Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 117 of 343
Found at i:39381885 original size:68 final size:65
Alignment explanation
Indices: 39381679--39381900 Score: 218
Period size: 64 Copynumber: 3.4 Consensus size: 65
39381669 CATAATTTTG
* * * *
39381679 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCCA-CTTTA-TCTTGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCGTA
* ** * * * * * * *
39381742 GCTTTCTTGTTTACATGGTGTCCTTCACCTAGAACCACACATGCAACCTAGCTACATCTA-TCTC
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTC
39381806 GTA
63 GTA
39381809 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTC-T-AT-TCT
39381873 CGTA
62 CGTA
*
39381877 GCTCTCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
39381901 TCCCGTATTA
Statistics
Matches: 125, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
63 17 0.14
64 28 0.22
65 1 0.01
66 24 0.19
67 26 0.21
68 28 0.22
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCGTA
Found at i:39381922 original size:68 final size:68
Alignment explanation
Indices: 39381777--39381928 Score: 172
Period size: 68 Copynumber: 2.3 Consensus size: 68
39381767 CACCTAGAAC
* * * *
39381777 CACACATGCAACCTAGCTACATC-T-A--TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAG
1 CACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTCTACATGGTATACACACAG
39381838 TAT
66 TAT
*
39381841 CACCCATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-C
1 CACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGT-CTACATGGTATACA-CAC
*
39381904 CGTAT
64 AGTAT
* *
39381909 TACACATGTGACCTAGCTAC
1 CACACATGCGACCTAGCTAC
39381929 ATACCATCTG
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
64 20 0.27
65 1 0.01
66 1 0.01
68 49 0.67
69 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (68 bp):
CACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTCTACATGGTATACACACAG
TAT
Found at i:39384158 original size:22 final size:22
Alignment explanation
Indices: 39384116--39384159 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
39384106 GAAAATAATC
* *
39384116 AAAATTAATCAAATTTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
39384138 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
39384160 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:39392831 original size:42 final size:41
Alignment explanation
Indices: 39392768--39392860 Score: 102
Period size: 41 Copynumber: 2.2 Consensus size: 41
39392758 TACTAGATAC
39392768 GGTCTTACATGGGATCACATATCGATGCCAATAG-CCCAG-CTAT
1 GGTCTTACAT-GGATCACATATCGATGCC-AT-GTCCCAGAC-AT
* *
39392811 GGTCTTACAT-GATTCTCATATCGGTGCCATGTCCCAGACAT
1 GGTCTTACATGGA-TCACATATCGATGCCATGTCCCAGACAT
39392852 GGTCTTACA
1 GGTCTTACA
39392861 CAAAATCTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
40 1 0.02
41 20 0.44
42 14 0.31
43 10 0.22
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (41 bp):
GGTCTTACATGGATCACATATCGATGCCATGTCCCAGACAT
Found at i:39396057 original size:46 final size:46
Alignment explanation
Indices: 39396007--39396178 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
39395997 TGGTTGAGCA
39396007 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
39396053 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
39396098 CATCCGAACTCGTTGAGTTGA-TCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
**
39396145 -CTCGAACTCGTTGAGTTGAGTTTGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
39396179 GGGGTGGGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 20 0.19
46 49 0.48
47 21 0.20
49 4 0.04
50 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39410787 original size:44 final size:48
Alignment explanation
Indices: 39410685--39410802 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 48
39410675 TGTCTCCGAC
** * *
39410685 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATTCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATTCTAAT
*
39410734 ATGG-CTTACATGGCTCATT-CT-TCTCCAAAGCC-ATATA-TCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATTCTAAT
*
39410777 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
39410803 CTGTCCTGTC
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
43 9 0.15
44 20 0.33
45 2 0.03
46 12 0.20
47 2 0.03
48 12 0.20
49 4 0.07
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATTCTAAT
Found at i:39412116 original size:18 final size:18
Alignment explanation
Indices: 39412093--39412132 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
39412083 GGCCCTAGCC
* *
39412093 CAGTGCAGTAATGGTAAA
1 CAGTGCAATAATAGTAAA
39412111 CAGTGCAATAATAGTAAA
1 CAGTGCAATAATAGTAAA
39412129 CAGT
1 CAGT
39412133 ATGCAAGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (18 bp):
CAGTGCAATAATAGTAAA
Found at i:39412510 original size:27 final size:27
Alignment explanation
Indices: 39412475--39412584 Score: 94
Period size: 27 Copynumber: 4.1 Consensus size: 27
39412465 ATAAATACCT
*
39412475 CACATAGGGGCAAAACAGTCAATTTAC
1 CACATAGGGGCAAAACAGTCATTTTAC
** ****
39412502 CATGTAGGGGCATTTTAGTCATTTTAC
1 CACATAGGGGCAAAACAGTCATTTTAC
*
39412529 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAGGGGCAAAACAGTCATTTTAC
** * * * *
39412556 CTTATAAGGGAAAAATAGTCATTTCAC
1 CACATAGGGGCAAAACAGTCATTTTAC
39412583 CA
1 CA
39412585 AATTGGGGTC
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (27 bp):
CACATAGGGGCAAAACAGTCATTTTAC
Found at i:39412575 original size:54 final size:54
Alignment explanation
Indices: 39412475--39412584 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
39412465 ATAAATACCT
* * * * *** *
39412475 CACATAGGGGCAAAACAGTCAATTTACCATGTAGGGGCATTTTAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCAATTTACCATATAAGGGAAAAATAGTCATTTCAC
* *
39412529 CACATAAGGGCAAAACAGTCATTTTACCTTATAAGGGAAAAATAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCAATTTACCATATAAGGGAAAAATAGTCATTTCAC
39412583 CA
1 CA
39412585 AATTGGGGTC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (54 bp):
CACATAAGGGCAAAACAGTCAATTTACCATATAAGGGAAAAATAGTCATTTCAC
Found at i:39420508 original size:43 final size:43
Alignment explanation
Indices: 39420461--39420565 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 43
39420451 CAACCCATCT
* *
39420461 ATGGTCTTACACGAAATCAAATAGCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAACGTCCCAGAC
* ** *
39420504 ATGGTTTTACAC-ATAATCTCATAATGATGCCAACGTCCCAGAC
1 ATGGTCTTACACGA-AATCAAATAACGATGCCAACGTCCCAGAC
*
39420547 ATGGTCTTACACGTAATCA
1 ATGGTCTTACACGAAATCA
39420566 CATTTCATTA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAATAACGATGCCAACGTCCCAGAC
Found at i:39425946 original size:40 final size:40
Alignment explanation
Indices: 39425891--39426073 Score: 271
Period size: 40 Copynumber: 4.6 Consensus size: 40
39425881 GATGATAACG
* *
39425891 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCC
* *
39425931 GGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCC
39425971 GGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTAATTCC
* **
39426011 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAAT-TCC
39426051 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
39426074 AGAAAGTAGC
Statistics
Matches: 131, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.02
40 129 0.98
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCC
Found at i:39426092 original size:80 final size:80
Alignment explanation
Indices: 39425891--39426106 Score: 262
Period size: 80 Copynumber: 2.7 Consensus size: 80
39425881 GATGATAACG
** *
39425891 GGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTAATTTCGGGCTAAGTCCCGAAGGCAATTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGAAAGTAG-CTAATTCCGGGCTAAGTCCCGAAGGCAATTGT
**
39425955 GCGAGTTACTAATTCC
65 GCGAACTACTAATTCC
** *
39425971 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTA-CTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGAAAG-TAGCTAATTCCGGGCTAAGTCCCGAAGGCAATTGT
39426035 GCGAACTACT-ATATCC
65 GCGAACTACTAAT-TCC
* * *
39426051 GGGCTAAGTCCCGAAGGCATTTGAGAAAGTAGCT-ATATCC-GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGGCATTTGTGAAAGTAGCTAAT-TCCGGGCTAAGTCCCGAAGG
39426107 TACTTGGTTT
Statistics
Matches: 120, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
79 20 0.17
80 99 0.82
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGAAAGTAGCTAATTCCGGGCTAAGTCCCGAAGGCAATTGTG
CGAACTACTAATTCC
Found at i:39432505 original size:22 final size:25
Alignment explanation
Indices: 39432451--39432514 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 25
39432441 TTTCATTTTA
39432451 ATAA-TAAGACATTTATCACAATTAT
1 ATAATTAA-ACATTTATCACAATTAT
39432476 ATCAATTAAACATTTAT-AC-ATT-T
1 AT-AATTAAACATTTATCACAATTAT
*
39432499 ATAATTAAATATTTAT
1 ATAATTAAACATTTAT
39432515 TAAACATACT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
24 3 0.08
25 4 0.11
26 10 0.28
27 3 0.08
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (25 bp):
ATAATTAAACATTTATCACAATTAT
Found at i:39435813 original size:30 final size:30
Alignment explanation
Indices: 39435767--39435827 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
39435757 TTCCCGAGCC
*
39435767 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * *
39435797 TAGGGGAAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
39435827 T
1 T
39435828 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:39442754 original size:41 final size:43
Alignment explanation
Indices: 39442674--39442786 Score: 108
Period size: 41 Copynumber: 2.7 Consensus size: 43
39442664 TGGGATGTTG
* * *
39442674 GAATCGATATGTGATTATGTGTAAGACCATGTCTGGGACATCA
1 GAATCGATATGTGATTACGTGTAAGACCATATCTAGGACATCA
* * *
39442717 GAATC-ATATTTGATT-CGTGTAAGACCCTATCTAGGACAGT-G
1 GAATCGATATGTGATTACGTGTAAGACCATATCTAGGACA-TCA
* *
39442758 GCATCGATATGTGA-TATCATGTAAGACCA
1 GAATCGATATGTGATTA-CGTGTAAGACCA
39442787 CGATTGGGAC
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
41 24 0.43
42 17 0.30
43 15 0.27
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (43 bp):
GAATCGATATGTGATTACGTGTAAGACCATATCTAGGACATCA
Found at i:39444583 original size:13 final size:13
Alignment explanation
Indices: 39444565--39444610 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
39444555 ACCGTGTGTC
39444565 ACACACGATATAG
1 ACACACGATATAG
39444578 ACACACGATATAG
1 ACACACGATATAG
*
39444591 ACACACGGTATAG
1 ACACACGATATAG
39444604 ACACACG
1 ACACACG
39444611 CTCGTGTGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.43, C:0.26, G:0.17, T:0.13
Consensus pattern (13 bp):
ACACACGATATAG
Found at i:39445362 original size:49 final size:50
Alignment explanation
Indices: 39445305--39445433 Score: 172
Period size: 49 Copynumber: 2.6 Consensus size: 50
39445295 TAAGTTGTCG
* *
39445305 ATGCCATGTCTCAGACATGGTCTTACACTGGCTATCATCAT-TGAG-GCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCA-CATATCAGTGCCA
