Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 243 of 325
Found at i:76177885 original size:144 final size:144
Alignment explanation
Indices: 76177625--76177904 Score: 524
Period size: 144 Copynumber: 1.9 Consensus size: 144
76177615 ACTAGAAGAG
* *
76177625 AAATTAAACCTCCTAAGAAGTATGCCTAGGTTGATCAAGTTGCTTATGCTTTAAATGTGGGGTGA
1 AAATTAAACCTCCTAAGAAGTATGCCTAGGTTAATCAAGTTGCTTATGCTTTAAATGTGGGGTAA
*
76177690 AGATATAGATGCGAACCAAGAGCCATCTAATTATTTTGAGGCGGTTAGCTGTGAAGACTCAGAAA
66 AGATATAGATGCGAACCAAGAGCCATCTAATTATTCTGAGGCGGTTAGCTGTGAAGACTCAGAAA
76177755 AGTGGATGTTTGCT
131 AGTGGATGTTTGCT
*
76177769 AAATTAAACCTCCTAAGAAGTATGCCTAGGTTAATCAAGTTGTTTATGCTTTAAATGTGGGGTAA
1 AAATTAAACCTCCTAAGAAGTATGCCTAGGTTAATCAAGTTGCTTATGCTTTAAATGTGGGGTAA
76177834 AGATATAGATGCGAACCAAGAGCCATCTAATTATTCTGAGGCGGTTAGCTGTGAAGACTCAGAAA
66 AGATATAGATGCGAACCAAGAGCCATCTAATTATTCTGAGGCGGTTAGCTGTGAAGACTCAGAAA
76177899 AGTGGA
131 AGTGGA
76177905 GATGAAATCA
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 132 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (144 bp):
AAATTAAACCTCCTAAGAAGTATGCCTAGGTTAATCAAGTTGCTTATGCTTTAAATGTGGGGTAA
AGATATAGATGCGAACCAAGAGCCATCTAATTATTCTGAGGCGGTTAGCTGTGAAGACTCAGAAA
AGTGGATGTTTGCT
Found at i:76180532 original size:23 final size:22
Alignment explanation
Indices: 76180506--76180550 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
76180496 CACTTCATAT
*
76180506 ACCAAAATCAAACCATAATCACA
1 ACCAAAACCAAACCAT-ATCACA
*
76180529 ACCAAAACCAAGCCATATCACA
1 ACCAAAACCAAACCATATCACA
76180551 TGGCTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.53, C:0.33, G:0.02, T:0.11
Consensus pattern (22 bp):
ACCAAAACCAAACCATATCACA
Found at i:76185448 original size:46 final size:46
Alignment explanation
Indices: 76185381--76185694 Score: 293
Period size: 46 Copynumber: 6.8 Consensus size: 46
76185371 TGTAACCCGC
* * *
76185381 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
76185427 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * * * * * *
76185477 --TTCA-CGAACTCGGACTCAATTCAACGAGCTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
76185520 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * * * * *
76185570 --TTCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCCCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
76185613 CCATAAGTGAACTCGAACACAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
76185659 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
76185695 ATGCCCAAAT
Statistics
Matches: 212, Mismatches: 38, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
42 4 0.02
43 8 0.04
44 2 0.01
45 4 0.02
46 125 0.59
47 51 0.24
48 5 0.02
49 2 0.01
50 7 0.03
51 4 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:76185501 original size:47 final size:47
Alignment explanation
Indices: 76185435--76185603 Score: 186
Period size: 47 Copynumber: 3.6 Consensus size: 47
76185425 ATCCATAAGT
* *
76185435 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
* * * * * *
76185482 GAACTCGGACTCAATTCAACGAGCTC--A-GAC-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT--TTCA-C
*
76185528 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
76185575 GAACTCGGACTCAACTCAACGAGCTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
76185604 CATTCCCATC
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 24 0.25
47 51 0.53
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
Found at i:76185501 original size:93 final size:92
Alignment explanation
Indices: 76185389--76185648 Score: 430
Period size: 93 Copynumber: 2.8 Consensus size: 92
76185379 GCCCATAAGT
* * *
76185389 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTC-GACTCAACTCAA
76185454 CGAGTTCGGATGCCTAGTTACATTTCAC
65 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
76185482 GAACTCGGACTCAATTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTC-GACTCAACTCAA
76185547 CGAGTTCGGATGCCTAGTTACATTTCAC
65 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
76185575 GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGAACACAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCG-ACTCAACTCAA
76185640 CGAGTTCGG
65 CGAGTTCGG
76185649 GCATTCGCAT
Statistics
Matches: 156, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
92 1 0.01
93 155 0.99
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:76188465 original size:14 final size:15
Alignment explanation
Indices: 76188442--76188479 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
76188432 TCCAAGATTG
76188442 AGAAACCCAGAA-AA
1 AGAAACCCAGAATAA
*
76188456 AGAAATCCAGAATAA
1 AGAAACCCAGAATAA
76188471 AGAAACCCA
1 AGAAACCCA
76188480 AGATACGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.61, C:0.21, G:0.13, T:0.05
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:76188474 original size:15 final size:15
Alignment explanation
Indices: 76188421--76188475 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
76188411 CAAGAAAACT
76188421 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
** *
76188436 -AGATTGAGAAACCCA
1 GA-ATAAAGAAATCCA
76188451 GAA-AAAGAAATCCA
1 GAATAAAGAAATCCA
76188465 GAATAAAGAAA
1 GAATAAAGAAA
76188476 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
14 12 0.39
15 18 0.58
16 1 0.03
ACGTcount: A:0.60, C:0.13, G:0.16, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:76189892 original size:2 final size:2
Alignment explanation
Indices: 76189885--76189912 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
76189875 GTGTTATCAC
76189885 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76189913 CATAAACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76191568 original size:47 final size:47
Alignment explanation
Indices: 76191506--76191668 Score: 192
Period size: 47 Copynumber: 3.5 Consensus size: 47
76191496 ATCCATAAGT
76191506 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * *
76191553 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGC-A--TACA--TAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACATTTCA-C
*
76191599 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
*
76191646 GAACTCGGACTCAACTCAACGAG
1 GAACTCAGACTCAACTCAACGAG
76191669 CTAGGACATT
Statistics
Matches: 96, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 29 0.30
47 53 0.55
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:76191572 original size:93 final size:91
Alignment explanation
Indices: 76191460--76191719 Score: 414
Period size: 93 Copynumber: 2.8 Consensus size: 91
76191450 CGTCCATAAG
*
76191460 CGAACTCGACTCAACTCAACGAGCTCTGG-CGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTC-GACTCAACTCA
76191524 ACGAGTTCGGATGCCTAGTTACATTTCA
64 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
76191552 CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATACATAAGTGAACTCGGACTCAACTCA
1 CGAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTC-GACTCAACTCA
76191617 ACGAGTTCGGATGCCTAGTTACATTTCA
64 ACGAGTTCGGATGCCTAGTTACATTTCA
*
76191645 CGAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCG-ACTCAACTCA
*
76191710 ATGAGTTCGG
64 ACGAGTTCGG
76191720 GCATTCGCAT
Statistics
Matches: 156, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
92 10 0.06
93 146 0.94
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (91 bp):
CGAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCA
Found at i:76191762 original size:46 final size:46
Alignment explanation
Indices: 76191452--76191765 Score: 268
Period size: 46 Copynumber: 6.8 Consensus size: 46
76191442 ATGTAACCCG
* * * *
76191452 TCCATAAGCGAACTC-GACTCAACTCAACGAGCTCTGGCGTTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCA
* *
76191497 TCCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCA
* * * * * * *
76191547 T--TTCA-CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCA
* *
76191590 TACATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCA
* * * * * *
76191640 T--TTCA-CGAACTCGGACTCAACTCAACGAGCTAGGACATTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCA
* *
76191683 TCCATAAGTGAACTCGAACTCAACTCAATGAGTTCGGGCATTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCA
76191729 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
76191766 ATGCCCAAAT
Statistics
Matches: 213, Mismatches: 37, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
