAGA
* *
30483215 TATGATATGTAATCTTAGA
1 -AGGATATGCAATCTTAGA
30483234 A-GATATG
1 AGGATATG
30483241 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
17 6 0.11
18 1 0.02
19 33 0.58
21 17 0.30
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:30483183 original size:19 final size:19
Alignment explanation
Indices: 30483159--30483233 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
30483149 AATCTTCGAG
30483159 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
30483178 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
30483197 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
30483218 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
30483234 AGATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.64
21 19 0.36
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:30483205 original size:21 final size:21
Alignment explanation
Indices: 30483160--30483222 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
30483150 ATCTTCGAGG
30483160 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
30483179 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
30483200 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
30483221 AT
1 AT
30483223 GTAATCTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:30483252 original size:23 final size:22
Alignment explanation
Indices: 30483172--30483256 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
30483162 ATGCAATCTT
*
30483172 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
30483193 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
30483212 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
30483234 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
30483257 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:30483266 original size:22 final size:23
Alignment explanation
Indices: 30483222--30483266 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
30483212 AGATATGATA
*
30483222 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
30483245 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
30483267 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:30483391 original size:17 final size:17
Alignment explanation
Indices: 30483369--30483401 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30483359 TGTAAAAAAG
30483369 AAAAA-GGAGAATCAATA
1 AAAAAGGGAGAA-CAATA
30483386 AAAAAGGGAGAACAAT
1 AAAAAGGGAGAACAAT
30483402 TGGCAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.64, C:0.06, G:0.21, T:0.09
Consensus pattern (17 bp):
AAAAAGGGAGAACAATA
Found at i:30483462 original size:19 final size:21
Alignment explanation
Indices: 30483438--30483476 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
30483428 GTTTTCTTTT
*
30483438 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
30483457 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
30483477 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:30483707 original size:3 final size:3
Alignment explanation
Indices: 30483680--30483726 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
30483670 GATTTTTAGT
* *
30483680 TTA TT- TTA TTAA TT- TTA TCA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30483724 TTA
1 TTA
30483727 CTATATATAC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.81
4 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:30483760 original size:26 final size:25
Alignment explanation
Indices: 30483731--30483894 Score: 125
Period size: 24 Copynumber: 6.9 Consensus size: 25
30483721 TTATTACTAT
*
30483731 ATATACATATGCATTTTTTTATAATA
1 ATATACATACGCATTTTTTTAT-ATA
30483757 ATATACATACGCATTTTTTTATAATA
1 ATATACATACGCATTTTTTTAT-ATA
* *
30483783 ATAT--ATACACATTTTTATATATA
1 ATATACATACGCATTTTTTTATATA
* * *
30483806 GTATGC--ACGC--GTTTTTATATA
1 ATATACATACGCATTTTTTTATATA
* *
30483827 ATATATATATGCA-TTTTTTATATA
1 ATATACATACGCATTTTTTTATATA
* *
30483851 GTATGC--ACGCA-TTTTTTATATA
1 ATATACATACGCATTTTTTTATATA
* *
30483873 ATATATATATGC-TTTTTTTATA
1 ATATACATACGCATTTTTTTATA
30483895 GTATACGTCT
Statistics
Matches: 110, Mismatches: 20, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
21 12 0.11
22 18 0.16
23 12 0.11
24 39 0.35
26 29 0.26
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (25 bp):
ATATACATACGCATTTTTTTATATA
Found at i:30483761 original size:28 final size:27
Alignment explanation
Indices: 30483728--30483791 Score: 103
Period size: 26 Copynumber: 2.4 Consensus size: 27
30483718 TTATTATTAC
*
30483728 TATATATACATATGCATTTTTTTATAA
1 TATATATACATACGCATTTTTTTATAA
30483755 TA-ATATACATACGCATTTTTTTATAA
1 TATATATACATACGCATTTTTTTATAA
30483781 TAATATATACA
1 T-ATATATACA
30483792 CATTTTTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 24 0.71
27 3 0.09
28 7 0.21
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (27 bp):
TATATATACATACGCATTTTTTTATAA
Found at i:30483790 original size:24 final size:24
Alignment explanation
Indices: 30483741--30483894 Score: 131
Period size: 23 Copynumber: 6.5 Consensus size: 24
30483731 ATATACATAT
30483741 GCATTTTTTTATAATAATATACATAC
1 GCATTTTTTTATAATAATAT--ATAC
30483767 GCATTTTTTTATAATAATATATAC
1 GCATTTTTTTATAATAATATATAC
* * * **
30483791 ACATTTTTATAT-ATAGTATGCAC
1 GCATTTTTTTATAATAATATATAC
* * *
30483814 GCGTTTTTATATAAT-ATATATAT
1 GCATTTTTTTATAATAATATATAC
* **
30483837 GCA-TTTTTTAT-ATAGTATGCAC
1 GCATTTTTTTATAATAATATATAC
*
30483859 GCATTTTTTATATAAT-ATATATAT
1 GCATTTTTT-TATAATAATATATAC
30483883 GC-TTTTTTTATA
1 GCATTTTTTTATA
30483895 GTATACGTCT
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
21 2 0.02
22 18 0.18
23 35 0.34
24 25 0.25
25 2 0.02
26 20 0.20
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (24 bp):
GCATTTTTTTATAATAATATATAC