* * * *
39445354 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACATATCAGTGCCA
*
39445404 ATGTCATGTCCCAGACATGGTCTTACACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG
39445434 ACACATTTTG
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
48 3 0.04
49 36 0.51
50 31 0.44
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACATATCAGTGCCA
Found at i:39453525 original size:27 final size:27
Alignment explanation
Indices: 39453484--39453566 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 27
39453474 ATCTCATATC
* * *
39453484 TATAGGCTAGTATTACTAAAATACCCT
1 TATAGGATAGAATTACTGAAATACCCT
* * * *
39453511 TGTAGGGTAGAATTACTGAAATGCCCC
1 TATAGGATAGAATTACTGAAATACCCT
39453538 TATAGGATAGAATTACTGAAATACCCT
1 TATAGGATAGAATTACTGAAATACCCT
39453565 TA
1 TA
39453567 GTTTACAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (27 bp):
TATAGGATAGAATTACTGAAATACCCT
Found at i:39453578 original size:27 final size:27
Alignment explanation
Indices: 39453548--39453893 Score: 115
Period size: 27 Copynumber: 12.9 Consensus size: 27
39453538 TATAGGATAG
*
39453548 AATTACTGAAATACCCTTAGTTTACAA
1 AATTACTAAAATACCCTTAGTTTACAA
** * *
39453575 AATTA-TTGAATATCCTTGGTTTACAA
1 AATTACTAAAATACCCTTAGTTTACAA
* * *
39453601 AATTACCAAAATACCCTT-GATTAGAAA
1 AATTACTAAAATACCCTTAGTTTA-CAA
* * * *
39453628 AATTACCAAAATACCCCTGGTTTATAA
1 AATTACTAAAATACCCTTAGTTTACAA
* ***
39453655 AATTACCT-AAATACCCCT-GATTTGTGA
1 AATTA-CTAAAATACCCTTAG-TTTACAA
* *
39453682 AATTAC-AGAAATACCCTCAATTGT--AA
1 AATTACTA-AAATACCCTTAGTT-TACAA
* * * * **
39453708 ATTTA-TCGAAATACCCTCAATTTTTAA
1 AATTACT-AAAATACCCTTAGTTTACAA
* * **
39453735 AATTACCAAAATACCCCT-GATTTGGAA
1 AATTACTAAAATACCCTTAG-TTTACAA
**
39453762 AATTACTAAAATACCCTTCA-TTTGGAA
1 AATTACTAAAATACCCTT-AGTTTACAA
* * *
39453789 AATTAC-AGAAATGCCCCTAATTTACAA
1 AATTACTA-AAATACCCTTAGTTTACAA
* * *
39453816 AATTACAAAAATACCTTTAACTTT-CAAA
1 AATTACTAAAATACCCTT-AGTTTAC-AA
* * * *
39453844 AATTACAAAAATACCATTGGTTTGCAA
1 AATTACTAAAATACCCTTAGTTTACAA
* *
39453871 AATTA-TCGAAATACCCTTGGTTT
1 AATTACT-AAAATACCCTTAGTTT
39453894 GTAGATTTAC
Statistics
Matches: 249, Mismatches: 46, Indels: 48
0.73 0.13 0.14
Matches are distributed among these distances:
25 1 0.00
26 49 0.20
27 168 0.67
28 31 0.12
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCTTAGTTTACAA
Found at i:39453667 original size:54 final size:54
Alignment explanation
Indices: 39453594--39453913 Score: 223
Period size: 54 Copynumber: 5.9 Consensus size: 54
39453584 ATATCCTTGG
* *
39453594 TTTACAAAATTACCAAAATACCCTTGATTAGAAAAATTACCAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTTGATTTGAAAAATTACCAAAATACCCCTGA
* * * ** *
39453648 TTTATAAAATTACCTAAATACCCCTGATTTGTGAAATTA-CAGAAATA-CCCTCA
1 TTTACAAAATTACCAAAATACCCTTGATTTGAAAAATTACCA-AAATACCCCTGA
* ** * * * ** **
39453701 ATTGTAAATTTATCGAAATACCCTCAATTTTTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACCAAAATACCCTTGATTTGAAAAATTACCAAAATACCCCTGA
** * * * * *
39453755 TTTGGAAAATTACTAAAATACCCTTCATTTGGAAAATTA-CAGAAATGCCCCTAA
1 TTTACAAAATTACCAAAATACCCTTGATTTGAAAAATTACCA-AAATACCCCTGA
* * * * * ** *
39453809 TTTACAAAATTACAAAAATACCTTTAACTTTCAAAAATTACAAAAATACCATTGG
1 TTTACAAAATTACCAAAATACCCTTGA-TTTGAAAAATTACCAAAATACCCCTGA
* * * * * * * *
39453864 TTTGCAAAATTATCGAAATACCCTTGGTTTGTAGATTTACCAAAACACCC
1 TTTACAAAATTACCAAAATACCCTTGATTTGAAAAATTACCAAAATACCC
39453914 TTGTAGAGTG
Statistics
Matches: 202, Mismatches: 58, Indels: 12
0.74 0.21 0.04
Matches are distributed among these distances:
53 42 0.21
54 122 0.60
55 37 0.18
56 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCTTGATTTGAAAAATTACCAAAATACCCCTGA
Found at i:39453894 original size:27 final size:26
Alignment explanation
Indices: 39453653--39453894 Score: 128
Period size: 27 Copynumber: 9.0 Consensus size: 26
39453643 CCTGGTTTAT
* * *
39453653 AAAATTACCTAAATACCCCTGATTTGT
1 AAAATTA-CAAAATACCCTTGATTTGC
* * * *
39453680 GAAATTACAGAAATACCC-TCAATTGT
1 AAAATTACA-AAATACCCTTGATTTGC
* * ** **
39453706 AAATTTATCGAAATACCCTCAATTTTT
1 AAAATTA-CAAAATACCCTTGATTTGC
* *
39453733 AAAATTACCAAAATACCCCTGATTTGG
1 AAAATTA-CAAAATACCCTTGATTTGC
* *
39453760 AAAATTACTAAAATACCCTTCATTTGG
1 AAAATTAC-AAAATACCCTTGATTTGC
* * * *
39453787 AAAATTACAGAAATGCCCCTAATTTAC
1 AAAATTACA-AAATACCCTTGATTTGC
* *
39453814 AAAATTACAAAAATACCTTTAACTTT-C
1 AAAATTAC-AAAATACCCTTGA-TTTGC
* *
39453841 AAAAATTACAAAAATACCATTGGTTTGC
1 -AAAATTAC-AAAATACCCTTGATTTGC
* *
39453869 AAAATTATCGAAATACCCTTGGTTTG
1 AAAATTA-CAAAATACCCTTGATTTG
39453895 TAGATTTACC
Statistics
Matches: 171, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
26 22 0.13
27 124 0.73
28 25 0.15
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (26 bp):
AAAATTACAAAATACCCTTGATTTGC
Found at i:39455975 original size:27 final size:26
Alignment explanation
Indices: 39455944--39456121 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
39455934 TAAATTGTAC
39455944 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
39455971 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
39455997 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
39456025 GGCACTAAGTGTGCGAGGTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
39456053 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
39456080 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
39456107 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39456122 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:39456005 original size:54 final size:54
Alignment explanation
Indices: 39455944--39456121 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 54
39455934 TAAATTGTAC
* **
39455944 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* ** *
39455999 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGGTTGACTATG-T
1 AGCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGA-GTTGAATATGAT
* * *
39456053 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
39456107 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39456122 GGCTCAATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
54 60 0.57
55 45 0.43
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:39456060 original size:82 final size:81
Alignment explanation
Indices: 39455945--39456100 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
39455935 AAATTGTACA
* *
39455945 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39456009 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39456026 GCACTAAGTGTGCGAGGTT-GACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA--TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
39456090 GTGCGAGTTGA
64 GTGCGAATTGA
39456101 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
81 15 0.23
82 48 0.73
83 3 0.05
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39456112 original size:82 final size:81
Alignment explanation
Indices: 39455941--39456121 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
39455931 GATTAAATTG
* *
39455941 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39456006 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
39456022 TGCGGCACTAAGTGTGCGAGGTT-GACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA--TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
39456085 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
39456104 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39456122 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 18 0.22
82 63 0.76
83 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39456132 original size:27 final size:27
Alignment explanation
Indices: 39456026--39456132 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
39456016 TGACCATGCG
* * * *
39456026 GCACTAAGTGTGCGAGGTTGACTATGTA
1 GCACTAAGTGTGCGA-GCTCAATATATA
** * * **
39456054 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
39456081 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
39456108 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
39456133 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:39457584 original size:41 final size:41
Alignment explanation
Indices: 39457471--39457584 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 41
39457461 GGGTGTTACA
* * * *
39457471 CGCATGGTTGCTTGACGGCCGTGGATCCACCAATTGAGGAT
1 CGCATGGTTGCTTAACGACCGTGGATCCACCGATTAAGGAT
*
39457512 CGCATGCTTGCTTAACGACCGTGGATCCACCGATTAAGGAT
1 CGCATGGTTGCTTAACGACCGTGGATCCACCGATTAAGGAT
* *
39457553 CGCATGGTAGCTTAACGACTGTGGATCCACCG
1 CGCATGGTTGCTTAACGACCGTGGATCCACCG
39457585 GTGGCATGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (41 bp):
CGCATGGTTGCTTAACGACCGTGGATCCACCGATTAAGGAT
Found at i:39459651 original size:79 final size:81
Alignment explanation
Indices: 39459515--39459699 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
39459505 TTGAATGATG
* *
39459515 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
39459579 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
39459594 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
39459656 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
39459674 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39459700 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:39459713 original size:40 final size:40
Alignment explanation
Indices: 39459516--39459699 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
39459506 TGAATGATGT
* * * *
39459516 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
39459556 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
39459596 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
39459634 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
39459675 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
39459700 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:39459721 original size:79 final size:79
Alignment explanation
Indices: 39459568--39459732 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
39459558 GGACTAAGAT
* * **
39459568 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
39459633 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
39459647 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
39459710 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
39459726 CCGAAGG
1 CCGAAGG
39459733 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:39467517 original size:39 final size:40
Alignment explanation
Indices: 39467451--39467545 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 40
39467441 CCGGCTAAGT
* *
39467451 CCCGAAGGC-TTTGTGCTAGGTGACTATAACCGGACTAGA
1 CCCGAAGGCATTTGTGCGAGGTGACTATAACCGGACTAAA
* * * * *
39467490 TCCGAAGGCATTCGTGCGAGTTG-CTATATCCGGGCTAAA
1 CCCGAAGGCATTTGTGCGAGGTGACTATAACCGGACTAAA
39467529 CCCGAAGGCATTTGTGC
1 CCCGAAGGCATTTGTGC
39467546 TTTTAATCCA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