42 4 0.02
43 8 0.04
44 2 0.01
45 18 0.08
46 111 0.52
47 52 0.24
48 5 0.02
49 2 0.01
50 7 0.03
51 4 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCA
Found at i:76196738 original size:23 final size:22
Alignment explanation
Indices: 76196712--76196756 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
76196702 CATTTCATAT
*
76196712 ACCAAAATCAAACCATAATCACA
1 ACCAAAACCAAACCAT-ATCACA
*
76196735 ACCAAAACCAAGCCATATCACA
1 ACCAAAACCAAACCATATCACA
76196757 TGGCTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.53, C:0.33, G:0.02, T:0.11
Consensus pattern (22 bp):
ACCAAAACCAAACCATATCACA
Found at i:76198414 original size:68 final size:68
Alignment explanation
Indices: 76198267--76198422 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
76198257 AGCCGATTTG
* * * * *
76198267 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
76198332 TATC
65 TATA
* *
76198336 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
76198398 ATATAGTA
62 ATATA-TA
76198406 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
76198423 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:76205544 original size:68 final size:68
Alignment explanation
Indices: 76205397--76205552 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
76205387 AGCCGATTTG
* * * * *
76205397 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
76205462 TATC
65 TATA
* *
76205466 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
76205528 ATATAGTA
62 ATATA-TA
76205536 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
76205553 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:76208017 original size:30 final size:29
Alignment explanation
Indices: 76207983--76208042 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
76207973 TTCCCGAGCC
76207983 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGT-AATATGCAAAAGTT
* * * *
76208013 TAGGGGCAAAATTGTAATTTTCAAAAGTT
1 TAGGGGAAAAAGTGTAATATGCAAAAGTT
76208042 T
1 T
76208043 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (29 bp):
TAGGGGAAAAAGTGTAATATGCAAAAGTT
Found at i:76219101 original size:26 final size:26
Alignment explanation
Indices: 76219071--76219121 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
76219061 TGAATATCCA
76219071 TTAATCAGG-AAGCTCACAAAGAGCCT
1 TTAATC-GGAAAGCTCACAAAGAGCCT
*
76219097 TTAATCGGAAAGCTCACGAAGAGCC
1 TTAATCGGAAAGCTCACAAAGAGCC
76219122 ATATAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
TTAATCGGAAAGCTCACAAAGAGCCT
Found at i:76221810 original size:48 final size:48
Alignment explanation
Indices: 76221733--76221992 Score: 272
Period size: 48 Copynumber: 5.4 Consensus size: 48
76221723 GGGTACATGT
* *
76221733 GAGCCAGTGTAAGACCATGCTTGGAACATGGCATCGACATTGTTATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTATTATGA
* * * * * * *
76221781 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTATTATGA
*
76221829 GAGCCAGTGAAAGACCATGTTTGGAACATGGCATC-AGCATTATTATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGA-CATTATTATGA
* * * * * * *
76221877 GAGCTAGTGTAAGACTATGTTTGGGACATGGCATC-AGCCTCAATATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGA-CATTATTATGA
* * * * * *
76221925 GAGCCAATGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTACGG
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTATTATGA
*
76221973 GAGCTAGTGTAAGACCATGT
1 GAGCCAGTGTAAGACCATGT
76221993 CTGAGATATA
Statistics
Matches: 171, Mismatches: 39, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
48 171 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTATTATGA
Found at i:76221897 original size:96 final size:95
Alignment explanation
Indices: 76221729--76222010 Score: 420
Period size: 96 Copynumber: 2.9 Consensus size: 95
76221719 GTTAGGGTAC
*
76221729 ATGTGAGCCAGTGTAAGACCATGCTTGGAACATGGCATCGACATTGTTATGAGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG-CATTGTTATGAGAGCTAGTGTAAG
76221794 ACCATGTTTGGGACATGGCATCGGCCTCAAT
65 ACCATGTTTGGGACATGGCATCGGCCTCAAT
* *
76221825 ATGTGAGCCAGTGAAAGACCATGTTTGGAACATGGCATCAGCATTATTATGAGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC-GCATTGTTATGAGAGCTAGTGTAAG
* *
76221890 ACTATGTTTGGGACATGGCATCAGCCTCAAT
65 ACCATGTTTGGGACATGGCATCGGCCTCAAT
* * * *
76221921 ATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTACGGGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCA-TCGCATTGTTATGAGAGCTAGTGTAAG
* * * *
76221986 ACCATGTCTGAGATATAGCATCGGC
65 ACCATGTTTGGGACATGGCATCGGC
76222011 ATCTTACCCT
Statistics
Matches: 167, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
96 165 0.99
97 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (95 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGCATTGTTATGAGAGCTAGTGTAAGA
CCATGTTTGGGACATGGCATCGGCCTCAAT
Found at i:76223361 original size:47 final size:47
Alignment explanation
Indices: 76223309--76223419 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
76223299 ACCATAACCA
*
76223309 ATAGCCAAATCAAGGTAACTTATC-ACGAAGTACCTATACCATGGCCT
1 ATAGCCAAATCAAGGTAACTCATCTACGAA-TACCTATACCATGGCCT
* * **
76223356 GTAGCCAAATCAAGGTAACTCCTCTTTGAATACCTATACCATGGCCT
1 ATAGCCAAATCAAGGTAACTCATCTACGAATACCTATACCATGGCCT
76223403 ATAGCCAAATCAAGGTA
1 ATAGCCAAATCAAGGTA
76223420 TCATTTGCAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 54 0.95
48 3 0.05
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (47 bp):
ATAGCCAAATCAAGGTAACTCATCTACGAATACCTATACCATGGCCT
Found at i:76224027 original size:30 final size:30
Alignment explanation
Indices: 76223976--76224038 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
76223966 CCCCTAGTAG
* *
76223976 CCCATATTTTTCATTTATTCACATATTTAAC
1 CCCATATTTTTCAATTATTCACA-AATTAAC
76224007 CCCATA-TTTTCACATT-TTCACAAATTAAC
1 CCCATATTTTTCA-ATTATTCACAAATTAAC
76224036 CCC
1 CCC
76224039 TAATTGACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 9 0.31
30 12 0.41
31 8 0.28
ACGTcount: A:0.30, C:0.29, G:0.00, T:0.41
Consensus pattern (30 bp):
CCCATATTTTTCAATTATTCACAAATTAAC
Found at i:76230948 original size:47 final size:47
Alignment explanation
Indices: 76230878--76231007 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
76230868 TCTATCAATA
* * *
76230878 AGTACCTATACCATTGCCCGTAGCCAAATCAAGGTAACTTATCCTAG
1 AGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCTAG
* * *
76230925 AGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCCTCTTTG
1 AGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCTAG
76230972 -GATACCTATACCATGGCCTGTAGCCAAATCAAGGTA
1 AG-TACCTATACCATGGCCTGTAGCCAAATCAAGGTA
76231008 TCATTTGCAC
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
46 1 0.01
47 75 0.99
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (47 bp):
AGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCTAG
Found at i:76234007 original size:26 final size:26
Alignment explanation
Indices: 76233970--76234053 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
76233960 TGATACAAAT
* *
76233970 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
76233996 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
76234022 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
76234048 TGATAA
1 TGATAA
76234054 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:76234310 original size:15 final size:15
Alignment explanation
Indices: 76234290--76234328 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
76234280 TGATTCGACC
76234290 TTAACCTTTAATGAA
1 TTAACCTTTAATGAA
76234305 TTAACCTTTAATGAA
1 TTAACCTTTAATGAA
*
76234320 TTAATCTTT
1 TTAACCTTT
76234329 TCAACATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (15 bp):
TTAACCTTTAATGAA
Found at i:76237449 original size:26 final size:26
Alignment explanation
Indices: 76237412--76237469 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
76237402 TGATACAAAT
76237412 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
76237438 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
76237464 TGATAA
1 TGATAA
76237470 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:76238979 original size:26 final size:26
Alignment explanation
Indices: 76238950--76239002 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
76238940 TTTACAGTTT
76238950 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
76238976 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