Found at i:30483842 original size:46 final size:45
Alignment explanation
Indices: 30483731--30483898 Score: 196
Period size: 46 Copynumber: 3.6 Consensus size: 45
30483721 TTATTACTAT
* * * *
30483731 ATATACATATGCATTTTTTTATAATAATATACATACGCATTTTTTTATA
1 ATATATATATGCA-TTTTTTAT-ATAGTATGC--ACGCATTTTTATATA
** *
30483780 ATAATATATACACATTTTTATATATAGTATGCACGCGTTTTTATATA
1 AT-ATATATATGCATTTTT-TATATAGTATGCACGCATTTTTATATA
30483827 ATATATATATGCATTTTTTATATAGTATGCACGCATTTTTTATATA
1 ATATATATATGCATTTTTTATATAGTATGCACGCA-TTTTTATATA
30483873 ATATATATATGC-TTTTTT-TATAGTAT
1 ATATATATATGCATTTTTTATATAGTAT
30483899 ACGTCTACCT
Statistics
Matches: 106, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
44 8 0.08
45 22 0.21
46 36 0.34
47 15 0.14
49 14 0.13
50 11 0.10
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (45 bp):
ATATATATATGCATTTTTTATATAGTATGCACGCATTTTTATATA
Found at i:30484126 original size:32 final size:33
Alignment explanation
Indices: 30484090--30484151 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
30484080 ATGATTTACC
* * *
30484090 AATATATACTTATAC-ATCTTTTTTATTTTGTA
1 AATATATACATATACAAACTTTTCTATTTTGTA
30484122 AATATATACATATACAAACTTTTCTATTTT
1 AATATATACATATACAAACTTTTCTATTTT
30484152 TATCTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.52
Consensus pattern (33 bp):
AATATATACATATACAAACTTTTCTATTTTGTA
Found at i:30489393 original size:23 final size:22
Alignment explanation
Indices: 30489350--30489393 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
30489340 TTCTAAGCCG
30489350 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
30489373 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
30489394 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:30489495 original size:45 final size:45
Alignment explanation
Indices: 30489438--30489526 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
30489428 AACAGATACT
* * *
30489438 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATAATGTC
1 CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATAATGTC
*
30489483 CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATAATGT
30489527 TTGGTTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATAATGTC
Found at i:30489704 original size:50 final size:49
Alignment explanation
Indices: 30489537--30489710 Score: 271
Period size: 47 Copynumber: 3.5 Consensus size: 49
30489527 TTGGTTCACA
* *
30489537 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCGATACACG
30489588 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-GATACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCGATACACG
*
30489635 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTTCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-TTCGATACACG
*
30489685 TAGTAGCCTGCACATAGTACTTCACA
1 TAGTAGCCTGCACATAGTACTACACA
30489711 CGTGACCATC
Statistics
Matches: 116, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
47 46 0.40
48 1 0.01
49 5 0.04
50 32 0.28
51 32 0.28
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCGATACACG
Found at i:30491003 original size:48 final size:48
Alignment explanation
Indices: 30490942--30491038 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 48
30490932 TCATGCTATG
* * * * *
30490942 CATTACTAAACTTGGTCTTTCATTGTCTACATTTTTATCATTATTTAT
1 CATTACTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTAT
*
30490990 CATTGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTAT
1 CATTACTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTAT
30491038 C
1 C
30491039 CCTTCTTGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.24, C:0.23, G:0.07, T:0.46
Consensus pattern (48 bp):
CATTACTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTAT
Found at i:30491461 original size:54 final size:54
Alignment explanation
Indices: 30491368--30491473 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
30491358 TTGAAGTTGG
* * *
30491368 GACACACGGTCATGTCCCAGCCTGTGTCCTTACCTGTGTAACTCATTGACTTGA
1 GACACACGGTCATGTCCCAGCCCGTGTCCTTACCCGTGTAACTCACTGACTTGA
** *
30491422 GACACACGGTTGTGTCTCAGCCCGTGT-CTCTACCCGTGTAACTCACTGACTT
1 GACACACGGTCATGTCCCAGCCCGTGTCCT-TACCCGTGTAACTCACTGACTT
30491474 AGGTCATACG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 2 0.04
54 43 0.96
ACGTcount: A:0.19, C:0.31, G:0.21, T:0.29
Consensus pattern (54 bp):
GACACACGGTCATGTCCCAGCCCGTGTCCTTACCCGTGTAACTCACTGACTTGA
Found at i:30493074 original size:13 final size:13
Alignment explanation
Indices: 30493057--30493089 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
30493047 AACAATTAAA
30493057 TCACATTT-ATAT
1 TCACATTTCATAT
30493069 TACACATTTCATAT
1 T-CACATTTCATAT
30493083 TCACATT
1 TCACATT
30493090 AAATTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 13 0.68
14 5 0.26
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.45
Consensus pattern (13 bp):
TCACATTTCATAT
Found at i:30493533 original size:14 final size:14
Alignment explanation
Indices: 30493505--30493540 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
30493495 CTTTCTCTCC
30493505 TTCTTTTC-GTTCT
1 TTCTTTTCTGTTCT
*
30493518 TTCTTTTCTTTTCT
1 TTCTTTTCTGTTCT
30493532 TTCTTTTCT
1 TTCTTTTCT
30493541 AATTTTCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (14 bp):
TTCTTTTCTGTTCT
Found at i:30495634 original size:14 final size:14
Alignment explanation
Indices: 30495615--30495642 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30495605 ATACCCATTC
30495615 ATATGCTCAATATA
1 ATATGCTCAATATA
30495629 ATATGCTCAATATA
1 ATATGCTCAATATA
30495643 TTCATTAAAT
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:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
ATATGCTCAATATA
Found at i:30497623 original size:50 final size:51