39 36 0.78
40 10 0.22
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCCGAAGGCATTTGTGCGAGGTGACTATAACCGGACTAAA
Found at i:39475362 original size:40 final size:40
Alignment explanation
Indices: 39475268--39475449 Score: 226
Period size: 40 Copynumber: 4.5 Consensus size: 40
39475258 TATTCGAATG
*
39475268 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
39475309 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
39475349 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
*
39475389 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
39475429 ATATCCGGGCTAAGACCCGAA
1 ATATCCGGGCTAAGATCCGAA
39475450 CGCCTTGTGC
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 90 0.74
41 29 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:39475436 original size:80 final size:81
Alignment explanation
Indices: 39475268--39475449 Score: 253
Period size: 80 Copynumber: 2.3 Consensus size: 81
39475258 TATTCGAATG
* * *
39475268 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
39475333 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCT
* *
39475349 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
39475412 CATTTATGCTAG-TGACT
65 CATTCATGCGAGTTG-CT
39475429 ATATCCGGGCTAAGACCCGAA
1 ATATCCGGGCTAAGACCCGAA
39475450 CGCCTTGTGC
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
79 3 0.03
80 56 0.62
81 32 0.35
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCT
Found at i:39482057 original size:47 final size:47
Alignment explanation
Indices: 39481994--39482292 Score: 392
Period size: 47 Copynumber: 6.4 Consensus size: 47
39481984 CCCTTCGGGA
* * *
39481994 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
39482041 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
39482088 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
39482135 CTTATCAC----AT-CACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
*
39482177 CCTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
39482224 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
39482273 CCTATTACATATATATACTT
1 CTTATCACATATATACACTT
39482293 GTACATCAAT
Statistics
Matches: 227, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
42 35 0.15
43 2 0.01
46 2 0.01
47 143 0.63
49 45 0.20
ACGTcount: A:0.27, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:39482207 original size:89 final size:91
Alignment explanation
Indices: 39481996--39482292 Score: 373
Period size: 89 Copynumber: 3.2 Consensus size: 91
39481986 CTTCGGGACT
* *
39481996 TATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
1 TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--A-ATACACTT
* * * *
39482061 TCACATTCATCACATTGGCCATTAGGTCT
63 TCACATTCATCACATTGGCCACTCGGCCC
*
39482090 TATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-AT-CACTTTCA
1 TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATACACTTTCA
* * *
39482153 CATTCATCACGTTGGTCACTCGACCC
66 CATTCATCACATTGGCCACTCGGCCC
* * *
39482179 TATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATATATAC
1 TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC----A-ATACAC
39482244 TTTCACATTCATCACATTGGCCACTCGGCCC
61 TTTCACATTCATCACATTGGCCACTCGGCCC
* *
39482275 TATTACATATATATACTT
1 TATCACATATATACACTT
39482293 GTACATCAAT
Statistics
Matches: 177, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
89 77 0.44
90 2 0.01
94 50 0.28
95 2 0.01
96 46 0.26
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (91 bp):
TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATACACTTTCA
CATTCATCACATTGGCCACTCGGCCC
Found at i:39482256 original size:49 final size:49
Alignment explanation
Indices: 39482145--39482290 Score: 233
Period size: 49 Copynumber: 3.0 Consensus size: 49
39482135 CTTATCACAT
* * *
39482145 CACTTTCACATTCATCACGTTGGTCACTCGACCCTATCAC--ATATATA
1 CACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATATA
39482192 CACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATATA
1 CACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATATA
* *
39482241 TACTTTCACATTCATCACATTGGCCACTCGGCCCTATTACATATATATA
1 CACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATATA
39482290 C
1 C
39482291 TTGTACATCA
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
47 37 0.41
49 54 0.59
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (49 bp):
CACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATATA
Found at i:39495072 original size:27 final size:27
Alignment explanation
Indices: 39495041--39495102 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
39495031 TGTACCTGGA
39495041 CCCCTAAT-TGATAAAATGACTATTATG
1 CCCCT-ATGTGATAAAATGACTATTATG
* *
39495068 CCCCTGTGTGATAAAATGACTGTTATG
1 CCCCTATGTGATAAAATGACTATTATG
*
39495095 CCCTTATG
1 CCCCTATG
39495103 AGATGTATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (27 bp):
CCCCTATGTGATAAAATGACTATTATG
Found at i:39496047 original size:35 final size:35
Alignment explanation
Indices: 39496001--39496072 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
39495991 TAAGAACAAT
*
39496001 AAATAAAATTCCAAATTTGAAATCCAGAAAATTAC
1 AAATAAAATTCCAAATTTAAAATCCAGAAAATTAC
*
39496036 AAATAAAATTCCAAATTTAAAATCTAGAAAATTAC
1 AAATAAAATTCCAAATTTAAAATCCAGAAAATTAC
39496071 AA
1 AA
39496073 CGGCTTTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.26
Consensus pattern (35 bp):
AAATAAAATTCCAAATTTAAAATCCAGAAAATTAC
Found at i:39496392 original size:17 final size:18
Alignment explanation
Indices: 39496370--39496403 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39496360 GGCGTTAACC
39496370 CATTAT-AGAATAAGAAA
1 CATTATCAGAATAAGAAA
*
39496387 CATTATCAGAATCAGAA
1 CATTATCAGAATAAGAA
39496404 TCAGGTGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (18 bp):
CATTATCAGAATAAGAAA
Found at i:39496420 original size:25 final size:25
Alignment explanation
Indices: 39496391--39496478 Score: 133
Period size: 25 Copynumber: 3.6 Consensus size: 25
39496381 AAGAAACATT
39496391 ATCAGAATCAGAATCAGGTGACAGA
1 ATCAGAATCAGAATCAGGTGACAGA
*
39496416 ATCAGAATCAGAATTAGGTGACAGA
1 ATCAGAATCAGAATCAGGTGACAGA
* *
39496441 ATCAG-ATCAGTATCAGGTAACAGA
1 ATCAGAATCAGAATCAGGTGACAGA
*
39496465 ATCTGAATCAGAAT
1 ATCAGAATCAGAAT
39496479 GTGAATGCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 20 0.36
25 36 0.64
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (25 bp):
ATCAGAATCAGAATCAGGTGACAGA
Found at i:39496745 original size:22 final size:22
Alignment explanation
Indices: 39496713--39496774 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
39496703 CCATAATAAC
*
39496713 GGCACACAGCCATAATCAGGTT
1 GGCACAAAGCCATAATCAGGTT
* *
39496735 GGCACAAAGCCATACGT-ATGTT
1 GGCACAAAGCCATA-ATCAGGTT
39496757 GGCACAAAGCCATAATCA
1 GGCACAAAGCCATAATCA
39496775 AAATAATTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (22 bp):
GGCACAAAGCCATAATCAGGTT
Found at i:39497319 original size:27 final size:27
Alignment explanation
Indices: 39497289--39497396 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
39497279 AGGGCAAAAT
* * *
39497289 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
39497316 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
39497343 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
39497370 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
39497397 AATAATTTTG
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:39497347 original size:54 final size:54
Alignment explanation
Indices: 39497289--39497405 Score: 162
Period size: 54 Copynumber: 2.2 Consensus size: 54
39497279 AGGGCAAAAT
** *
39497289 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTC
* * *
39497343 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTC
**
39497397 AATAATTTT
1 GGTAATTTT
39497406 GTAAATCGAG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (54 bp):
GGTAATTTTACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTC
Found at i:39497418 original size:27 final size:27
Alignment explanation
Indices: 39497388--39497599 Score: 133
Period size: 27 Copynumber: 7.9 Consensus size: 27
39497378 TACCCTACAG
**
39497388 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCGGTAATTTTGTAAATCGA
*** * *
39497415 GGGTAAAACGGTAATTCTGTAAATCGG
1 GGGTATTTCGGTAATTTTGTAAATCGA
*** *
39497442 GGGTACTTT-GGTAATTTAACAAGTCGA
1 GGGTA-TTTCGGTAATTTTGTAAATCGA
* *
39497469 GGGTATTTCAGTAATTTTGTAAAT-TA
1 GGGTATTTCGGTAATTTTGTAAATCGA
* ** * * *
39497495 GGGGGATTTTTGTAATTTTCTGAATCAA
1 -GGGTATTTCGGTAATTTTGTAAATCGA
* ** *
39497523 GGGTATTTCAGTAATTTTCCAAAT-TA
1 GGGTATTTCGGTAATTTTGTAAATCGA
* **
39497549 GGGGTATTTTGGTAATTTTACAAATCGA
1 -GGGTATTTCGGTAATTTTGTAAATCGA
*
39497577 GGGTATTTCGGTAATTTGGTAAA
1 GGGTATTTCGGTAATTTTGTAAA
39497600 CTAAAGTATT
Statistics
Matches: 137, Mismatches: 42, Indels: 12
0.72 0.22 0.06
Matches are distributed among these distances:
26 5 0.04
27 130 0.95
28 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTGTAAATCGA
Found at i:39497483 original size:54 final size:52
Alignment explanation
Indices: 39497425--39497599 Score: 174
Period size: 54 Copynumber: 3.2 Consensus size: 52
39497415 GGGTAAAACG
* * *
39497425 GTAATTCTGTAAATCGGGGGTACTTTGGTAATTTAACAAGTCGAGGGTATTTCA
1 GTAATTTTGTAAATAGGGGGTATTTTGGTAATTT-ACAA-TCGAGGGTATTTCA
* * *
39497479 GTAATTTTGTAAATTAGGGGG-ATTTTTGTAATTTTCTGAATCAAGGGTATTTCA
1 GTAATTTTGTAAA-TAGGGGGTATTTTGGTAATTTAC--AATCGAGGGTATTTCA
** *
39497533 GTAATTTTCCAAATTA-GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCG
1 GTAATTTTGTAAA-TAGGGGGTATTTTGGTAA-TTTAC-AATCGAGGGTATTTCA
*
39497587 GTAATTTGGTAAA
1 GTAATTTTGTAAA
39497600 CTAAAGTATT
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
53 5 0.05
54 83 0.83
55 12 0.12
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (52 bp):
GTAATTTTGTAAATAGGGGGTATTTTGGTAATTTACAATCGAGGGTATTTCA
Found at i:39500957 original size:43 final size:44
Alignment explanation
Indices: 39500884--39501035 Score: 170
Period size: 43 Copynumber: 3.5 Consensus size: 44
39500874 ATATCCTAGA
* * *
39500884 TATGGTCTTACATGTTATCACAT-ATCGATGCCAATAG-CCCA-TC
1 TATGGTCTTACACGTAATCACATAAT-GATGCCAAT-GTCCCAGAC
* *
39500927 TATGGTCTTACACGAAATCAAATAATGATGCCAATGTCCCAGAC
1 TATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAGAC
* * *
39500971 -ATGGTCTTACACGTAATCTCATAATGATGCCAATGTTCTAGAC
1 TATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAGAC
*
39501014 -ATGGTCTTACACATAATCACAT
1 TATGGTCTTACACGTAATCACAT
39501036 CTCGTTAATA
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.01
43 90 0.96
44 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (44 bp):
TATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAGAC
Found at i:39501716 original size:16 final size:16
Alignment explanation
Indices: 39501695--39501726 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39501685 ACAAACTTAA