76239002 T
1 T
76239003 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:76240450 original size:26 final size:26
Alignment explanation
Indices: 76240420--76240526 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
76240410 TGATACAAAT
76240420 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
76240446 TGATAATGGATTAGGTAAAT-TTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76240471 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
76240497 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76240523 TGAT
1 TGAT
76240527 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 24 0.31
26 53 0.69
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:76240475 original size:51 final size:52
Alignment explanation
Indices: 76240420--76240526 Score: 198
Period size: 51 Copynumber: 2.1 Consensus size: 52
76240410 TGATACAAAT
76240420 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAAT-TTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATGTTCCA
*
76240471 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATGTTCCA
76240523 TGAT
1 TGAT
76240527 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 45 0.83
52 9 0.17
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATGTTCCA
Found at i:76245934 original size:63 final size:64
Alignment explanation
Indices: 76245835--76245959 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 64
76245825 CAATACCCTT
76245835 CATCTGTTTGGATTAGGTAAATTTCGAGGACGAAATTTCTTTAAGGAGGGTAGA-TTGTAACCC
1 CATCTGTTTGGATTAGGTAAATTTCGAGGACGAAATTTCTTTAAGGAGGGTAGATTTGTAACCC
76245898 CATCTGTTTGGATTAGGTAAATTTCGAGGACGAAATTTCTTTAAGGAGGGTAGATTTGTAAC
1 CATCTGTTTGGATTAGGTAAATTTCGAGGACGAAATTTCTTTAAGGAGGGTAGATTTGTAAC
76245960 TCCCCAATTT
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
63 54 0.89
64 7 0.11
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (64 bp):
CATCTGTTTGGATTAGGTAAATTTCGAGGACGAAATTTCTTTAAGGAGGGTAGATTTGTAACCC
Found at i:76246313 original size:26 final size:26
Alignment explanation
Indices: 76246284--76246387 Score: 165
Period size: 26 Copynumber: 4.0 Consensus size: 26
76246274 TGATACAAAT
76246284 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
76246310 TGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
76246335 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
76246361 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76246387 T
1 T
76246388 ATGGGAATTT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
25 23 0.32
26 48 0.68
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:76246339 original size:51 final size:51
Alignment explanation
Indices: 76246284--76246380 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 51
76246274 TGATACAAAT
76246284 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCA
* *
76246335 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGTTTAGGTAAAT
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAAT
76246381 GTTCCATATG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCA
Found at i:76249000 original size:28 final size:28
Alignment explanation
Indices: 76248960--76249023 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
76248950 ATCCGGCCAT
*
76248960 AACTTCTGGGCCGGGTTTGGGGTGCTAC
1 AACTTCTAGGCCGGGTTTGGGGTGCTAC
76248988 AACTTCTAGGCCGGGTTTGGGGTGCTAC
1 AACTTCTAGGCCGGGTTTGGGGTGCTAC
*
76249016 AACCTCTA
1 AACTTCTA
76249024 AACTTGTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.16, C:0.23, G:0.33, T:0.28
Consensus pattern (28 bp):
AACTTCTAGGCCGGGTTTGGGGTGCTAC
Found at i:76249584 original size:28 final size:28
Alignment explanation
Indices: 76249553--76249631 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
76249543 TTGAGGGTTG
*
76249553 AAAATTTGAAATTGAA-ACTTAAAAATCT
1 AAAATTTGAAATTGAAGA-TTAAAAATAT
*
76249581 AAAA-TTAAAATTTGAAGATTAAAAATAT
1 AAAATTTGAAA-TTGAAGATTAAAAATAT
* **
76249609 AAAATTGGAAATTGGGGATTAAA
1 AAAATTTGAAATTGAAGATTAAA
76249632 GATTGAAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 5 0.12
28 32 0.76
29 5 0.12
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.30
Consensus pattern (28 bp):
AAAATTTGAAATTGAAGATTAAAAATAT
Found at i:76251832 original size:20 final size:20
Alignment explanation
Indices: 76251809--76251848 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
76251799 AAAATTATGG
76251809 AAAAGTAAAAAAAAAAAAGAA
1 AAAAG-AAAAAAAAAAAAGAA
*
76251830 AAAAGAAAAGAAAAAAAGA
1 AAAAGAAAAAAAAAAAAGA
76251849 TTAAGTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (20 bp):
AAAAGAAAAAAAAAAAAGAA
Found at i:76251847 original size:13 final size:13
Alignment explanation
Indices: 76251808--76251848 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
76251798 AAAAATTATG
76251808 GAAAAGTAAAAAAA
1 GAAAAG-AAAAAAA
*
76251822 AAAAAG-AAAAAA
1 GAAAAGAAAAAAA
76251834 GAAAAGAAAAAAA
1 GAAAAGAAAAAAA
76251847 GA
1 GA
76251849 TTAAGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.46
13 8 0.33
14 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (13 bp):
GAAAAGAAAAAAA
Found at i:76257194 original size:10 final size:10
Alignment explanation
Indices: 76257170--76257202 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
76257160 TAATTTAAAT
76257170 AATAT-ATAA
1 AATATAATAA
76257179 AA-ATAATAA
1 AATATAATAA
76257188 AATATAATAA
1 AATATAATAA
76257198 AATAT
1 AATAT
76257203 GTTCTTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 8 0.36
10 12 0.55
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AATATAATAA
Found at i:76259613 original size:41 final size:41
Alignment explanation
Indices: 76259568--76259685 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
76259558 TGAAAGATAA
76259568 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
76259609 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
76259639 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
76259680 ATGTAG
1 ATGTAG
76259686 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:76259624 original size:71 final size:71
Alignment explanation
Indices: 76259536--76259699 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
76259526 GAGATGTATC
76259536 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
76259601 AGGACA
66 AGGACA
76259607 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
76259672 AGGACA
66 AGGACA
76259678 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
76259700 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:76266718 original size:41 final size:41
Alignment explanation
Indices: 76266673--76266790 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
76266663 TGAAAGATAA
76266673 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
76266714 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
76266744 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
76266785 ATGTAG
1 ATGTAG
76266791 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:76266729 original size:71 final size:71
Alignment explanation
Indices: 76266641--76266804 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
76266631 GAGATGTATC
76266641 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
76266706 AGGACA
66 AGGACA
76266712 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
76266777 AGGACA
66 AGGACA
76266783 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
76266805 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:76272600 original size:16 final size:17
Alignment explanation
Indices: 76272579--76272627 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
76272569 TAGATTAGAA
76272579 ATAAATTTATAT-TTTT
1 ATAAATTTATATATTTT
*
76272595 ATAAATATATATATTTT
1 ATAAATTTATATATTTT
* *
76272612 -TAATTTTATATGTTTT
1 ATAAATTTATATATTTT
76272628 TAATTTCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 24 0.86
17 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
ATAAATTTATATATTTT
Found at i:76272628 original size:16 final size:15
Alignment explanation
Indices: 76272584--76272633 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
76272574 TAGAAATAAA
*
76272584 TTTATATTTTTATAAA
1 TTTATATTTTT-TAAT
*
76272600 TATATATATTTTTAAT
1 TTTATAT-TTTTTAAT
76272616 TTTATATGTTTTTAAT
1 TTTATAT-TTTTTAAT
76272632 TT
1 TT
76272634 CAAAATGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TTTATATTTTTTAAT