Alignment explanation
Indices: 30497440--30497625 Score: 180
Period size: 51 Copynumber: 3.7 Consensus size: 51
30497430 AGTTCACATG
* * * ** *
30497440 GTAGTCTGCACATAGTACTACACATGTGAGCATTTTCA-TCCGATACACGTA
1 GTAGCCTGCACATAGTACTACACACGTGA-CCTAGTCATTCCGGTACACGTA
** * * * *
30497491 GTAGCCTGCACATAGTACTACACACGTGATCGAAGTTATT-CAGTACGCATA
1 GTAGCCTGCACATAGTACTACACACGTGA-CCTAGTCATTCCGGTACACGTA
* * *
30497542 GTAGCCTGCACATAGTATTACACATGCGACCTA-TCATTCCGGTACACGTA
1 GTAGCCTGCACATAGTACTACACACGTGACCTAGTCATTCCGGTACACGTA
* *
30497592 GTAGCCTACACATAGTACTACACACATGACCTAG
1 GTAGCCTGCACATAGTACTACACACGTGACCTAG
30497626 CAACTTCACT
Statistics
Matches: 106, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
49 4 0.04
50 38 0.36
51 63 0.59
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (51 bp):
GTAGCCTGCACATAGTACTACACACGTGACCTAGTCATTCCGGTACACGTA
Found at i:30499989 original size:152 final size:153
Alignment explanation
Indices: 30499742--30500038 Score: 569
Period size: 152 Copynumber: 1.9 Consensus size: 153
30499732 TGGAATTATT
*
30499742 AACAAATCAACAGGGAATGTTATATTCTGTATATCTAACGGGCATCACCTACACACTTGATCCAC
1 AACAAATCAACAAGGAATGTTATATTCTGTATATCTAACGGGCATCACCTACACACTTGATCCAC
*
30499807 TATTATAGACTGCCCCAAAGGACTTGACACAACTATTGAT-CCCTAGACGTCTTGGCTTTTAAAC
66 TATTATAGACTGCCCCAAAGGACTTGACACAACTATTGATACCCTAAACGTCTTGGCTTTTAAAC
30499871 TTCCCGATTTAACTAACTTAGCA
131 TTCCCGATTTAACTAACTTAGCA
30499894 AACAAATCAACAAGGAATGTTATATTCTGTATATCTAACGGGCATCACCTACACACTTGATCCAC
1 AACAAATCAACAAGGAATGTTATATTCTGTATATCTAACGGGCATCACCTACACACTTGATCCAC
30499959 TATTATAGACTGCCCCAAAGGACTTGACACAACTATTGATACCCTAAACGTCTTGGCTTTTAAAC
66 TATTATAGACTGCCCCAAAGGACTTGACACAACTATTGATACCCTAAACGTCTTGGCTTTTAAAC
30500024 TTCCCGATTTAACTA
131 TTCCCGATTTAACTA
30500039 TCTCAACATT
Statistics
Matches: 142, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
152 104 0.73
153 38 0.27
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (153 bp):
AACAAATCAACAAGGAATGTTATATTCTGTATATCTAACGGGCATCACCTACACACTTGATCCAC
TATTATAGACTGCCCCAAAGGACTTGACACAACTATTGATACCCTAAACGTCTTGGCTTTTAAAC
TTCCCGATTTAACTAACTTAGCA
Found at i:30500351 original size:39 final size:39
Alignment explanation
Indices: 30500297--30500374 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
30500287 CCACAGCAAA
* *
30500297 AACAAGCTCGAGTTAGCTTCCAACATTCACCTTGGTGTT
1 AACAACCTCGAGTTAGCTTCCAACATTCACCATGGTGTT
30500336 AACAACCTCGAGTTAGCTTCCAACATTCACCATGGTGTT
1 AACAACCTCGAGTTAGCTTCCAACATTCACCATGGTGTT
30500375 TTTCCCACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (39 bp):
AACAACCTCGAGTTAGCTTCCAACATTCACCATGGTGTT
Found at i:30501750 original size:48 final size:47
Alignment explanation
Indices: 30501669--30501769 Score: 150
Period size: 48 Copynumber: 2.1 Consensus size: 47
30501659 ATAAATCATG
30501669 TTATGCATTACTAAACTTGGTCTTCCACTGTCTAC-ACTCTTATCACTAT
1 TTAT-CATTACTAAACTTGGTCTTCCACTGTCTACGA-TCTTAT-ACTAT
* *
30501718 TTATCATTGCTAAACTTGGTCTTCTACTGTCTACGATCTTATACTAT
1 TTATCATTACTAAACTTGGTCTTCCACTGTCTACGATCTTATACTAT
30501765 TTATC
1 TTATC
30501770 CCCTATTGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
47 10 0.20
48 34 0.69
49 5 0.10
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.44
Consensus pattern (47 bp):
TTATCATTACTAAACTTGGTCTTCCACTGTCTACGATCTTATACTAT
Found at i:30513513 original size:17 final size:18
Alignment explanation
Indices: 30513493--30513528 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
30513483 CACACTCATT
30513493 TTCTCAATGTTTTT-TTC
1 TTCTCAATGTTTTTCTTC
*
30513510 TTCTCCATGTTTTTCTTC
1 TTCTCAATGTTTTTCTTC
30513528 T
1 T
30513529 ATTGCTTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.08, C:0.22, G:0.06, T:0.64
Consensus pattern (18 bp):
TTCTCAATGTTTTTCTTC
Found at i:30522150 original size:5 final size:5
Alignment explanation
Indices: 30522140--30522164 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30522130 TTGTATACGA
30522140 ATCAT ATCAT ATCAT ATCAT ATCAT
1 ATCAT ATCAT ATCAT ATCAT ATCAT
30522165 GTCCTACCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
ATCAT
Found at i:30524987 original size:34 final size:35
Alignment explanation
Indices: 30524943--30525009 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
30524933 CAGTAAAATA
*
30524943 TTTTCCGTAAAATGATTT-CAGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
* *
30524977 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTT
30525010 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
Found at i:30526198 original size:16 final size:16
Alignment explanation
Indices: 30526179--30526212 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
30526169 TTTTTTTAAA
30526179 TTTCCTTTATTTCATT
1 TTTCCTTTATTTCATT
*
30526195 TTTCCTTTGTTTCATT
1 TTTCCTTTATTTCATT
30526211 TT
1 TT
30526213 CTATGTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTCCTTTATTTCATT
Found at i:30530334 original size:11 final size:11
Alignment explanation
Indices: 30530315--30530362 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
30530305 TTATATCAAC
30530315 AAATGATTTTA
1 AAATGATTTTA
*
30530326 AAATTATTTTTA
1 AAATGA-TTTTA
30530338 AAA--ATTATTA
1 AAATGATT-TTA
30530348 AAATGATTTTA
1 AAATGATTTTA
30530359 AAAT
1 AAAT
30530363 CATCATCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 2 0.06
10 7 0.22
11 12 0.38
12 11 0.34
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (11 bp):
AAATGATTTTA
Found at i:30530556 original size:20 final size:20
Alignment explanation
Indices: 30530528--30530567 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
30530518 CTGTATTAAA
*
30530528 GAAATCTGTTCTTAAAATTC
1 GAAACCTGTTCTTAAAATTC
30530548 GAAACCTGTTCTTAAAATTC
1 GAAACCTGTTCTTAAAATTC