*
39501695 AAATTATGGCATGGGC
1 AAATTAGGGCATGGGC
39501711 AAATTAGGGCATGGGC
1 AAATTAGGGCATGGGC
39501727 TAGCTAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.12, G:0.34, T:0.22
Consensus pattern (16 bp):
AAATTAGGGCATGGGC
Found at i:39506602 original size:25 final size:25
Alignment explanation
Indices: 39506568--39506617 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
39506558 TAAAAAAAAA
*
39506568 TTCAACTTTTAAATGGTCACGCGGC
1 TTCAACTTTTAAATGGTCACACGGC
39506593 TTCAACTTTTAAATGGTCACACGGC
1 TTCAACTTTTAAATGGTCACACGGC
39506618 CTTAGACACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (25 bp):
TTCAACTTTTAAATGGTCACACGGC
Found at i:39508810 original size:15 final size:15
Alignment explanation
Indices: 39508790--39508819 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
39508780 GAGATTAGGC
39508790 CCTTTTTGCAAATTA
1 CCTTTTTGCAAATTA
39508805 CCTTTTTGCAAATTA
1 CCTTTTTGCAAATTA
39508820 AGCACACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
CCTTTTTGCAAATTA
Found at i:39511084 original size:28 final size:28
Alignment explanation
Indices: 39511021--39511171 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
39511011 ATATTAAGTC
*
39511021 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
39511048 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
39511076 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
39511104 CGTACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
39511132 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
39511161 CGCACACTTAG
1 CGCACACTTAG
39511172 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.66
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:39521506 original size:22 final size:22
Alignment explanation
Indices: 39521476--39521519 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
39521466 GAAAACAATA
*
39521476 AAAAATAATCAAAATTTATTAT
1 AAAAATAATCAAAATTCATTAT
* *
39521498 AAAATTAATTAAAATTCATTAT
1 AAAAATAATCAAAATTCATTAT
39521520 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAATAATCAAAATTCATTAT
Found at i:39525156 original size:54 final size:54
Alignment explanation
Indices: 39525095--39525245 Score: 173
Period size: 54 Copynumber: 2.8 Consensus size: 54
39525085 TAAATTGTAC
*
39525095 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAA-TATG-
1 AGCACTAAGTGTGCGATT-GATTATGTGGCACTAAGTGTGCGAAAAGAACTATGT
** * ***
39525148 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATGT
1 A-GCACTAAGTGTGCG-ATTGATTATGTGGCACTAAGTGTGCGAAAAGAACTATGT
*
39525204 AGCACTAAG-GTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA-TTGATTATGTGGCACTAAGTGTGCGA
39525246 GTTGAGTGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
53 2 0.02
54 64 0.78
55 15 0.18
56 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGATTATGTGGCACTAAGTGTGCGAAAAGAACTATGT
Found at i:39525250 original size:27 final size:27
Alignment explanation
Indices: 39525096--39525250 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
39525086 AAATTGTACA
* *
39525096 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
39525123 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
39525150 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
39525177 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
39525205 GCACTAAG-GTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
39525231 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
39525251 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
26 14 0.13
27 75 0.71
28 16 0.15
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:39533283 original size:28 final size:27
Alignment explanation
Indices: 39533216--39533285 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
39533206 AGAATATGAT
* *
39533216 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
39533243 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
39533271 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
39533286 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:39533301 original size:55 final size:53
Alignment explanation
Indices: 39533161--39533312 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
39533151 TAAATTGTAC
* *
39533161 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
39533214 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
39533269 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
39533313 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:39533317 original size:27 final size:27
Alignment explanation
Indices: 39533162--39533317 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
39533152 AAATTGTACA
* *
39533162 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
39533189 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
39533216 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
39533243 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
39533271 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
39533298 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
39533318 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:39535038 original size:38 final size:40
Alignment explanation
Indices: 39534982--39535242 Score: 181
Period size: 38 Copynumber: 6.1 Consensus size: 40
39534972 TGAATCAATA
39534982 TATGTAACCGTGGCATATCCACTTAGCACCACGTTACATG
1 TATGTAACCGTGGCATATCCACTTAGCACCACGTTACATG
*
39535022 T-T-TAACCGTGGTATATCCACTTAGCACCACGTTA-ATG
1 TATGTAACCGTGGCATATCCACTTAGCACCACGTTACATG
* * *
39535059 AATAAATATATGTAACCCTGACATATCCACTTAGCACCACATTACATG
1 --------TATGTAACCGTGGCATATCCACTTAGCACCACGTTACATG
* * * * *
39535107 TATCAATATGTGTAATCATGGTATATCAACTTAGCACCCCGTTACATG
1 ------TA--TGTAACCGTGGCATATCCACTTAGCACCACGTTACATG
* *
39535155 TA--TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATA
1 TATGTAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATG
39535200 TATGTAACCGTGGCATATCCACTTAGCACCACGTTACATG
1 TATGTAACCGTGGCATATCCACTTAGCACCACGTTACATG
39535240 TAT
1 TAT
39535243 CAATATGTGT
Statistics
Matches: 177, Mismatches: 22, Indels: 44
0.73 0.09 0.18
Matches are distributed among these distances:
37 3 0.02
38 56 0.32
39 2 0.01
40 6 0.03
41 2 0.01
42 3 0.02
43 1 0.01
44 2 0.01
45 5 0.03
46 7 0.04
47 56 0.32
48 34 0.19
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (40 bp):
TATGTAACCGTGGCATATCCACTTAGCACCACGTTACATG
Found at i:39535075 original size:85 final size:85
Alignment explanation
Indices: 39534932--39535109 Score: 293
Period size: 85 Copynumber: 2.1 Consensus size: 85
39534922 TTTCAAATTA
* * *
39534932 ACATGTATAACCGTGGCATATCCACTTAGCACCACATTAATGAATCAATATATGTAACCGTGGCA
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACATTAATGAATAAATATATGTAACCCTGACA
*
39534997 TATCCACTTAGCACCACGTT
66 TATCCACTTAGCACCACATT
* * *
39535017 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATGAATAAATATATGTAACCCTGACA
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACATTAATGAATAAATATATGTAACCCTGACA
39535082 TATCCACTTAGCACCACATT
66 TATCCACTTAGCACCACATT
39535102 ACATGTAT
1 ACATGTAT
39535110 CAATATGTGT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.29
Consensus pattern (85 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACATTAATGAATAAATATATGTAACCCTGACA
TATCCACTTAGCACCACATT
Found at i:39535139 original size:48 final size:48
Alignment explanation
Indices: 39535019--39535290 Score: 307
Period size: 48 Copynumber: 5.9 Consensus size: 48
39535009 ACCACGTTAC
* * *
39535019 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATAAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * ** *
39535066 ATATGTAACCCTGACATATCCACTTAGCACCACATTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * * *
39535114 ATGTGTAATCATGGTATATCAACTTAGCACCCCGTTACATG------T
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
*
39535156 A----TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
39535199 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
39535247 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
39535291 AACCTTGGTA
Statistics
Matches: 187, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
37 3 0.02
38 28 0.15
42 2 0.01
43 2 0.01
47 62 0.33
48 90 0.48
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:39535176 original size:133 final size:133
Alignment explanation
Indices: 39534939--39535314 Score: 592
Period size: 133 Copynumber: 2.8 Consensus size: 133
39534929 TTAACATGTA
* * * *
39534939 TAACCGTGGCATATCCACTTAGCACCACATTA-ATGAATCAATATATGTAACCGTGGCATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACATTACATGTATCAATATGTGTAATCGTGGTATATCCA
*
39535003 CTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATGAATAAATAT
66 CTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAATAAATAT
39535068 ATG
131 ATG
* * * *
39535071 TAACCCTGACATATCCACTTAGCACCACATTACATGTATCAATATGTGTAATCATGGTATATCAA
1 TAACCGTGGCATATCCACTTAGCACCACATTACATGTATCAATATGTGTAATCGTGGTATATCCA
* *
39535136 CTTAGCACCCCGTTACATGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATAT
66 CTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAATAAATAT
39535201 ATG
131 ATG
*
39535204 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACATTACATGTATCAATATGTGTAATCGTGGTATATCCA
* * * **
39535269 CTTAGCACCACGTTACACGTATAACCTTGGTACATCTGCTTAGCAC
66 CTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAGCAC
39535315 AACATTTTTT
Statistics
Matches: 221, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
132 30 0.14
133 191 0.86
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (133 bp):
TAACCGTGGCATATCCACTTAGCACCACATTACATGTATCAATATGTGTAATCGTGGTATATCCA
CTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAATAAATAT
ATG
Found at i:39535224 original size:85 final size:86
Alignment explanation
Indices: 39535081--39535242 Score: 245
Period size: 85 Copynumber: 1.9 Consensus size: 86
39535071 TAACCCTGAC
* * * * *
39535081 ATATCCACTTAGCACCACATTACATGTATCAATATGTGTAATCATGGTATATCAACTTAGCACCC
1 ATATCCACTTAGCACCACATTACATGAATCAATATATGTAACCATGGCATATCAACTTAGCACCA
39535146 CGTTACATGTATAACCGTGGT
66 CGTTACATGTATAACCGTGGT
* * *
39535167 ATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCA
1 ATATCCACTTAGCACCACATTACATGAATCAATATATGTAACCATGGCATATCAACTTAGCACCA
39535231 CGTTACATGTAT
66 CGTTACATGTAT
39535243 CAATATGTGT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
85 47 0.69
86 21 0.31
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (86 bp):
ATATCCACTTAGCACCACATTACATGAATCAATATATGTAACCATGGCATATCAACTTAGCACCA
CGTTACATGTATAACCGTGGT
Found at i:39538839 original size:18 final size:18
Alignment explanation
Indices: 39538816--39538867 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
39538806 GACTTGTATT
*
39538816 CTGTTTACTGATACTGCA
1 CTGTTTACTGTTACTGCA
*
39538834 CTGTTTACTGTTACTACA
1 CTGTTTACTGTTACTGCA