Found at i:76273059 original size:2 final size:2
Alignment explanation
Indices: 76273052--76273078 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
76273042 TTGAGTAAAG
76273052 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
76273079 GTCTTTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:76274929 original size:23 final size:24
Alignment explanation
Indices: 76274888--76274951 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 24
76274878 ACATTTTTTA
* * *
76274888 AAAAAATAATTACTAAAAAATCCT
1 AAAAAATAATTATTTAAAAATCAT
*
76274912 -AAAAATAATTATTT-AAAATTAT
1 AAAAAATAATTATTTAAAAATCAT
*
76274934 AAAAAATAATTTTTTAAA
1 AAAAAATAATTATTTAAA
76274952 TATAATTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 6 0.18
23 25 0.76
24 2 0.06
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (24 bp):
AAAAAATAATTATTTAAAAATCAT
Found at i:76278625 original size:18 final size:18
Alignment explanation
Indices: 76278575--76278630 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
76278565 ATTTATTATT
**
76278575 TTTTATTTTTATTCTTGCCC
1 TTTTATTTTTATT-TT-TTC
*
76278595 TTATTATTGTTATTTTTTC
1 TT-TTATTTTTATTTTTTC
76278614 TTTTATTTTTATTTTTT
1 TTTTATTTTTATTTTTT
76278631 TATTCATCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 14 0.45
19 3 0.10
20 4 0.13
21 10 0.32
ACGTcount: A:0.12, C:0.09, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTTATTTTTATTTTTTC
Found at i:76278679 original size:3 final size:3
Alignment explanation
Indices: 76278671--76278763 Score: 143
Period size: 3 Copynumber: 31.0 Consensus size: 3
76278661 TCATTCATTC
76278671 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
76278719 ATT ATT ATT ATT ATT ATT GTC ATT -TT CATT ATT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
76278764 CCTGCATATT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.02
3 78 0.95
4 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:76284831 original size:24 final size:24
Alignment explanation
Indices: 76284804--76284856 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
76284794 TCATTATGCA
76284804 TATATGTT-TT-TGTTATCATATTTT
1 TATATGTTGTTATG-TAT-ATATTTT
76284828 TATATGTTGTTATGTATATATTTT
1 TATATGTTGTTATGTATATATTTT
*
76284852 AATAT
1 TATAT
76284857 TGTCAGCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 19 0.73
25 5 0.19
26 2 0.08
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.62
Consensus pattern (24 bp):
TATATGTTGTTATGTATATATTTT
Found at i:76284859 original size:22 final size:21
Alignment explanation
Indices: 76284813--76284859 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
76284803 ATATATGTTT
*
76284813 TTGTTATCATATTTTTATATG
1 TTGTTATCATATTTTTATATA
*
76284834 TTGTTATGTATATATTTTA-ATA
1 TTGTTAT-CATAT-TTTTATATA
76284856 TTGT
1 TTGT
76284860 CAGCTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 7 0.32
22 10 0.45
23 5 0.23
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.62
Consensus pattern (21 bp):
TTGTTATCATATTTTTATATA
Found at i:76284934 original size:2 final size:2
Alignment explanation
Indices: 76284927--76284955 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
76284917 CTAACAACAT
76284927 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
76284956 TTATGTAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:76285043 original size:22 final size:20
Alignment explanation
Indices: 76285013--76285053 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
76285003 AGGTATATAT
*
76285013 TGTATATATTTTATATATGTTA
1 TGTACATATTTT-TA-ATGTTA
76285035 TGTACATATTTTTAATGTT
1 TGTACATATTTTTAATGTT
76285054 TTCATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (20 bp):
TGTACATATTTTTAATGTTA
Found at i:76285137 original size:26 final size:24
Alignment explanation
Indices: 76285081--76285137 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
76285071 CCATTCCATG
*
76285081 TATATATATTTTTAAATCATCTTA
1 TATACATATTTTTAAATCATCTTA
** *
76285105 TGCACATATTTTTAAATACTATGTTA
1 TATACATATTTTTAAAT-C-ATCTTA
76285131 TATACAT
1 TATACAT
76285138 GCATACATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 14 0.56
25 1 0.04
26 10 0.40
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.49
Consensus pattern (24 bp):
TATACATATTTTTAAATCATCTTA
Found at i:76297637 original size:73 final size:73
Alignment explanation
Indices: 76297380--76297903 Score: 523
Period size: 73 Copynumber: 7.0 Consensus size: 73
76297370 TCTATTTTTT
* * *
76297380 AAATCAACTCATAGTGCG-GAAGGTGAGTTGACCCTC-GGCTCACATGCTGAGGTATTTTCAATT
1 AAATCAACTCATATTGCGAG-AGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
76297443 TCTGTTTCTGTTTGTC-A
62 TCTG----T-TTT-TCAA
* * * ** *
76297460 AAACCAACTCATATTGCGAGAGGTGAGTCGAGCCTCAAGACACATTGAGGTATTTTTAATTTCTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT-
76297525 GTTTTTTCAA
65 G-TTTTTCAA
* * *
76297535 AAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
76297600 TTTTTCAA
66 TTTTTCAA
* * * * *
76297608 AAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGGACATGCTGAGGTATTTTCAAATTCTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
*
76297673 TTTTTAAAA
66 TTTTT-CAA
* * * * *
76297682 AAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAATTTTTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA-TTTCT
76297747 GGATTTTTCAA
65 -G-TTTTTCAA
* * * * * * * *
76297758 AAATCAACTCCTATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGTTGCGGTATTTTCAATTACTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
*
76297823 TTTGTCAA
66 TTTTTCAA
* * * * * * **
76297831 AAATCAACTCATATTGCGGGAAGTAAGTTGAGCCTCGGGACATGCTAAGGTATTTTTGATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
76297896 TTTTTCAA
66 TTTTTCAA
76297904 TTTATGTTTC
Statistics
Matches: 371, Mismatches: 65, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
73 135 0.36
74 57 0.15
75 65 0.18
76 55 0.15
77 5 0.01
78 21 0.06
79 1 0.00
80 30 0.08
81 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (73 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
TTTTTCAA
Found at i:76298113 original size:75 final size:75
Alignment explanation
Indices: 76298002--76298144 Score: 241
Period size: 75 Copynumber: 1.9 Consensus size: 75
76297992 TTTCTTCTTC
*
76298002 TCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
76298067 TTTATGTTTG
66 TTTATGTTTG
* * * *
76298077 TCAAAAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
76298142 TTT
66 TTT
76298145 CTGCTTTCCA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (75 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
TTTATGTTTG
Found at i:76298189 original size:164 final size:162
Alignment explanation
Indices: 76297898--76298381 Score: 568
Period size: 164 Copynumber: 2.9 Consensus size: 162
76297888 GATTTCTGTT
* *
76297898 TTTCAATTTATG-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTAAGGTCATA
1 TTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGGC--A
* * * *
76297960 CGCCGAGGTATTTTCAA-TAGATGTTTTTTAAATTTCTTCTTCTCAAAAAAATTAACTCATATTG
63 CGCTGAGGTATTTTCAATTA-ATGTTTTTTCAATTTCTGCTT-TCAAAAAAATCAACTCATATTG
76298024 CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
126 CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
*
76298061 TTTCAATTTATGTTTGTCAAAAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTCAATTTATGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGGCAC
* ** * *
76298126 GCTGAGGTATTTTCGATTTCTG-CTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCG
64 GCTGAGGTATTTTCAATTAATGTTTTTTCAATTTCTGCT-TTCAAAAAAATCAACTCATATTGCG
76298190 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
128 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
*
76298225 TTTCAATTTCTGTTTTTCAATTTCTATTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTCAATTTATG-TTTTCAA-----A------AAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * *
76298290 CCTTGAGGCACGCTGAGGTATTTTCAATTAATGTTTTTTCAATTTATGCTTTTC--AAGAATCAA
54 CCTAG-GGCACGCTGAGGTATTTTCAATTAATGTTTTTTCAATTTCTGC-TTTCAAAAAAATCAA
*
76298353 CTCATATTACGAGAGGTGAGTTGAGCCTC
117 CTCATATTGCGAGAGGTGAGTTGAGCCTC
76298382 GGGTCACATG
Statistics
Matches: 276, Mismatches: 24, Indels: 31
0.83 0.07 0.09
Matches are distributed among these distances:
163 12 0.04
164 87 0.32
165 24 0.09
166 1 0.00
167 39 0.14