30530568 TTACACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (20 bp):
GAAACCTGTTCTTAAAATTC
Found at i:30531781 original size:22 final size:22
Alignment explanation
Indices: 30531756--30531847 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 22
30531746 AAATTCAATA
* *
30531756 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
30531778 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
*
30531800 TCAATTCCCTTCAAAATTTC-C
1 TCAATTCCCTTCAAAAATTCTC
* *
30531821 ATCAATTTCCTTCCAAAATTCTC
1 -TCAATTCCCTTCAAAAATTCTC
30531844 TCAA
1 TCAA
30531848 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 1 0.02
22 60 0.97
23 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:30531813 original size:44 final size:44
Alignment explanation
Indices: 30531756--30531847 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
30531746 AAATTCAATA
* * *
30531756 TCAATTTCTTTCAAAAATTCTC-TCAA-TTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTC-CATCAATTTCCTTCCAAAA-TTCTC
*
30531800 TCAATTCCCTTCAAAATTTCCATCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
30531844 TCAA
1 TCAA
30531848 ACTCTCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 30 0.71
45 11 0.26
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (44 bp):
TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
Found at i:30531863 original size:52 final size:52
Alignment explanation
Indices: 30531797--30531896 Score: 125
Period size: 52 Copynumber: 1.9 Consensus size: 52
30531787 TTCAAAATTT
* *
30531797 CTCTCAATTCCCTT-CAAAATTTCC-ATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA--TCCTATCAATTTCCTTCAAAAAATCTCTCAAA
*
30531849 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCT
30531897 AAATCCATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
51 3 0.07
52 30 0.71
53 9 0.21
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (52 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCTCAAA
Found at i:30531896 original size:22 final size:22
Alignment explanation
Indices: 30531849--30531890 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
30531839 TTCTCTCAAA
*
30531849 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCAAAAATC
*
30531871 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCAAAAA
30531891 ATCTCTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCAAAAATC
Found at i:30534294 original size:23 final size:24
Alignment explanation
Indices: 30534258--30534347 Score: 76
Period size: 23 Copynumber: 3.8 Consensus size: 24
30534248 ACATTATTTG
* *
30534258 ATTAAAATCTCTAACCCTACTT-A
1 ATTAAAAACCCTAACCCTACTTAA
* ** *
30534281 CTTAAAAACCCTAA-TTTAATTAA
1 ATTAAAAACCCTAACCCTACTTAA
30534304 ATTAAAAACCCTAAACCCTACTTAA
1 ATTAAAAACCCT-AACCCTACTTAA
* * *
30534329 TTTTATAACCCTAACCCTA
1 ATTAAAAACCCTAACCCTA
30534348 ACCTAATTTA
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
22 4 0.08
23 23 0.45
24 9 0.18
25 15 0.29
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (24 bp):
ATTAAAAACCCTAACCCTACTTAA
Found at i:30534376 original size:28 final size:28
Alignment explanation
Indices: 30534341--30534587 Score: 292
Period size: 28 Copynumber: 9.4 Consensus size: 28
30534331 TTATAACCCT
**
30534341 AACCCTAACCTAATTTAATTAAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
30534369 AACCCTAACCTAACCTAATTAAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
***
30534397 AACCCTAACCTTATTTTAATTAAATTAAA
1 AACCCTAACC-TAACCTAATTAAATTAAA
*
30534426 AA-CCTAACCTAACCTACTTAAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
*
30534453 AACCCTAACCTAACCTAATTTAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
30534481 AACCCTAACCTAA--T--TT-AATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
30534504 AACCCTAACCTAA--T--TT-AATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
* *
30534527 AACCCTAACCTAACCTAATTTAATTCAA
1 AACCCTAACCTAACCTAATTAAATTAAA
30534555 AACCCTAACCTAA--T--TT-AATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
30534578 AACCCTAACC
1 AACCCTAACC
30534588 CTATTTAATT
Statistics
Matches: 199, Mismatches: 13, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
23 59 0.30
24 4 0.02
25 1 0.01
26 2 0.01
27 18 0.09
28 98 0.49
29 17 0.09
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (28 bp):
AACCCTAACCTAACCTAATTAAATTAAA
Found at i:30534388 original size:23 final size:23
Alignment explanation
Indices: 30534362--30534608 Score: 183
Period size: 23 Copynumber: 9.7 Consensus size: 23
30534352 AATTTAATTA
30534362 AATTAAAAACCCTAACCTAACCTAATT
1 AATTAAAAACCCTAACCTAA-C---TT
*
30534389 AAATTAAAAACCCTAACCTTATTTTAATT
1 -AATTAAAAACCCTAACC-TA----ACTT
30534418 AAATTAAAAA-CCTAACCTAACCTACTT
1 -AATTAAAAACCCTAACCT-A---ACTT
30534445 AAATTAAAAACCCTAACCTAACCTAATTT
1 -AATTAAAAACCCTAACCTAA-C----TT
*
30534474 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAACTT
*
30534497 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAACTT
30534520 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA-C----TT
* *
30534548 AATTCAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAACTT
*
30534571 AATTAAAAACCCTAACCCT-ATTT
1 AATTAAAAACCCTAA-CCTAACTT
30534594 AATTAAAAACCCTAA
1 AATTAAAAACCCTAA
30534609 TTAAATTGTA
Statistics
Matches: 192, Mismatches: 9, Indels: 41
0.79 0.04 0.17
Matches are distributed among these distances:
23 80 0.42
24 4 0.02
25 1 0.01
27 16 0.08
28 74 0.39
29 16 0.08
33 1 0.01
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.29
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAACTT
Found at i:30534431 original size:51 final size:48
Alignment explanation
Indices: 30534341--30534608 Score: 245
Period size: 51 Copynumber: 5.2 Consensus size: 48