*
39538852 CTTTTTACTGTTACTG
1 CTGTTTACTGTTACTG
39538868 AATTTGGCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (18 bp):
CTGTTTACTGTTACTGCA
Found at i:39545170 original size:20 final size:21
Alignment explanation
Indices: 39545147--39545187 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
39545137 AATACATGAG
39545147 TATTTTG-ATGTTTGATGATA
1 TATTTTGAATGTTTGATGATA
39545167 TATTTTGAATGTTTGATGATA
1 TATTTTGAATGTTTGATGATA
39545188 GTTATACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TATTTTGAATGTTTGATGATA
Found at i:39545839 original size:29 final size:28
Alignment explanation
Indices: 39545806--39545862 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
39545796 GTGAGTTACA
*
39545806 CTGATTTGGCTTCGGGCCATGAATATCAG
1 CTGATTTGGCTTCGAGCCAT-AATATCAG
*
39545835 CTGATTTGGCTTCGAGCCATCATATCAG
1 CTGATTTGGCTTCGAGCCATAATATCAG
39545863 TATTTCAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.32
Consensus pattern (28 bp):
CTGATTTGGCTTCGAGCCATAATATCAG
Found at i:39547347 original size:19 final size:18
Alignment explanation
Indices: 39547282--39547347 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 18
39547272 TTATGGACAA
*
39547282 AATGTTTAATTGTGATTG
1 AATGTTTAAATGTGATTG
39547300 AATTGTTTATTAAT-TGATT-
1 AA-TGTTTA--AATGTGATTG
39547319 AAT-TTT--ATGTGAATTG
1 AATGTTTAAATGTG-ATTG
39547335 AATGTTTAAATGT
1 AATGTTTAAATGT
39547348 TTTATAAGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 17
0.68 0.02 0.30
Matches are distributed among these distances:
13 2 0.05
14 2 0.05
15 3 0.08
16 3 0.08
17 6 0.16
18 3 0.08
19 12 0.32
20 5 0.13
21 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.52
Consensus pattern (18 bp):
AATGTTTAAATGTGATTG
Found at i:39548263 original size:16 final size:17
Alignment explanation
Indices: 39548226--39548263 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
39548216 TGTACGAGTT
39548226 TATATGCTGAAATTAAA
1 TATATGCTGAAATTAAA
*
39548243 T-TATG-TGAAATTATA
1 TATATGCTGAAATTAAA
39548258 TATATG
1 TATATG
39548264 AAAGTTGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 10 0.53
16 8 0.42
17 1 0.05
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (17 bp):
TATATGCTGAAATTAAA
Found at i:39548449 original size:43 final size:42
Alignment explanation
Indices: 39548402--39548545 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 42
39548392 TATGCGTTCT
39548402 CATGTAAGACCATGTCTGAGACGCTGGCATCGATCTATGATTA
1 CATGTAAGACCATGTCTGAGACG-TGGCATCGATCTATGATTA
* * *
39548445 CATGTAAGACCATGTCTGGGACATCGGTATCGTAT-T-TGATT-
1 CATGTAAGACCATGTCTGAGACGT-GGCATCG-ATCTATGATTA
* *
39548486 CGTGTAAGACCCTGTCT-AGGACAGTGGCATCGATCTGA-GA-TA
1 CATGTAAGACCATGTCTGA-GAC-GTGGCATCGATCT-ATGATTA
*
39548528 GCATGTAAGACCACGTCT
1 -CATGTAAGACCATGTCT
39548546 AGGACATTGG
Statistics
Matches: 81, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
40 2 0.02
41 26 0.32
42 9 0.11
43 42 0.52
44 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGAGACGTGGCATCGATCTATGATTA
Found at i:39549669 original size:29 final size:29
Alignment explanation
Indices: 39549637--39549694 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
39549627 TAATGGAGTA
39549637 AATGATGGATGTTATTAAGTTAAAATATG
1 AATGATGGATGTTATTAAGTTAAAATATG
*
39549666 AATGATGGATGTTATTGAGTTAAAATATG
1 AATGATGGATGTTATTAAGTTAAAATATG
39549695 TAAAGTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.38
Consensus pattern (29 bp):
AATGATGGATGTTATTAAGTTAAAATATG
Found at i:39551803 original size:28 final size:29
Alignment explanation
Indices: 39551755--39551845 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
39551745 AAGTCTACAT
* * *
39551755 ACATGCATATGGTCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
39551783 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
39551812 AGATTCATATGGCCCATTTGGCCCGAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
39551841 A-ATTC
1 ACATTC
39551846 CAAGCCATGT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
28 24 0.44
29 30 0.56
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:39555168 original size:43 final size:43
Alignment explanation
Indices: 39555013--39555222 Score: 126
Period size: 43 Copynumber: 4.9 Consensus size: 43
39555003 CAGAAGCTCG
* * * *
39555013 TACAATGCCAACGTCCTAGACGTGGCCTTACATGTAA--TCAA
1 TACAATGCCAACATCCTAGACGTGGTCTTACACGAAATCTCAA
* * * * *
39555054 GTATCAAAGCC-ACTGTCCCAGACAG-GCTCTTACATGAAATCAT-AA
1 -TA-CAATGCCAAC-ATCCTAGAC-GTGGTCTTACACGAAATC-TCAA
* ** * *
39555099 TACAGTGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAA
1 TACAATGCCAACATCCTAGACGTGGTCTTACACGAAATCTCAA
* * * *
39555142 TACAATGACAACATCCTAGACGTGGTCTTTCATGTAAATCTCAGG
1 TACAATGCCAACATCCTAGACGTGGTCTTACACG-AAATCTCA-A
* * *
39555187 T-CGATTCCAACATCCTAGATGTGGTCTTACACGAAA
1 TACAATGCCAACATCCTAGACGTGGTCTTACACGAAA
39555223 ACACATATCA
Statistics
Matches: 131, Mismatches: 26, Indels: 21
0.74 0.15 0.12
Matches are distributed among these distances:
42 5 0.04
43 84 0.64
44 38 0.29
45 3 0.02
46 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
TACAATGCCAACATCCTAGACGTGGTCTTACACGAAATCTCAA
Found at i:39563122 original size:39 final size:40
Alignment explanation
Indices: 39563077--39563301 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
39563067 GCTCCTCGTT
* * * *
39563077 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
39563117 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39563156 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
39563196 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
39563236 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
39563277 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39563302 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39563310 original size:41 final size:41
Alignment explanation
Indices: 39563233--39563310 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39563223 CTTGTATCTC
* * *
39563233 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39563274 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39563311 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39571053 original size:39 final size:40
Alignment explanation
Indices: 39571008--39571232 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
39570998 GCTCCTCGTT
* * * *
39571008 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
39571048 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39571087 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
39571127 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
39571167 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
39571208 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39571233 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39571241 original size:41 final size:41
Alignment explanation
Indices: 39571164--39571241 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39571154 CTTGTATCTC
* * *
39571164 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39571205 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39571242 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39582102 original size:40 final size:39
Alignment explanation
Indices: 39582026--39582259 Score: 310
Period size: 40 Copynumber: 5.9 Consensus size: 39
39582016 GGATATAACC
* * * * * *
39582026 ACTCGCACAAGGCCGTCAGGTCATAGCCCGGATATAGCT-
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGTTATAG-TA
* *
39582065 ACTCGCTCACATGCCTTCGGGACTTAGCCCAGTTATAGTA
1 ACTCGCACA-ATGCCTTCGGGACTTAGCCCGGTTATAGTA
39582105 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAA-TGCCTTCGGGACTTAGCCCGGTTATAGTA
*
39582145 ACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTA
1 ACTCGCACAA-TGCCTTCGGGACTTAGCCCGGTTATAGTA
*
39582185 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGTTATAGTA
39582225 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGTTAT
39582260 CAATCCGAAT
Statistics
Matches: 177, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 23 0.13
40 152 0.86
41 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:39584152 original size:54 final size:54
Alignment explanation
Indices: 39584052--39584183 Score: 212
Period size: 54 Copynumber: 2.5 Consensus size: 54
39584042 ATCTTTGCCA
* * *
39584052 GGATTACCAGCCCAGGCTAAAT-CCTCATATCGTAATCTCATAAGGTGATGTTG
1 GGATTACCAGTCCAGGCTAAATCCCCCATATCGTAATCTCATAAGGTGATGTCG
*
39584105 GGATTACCAGTCCAGGATAAATCCCCCATATCGTAATCTCATAAGGTGATGTCG
1 GGATTACCAGTCCAGGCTAAATCCCCCATATCGTAATCTCATAAGGTGATGTCG
*
39584159 GGATTACTAGTCCAGGCTAAATCCC
1 GGATTACCAGTCCAGGCTAAATCCC
39584184 TTATTGCGAT
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 20 0.28
54 52 0.72
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCCATATCGTAATCTCATAAGGTGATGTCG
Found at i:39587811 original size:40 final size:40
Alignment explanation
Indices: 39587756--39587979 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
39587746 TATTCGGATG
*
39587756 ATATCCGGGCTAAGTCCCGAGGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
39587796 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-CA--AGTTACT
* * *
39587839 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
39587879 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
39587919 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
39587959 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
39587980 ATACTTGGGT
Statistics
Matches: 162, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 13 0.08
40 112 0.69
41 1 0.01
43 36 0.22
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:39587899 original size:83 final size:80
Alignment explanation
Indices: 39587760--39587979 Score: 284
Period size: 83 Copynumber: 2.7 Consensus size: 80
39587750 CGGATGATAT
* * **
39587760 CCGGGCTAAGTCCCGAGGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
39587825 TG-TGAGTAGTTGCTATAC
66 TGCT-AGT-G--ACTATAC
*
39587843 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
39587908 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
39587923 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
39587980 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 14 0.11
80 42 0.34
81 2 0.02
82 1 0.01
83 65 0.52
84 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:39587999 original size:123 final size:123
Alignment explanation
Indices: 39587756--39587980 Score: 323
Period size: 123 Copynumber: 1.9 Consensus size: 123
39587746 TATTCGGATG
* ** * *
39587756 ATATCCGGGCTAAGTCCCGAGGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
39587821 TTTGTGTGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTTGTGTGAGTAGTTGCTATACCCGGGCTAAATCCCGAAGACATTTGTGCAAGTGACT
*
39587879 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
39587944 -TT-TGTGCG-AGTTGCTATATCC-GGCTAAATCCCGAAGA