169 1 0.00
174 37 0.13
175 59 0.21
176 15 0.05
177 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (162 bp):
TTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGCACGC
TGAGGTATTTTCAATTAATGTTTTTTCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGA
GGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
Found at i:76298216 original size:89 final size:87
Alignment explanation
Indices: 76298081--76298468 Score: 467
Period size: 89 Copynumber: 4.4 Consensus size: 87
76298071 TGTTTGTCAA
* * *
76298081 AAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
76298146 TGCTTTCCAATTTCTGCTCTTC
66 TGTTTTTCAATTTCTGCTCTTC
*
76298168 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
** *
76298233 TCTGTTTTTCAATTTCTATTCGTC
64 TCTGTTTTTCAATTTCTGCTCTTC
* *
76298257 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGG-CACGCTGAGGTATTTTCAATTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGGACACGCTGAGGTATTTTCAATTT
* * *
76298320 ATGTTTTTTCAATTTATGCTTTTC
65 CTG-TTTTTCAATTTCTGCTCTTC
* * * * * **
76298344 AAGAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
* * *
76298409 TCTGTTTTGCAAATTCTG-TTTTC
64 TCTGTTTTTCAATTTCTGCTCTTC
* *
76298432 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
76298469 TTGAGAAATG
Statistics
Matches: 258, Mismatches: 35, Indels: 13
0.84 0.11 0.04
Matches are distributed among these distances:
86 57 0.22
87 22 0.09
88 71 0.28
89 89 0.34
90 19 0.07
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAATTTCTGCTCTTC
Found at i:76298272 original size:250 final size:246
Alignment explanation
Indices: 76297754--76298325 Score: 697
Period size: 250 Copynumber: 2.3 Consensus size: 246
76297744 TTTGGATTTT
* * * * *
76297754 TCAAAAATCAACTCCTATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGTTGCGGTATTTTCAA-T
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCAATT
* * *
76297818 TACTATTTGTCAAAAATCAACTCATATTGCGGGAAGTAAGTTGAGCCTCGGGACATGCTAAGGTA
65 TA-TGTTTGTCAAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTCGGGACACGCTAAGGTA
* * *
76297883 TTTTTGATTTCTGTTTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAG
129 TTTTCGATTTCTGCTTTCCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAG
* * *
76297948 CCTAAGGTCATACGCCGAGGTATTTTCAATAGATGTTTTTTAAATTTCTTCTTC
194 CCTAAGG-CACACGCCGAGGTAATTTCAATAGATGTTTTTTAAATTTCTTATTC
* *
76298002 TCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTATTTTCAA
* * * *
76298067 TTTATGTTTGTCAAAAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAGGG-CACGCTGA
63 TTTATGTTTGTC--AAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTC-GGGACACGCTAA
*
76298131 GGTATTTTCGATTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGT
125 GGTATTTTCGATTTCTGCTTTCCAATTTATG-T-TTC--AAAAATCAACTCATATTGCGAGAGGT
* * * *** *
76298196 GAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTCTG-TTTTTCAATTTC-TATTC
186 GAGTTAAGCCTAAGGCACACGCCGAGGTAATTTCAATAGATGTTTTTTAAATTTCTTATTC
*
76298254 GTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGGCACGCTGAGGTATTTTCAAT
1 -TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGGCACGCTGAGGTATTTTCAAT
*
76298318 TAATGTTT
64 TTATGTTT
76298326 TTTCAATTTA
Statistics
Matches: 279, Mismatches: 32, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
248 2 0.01
249 2 0.01
250 118 0.42
251 7 0.03
252 71 0.25
253 17 0.06
254 23 0.08
256 39 0.14
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (246 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTATTTTCAATTT
ATGTTTGTCAAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTCGGGACACGCTAAGGTATT
TTCGATTTCTGCTTTCCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCC
TAAGGCACACGCCGAGGTAATTTCAATAGATGTTTTTTAAATTTCTTATTC
Found at i:76298426 original size:14 final size:13
Alignment explanation
Indices: 76298400--76298435 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
76298390 TGCCGAGGTA
76298400 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
76298413 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
76298427 TTTTCAAAA
1 TTTTCAAAA
76298436 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:76298467 original size:176 final size:176
Alignment explanation
Indices: 76298081--76298469 Score: 500
Period size: 176 Copynumber: 2.2 Consensus size: 176
76298071 TGTTTGTCAA
* * *
76298081 AAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCC-TCAGGGCACGCTGAGGTATTTTCGATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGGGCACGCTGAGGTATTTTCAATTA
* * *
76298145 CTGCTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
66 ATGCTTTCCAATTTATGCTCTTC-AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
* ** * *
76298210 GACACGCTGAGGTAATTTCAATTTCTGTTTTTCAATTTCTATTCGTC
130 GACACGCCGAGGTAATTTCAAAATCTGTTTTGCAAATTCTATTCGTC
*
76298257 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGA-GGCACGCTGAGGTATTTTCAATTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGGGCACGCTGAGGTATTTTCAATTA
* * * * *
76298320 ATGTTTTTTCAATTTATGCTTTTC-AAGAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGG
66 ATG-CTTTCCAATTTATGCTCTTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
* * * *
76298384 GTCACATGCCGAGGTATTTTCAAAATCTGTTTTGCAAATTCTGTT-TTC
130 G--ACACGCCGAGGTAATTTCAAAATCTGTTTTGCAAATTCTATTCGTC
* *
76298432 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
76298470 TGAGAAATGA
Statistics
Matches: 185, Mismatches: 23, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
174 38 0.21
175 60 0.32
176 87 0.47
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (176 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGGGCACGCTGAGGTATTTTCAATTA
ATGCTTTCCAATTTATGCTCTTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG
ACACGCCGAGGTAATTTCAAAATCTGTTTTGCAAATTCTATTCGTC
Found at i:76300448 original size:2 final size:2
Alignment explanation
Indices: 76300436--76300467 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
76300426 ATTCTAATAG
76300436 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
76300468 GTATTTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:76300517 original size:24 final size:24
Alignment explanation
Indices: 76300490--76300542 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
76300480 TCATTATGCA
76300490 TATATGTT-TT-TGTTATCATATTTT
1 TATATGTTGTTATG-TAT-ATATTTT
76300514 TATATGTTGTTATGTATATATTTT
1 TATATGTTGTTATGTATATATTTT
*
76300538 AATAT
1 TATAT
76300543 TGTCAGCTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 19 0.73
25 5 0.19
26 2 0.08
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.62
Consensus pattern (24 bp):
TATATGTTGTTATGTATATATTTT
Found at i:76300827 original size:26 final size:24
Alignment explanation
Indices: 76300771--76300827 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
76300761 CCATTCCATG
*
76300771 TATATATATTTTTAAATCATCTTA
1 TATACATATTTTTAAATCATCTTA
** *
76300795 TGCACATATTTTTAAATACTATGTTA
1 TATACATATTTTTAAAT-C-ATCTTA
76300821 TATACAT
1 TATACAT
76300828 GCATACATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 14 0.56
25 1 0.04
26 10 0.40
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.49
Consensus pattern (24 bp):
TATACATATTTTTAAATCATCTTA
Found at i:76307264 original size:28 final size:28
Alignment explanation
Indices: 76307218--76307286 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
76307208 TTTAAAACCC
*
76307218 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
76307245 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
76307273 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
76307287 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:76308937 original size:20 final size:20
Alignment explanation
Indices: 76308914--76308951 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
76308904 CACATCCAAA
*
76308914 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
76308934 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
76308952 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:76315253 original size:28 final size:28
Alignment explanation
Indices: 76315207--76315275 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
76315197 TTTAAAACCC
*
76315207 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
76315234 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