30534331 TTATAACCCT
30534341 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAA
1 AACCCTAACCTAATTTAATTAAA--AAAAA-CCTAACCTAA--T--TT-AATTAAA
*
30534397 AACCCTAACCTTATTTTAATTAAATTAAAAACCTAACCTAACCTACTTAAATTAAA
1 AACCCTAACC-TAATTTAATTAAA--AAAAACCTAACCTAA--T--TT-AATTAAA
** *
30534453 AACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAA-TTAA--AAAAAACCTAACCTAATTTAATTAAA
* *
30534504 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTCAA
1 AACCCTAACCTAATTTAATTAAAAA---AAACCTAACCTAATTTAATTAAA
*
30534555 AACCCTAACCTAATTTAATT--AAAAACCCTAACCCT-ATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAAAAAAACCTAA-CCTAATTTAATTAAA
30534601 AACCCTAA
1 AACCCTAA
30534609 TTAAATTGTA
Statistics
Matches: 190, Mismatches: 14, Indels: 26
0.83 0.06 0.11
Matches are distributed among these distances:
46 24 0.13
47 3 0.02
48 3 0.02
49 3 0.02
50 4 0.02
51 63 0.33
52 2 0.01
54 1 0.01
55 5 0.03
56 62 0.33
57 19 0.10
58 1 0.01
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (48 bp):
AACCCTAACCTAATTTAATTAAAAAAAACCTAACCTAATTTAATTAAA
Found at i:30534584 original size:18 final size:18
Alignment explanation
Indices: 30534563--30534615 Score: 52
Period size: 23 Copynumber: 2.7 Consensus size: 18
30534553 AAAACCCTAA
30534563 CCTAATTTAATTAAAAAC
1 CCTAATTTAATTAAAAAC
30534581 CCTAACCCTATTTAATTAAAAAC
1 CCT-A----ATTTAATTAAAAAC
*
30534604 CCTAATTAAATT
1 CCTAATTTAATT
30534616 GTAGTTTTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
18 10 0.34
19 1 0.03
22 1 0.03
23 17 0.59
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
CCTAATTTAATTAAAAAC
Found at i:30534596 original size:28 final size:28
Alignment explanation
Indices: 30534290--30534608 Score: 270
Period size: 28 Copynumber: 12.0 Consensus size: 28
30534280 ACTTAAAAAC
* *
30534290 CCTAATTTAATTAAATTAAAAACCCTAAA
1 CCTAACTTAATTTAATTAAAAACCCT-AA
* *
30534319 CCCT-ACTTAATTTTA-TAACCCTAACCCTAA
1 -CCTAACTTAATTTAATTAA---AAACCCTAA
* *
30534349 CCTAATTTAATTAAATTAAAAACCCTAA
1 CCTAACTTAATTTAATTAAAAACCCTAA
* *
30534377 CCTAACCTAATTAAATTAAAAACCCTAA
1 CCTAACTTAATTTAATTAAAAACCCTAA
** *
30534405 CCTTATTTTAATTAAATTAAAAA-CCTAA
1 CC-TAACTTAATTTAATTAAAAACCCTAA
* * *
30534433 CCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAACTTAATTTAATTAAAAACCCTAA
*
30534461 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACTTAATTTAATTAAAAACCCTAA
30534489 -C---C-TAATTTAATTAAAAACCCTAA
1 CCTAACTTAATTTAATTAAAAACCCTAA
30534512 -C---C-TAATTTAATTAAAAACCCTAA
1 CCTAACTTAATTTAATTAAAAACCCTAA
* *
30534535 CCTAACCTAATTTAATTCAAAACCCTAA
1 CCTAACTTAATTTAATTAAAAACCCTAA
30534563 -C---C-TAATTTAATTAAAAACCCTAA
1 CCTAACTTAATTTAATTAAAAACCCTAA
30534586 CC---C-T-ATTTAATTAAAAACCCTAA
1 CCTAACTTAATTTAATTAAAAACCCTAA
30534609 TTAAATTGTA
Statistics
Matches: 255, Mismatches: 21, Indels: 33
0.83 0.07 0.11
Matches are distributed among these distances:
23 83 0.33
24 6 0.02
27 19 0.07
28 97 0.38
29 28 0.11
30 13 0.05
31 9 0.04
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (28 bp):
CCTAACTTAATTTAATTAAAAACCCTAA
Found at i:30537942 original size:85 final size:85
Alignment explanation
Indices: 30537749--30538039 Score: 528
Period size: 85 Copynumber: 3.4 Consensus size: 85
30537739 CAAACTTGCT
* * *
30537749 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACAAGGGCGCGATTTGACTCTATTTACTCAGAAACGTC-AAAAAA
*
30537814 AAAATATTTCCTACATGACCA
65 AAATTATTTCCTACATGACCA
30537835 ACTGTAGCGAAATCGCGTCCACAAGGGCGCGATTTGACTCTATTTACTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACAAGGGCGCGATTTGACTCTATTTACTCAGAAACGTCAAAAAAA
30537900 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
30537920 ACTGTAGCGAAATCGCGTCCACAAGGGCGCGATTTGACTCTATTTACTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACAAGGGCGCGATTTGACTCTATTTACTCAGAAACGTCAAAAAAA
30537985 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
*
30538005 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
1 ACTGTAGCGAAATCGCGTCCACAAGGGCGCGATTT
30538040 CACAATTTCT
Statistics
Matches: 200, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
85 145 0.73
86 55 0.28
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (85 bp):
ACTGTAGCGAAATCGCGTCCACAAGGGCGCGATTTGACTCTATTTACTCAGAAACGTCAAAAAAA
AATTATTTCCTACATGACCA
Found at i:30538170 original size:125 final size:125
Alignment explanation
Indices: 30537959--30538229 Score: 341
Period size: 125 Copynumber: 2.2 Consensus size: 125
30537949 CGATTTGACT
*
30537959 CTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTC
1 CTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCAAAATCGCGTC
* * *
30538024 CACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGATTTTATA
66 CACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCAGCGATTTTATA
* * * *
30538084 CTATTTCCTCAGAAATTGTCAAAAAATAATTATTT-CTCACATGACC-ACTGTAGCAAAATTGCG
1 CTATTTACTCAGAAA-CGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTAGCAAAATCGCG
* * * * ** ***
30538147 TCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATTCTAGTAGAAGCGATTTCCCA
64 TCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCAGCGATTTTATA
30538209 CTATTTAAC-CAGAAACGTCAA
1 CTATTT-ACTCAGAAACGTCAA
30538230 CTCGAAAAAA
Statistics
Matches: 124, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
124 5 0.04
125 93 0.75
126 26 0.21
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (125 bp):
CTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCAAAATCGCGTC
CACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCAGCGATTTTATA
Found at i:30544747 original size:551 final size:551
Alignment explanation
Indices: 30543698--30544793 Score: 1827
Period size: 551 Copynumber: 2.0 Consensus size: 551
30543688 TTTCTGGTGG
* *