66 TTTGTGTGAGTAGTTGCTATACCCGGGCTAAATCCCGAAGA
39587981 TACTTGGGTT
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
119 14 0.15
120 12 0.13
121 5 0.05
122 2 0.02
123 59 0.64
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (123 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGTGAGTAGTTGCTATACCCGGGCTAAATCCCGAAGACATTTGTGCAAGTGACT
Found at i:39606423 original size:43 final size:42
Alignment explanation
Indices: 39606364--39606519 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 42
39606354 TCAAAGCAAC
* *
39606364 TGTCCCAGATAGGGTCTTACACAAAATCATAATACGATGCCAA
1 TGTCCCAGACATGGTCTTACACAAAATC-TAATACGATGCCAA
* *** * *
39606407 TGTCCCAGCCATGGTCTTACATGCAATCTCAATACAATGTCAA
1 TGTCCCAGACATGGTCTTACACAAAATCT-AATACGATGCCAA
* * * * *
39606450 TGTCCTAGACATGGTATTACATATAAATCTTAGGT-TGATGCCAA
1 TGTCCCAGACATGGTCTTACACA-AAATC-TA-ATACGATGCCAA
*
39606494 TGTCCCAGACATGGTCTTAGACAAAA
1 TGTCCCAGACATGGTCTTACACAAAA
39606520 GCACATATCG
Statistics
Matches: 88, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
42 1 0.01
43 55 0.62
44 30 0.34
45 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (42 bp):
TGTCCCAGACATGGTCTTACACAAAATCTAATACGATGCCAA
Found at i:39611065 original size:15 final size:15
Alignment explanation
Indices: 39611045--39611074 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
39611035 GAGATTAGGC
39611045 CCTTTTTGCAAATTA
1 CCTTTTTGCAAATTA
39611060 CCTTTTTGCAAATTA
1 CCTTTTTGCAAATTA
39611075 AGCACACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
CCTTTTTGCAAATTA
Found at i:39613979 original size:28 final size:28
Alignment explanation
Indices: 39613916--39614066 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
39613906 ATATTAAGTC
*
39613916 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
39613943 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
39613971 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
39613999 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * * *
39614027 CACACACTTAGTGATGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
39614056 CGCACACTTAG
1 CGCACACTTAG
39614067 CGCCAATCTC
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 22 0.20
28 75 0.67
29 15 0.13
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:39627355 original size:20 final size:21
Alignment explanation
Indices: 39627332--39627372 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
39627322 AATACATGAG
39627332 TATTTTG-ATGTTTGATGATA
1 TATTTTGAATGTTTGATGATA
39627352 TATTTTGAATGTTTGATGATA
1 TATTTTGAATGTTTGATGATA
39627373 GTTATACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TATTTTGAATGTTTGATGATA
Found at i:39631498 original size:25 final size:28
Alignment explanation
Indices: 39631413--39631536 Score: 141
Period size: 28 Copynumber: 4.5 Consensus size: 28
39631403 ATATTAAGTC
* * *
39631413 CGCACACTCAGGGCTATAATAATC-AACT
1 CGCACACTTAGTGCTA-CATAATCAAACT
* *
39631441 CACACACTTAGTGCTATAATAATCAAACT
1 CGCACACTTAGTGCTA-CATAATCAAACT
39631470 CGCACA-TTAGTGCTACA-AAT-AAACT
1 CGCACACTTAGTGCTACATAATCAAACT
39631495 CGCACA-TTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
39631522 CGTACACTTAGTGCT
1 CGCACACTTAGTGCT
39631537 GTACAATTTA
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
25 22 0.26
26 6 0.07
27 11 0.13
28 38 0.44
29 9 0.10
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:39642163 original size:28 final size:28
Alignment explanation
Indices: 39642100--39642248 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
39642090 ATATTAAGTC
*
39642100 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
39642127 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
39642155 CGCACACTTAGTGC--TATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
39642181 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
39642209 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
39642238 CGCACACTTAG
1 CGCACACTTAG
39642249 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
26 26 0.24
27 21 0.19
28 46 0.42
29 16 0.15
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:39642187 original size:54 final size:53
Alignment explanation
Indices: 39642100--39642223 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 53
39642090 ATATTAAGTC
* *
39642100 CGCACACTCAGTGCTATATAATCAACTCACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGC--TATAATCAACTCACACACTTAGTGCTACATAATCAAACT
*
39642155 CGCACACTTAGTGCTATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATAATC-AACTCACACACTTAGTGCTACATAATCAAACT
39642209 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39642224 GTACAATTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
53 7 0.11
54 45 0.69
55 13 0.20
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTATAATCAACTCACACACTTAGTGCTACATAATCAAACT
Found at i:39645397 original size:27 final size:26
Alignment explanation
Indices: 39645341--39645397 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
39645331 CAACCTTAAC
* *
39645341 CCTAGGGGTATATTAGTAATTTTACT
1 CCTAGGGGTAAATTAGTAATTTTACA
*
39645367 CCTAGGGGTAAATCT-GTAAATTTTCCA
1 CCTAGGGGTAAAT-TAGT-AATTTTACA
39645394 CCTA
1 CCTA
39645398 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATTAGTAATTTTACA
Found at i:39650007 original size:16 final size:17
Alignment explanation
Indices: 39649970--39650007 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
39649960 TGTACGAGTT
39649970 TATATGCTGAAATTAAA
1 TATATGCTGAAATTAAA
*
39649987 T-TATG-TGAAATTATA
1 TATATGCTGAAATTAAA
39650002 TATATG
1 TATATG
39650008 AAAGTCGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 10 0.53
16 8 0.42
17 1 0.05
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (17 bp):
TATATGCTGAAATTAAA
Found at i:39650196 original size:43 final size:43
Alignment explanation
Indices: 39650146--39650253 Score: 123
Period size: 43 Copynumber: 2.5 Consensus size: 43
39650136 TATGTGTTCC
*
39650146 CATGTAAGACCACGTCTGGGACACTAGCATCGATCTATGA-TTA-
1 CATGTAAGACCACGTCTGGGACACTAGCATCGA--TATGAGATAG
* * *
39650189 CGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGAGATAG
1 CATGTAAGACCAC-GTCTGGGACACTAGCATCGATATGAGATAG
*
39650232 CATGTAAGACCACGTCTAGGAC
1 CATGTAAGACCACGTCTGGGAC
39650254 GTTGGCATTG
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
41 5 0.09
42 3 0.05
43 46 0.84
44 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACACTAGCATCGATATGAGATAG
Found at i:39650951 original size:54 final size:54
Alignment explanation
Indices: 39650879--39650992 Score: 201
Period size: 54 Copynumber: 2.1 Consensus size: 54
39650869 GGTATTTGAT
* *
39650879 AAGTTTAAATTTGAACCTATGGCATGTATAGGCTAGTTAATATGTTTGATTTTG
1 AAGTTGAAATTTGAACCTATGGCATGTATAGGCTAGTTAATATGTTAGATTTTG
*
39650933 ATGTTGAAATTTGAACCTATGGCATGTATAGGCTAGTTAATATGTTAGATTTTG
1 AAGTTGAAATTTGAACCTATGGCATGTATAGGCTAGTTAATATGTTAGATTTTG
39650987 AAGTTG
1 AAGTTG
39650993 TGTATATATT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (54 bp):
AAGTTGAAATTTGAACCTATGGCATGTATAGGCTAGTTAATATGTTAGATTTTG
Found at i:39655439 original size:12 final size:13
Alignment explanation
Indices: 39655405--39655444 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
39655395 TTTTTTTCAG
39655405 TAGTTTATTGATA
1 TAGTTTATTGATA
39655418 TAGTCATTATT-ATA
1 TAGT--TTATTGATA
39655432 TAGTTTATTGATA
1 TAGTTTATTGATA
39655445 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
14 7 0.29
15 5 0.21
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (13 bp):
TAGTTTATTGATA
Found at i:39661950 original size:6 final size:6
Alignment explanation
Indices: 39661928--39662015 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
39661918 AAGAAACATT
* *
39661928 ATCAGA A-CTAGA ATCAGA GTCAGA ATCAGA ATCAGGTG AT-AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * *
39661977 ATTAGA ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
39662016 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 5 0.08
6 49 0.79
7 5 0.08
8 3 0.05
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:39661971 original size:31 final size:31
Alignment explanation
Indices: 39661936--39662015 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
39661926 TTATCAGAAC
* *
39661936 TAGAATCAGAGTCAGAATCAGAATCAGGTGA
1 TAGAATCAGAATCAGAATCAGAATCAGGTAA
* * *
39661967 TAGAATCAGAATTAGAATCAGTATTAGGTAA
1 TAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
39661998 CAGAATCAAAATCAGAAT
1 TAGAATCAGAATCAGAAT
39662016 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (31 bp):
TAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:39662170 original size:27 final size:27
Alignment explanation
Indices: 39662130--39662189 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
39662120 AGCATTGCTG
*
39662130 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGACAGAGCCA
* *
39662156 CCAGATACAGATATTTGTGGCATAGCCA
1 CCAGA-ACAGATATTTGTGACAGAGCCA
39662184 CCAGAA
1 CCAGAA
39662190 TCAAATAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.17
27 8 0.28
28 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGACAGAGCCA
Found at i:39662808 original size:27 final size:27
Alignment explanation
Indices: 39662778--39663243 Score: 493
Period size: 27 Copynumber: 17.3 Consensus size: 27
39662768 GGGGCAAAAT
* *
39662778 GGTAATTTTACCCTA-AGAGGGTATCTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
* **
39662805 GGTAATTCTACCTTACAGGGGTAAATC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
39662832 AGTATTTCTAACCTACAAGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
39662859 GGTAATTCTACCCTACAGTGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
39662886 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39662913 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
39662940 GATAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
39662967 AGTAATTATACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
39662994 GGTAGTTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39663021 AGTAATTATACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39663048 GATAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
39663075 GGTAATTCTACCTTACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
39663102 AATAATTCTACCCTACAGTGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39663129 GGTAATTCTACCCTACAGGGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
39663156 TGTAATTCTACCTTAGAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
39663183 AATAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
39663210 GCTAATTCTACCTTACAGTGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39663237 GGTAATT
1 GGTAATT
39663244 TTGTAAATCA
Statistics
Matches: 361, Mismatches: 77, Indels: 2
0.82 0.17 0.00
Matches are distributed among these distances:
27 359 0.99
28 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:39663312 original size:27 final size:27