76315262 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
76315276 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:76316929 original size:20 final size:20
Alignment explanation
Indices: 76316906--76316943 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
76316896 CACATCCAAA
*
76316906 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
76316926 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
76316944 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:76317149 original size:44 final size:44
Alignment explanation
Indices: 76317080--76317373 Score: 261
Period size: 44 Copynumber: 6.7 Consensus size: 44
76317070 TATCATGGTG
* * * *
76317080 AATCTTATCTCCTTGAAGTTTCAGTGGAGTAGATTAAAGCCATA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCACA
* ** * * ** *
76317124 AACCTTATCTCTTTGAAGTTACAGTGGAACA-AGTTGAAGTTACG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAAAGCCACA
* * * * *
76317168 AATCTCAACTCCCTGAAGTTGCAGTGGAGTAGATTGAAAATG-GA-A
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT--AAA-GCCACA
* * * *
76317213 AATCTTATCTCTCTAAAGTTACAGTGGAGCAGATTAAAGTCACG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCACA
* * **
76317257 AATCTTGTCTCCCTGAAGTTACAGTGGAGAAGATTAAAGCCATG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCACA
* * *
76317301 AATCTTATCTCCTTGAAGTTACAGTGGAACAGATTAAAGCAACA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCACA
* *
76317345 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 AATCTTATCTCCCTGAAGTTACAGTGGAG
76317374 TTGTAATATC
Statistics
Matches: 197, Mismatches: 46, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 157 0.80
45 30 0.15
46 3 0.02
47 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCACA
Found at i:76317193 original size:88 final size:88
Alignment explanation
Indices: 76317079--76317374 Score: 357
Period size: 88 Copynumber: 3.4 Consensus size: 88
76317069 TTATCATGGT
* * *
76317079 GAATCTTATCTCCTTGAAGTTTCAGTGGAGTAGATTAAAGCCATAAACCTTATCTCTTTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCATAAATCTTATCTCTTTGAAGTT
* *
76317144 ACAGTGGAACA-AGTTGAAGTTAC
66 ACAGTGGAACAGA-TTAAAGTAAC
* * * * *
76317167 GAATCTCAACTCCCTGAAGTTGCAGTGGAGTAGATTGAAAATG-GA-AAATCTTATCTCTCTAAA
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT--AAA-GCCATAAATCTTATCTCTTTGAA
* *
76317230 GTTACAGTGGAGCAGATTAAAGTCAC
63 GTTACAGTGGAACAGATTAAAGTAAC
* * * * *
76317256 GAATCTTGTCTCCCTGAAGTTACAGTGGAGAAGATTAAAGCCATGAATCTTATCTCCTTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCATAAATCTTATCTCTTTGAAGTT
*
76317321 ACAGTGGAACAGATTAAAGCAAC
66 ACAGTGGAACAGATTAAAGTAAC
76317344 -AAGTCTTATCTCCCTGAAGTTGCAGTGGAGT
1 GAA-TCTTATCTCCCTGAAGTTGCAGTGGAGT
76317375 TGTAATATCC
Statistics
Matches: 174, Mismatches: 27, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
86 1 0.01
87 6 0.03
88 94 0.54
89 67 0.39
90 5 0.03
91 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (88 bp):
GAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCATAAATCTTATCTCTTTGAAGTT
ACAGTGGAACAGATTAAAGTAAC
Found at i:76317304 original size:133 final size:133
Alignment explanation
Indices: 76317080--76317328 Score: 295
Period size: 133 Copynumber: 1.9 Consensus size: 133
76317070 TATCATGGTG
* * * * **
76317080 AATCTTATCTCCTTGAAGTTTCAGTGGAGTAGATTAAAGCCATAAACCTTATCTCTTTGAAGTTA
1 AATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTTA
* ** *
76317145 CAGTGGAACAAGTTGAAGTTACGAATCTCAACTCCCTGAAGTTGCAGTGGAGTAGATTGAAAATG
66 CAGTGGAACAAGTTAAAGCCACGAATCTCAACTCCCTGAAGTTACAGTGGAGTAGATTGAAAATG
76317210 GAA
131 GAA
* * * *
76317213 AATCTTATCT-CTCTAAAGTTACAGTGGAGCAGATTAAAGTCACGAATCTTGTCTCCCTGAAGTT
1 AATCTTATCTCCT-TAAAGTTACAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTT
* * * * *
76317277 ACAGTGG-AGAAGATTAAAGCCATGAATCTTATCTCCTTGAAGTTACAGTGGA
65 ACAGTGGAACAAG-TTAAAGCCACGAATCTCAACTCCCTGAAGTTACAGTGGA
76317329 ACAGATTAAA
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
132 6 0.06
133 89 0.94
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (133 bp):
AATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTTA
CAGTGGAACAAGTTAAAGCCACGAATCTCAACTCCCTGAAGTTACAGTGGAGTAGATTGAAAATG
GAA
Found at i:76318719 original size:46 final size:46
Alignment explanation
Indices: 76318666--76318841 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
76318656 TATTTGGGCA
76318666 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
76318712 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
76318759 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
76318805 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76318842 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:76318821 original size:93 final size:93
Alignment explanation
Indices: 76318662--76318833 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
76318652 GGGATATTTG
* *
76318662 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
76318727 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
76318755 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
76318820 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
76318834 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:76320231 original size:44 final size:43
Alignment explanation
Indices: 76320182--76320302 Score: 116
Period size: 45 Copynumber: 2.7 Consensus size: 43
76320172 CTTCTCTCTT
* *
76320182 TGAAGTTGCAGTAGAGCAAATTAAAGCTATAAACCTTATCTCCC
1 TGAAGTTGCAGT-GAGCAGATTAAAGCTATAAACCTCATCTCCC
* * * * * * *
76320226 TGAAGTAGCAGTGGAGTAGATTGAAGATAGTGAATCTCATCTCCT
1 TGAAGTTGCAGT-GAGCAGATTAAAGCTA-TAAACCTCATCTCCC
*
76320271 TGAAGTTGCAGTGGGTCAGATTAAAGCTATAA
1 TGAAGTTGCAGTGAG-CAGATTAAAGCTATAA
76320303 GTCACAGATC
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
44 27 0.46
45 32 0.54
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (43 bp):
TGAAGTTGCAGTGAGCAGATTAAAGCTATAAACCTCATCTCCC
Found at i:76323034 original size:14 final size:14
Alignment explanation
Indices: 76323015--76323043 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
76323005 ACCATCCGTT
76323015 TTCATATTTGATGG
1 TTCATATTTGATGG
76323029 TTCATATTTGATGG
1 TTCATATTTGATGG
76323043 T
1 T
76323044 CGTCACCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (14 bp):
TTCATATTTGATGG
Found at i:76323071 original size:29 final size:29
Alignment explanation
Indices: 76323029--76323467 Score: 497
Period size: 29 Copynumber: 15.1 Consensus size: 29
76323019 TATTTGATGG
*
76323029 TTCATATTTGATGGTCGTCACCATCCCTT
1 TTCATATTCGATGGTCGTCACCATCCCTT
**
76323058 TTCATATTCGATGGTCGAAACCATCCCTT
1 TTCATATTCGATGGTCGTCACCATCCCTT
*
76323087 TTCATATTCGATGGTCAG-AACCATCCCTT
1 TTCATATTCGATGGTC-GTCACCATCCCTT
* *
76323116 TTCATTAATCGATGGTTGTCACCATCCCTT
1 TTCA-TATTCGATGGTCGTCACCATCCCTT
* * * ** *
76323146 TTCATAGTCAATAGTCGAAACTATCCCTT
1 TTCATATTCGATGGTCGTCACCATCCCTT
* ** *
76323175 TTCATATTCGATAGTCGAAACTATCCCTT
1 TTCATATTCGATGGTCGTCACCATCCCTT
* ** *
76323204 TTCATAGTT-GATAGTCGAAACTATCCCTT
1 TTCATA-TTCGATGGTCGTCACCATCCCTT
*
76323233 TTCATAGTCGATGGTCGTCACCATCCCTT
1 TTCATATTCGATGGTCGTCACCATCCCTT
*
76323262 TTCATATTCGATGGTTGTCACCATCCCTT
1 TTCATATTCGATGGTCGTCACCATCCCTT
* *
76323291 TTCATATTCGATAGTCGTCACCATCTCTT
1 TTCATATTCGATGGTCGTCACCATCCCTT
* *
76323320 TTTATATTCGATGGTTGTCACCATCCCTT
1 TTCATATTCGATGGTCGTCACCATCCCTT
* *
76323349 TTGATATTCGAAGGTCGTCACCATCCCTT
1 TTCATATTCGATGGTCGTCACCATCCCTT
* *
76323378 TTCATATTCGATGGTGGTCACGATCCCTT
1 TTCATATTCGATGGTCGTCACCATCCCTT
*
76323407 TTCATAGTT-GATGGTCGTCACCACCCCTT
1 TTCATA-TTCGATGGTCGTCACCATCCCTT
* * ** *
76323436 TTCATAGTCGATAGTCGAAACTATCCCTT
1 TTCATATTCGATGGTCGTCACCATCCCTT
76323465 TTC
1 TTC
76323468 TTTAATCGAT
Statistics
Matches: 358, Mismatches: 45, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
28 2 0.01
29 327 0.91
30 29 0.08
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (29 bp):
TTCATATTCGATGGTCGTCACCATCCCTT
Found at i:76325995 original size:93 final size:93
Alignment explanation
Indices: 76325883--76326054 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
76325873 GCCCATAAGT
* *
76325883 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
76325948 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
76325976 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
76326041 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