30543698 CTTGTCCACAATATTATGTATCTGGCAGTAAATCCATAATTTCTGGTGGTTGGACCACATTTTGG
1 CTTGTCCACAATATTATGTATCTGGCAGTAAATCCACAATTTCTAGTGGTTGGACCACATTTTGG
* *
30543763 TGTGTTATTGGTTGGATGAGTTATGAGGAACTCTGTATGGCGTGTAGCGGAGTTGGGTAGGATTT
66 TGTGTTATTGGTTGAATGAGTTATGAGGAACTCTATATGGCGTGTAGCGGAGTTGGGTAGGATTT
*
30543828 AAGTTCTAATATCTGTATTGTATTCTAAAAATGTTGTATTAAATACGTCATTACGCAATCTGCCA
131 AAGTTCTAATATCTGTATTGTATTCTAAAAATGTTGTATTAAATACGTCATTACACAATCTGCCA
30543893 TATTTGATTTATAATTGAGTAATTTATATATGTTATGGACTGATTAATATGATGTTATAATGAAT
196 TATTTGATTTATAATTGAGTAATTTATATATGTTATGGACTGATTAATATGATGTTATAATGAAT
* * ** *
30543958 TGTTTTTGTGAAATAATTGTTATTTAAGACCTACATTGAGCCTTTTTAATCTTACCTCCTTAAAC
261 TATTTTTGTGAAATAATTGTTACTTAAGACCTACATTGAGAATTTTTAAGCTTACCTCCTTAAAC
* * * *
30544023 TTTGATTTTAGATAATCGGGACTAGGATGGGCTTGGCTATGAAGGTACTCTTGGTTATTTTTTGA
326 TTTGATTTCAGATAATCGAGACTAGGATGGGCTTGGCTACGAAGGTACTCTTGGTTATTTTTCGA
*
30544088 AAAACCTTGCAAGTAGTGGTATTGGAAATTTTAGTTTTTGTTCATGCTTTATGGACTTTAATTTT
391 AAAACCTTGCAAGTAGTGGTATTGGAAATTTTAGTTTGTGTTCATGCTTTATGGACTTTAATTTT
*** * *
30544153 GGGACTTTGGTTTGGATTTTTGATTTGCGAAATTTGTATAATGTTTTGGGGTTTTTCTTTTCTGC
456 GGGACTTTGGTTCAAATTTTTGATTTGCGAAATTTGGATAATGTTTTGGAGTTTTTCTTTTCTGC
30544218 ATGATTTGTTAGGTTAAATTATAATGTTTTT
521 ATGATTTGTTAGGTTAAATTATAATGTTTTT
* *
30544249 CTTGTCCACAATATTATGTATCTGGCAGTAAATCTACAATTTTTAGTGGTTGGACCACATTTTGG
1 CTTGTCCACAATATTATGTATCTGGCAGTAAATCCACAATTTCTAGTGGTTGGACCACATTTTGG
*
30544314 TGTGTTATTGGTTGAATGAGTTAT-AGGGAACTCTATGTGGCGTGTAGCGGAGTTGGGTAGGATT
66 TGTGTTATTGGTTGAATGAGTTATGA-GGAACTCTATATGGCGTGTAGCGGAGTTGGGTAGGATT
* *
30544378 TAAGTTCTAATATCTGTATTGTATTCTAAAAATGTTGTATTAATTACGTCATTACACGATCTGCC
130 TAAGTTCTAATATCTGTATTGTATTCTAAAAATGTTGTATTAAATACGTCATTACACAATCTGCC
* *
30544443 ATATTTGATTTATAATTGAGTAATTTATATATGTTATGGGCTGATTAATATGATGTTATAATGAG
195 ATATTTGATTTATAATTGAGTAATTTATATATGTTATGGACTGATTAATATGATGTTATAATGAA
* * *
30544508 TTATTTTTGTTAAATTATTGTTACTTAAGACCTACATTGGGAATTTTTAAGCTTACC-CTCTTAA
260 TTATTTTTGTGAAATAATTGTTACTTAAGACCTACATTGAGAATTTTTAAGCTTACCTC-CTTAA
*
30544572 ACTTTGATTTCAGATAATCGAGACTAGGATGGGCTTGGCTACGAAGGTACTCTTGGTTGTTTTTC
324 ACTTTGATTTCAGATAATCGAGACTAGGATGGGCTTGGCTACGAAGGTACTCTTGGTTATTTTTC
* * *
30544637 GGAAAACCTTGCAAGTAGTGGTATTGGACATTTTAGTTTGTGTTCATGCTTTATGGACTTTATTT
389 GAAAAACCTTGCAAGTAGTGGTATTGGAAATTTTAGTTTGTGTTCATGCTTTATGGACTTTAATT
* *
30544702 TTGGGACTTTGGTTCAAATTTTTGATTTGTGAACTTTGGATAATGTTTTGGAGTTTTTCTTTTCT
454 TTGGGACTTTGGTTCAAATTTTTGATTTGCGAAATTTGGATAATGTTTTGGAGTTTTTCTTTTCT
*
30544767 GCATGATTTGTTATGTTAAATTATAAT
519 GCATGATTTGTTAGGTTAAATTATAAT
30544794 TTAAATAATT
Statistics
Matches: 506, Mismatches: 37, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
550 2 0.00
551 504 1.00
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.43
Consensus pattern (551 bp):
CTTGTCCACAATATTATGTATCTGGCAGTAAATCCACAATTTCTAGTGGTTGGACCACATTTTGG
TGTGTTATTGGTTGAATGAGTTATGAGGAACTCTATATGGCGTGTAGCGGAGTTGGGTAGGATTT
AAGTTCTAATATCTGTATTGTATTCTAAAAATGTTGTATTAAATACGTCATTACACAATCTGCCA
TATTTGATTTATAATTGAGTAATTTATATATGTTATGGACTGATTAATATGATGTTATAATGAAT
TATTTTTGTGAAATAATTGTTACTTAAGACCTACATTGAGAATTTTTAAGCTTACCTCCTTAAAC
TTTGATTTCAGATAATCGAGACTAGGATGGGCTTGGCTACGAAGGTACTCTTGGTTATTTTTCGA
AAAACCTTGCAAGTAGTGGTATTGGAAATTTTAGTTTGTGTTCATGCTTTATGGACTTTAATTTT
GGGACTTTGGTTCAAATTTTTGATTTGCGAAATTTGGATAATGTTTTGGAGTTTTTCTTTTCTGC
ATGATTTGTTAGGTTAAATTATAATGTTTTT
Found at i:30553076 original size:50 final size:50
Alignment explanation
Indices: 30552612--30553072 Score: 904
Period size: 50 Copynumber: 9.2 Consensus size: 50
30552602 TATCGATGAA
30552612 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
1 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
30552662 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
1 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
30552712 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
1 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
30552762 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
1 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
30552812 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
1 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
30552862 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
1 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
30552912 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
1 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
30552962 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
1 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
* *
30553012 AAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
1 GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
30553062 GAAGGCTACTA
1 GAAGGCTACTA
30553073 CGTGTATCGA
Statistics
Matches: 408, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 408 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (50 bp):
GAAGGCTACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
Found at i:30560038 original size:16 final size:16
Alignment explanation
Indices: 30560005--30560050 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
30559995 TTATCACCCA
*
30560005 TTTCATCTT--CTTCC
1 TTTCATCTTCACTTCT
30560019 TTTCATCTTCACTTCT
1 TTTCATCTTCACTTCT
30560035 TTTCATCTTCACTTCT
1 TTTCATCTTCACTTCT
30560051 CTCTCTAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 9 0.31
16 20 0.69
ACGTcount: A:0.11, C:0.33, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTCATCTTCACTTCT
Found at i:30571906 original size:16 final size:15
Alignment explanation
Indices: 30571874--30571914 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
30571864 ATAAATAATA
*
30571874 AAAAGAATAAA-CAG