Alignment explanation
Indices: 39663282--39663703 Score: 371
Period size: 27 Copynumber: 15.6 Consensus size: 27
39663272 TGTAAATCAG
* ** *
39663282 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAAACAA
* * * *** *
39663309 GGGTATTTCGATAATTTTGCAGGTCGA
1 GGGTATTTTGGTAATTTTACAAAACAA
* ** * *
39663336 GGATATTTCAGTAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTTACAAAACAA
* * *
39663363 GGGTAGTTTGGTAATTCTAC-AAACTAG
1 GGGTATTTTGGTAATTTTACAAAAC-AA
* *
39663390 GGGTATTTTGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAAACAA
* *
39663417 GGGTGTTTTGGTAATTTTAC-AAACTAG
1 GGGTATTTTGGTAATTTTACAAAAC-AA
* * *
39663444 GGGCATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAAACAA
* * *
39663471 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAAACAA
** * *
39663498 GGGTATTTTGGTAATTTTGTAAACCAG
1 GGGTATTTTGGTAATTTTACAAAACAA
* *
39663525 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAAACAA
* *
39663552 GGGTATTTTGGTAATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTACAAAACAA
* * *
39663579 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAAACAA
* * * *
39663606 TGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAAACAA
** *
39663633 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAAACAA
* *
39663660 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAAACAA
39663687 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
39663704 GGTAAACTAA
Statistics
Matches: 327, Mismatches: 64, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
26 6 0.02
27 315 0.96
28 6 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAAACAA
Found at i:39663431 original size:81 final size:81
Alignment explanation
Indices: 39663279--39663703 Score: 474
Period size: 81 Copynumber: 5.2 Consensus size: 81
39663269 TTCTGTAAAT
* ** * * * *** * *
39663279 CAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCGATAATTTTGCAGGTCGAGGATATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGATAATTTTACAAACCAAGGGTATTT
** * *
39663344 CAGTAATTTCACAAAT
66 TGGTAATTTTACAAAC
* * * * * *
39663360 CAAGGGTAGTTTGGTAATTCTACAAACTAGGGGTATTTTGATAATTTTACAAACCAAGGGTGTTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGATAATTTTACAAACCAAGGGTATTT
39663425 TGGTAATTTTACAAAC
66 TGGTAATTTTACAAAC
* * * *
39663441 TAGGGGCATTTTGGTAATTTTATAAACCAAGGGTATTTT-AGTAATTTTACAAACCAGGGGTATT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGA-TAATTTTACAAACCAAGGGTATT
**
39663505 TTGGTAATTTTGTAAAC
65 TTGGTAATTTTACAAAC
* * * *
39663522 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGATAATTTTACAAACCAAGGGTATTT
* *
39663587 TGGTGATTTTATAAAC
66 TGGTAATTTTACAAAC
** * * * **
39663603 CAATGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGATAATTTTACAAACCAAGGGTATTT
39663668 TGGTAATTTTACAAAC
66 TGGTAATTTTACAAAC
39663684 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
39663704 GGTAAACTAA
Statistics
Matches: 290, Mismatches: 52, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
80 1 0.00
81 289 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGATAATTTTACAAACCAAGGGTATTT
TGGTAATTTTACAAAC
Found at i:39663710 original size:27 final size:27
Alignment explanation
Indices: 39663346--39663703 Score: 473
Period size: 27 Copynumber: 13.3 Consensus size: 27
39663336 GGATATTTCA
* * * *
39663346 GTAATTTCACAAATCAAGGGTAGTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
39663373 GTAATTCTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * *
39663400 ATAATTTTACAAACCAAGGGTGTTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
39663427 GTAATTTTACAAACTAGGGGCATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * *
39663454 GTAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAACCAGGGGTATTTTG
39663481 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
**
39663508 GTAATTTTGTAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
39663535 GTAATTTTATAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
*
39663562 GTAATTTTACAAATCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * ** *
39663589 GTGATTTTATAAACCAATGGTATTTTA
1 GTAATTTTACAAACCAGGGGTATTTTG
39663616 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
** *
39663643 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
39663670 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
39663697 GTAATTT
1 GTAATTT
39663704 GGTAAACTAA
Statistics
Matches: 283, Mismatches: 48, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 283 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACCAGGGGTATTTTG
Found at i:39665667 original size:6 final size:6
Alignment explanation
Indices: 39665649--39665736 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
39665639 AAGAAACATT
* *
39665649 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
39665698 ATCAGA ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
39665737 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:39665699 original size:31 final size:31
Alignment explanation
Indices: 39665658--39665736 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
39665648 TATCAGAACT
*
39665658 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
39665689 AGAATTAGAATCAGAATCAGTATTAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
39665720 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
39665737 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:39665906 original size:28 final size:26
Alignment explanation
Indices: 39665851--39665932 Score: 85
Period size: 28 Copynumber: 3.0 Consensus size: 26
39665841 AACATTGCTG
* *
39665851 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
39665877 CCAGATACAGATATTTGTGGCATG-GCCA
1 CCAGA-ACAGATA-TTGTGGCA-GAGCCA
* *
39665905 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAGAGCCA
39665932 C
1 C
39665933 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
26 5 0.11
27 20 0.43
28 21 0.45
29 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:39666526 original size:27 final size:27
Alignment explanation
Indices: 39666496--39666960 Score: 497
Period size: 27 Copynumber: 17.3 Consensus size: 27
39666486 GGGGCAAAAT
* *
39666496 GGTAATTTTACCCTA-AGAGGGTATCTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
* **
39666523 GGTAATTCTACCTTACAGGGGTAAATC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * * *
39666550 AATATTTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39666577 GGTAATTCTACCCTGA-AGGGGTATTTC
1 GGTAATTCTACCCT-ACAGGGGTATTTC
39666604 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
39666631 GATAATTCTACCCTAC-GGTGGTATTTC
1 GGTAATTCTACCCTACAGG-GGTATTTC
* *
39666658 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39666685 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
39666712 GATAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
39666739 AGTAATTATACCCTACAGGGGTTTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
39666766 GATAATTCTAACATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
39666793 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** **
39666820 AATAATTCTACCCTACAATGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39666847 GGTAATTCTACCCTACAGGGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
39666874 TGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
39666901 AATAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * * *
39666928 ACTAATTCTACCTTACA-GGGTGTCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39666954 GGTAATT
1 GGTAATT
39666961 TTGTAAATCG
Statistics
Matches: 366, Mismatches: 67, Indels: 11
0.82 0.15 0.02
Matches are distributed among these distances:
26 15 0.04
27 346 0.95
28 5 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:39667040 original size:27 final size:27
Alignment explanation
Indices: 39667010--39667074 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
39667000 GGTACTTTGG
*
39667010 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGATATTTCAA
** * *
39667037 TAATTTTGTAGGTCGAGGATATTTCAG
1 TAATTTTACAAGTCGAGGATATTTCAA
*
39667064 TAATTTCACAA
1 TAATTTTACAA
39667075 ATCAGGGGTA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGATATTTCAA
Found at i:39667086 original size:27 final size:27
Alignment explanation
Indices: 39667063--39667393 Score: 416
Period size: 27 Copynumber: 12.3 Consensus size: 27
39667053 GGATATTTCA
* * * *
39667063 GTAATTTCACAAATCAGGGGTATTATG
1 GTAATTTTACAAACCAAGGGTATTTTG
* *
39667090 GTAATTCTACAAACTAAGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
* *
39667117 ATAATTTTACAAACCAATGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
*
39667144 GTAATTTTACAAA-CTAGGGTTATTTTG
1 GTAATTTTACAAACCAAGGG-TATTTTG
* *
39667171 GTAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAACCAAGGGTATTTTG
*
39667198 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
39667225 GTAATTTTTA-AAACCAAGGGTATTTTG
1 GTAA-TTTTACAAACCAAGGGTATTTTG
*
39667252 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
* * * *
39667279 GTGATTTTATAAACCAAGGATATTTTA
1 GTAATTTTACAAACCAAGGGTATTTTG
* *
39667306 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
**
39667333 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
*
39667360 GTAATTTTACAAACC-AGAGGTATTTTC
1 GTAATTTTACAAACCAAG-GGTATTTTG
39667387 GTAATTT
1 GTAATTT
39667394 GGTAAACTAA
Statistics
Matches: 260, Mismatches: 39, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
26 11 0.04
27 239 0.92
28 10 0.04
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACCAAGGGTATTTTG
Found at i:39667400 original size:54 final size:54
Alignment explanation
Indices: 39667080--39667393 Score: 459
Period size: 54 Copynumber: 5.8 Consensus size: 54
39667070 CACAAATCAG
* * * * * *
39667080 GGGTATTATGGTAATTCTACAAACTAAGGGTATTTTGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* * *
39667134 TGGTATTTTGGTAATTTTACAAACTAGGGTTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
*
39667188 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTT-TAAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAT-AAACCAA
*
39667242 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* * * *
39667296 GGATATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* *
39667350 GGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTCGTAATTT
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
39667394 GGTAAACTAA
Statistics
Matches: 235, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
53 1 0.00
54 233 0.99
55 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:39668853 original size:42 final size:41
Alignment explanation
Indices: 39668762--39668934 Score: 258
Period size: 41 Copynumber: 4.2 Consensus size: 41
39668752 TTTTTGAATC
* *
39668762 AATGAAACGGTTGAAAAGGATGTTATCCAAAATGGATATAA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATAA
*
39668803 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAATGATATAA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATAA
* * *
39668844 AATAAAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATATCA
1 AAT-GAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATAA
*
39668886 AATGAAAAGGTTGAAAAGGATTTTATCCAAAAAGGATA-ACA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATA-A
39668927 AATGAAAA
1 AATGAAAA
39668935 TGATGTATTT
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
41 82 0.69
42 37 0.31
ACGTcount: A:0.51, C:0.06, G:0.20, T:0.23
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATAA
Found at i:39668870 original size:83 final size:83
Alignment explanation
Indices: 39668770--39668923 Score: 265
Period size: 83 Copynumber: 1.9 Consensus size: 83
39668760 TCAATGAAAC
39668770 GGTTGAAAAGGATGTTATCC-AAAATGGATATAAAATGAAAAGGTTGAAAAGGATGTTATCCAAA
1 GGTTGAAAAGGATGTTATCCGAAAA-GGATATAAAATGAAAAGGTTGAAAAGGATGTTATCCAAA
*
39668834 AATGATATAAAATAAAAAA
65 AAGGATATAAAATAAAAAA
* *
39668853 GGTTGAAAAGGATGTTATCCGAAAAGGATATCAAATGAAAAGGTTGAAAAGGATTTTATCCAAAA
1 GGTTGAAAAGGATGTTATCCGAAAAGGATATAAAATGAAAAGGTTGAAAAGGATGTTATCCAAAA
39668918 AGGATA
66 AGGATA
39668924 ACAAATGAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
83 63 0.94
84 4 0.06
ACGTcount: A:0.49, C:0.06, G:0.21, T:0.24
Consensus pattern (83 bp):
GGTTGAAAAGGATGTTATCCGAAAAGGATATAAAATGAAAAGGTTGAAAAGGATGTTATCCAAAA
AGGATATAAAATAAAAAA
Found at i:39670047 original size:19 final size:18
Alignment explanation
Indices: 39670020--39670057 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
39670010 TGACCCTTGC
*
39670020 TTCCTAAATTTTCATATTT
1 TTCCAAAATTTTCA-ATTT
39670039 TTCCAAAATTTTCAATTT
1 TTCCAAAATTTTCAATTT
39670057 T
1 T
39670058 GTTTCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.29, C:0.16, G:0.00, T:0.55
Consensus pattern (18 bp):
TTCCAAAATTTTCAATTT
Found at i:39680083 original size:38 final size:38
Alignment explanation
Indices: 39680041--39680177 Score: 229
Period size: 38 Copynumber: 3.6 Consensus size: 38
39680031 TAAAGATCCA
*
39680041 CAGGCTTTGTGCTGGTATTATATCCGGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
39680079 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
* *
39680117 CAGGCTTCATGCTGGTATTATATTCGGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
* *
39680155 CAGGCTTAGTGTTGGTATTATAT
1 CAGGCTTCGTGCTGGTATTATAT
39680178 TCGAGCTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 93 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
Found at i:39685324 original size:45 final size:45
Alignment explanation
Indices: 39685256--39685463 Score: 346
Period size: 45 Copynumber: 4.6 Consensus size: 45
39685246 TGACATTTCA
*
39685256 CCTGCTAGGCTCGAAA-GCCCGAATAGTATCTCACCGGCATTATAG
1 CCTGCTAGGCTC-AAAGGCCCGAATAGTATATCACCGGCATTATAG
* * *
39685301 CCTGCTAGGCTCAAAGGCTCGAATAGCATATCACCGACATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATATCACCGGCATTATAG
* *
39685346 CCTGCTAGGCTCAAAGGCCCAAATAGTATATCGCCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATATCACCGGCATTATAG
39685391 CCTGCTAGGCTCAAAGGCCCGAATAGTATATCACCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATATCACCGGCATTATAG
39685436 CCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CCTGCTAGGCTCAAAGGCCCGAATAGTA
39685464 CTGTACGATA
Statistics
Matches: 151, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
44 3 0.02
45 148 0.98
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (45 bp):
CCTGCTAGGCTCAAAGGCCCGAATAGTATATCACCGGCATTATAG
Found at i:39686317 original size:25 final size:25
Alignment explanation
Indices: 39686289--39686456 Score: 207
Period size: 25 Copynumber: 6.7 Consensus size: 25
39686279 ACTTATTCAA
* * *
39686289 AAATAATAAGGGCAAATTTAACTAG
1 AAATATTAAGAGCAAATTTAACCAG
39686314 AAATATTAAGAGCAAAATTTAACC-G
1 AAATATTAAGAGC-AAATTTAACCAG
39686339 AAATTATTAAGAGCAAATTT-ACC-G
1 AAA-TATTAAGAGCAAATTTAACCAG
*
39686363 AAAATATTAAGAGCAAATTTAACCGG
1 -AAATATTAAGAGCAAATTTAACCAG
* *
39686389 AATTATTAAGAGCAAATTTAACCGG
1 AAATATTAAGAGCAAATTTAACCAG
* *
39686414 AATTATTAAGAACAAATTTAACCAG
1 AAATATTAAGAGCAAATTTAACCAG
*
39686439 AATTATTAAGAGCAAATT
1 AAATATTAAGAGCAAATT
39686457 ATCAAGCTTT
Statistics
Matches: 131, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
24 20 0.15
25 91 0.69
26 20 0.15
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (25 bp):
AAATATTAAGAGCAAATTTAACCAG
Found at i:39690681 original size:56 final size:56
Alignment explanation
Indices: 39690590--39690726 Score: 229
Period size: 56 Copynumber: 2.4 Consensus size: 56
39690580 GACCATGGCA
* *
39690590 TCGATATATGAGTGCGAGTAAGACCACGTTCAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTCAATACGTTGGCATCGATATGTAATT
*
39690646 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTAATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTCAATACGTTGGCATCGATATGTAATT
* *
39690702 TTGATTTATGTGTGCGAGTAAGACC
1 TCGATATATGTGTGCGAGTAAGACC
39690727 CTATCTGGGA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 76 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTCAATACGTTGGCATCGATATGTAATT
Found at i:39697558 original size:27 final size:27
Alignment explanation
Indices: 39697528--39697764 Score: 196
Period size: 27 Copynumber: 8.8 Consensus size: 27
39697518 AGAATTATTG
**
39697528 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTAATTTACAAAATTACCA
* ** *
39697555 AAATA-CATGCATATAGCAAAATTACCA
1 AAATACCCTTAATTTA-CAAAATTACCA
* **
39697582 AAATACCCCTAATTTGTAAAATTACCA
1 AAATACCCTTAATTTACAAAATTACCA
* ** * *
39697609 AAATACCCTTGACATATAAAATTACTA
1 AAATACCCTTAATTTACAAAATTACCA
* *
39697636 AAATACCCTTAACTTGA-AAAATTACCG
1 AAATACCCTTAA-TTTACAAAATTACCA
*
39697663 AAATACCCTTAATTTATAAAATTACCA
1 AAATACCCTTAATTTACAAAATTACCA
** *
39697690 AAATATCCC-TAATTTGGAAAATTA-AA
1 AAATA-CCCTTAATTTACAAAATTACCA
* *
39697716 GAAATACCCCTAATTTACAAAATTACAA
1 -AAATACCCTTAATTTACAAAATTACCA
39697744 AAATACCCTTAACTTT-CAAAA
1 AAATACCCTTAA-TTTACAAAA
39697765 AATTATAGAA
Statistics
Matches: 169, Mismatches: 32, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
26 12 0.07
27 144 0.85
28 13 0.08
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.28
Consensus pattern (27 bp):
AAATACCCTTAATTTACAAAATTACCA
Found at i:39697711 original size:81 final size:81
Alignment explanation
Indices: 39697571--39697769 Score: 219
Period size: 81 Copynumber: 2.4 Consensus size: 81
39697561 ATGCATATAG
* * *
39697571 CAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCTTGACATATAAAATTACTA
1 CAAAATTACCAAAATACCCTTAATTTATAAAATTACCAAAATACCCTTGACATATAAAATTA-AA
*
39697636 -AAATACCCTTAACTTGA
65 GAAATACCCCTAA-TTGA
* *
39697653 -AAAATTACCGAAATACCCTTAATTTATAAAATTACCAAAATATCCC-T-A-ATTTGGAAAATTA
1 CAAAATTACCAAAATACCCTTAATTTATAAAATTACCAAAATA-CCCTTGACATAT--AAAATTA
*
39697714 AAGAAATACCCCTAATTTA
63 AAGAAATACCCCTAATTGA
* *
39697733 CAAAATTACAAAAATACCCTTAACTTTCAAAAAATTA
1 CAAAATTACCAAAATACCCTTAA-TTT-ATAAAATTA
39697770 TAGAAATACC
Statistics
Matches: 100, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
79 3 0.03
80 5 0.05
81 78 0.78
82 6 0.06
83 8 0.08
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.29
Consensus pattern (81 bp):
CAAAATTACCAAAATACCCTTAATTTATAAAATTACCAAAATACCCTTGACATATAAAATTAAAG
AAATACCCCTAATTGA
Found at i:39698121 original size:41 final size:41
Alignment explanation
Indices: 39698071--39698190 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 41
39698061 AAGAGGAAGA
*
39698071 AATTAAGGATCGCATGGTTGCTTGACGATCGTGGATCCACC
1 AATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
* *
39698112 GATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
1 AATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
* * **
39698153 AATTAAGGATCGCATGGTTACTTTATTACCGTGGATCC
1 AATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCC
39698191 GCCGGTGGCC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (41 bp):
AATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
Found at i:39699979 original size:21 final size:20
Alignment explanation
Indices: 39699942--39699989 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
39699932 ATCAGCTCAC
39699942 TTGAGCTCAATTCAGCTCGT
1 TTGAGCTCAATTCAGCTCGT
* *
39699962 TTGAGTTCGAATTTAGCTCGT
1 TTGAGCTC-AATTCAGCTCGT
*
39699983 TTCAGCT
1 TTGAGCT
39699990 TATTCCTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGAGCTCAATTCAGCTCGT
Found at i:39702457 original size:19 final size:20
Alignment explanation
Indices: 39702425--39702465 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
39702415 GAATGAAATC
39702425 GAGAGAAGAAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
39702445 GAGAGAA-AAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
39702464 GA
1 GA
39702466 AAGTGAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.71, C:0.05, G:0.24, T:0.00
Consensus pattern (20 bp):
GAGAGAAGAAACAAAGAAAA
Found at i:39704785 original size:10 final size:10
Alignment explanation
Indices: 39704772--39704807 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
39704762 AGCTCCCATC
39704772 AGCTCACTTG
1 AGCTCACTTG
* *
39704782 AGCTCAATTT
1 AGCTCACTTG
39704792 AGCTCACTTG
1 AGCTCACTTG
39704802 AGCTCA
1 AGCTCA
39704808 ATTCAGCTCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (10 bp):
AGCTCACTTG
Found at i:39704795 original size:20 final size:20
Alignment explanation
Indices: 39704772--39704848 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
39704762 AGCTCCCATC
39704772 AGCTCACTTGAGCTCAATTT
1 AGCTCACTTGAGCTCAATTT
*
39704792 AGCTCACTTGAGCTCAATTC
1 AGCTCACTTGAGCTCAATTT
** * *
39704812 AGCTCGTTTGAGTTTGAATTT
1 AGCTCACTTGAG-CTCAATTT
* *
39704833 AGCTCATTTCAGCTCA
1 AGCTCACTTGAGCTCA
39704849 TTCCTTCTTC
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
20 31 0.67
21 15 0.33
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (20 bp):
AGCTCACTTGAGCTCAATTT
Found at i:39709187 original size:43 final size:43
Alignment explanation
Indices: 39709132--39709260 Score: 170
Period size: 43 Copynumber: 3.0 Consensus size: 43
39709122 GCTGGTGAAT
*
39709132 AATATTATTGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATTGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
* * *
39709175 GATAATATTGGGCTTTGGGCCTAGCAGGCTATAATGCCGATGA
1 AATAATATTGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
* * ** *
39709218 AATGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGA
1 AATAATATTGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
39709260 A
1 A
39709261 TGAGTTCAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 11 0.15
43 63 0.85
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
AATAATATTGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
Done.