76326055 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:76326050 original size:46 final size:46
Alignment explanation
Indices: 76325875--76326050 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
76325865 TGTAACCCGC
* * *
76325875 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
76325921 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
76325971 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
76326014 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
76326051 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:76331461 original size:20 final size:21
Alignment explanation
Indices: 76331438--76331484 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
76331428 TTGTGTGGTT
**
76331438 ATTAGGTTTTGATT-AGGTGA
1 ATTAGGTTTAAATTAAGGTGA
*
76331458 ATTA-GTTTAAATTAAGGTTA
1 ATTAGGTTTAAATTAAGGTGA
76331478 ATTAGGT
1 ATTAGGT
76331485 ATAAGGATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 7 0.32
20 13 0.59
21 2 0.09
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (21 bp):
ATTAGGTTTAAATTAAGGTGA
Found at i:76331672 original size:5 final size:5
Alignment explanation
Indices: 76331662--76331745 Score: 150
Period size: 5 Copynumber: 16.4 Consensus size: 5
76331652 AAGAAAATAT
76331662 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
76331712 TATTA TATTA TTATTA TATTA TATTA CTATTA TA
1 TATTA TATTA -TATTA TATTA TATTA -TATTA TA
76331746 ATTAAGTAAA
Statistics
Matches: 77, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
5 67 0.87
6 10 0.13
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:76333354 original size:20 final size:22
Alignment explanation
Indices: 76333329--76333378 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
76333319 TGATGTTGTA
76333329 ATATGATAATGGT-TGGTTAT-
1 ATATGATAATGGTATGGTTATC
*
76333349 ATATGAT-ATGTTATGGTTATC
1 ATATGATAATGGTATGGTTATC
*
76333370 AAATGATAA
1 ATATGATAA
76333379 GTTTTAGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.16
20 14 0.56
21 6 0.24
22 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (22 bp):
ATATGATAATGGTATGGTTATC
Found at i:76336943 original size:2 final size:2
Alignment explanation
Indices: 76336938--76336989 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
76336928 GAGTAAACCA
76336938 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76336980 AT AT AT AT AT
1 AT AT AT AT AT
76336990 GAGACTTGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76337420 original size:45 final size:45
Alignment explanation
Indices: 76337364--76337453 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
76337354 ATACTCAAAC
76337364 ATATTAACATGAATCTCAAATATCAACATATATATAATCAAAATA
1 ATATTAACATGAATCTCAAATATCAACATATATATAATCAAAATA
*
76337409 ATATTAACATGAATCTTAAATATCAACATATATATAATCAAAATA
1 ATATTAACATGAATCTCAAATATCAACATATATATAATCAAAATA
76337454 TCAAACCTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.32
Consensus pattern (45 bp):
ATATTAACATGAATCTCAAATATCAACATATATATAATCAAAATA
Found at i:76342275 original size:26 final size:26
Alignment explanation
Indices: 76342245--76342352 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
76342235 TGAAATGCCC
76342245 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
76342271 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
76342297 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
76342323 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
76342349 ATCA
1 ATCA
76342353 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:76349434 original size:21 final size:23
Alignment explanation
Indices: 76349409--76349450 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
76349399 TGGAAACACT
76349409 TTTATGTG-TTTAAA-GTTTAGA
1 TTTATGTGTTTTAAATGTTTAGA
*
76349430 TTTATTTGTTTTAAATGTTTA
1 TTTATGTGTTTTAAATGTTTA
76349451 ACATGAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (23 bp):
TTTATGTGTTTTAAATGTTTAGA
Found at i:76350030 original size:43 final size:44
Alignment explanation
Indices: 76349945--76350032 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 44
76349935 TAGAAAAATG
*
76349945 TAGCCATTAGAAAATTCAAGCATATATAATCAACCTTCTCTATAA
1 TAGCCATTAGAAAATTCAAG-ATATACAATCAACCTTCTCTATAA
* * * *
76349990 TAGCCATTAGATAATTTAAG-TATACAGTCAACCTTTTCTATAA
1 TAGCCATTAGAAAATTCAAGATATACAATCAACCTTCTCTATAA
76350033 CAACTACACT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 20 0.53
45 18 0.47
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (44 bp):
TAGCCATTAGAAAATTCAAGATATACAATCAACCTTCTCTATAA
Found at i:76365835 original size:12 final size:12
Alignment explanation
Indices: 76365798--76365826 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
76365788 ATACAAGAGA
76365798 AAATGCAAGCAC
1 AAATGCAAGCAC
76365810 AAATGCAAGCAC
1 AAATGCAAGCAC
76365822 AAATG
1 AAATG
76365827 TAAGAACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.21, G:0.17, T:0.10
Consensus pattern (12 bp):
AAATGCAAGCAC
Found at i:76374361 original size:44 final size:44
Alignment explanation
Indices: 76374313--76374573 Score: 176
Period size: 44 Copynumber: 5.9 Consensus size: 44
76374303 GCCACCAGCT
* * *
76374313 TTATCTTCCTGAGGTAGCAAGGGAGTAGGTTGAAGATTGTAGTC
1 TTATCTTCCTGAGGTAGCAAGGGAGAAGATTGAAGATTGCAGTC
* * *
76374357 TTATCTTCCTAAGGTAGCAAGGGAGAAGACTGAAGATTGCAGATT
1 TTATCTTCCTGAGGTAGCAAGGGAGAAGATTGAAGATTGCAG-TC
* * * * ** *
76374402 TTGTC-TCCTCGAGCTAGC-AGTGGAGCAA-ATCGAATACGGCGAATC
1 TTATCTTCCT-GAGGTAGCAAG-GGAG-AAGATTGAAGATTGC-AGTC
* * ** ** *
76374447 TTATCTT-CTCGAGGTAGC-AGAGAAGCAGATTTTAG-TCACCAGCC
1 TTATCTTCCT-GAGGTAGCAAG-GGAGAAGATTGAAGAT-TGCAGTC
* * *
76374491 TTATCTTCCTGAGGTAGCAAGGGAGAAGGTTGAAGATTGTAGTA
1 TTATCTTCCTGAGGTAGCAAGGGAGAAGATTGAAGATTGCAGTC
*
76374535 TTATCTTCCTGAGGTAGCAAGGGAGCAA-ACTGAAGATTG
1 TTATCTTCCTGAGGTAGCAAGGGAG-AAGATTGAAGATTG
76374574 TAGATTTTGT
Statistics
Matches: 163, Mismatches: 42, Indels: 24
0.71 0.18 0.10
Matches are distributed among these distances:
44 106 0.65
45 53 0.33
46 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (44 bp):
TTATCTTCCTGAGGTAGCAAGGGAGAAGATTGAAGATTGCAGTC
Found at i:76374543 original size:178 final size:178
Alignment explanation
Indices: 76374219--76374649 Score: 566
Period size: 178 Copynumber: 2.4 Consensus size: 178
76374209 TTGGTGAATT
* * * * * *
76374219 CAGATTTTGT-TCC-CTGAAATAGCAATGGAGCAAATCACAGATGGTGAATCTTATCTTCCCAAG
1 CAGATTTTGTCTCCTC-GAGATAGCAGTGGAGCAAATCA-AAACGGTGAATCTTATCTTCTCGAG
* * * *
76374282 GTAACA-AGGGAGCAGATTTTAGCCACCAGCTTTATCTTCCTGAGGTAGCAAGGGAGTAGGTTGA
64 GTAGCAGAGGAAGCAGATTTTAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGAAGGTTGA
*
76374346 AGATTGTAGTCTTATCTTCCTAAGGTAGCAAGGGAG-AAGACTGAAGATTG
129 AGATTGTAGTATTATCTTCCTAAGGTAGCAAGGGAGCAA-ACTGAAGATTG
* * *
76374396 CAGATTTTGTCTCCTCGAGCTAGCAGTGGAGCAAATCGAATACGGCGAATCTTATCTTCTCGAGG
1 CAGATTTTGTCTCCTCGAGATAGCAGTGGAGCAAATC-AAAACGGTGAATCTTATCTTCTCGAGG
*
76374461 TAGCAGA-GAAGCAGATTTTAGTCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGAAGGTTGAA
65 TAGCAGAGGAAGCAGATTTTAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGAAGGTTGAA
*
76374525 GATTGTAGTATTATCTTCCTGAGGTAGCAAGGGAGCAAACTGAAGATTG
130 GATTGTAGTATTATCTTCCTAAGGTAGCAAGGGAGCAAACTGAAGATTG
* * * * * * *
76374574 TAGATTTTGTCTCCTCGAGATAGCAGTGGGGCAGATCAAAAACAGTGAATCTTATCTCCTTGAAG
1 CAGATTTTGTCTCCTCGAGATAGCAGTGGAGCAAATC-AAAACGGTGAATCTTATCTTCTCGAGG
*
76374639 TAGCAGTGGAA
65 TAGCAGAGGAA
76374650 TACACAAACC
Statistics
Matches: 221, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
177 10 0.05
178 203 0.92
179 8 0.04
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (178 bp):
CAGATTTTGTCTCCTCGAGATAGCAGTGGAGCAAATCAAAACGGTGAATCTTATCTTCTCGAGGT
AGCAGAGGAAGCAGATTTTAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGAAGGTTGAAG
ATTGTAGTATTATCTTCCTAAGGTAGCAAGGGAGCAAACTGAAGATTG
Found at i:76383637 original size:22 final size:22
Alignment explanation
Indices: 76383612--76383665 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
76383602 GCCCATTAAT
76383612 CAAAAGCCAAGTTTTATTTCAA
1 CAAAAGCCAAGTTTTATTTCAA
76383634 CAAAAGCCAAGTTTTATTTCAA
1 CAAAAGCCAAGTTTTATTTCAA
*
76383656 TAAAAGCCAA
1 CAAAAGCCAA
76383666 AATTTTTCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (22 bp):
CAAAAGCCAAGTTTTATTTCAA