1 AAAAGAAAAAACCAG
30571888 AAAACGAAAAAACCAG
1 AAAA-GAAAAAACCAG
30571904 AAAAGAAAAAA
1 AAAAGAAAAAA
30571915 GAGCAAACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 13 0.54
16 7 0.29
ACGTcount: A:0.76, C:0.10, G:0.12, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAACCAG
Found at i:30572753 original size:22 final size:23
Alignment explanation
Indices: 30572719--30572762 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
30572709 ACCCTACCCC
30572719 TAAAATATTAAAAACCATAACCT
1 TAAAATATTAAAAACCATAACCT
*
30572742 TAAAA-ATTAAAAACCTTAACC
1 TAAAATATTAAAAACCATAACC
30572763 CTATAAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.57, C:0.18, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAAATATTAAAAACCATAACCT
Found at i:30579443 original size:19 final size:19
Alignment explanation
Indices: 30579402--30579443 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
30579392 GAATAAAACT
*
30579402 TAAAATTAAATTTAGTTAA
1 TAAAATTAAACTTAGTTAA
*
30579421 TAAAATTAGACTTA-TTAA
1 TAAAATTAAACTTAGTTAA
30579439 CTAAA
1 -TAAA
30579444 TTTTTTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
TAAAATTAAACTTAGTTAA
Found at i:30581568 original size:22 final size:23
Alignment explanation
Indices: 30581522--30581586 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 23
30581512 ATAAAATTGT
*
30581522 TAAATA-TTAAAATAATATAATA
1 TAAATATTTAAAATAATATAAAA
30581544 TAAATATTTAAAA-AAT-TAAAAA
1 TAAATATTTAAAATAATAT-AAAA
*
30581566 TAAATGAGTTTAAATTAATAT
1 TAAAT-A-TTTAAAATAATAT
30581587 GATAGGATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
21 1 0.03
22 17 0.49
23 7 0.20
24 6 0.17
25 3 0.09
26 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (23 bp):
TAAATATTTAAAATAATATAAAA
Found at i:30582390 original size:17 final size:18
Alignment explanation
Indices: 30582355--30582392 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
30582345 GGTACAAATT
*
30582355 ACATCTTTCCATAACAAA
1 ACATCTTTCCATAAAAAA
*
30582373 ACAT-TTTCCTTAAAAAA
1 ACATCTTTCCATAAAAAA
30582390 ACA
1 ACA
30582393 AATCATGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (18 bp):
ACATCTTTCCATAAAAAA
Found at i:30583665 original size:71 final size:71
Alignment explanation
Indices: 30583549--30583690 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
30583539 TAATTGATTT
30583549 AAGAATTCGACCATAACATTTATAGTAAATTAACATTCAAATTTATAATCTAATTTTTCTTTTTC
1 AAGAATTCGACCATAACATTTATAGTAAATTAACATTCAAATTTATAATCTAATTTTTCTTTTTC
30583614 TTTTTC
66 TTTTTC
30583620 AAGAATTCGACCATAACATTTATAGTAAATTAACATTCAAATTTATAATCTAATTTTTCTTTTTC
1 AAGAATTCGACCATAACATTTATAGTAAATTAACATTCAAATTTATAATCTAATTTTTCTTTTTC
30583685 TTTTTC
66 TTTTTC
30583691 TTTTTTATAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.46
Consensus pattern (71 bp):
AAGAATTCGACCATAACATTTATAGTAAATTAACATTCAAATTTATAATCTAATTTTTCTTTTTC
TTTTTC
Found at i:30585827 original size:22 final size:22
Alignment explanation
Indices: 30585799--30585843 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
30585789 TCTGTGCCTC
30585799 AGTTGTTCATGCTTCCAATTAA
1 AGTTGTTCATGCTTCCAATTAA
30585821 AGTTGTTCATGCTTCCAATTAA
1 AGTTGTTCATGCTTCCAATTAA
30585843 A
1 A
30585844 ATCATTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (22 bp):
AGTTGTTCATGCTTCCAATTAA
Found at i:30585851 original size:22 final size:22
Alignment explanation
Indices: 30585804--30585854 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
30585794 GCCTCAGTTG
* **
30585804 TTCATGCTTCCAATTAAAGTTG
1 TTCATGCTTCCAATTAAAATCA
30585826 TTCATGCTTCCAATTAAAATCA
1 TTCATGCTTCCAATTAAAATCA
30585848 TTCATGC
1 TTCATGC
30585855 ATTAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (22 bp):
TTCATGCTTCCAATTAAAATCA
Found at i:30592671 original size:50 final size:50
Alignment explanation
Indices: 30592609--30592783 Score: 145
Period size: 50 Copynumber: 3.4 Consensus size: 50
30592599 AAATGTCATA
* * ** * * * *
30592609 TCCCAGATATGGTCTTACATGAGAGTTCTCATATTGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACAGGAGACCTCTCATATCGGTACCAACGCCATG
* * *
30592659 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATG
1 TCCCAGACATGGTCTTACAGGAGACCTCTCATATCGGTACCAACGCCATG
* * * *
30592709 TCCCAGACATGGTCTTACGTGGA-ACCTCTCATAACCTCAGTAATGCCAATGACATG
1 TCCCAGACATGGTCTTAC-AGGAGACCTCTCAT-A--TCGGT-A--CCAACGCCATG
30592765 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
30592784 TGAGGTCTCA
Statistics
Matches: 100, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
50 66 0.66
51 2 0.02
53 4 0.04
54 1 0.01
56 27 0.27
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACAGGAGACCTCTCATATCGGTACCAACGCCATG
Found at i:30592772 original size:56 final size:52
Alignment explanation
Indices: 30592646--30592782 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 52
30592636 CTCATATTGG
* * *
30592646 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGAACCTCTCATCTCAGTA
* *
30592698 --CCAACGCCATGTCCCAGACATGGTCTTACGTGGAACCTCTCATAACCTCAGTAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGAACCTCTCAT---CTCAGT-A
*
30592752 TGCCAATGACATGTCCCAGACATGGTCTTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC
30592783 ATGAGGTCTC
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
50 39 0.54
53 5 0.07
54 1 0.01
56 27 0.38
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.24
Consensus pattern (52 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGAACCTCTCATCTCAGTA
Found at i:30593180 original size:30 final size:29
Alignment explanation
Indices: 30593128--30593188 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
30593118 CAATGACTCG
**
30593128 AACTTTGGCAAAATTATGATTTTGCCCCTA
1 AACTTTGGCAAAATTACAATTTTG-CCCTA
* *
30593158 AACTTTGGCATATTTACAATTTTGCCCTA
1 AACTTTGGCAAAATTACAATTTTGCCCTA
30593187 AA
1 AA
30593189 GCTCAGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (29 bp):
AACTTTGGCAAAATTACAATTTTGCCCTA
Found at i:30602693 original size:30 final size:30
Alignment explanation
Indices: 30602659--30602808 Score: 112
Period size: 30 Copynumber: 5.4 Consensus size: 30
30602649 AATGAAAGAG
30602659 CCCAAAAATTTAAAGAAGAATCTTGCATGA
1 CCCAAAAATTTAAAGAAGAATCTTGCATGA
* * *
30602689 CCCAAATATTTATAA-ATGAA---AG-A-G-
1 CCCAAAAATTTA-AAGAAGAATCTTGCATGA
30602713 CCCAAAAATTTAAAGAAGAATCTTGCATGA
1 CCCAAAAATTTAAAGAAGAATCTTGCATGA
* * *
30602743 CCCAAATATTTATAA-ATGAA---AG-A-G-
1 CCCAAAAATTTA-AAGAAGAATCTTGCATGA
30602767 CCCAAAAATTTAAAGAAGAATCTTGCATGA
1 CCCAAAAATTTAAAGAAGAATCTTGCATGA
* *
30602797 CCTAAATATTTA
1 CCCAAAAATTTA
30602809 TAAACTCATA
Statistics
Matches: 90, Mismatches: 14, Indels: 32
0.66 0.10 0.24
Matches are distributed among these distances:
23 4 0.04
24 30 0.33
25 2 0.02
26 2 0.02
27 4 0.04
28 2 0.02
29 2 0.02
30 40 0.44
31 4 0.04
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.25
Consensus pattern (30 bp):
CCCAAAAATTTAAAGAAGAATCTTGCATGA
Found at i:30602710 original size:54 final size:54
Alignment explanation
Indices: 30602646--30602812 Score: 325
Period size: 54 Copynumber: 3.1 Consensus size: 54
30602636 TTTAGAAACA
30602646 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCCAAATATTT
1 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCCAAATATTT
30602700 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCCAAATATTT
1 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCCAAATATTT
*
30602754 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCTAAATATTT
1 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCCAAATATTT
30602808 ATAAA
1 ATAAA
30602813 CTCATATTGG
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 112 1.00
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.25
Consensus pattern (54 bp):
ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCCAAATATTT
Found at i:30602723 original size:24 final size:24
Alignment explanation
Indices: 30602689--30602778 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 24
30602679 TCTTGCATGA
*
30602689 CCCAAATATTTATAAATGAAAGAG
1 CCCAAAAATTTATAAATGAAAGAG
* *
30602713 CCCAAAAATTTA-AAGAAGAATCTTGCATG
1 CCCAAAAATTTATAA-ATGAA---AG-A-G
*
30602742 ACCCAAATATTTATAAATGAAAGAG
1 -CCCAAAAATTTATAAATGAAAGAG
30602767 CCCAAAAATTTA
1 CCCAAAAATTTA
30602779 AAGAAGAATC
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
23 2 0.04
24 26 0.51
25 1 0.02
26 1 0.02
27 2 0.04
28 1 0.02
29 1 0.02
30 15 0.29
31 2 0.04
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (24 bp):
CCCAAAAATTTATAAATGAAAGAG
Found at i:30613099 original size:6 final size:6
Alignment explanation
Indices: 30613088--30613114 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
30613078 AAGTGGCTTT
30613088 TTATAA TTATAA TTATAA TTATAA TTA
1 TTATAA TTATAA TTATAA TTATAA TTA
30613115 CTATGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:30613241 original size:18 final size:17
Alignment explanation
Indices: 30613198--30613243 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
30613188 CCGTTATGTC
30613198 CGCGACCGCGA-C-AAA
1 CGCGACCGCGACCGAAA
*
30613213 CGC-AACGCGACCGAAAA
1 CGCGACCGCGACCG-AAA
30613230 CGCGACCGCGACCG
1 CGCGACCGCGACCG
30613244 CAATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 6 0.24
15 4 0.16
17 6 0.24
18 9 0.36
ACGTcount: A:0.30, C:0.41, G:0.28, T:0.00
Consensus pattern (17 bp):
CGCGACCGCGACCGAAA
Found at i:30613933 original size:50 final size:50
Alignment explanation
Indices: 30613871--30613971 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
30613861 CGGACCATAC
*
30613871 TGCACAAATAAAATTCATATAGAATTACTCT-TCTTCTATTTGACATTGAT
1 TGCACAAATAAAATTCATATAGAACTACTCTCT-TTCTATTTGACATTGAT
* * **
30613921 TGCACAAGTAAAATTCGTATAGAACTGGTCTCTTTCTATTTGACATTGAT
1 TGCACAAATAAAATTCATATAGAACTACTCTCTTTCTATTTGACATTGAT
30613971 T
1 T
30613972 AGAATAAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
50 44 0.98
51 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (50 bp):
TGCACAAATAAAATTCATATAGAACTACTCTCTTTCTATTTGACATTGAT
Found at i:30614932 original size:13 final size:13
Alignment explanation
Indices: 30614911--30614940 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30614901 AAATATATAA
*
30614911 ATTTGTAAAATTT
1 ATTTATAAAATTT
30614924 ATTTATAAAATTT
1 ATTTATAAAATTT
30614937 ATTT
1 ATTT
30614941 TTGTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (13 bp):
ATTTATAAAATTT
Found at i:30616093 original size:30 final size:29
Alignment explanation
Indices: 30616038--30616106 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
30616028 TGCTCGGACT
* *
30616038 AAATTT-TCAAAAAAAGATC-ATTTTTTTA
1 AAATTTAT-AAAAAAAGACCAATTTTTTGA
30616066 AAATATTATAAAAAATAGACCAATTTTTTGA
1 AAAT-TTATAAAAAA-AGACCAATTTTTTGA
30616097 AAATTTATAA
1 AAATTTATAA
30616107 GAATTAGCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 4 0.11
29 8 0.23
30 11 0.31
31 12 0.34
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (29 bp):
AAATTTATAAAAAAAGACCAATTTTTTGA
Found at i:30617170 original size:3 final size:3
Alignment explanation
Indices: 30617162--30617225 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
30617152 GGGTTTTAAA
* * * *
30617162 AAT AAT AAT ACT AAT AAT AAT GAG AAT AAT -AT GAAT GAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
30617206 AAT AAT AAAT AAT GAAT AAT
1 AAT AAT -AAT AAT -AAT AAT
30617226 CTAAGGTTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
2 4 0.08
3 36 0.75
4 8 0.17
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Done.