Found at i:76385899 original size:27 final size:26
Alignment explanation
Indices: 76385868--76385922 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
76385858 TGTTTCGACA
76385868 ATTATGTCTTGAAT-TTGTTAGATATTG
1 ATTATGT-TT-AATCTTGTTAGATATTG
*
76385895 ATTATGTTTTATGCTTGTTAGATATTG
1 ATTATGTTTAAT-CTTGTTAGATATTG
76385922 A
1 A
76385923 ATTTATTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 2 0.08
26 2 0.08
27 21 0.84
ACGTcount: A:0.25, C:0.04, G:0.18, T:0.53
Consensus pattern (26 bp):
ATTATGTTTAATCTTGTTAGATATTG
Found at i:76385931 original size:32 final size:32
Alignment explanation
Indices: 76385895--76385955 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
76385885 TTAGATATTG
*
76385895 ATTATGTTTTATGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
76385927 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
76385956 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.52
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:76387223 original size:18 final size:18
Alignment explanation
Indices: 76387202--76387236 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
76387192 ACAATTTAAA
76387202 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
76387220 ATATAAATTTATTAATA
1 ATATAAATTTATTAATA
76387237 ATGAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:76387245 original size:18 final size:18
Alignment explanation
Indices: 76387206--76387245 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
76387196 TTTAAAATAT
*
76387206 AAATTTATTAATATATAT
1 AAATTTATTAATATATAA
76387224 AAATTTATTAATA-ATGAA
1 AAATTTATTAATATAT-AA
76387242 AAAT
1 AAAT
76387246 AGCATTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
AAATTTATTAATATATAA
Found at i:76399289 original size:46 final size:46
Alignment explanation
Indices: 76399237--76399446 Score: 305
Period size: 46 Copynumber: 4.6 Consensus size: 46
76399227 TTCTGAAATA
* * * * *
76399237 AAATGTGTAAGACCATGGTTGAAAGATATCATGACAACATGATATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
*
76399283 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-AGGG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GG
* *
76399329 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
* *
76399375 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
*
76399421 AAATGAGTAAGACCATAGTTGAAAGA
1 AAATGAGTAAGACCATGGTTGAAAGA
76399447 CACTATGGTA
Statistics
Matches: 152, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 1 0.01
46 151 0.99
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (46 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
Found at i:76399305 original size:21 final size:21
Alignment explanation
Indices: 76399237--76399306 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 21
76399227 TTCTGAAATA
76399237 AAATGTGTAAGACCATGGTTG
1 AAATGTGTAAGACCATGGTTG
* * *
76399258 AAA-GATATCATGACAACATGATATG
1 AAATG-TGT-AAGAC--CATGGT-TG
76399283 AAATGTGTAAGACCATGGTTG
1 AAATGTGTAAGACCATGGTTG
76399304 AAA
1 AAA
76399307 GATACCATGG
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
20 1 0.03
21 10 0.27
22 9 0.24
24 9 0.24
25 7 0.19
26 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (21 bp):
AAATGTGTAAGACCATGGTTG
Found at i:76403322 original size:40 final size:40
Alignment explanation
Indices: 76403239--76403522 Score: 399
Period size: 40 Copynumber: 7.1 Consensus size: 40
76403229 TGGAATTTAG
* ** *
76403239 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* * * *
76403279 CCGGGTATAGCAACTCGTACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* *
76403319 CCGGATATAATAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* *
76403359 CCGGATATAACAACTCGCACAAATGCCTTTGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
*
76403399 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
*
76403439 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* * *
76403479 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGGCTTAAC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAAC
76403519 CCGG
1 CCGG
76403523 GTATCATTCA
Statistics
Matches: 220, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 219 1.00
41 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
Found at i:76409687 original size:40 final size:39
Alignment explanation
Indices: 76409576--76409726 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
76409566 TTAATCACGT
* * *
76409576 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
76409616 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
76409656 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
76409696 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
76409727 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:76409710 original size:80 final size:79
Alignment explanation
Indices: 76409576--76409726 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
76409566 TTAATCACGT
*
76409576 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
76409641 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
76409656 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
76409719 CCGGATAT
64 CCGGATAT
76409727 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:76419752 original size:39 final size:39
Alignment explanation
Indices: 76419698--76419859 Score: 252
Period size: 39 Copynumber: 4.2 Consensus size: 39
76419688 TGTGAATGAA
76419698 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
76419737 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
76419776 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * **
76419815 TGTGCGAGTTGTGATATCCGGGTTAAGTCCGAAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
76419854 TGTGCG
1 TGTGCG
76419860 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:76419875 original size:78 final size:78
Alignment explanation
Indices: 76419715--76419889 Score: 242
Period size: 78 Copynumber: 2.2 Consensus size: 78
76419705 ATTGTGATAT
76419715 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
** *
76419780 CGAGCTATGATAT
66 CGAGCTACCATAA
* * * **
76419793 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCGAAGGCGTTTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
* *
76419858 CGGGTTACCATAA
66 CGAGCTACCATAA
*
76419871 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAG-CCCGAAGG
76419890 TGTTTGAACG
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 77 0.91
79 8 0.09
ACGTcount: A:0.23, C:0.22, G:0.33, T:0.22
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
CGAGCTACCATAA
Found at i:76423714 original size:14 final size:14
Alignment explanation
Indices: 76423695--76423724 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
76423685 ATTTAACCGA
76423695 ATATACATAAACTC
1 ATATACATAAACTC
*
76423709 ATATACATATACTC
1 ATATACATAAACTC
76423723 AT
1 AT
76423725 GAATCATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATACATAAACTC
Found at i:76423867 original size:19 final size:20
Alignment explanation
Indices: 76423843--76423881 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
76423833 CCGAATGTAC
76423843 TTTTCATATACA-CATATAT
1 TTTTCATATACATCATATAT
*
76423862 TTTTCATTTACATCATATAT
1 TTTTCATATACATCATATAT
76423882 GATTTGCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTCATATACATCATATAT
Found at i:76424620 original size:28 final size:28
Alignment explanation
Indices: 76424560--76424681 Score: 93
Period size: 28 Copynumber: 4.2 Consensus size: 28
76424550 AGTGAATAAC
* *
76424560 ACAGTCTGGGCCTAAGCCCAGATT-GGTA
1 ACAGTCTGGGCCTAAGCCC-TATTCAGTA
*
76424588 ACAGTCTGGGCCTGAGCCCTATTCAGTATCA
1 ACAGTCTGGGCCTAAGCCCTATTCAG--T-A
* *
76424619 GTACAGTCTGGGCCTTAGCCCTATACAGTA
1 --ACAGTCTGGGCCTAAGCCCTATTCAGTA
* * * *
76424649 ACTGTGTGGGCCTAAGCCCAATGCAGTA
1 ACAGTCTGGGCCTAAGCCCTATTCAGTA
*
76424677 TCAGT
1 ACAGT
76424682 ACAGTGTAGT
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
27 3 0.04
28 45 0.59
30 2 0.03
31 2 0.03
33 24 0.32
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (28 bp):
ACAGTCTGGGCCTAAGCCCTATTCAGTA
Found at i:76424862 original size:27 final size:27
Alignment explanation
Indices: 76424832--76424889 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
76424822 AGCATAGCTG
*
76424832 CCAGAAACAGTAAATGTGGCAAAGTCA
1 CCAGAAACAGTAAATGTGACAAAGTCA
* * * *
76424859 CCAGTATCAGTGAATGTGACATAGTCA
1 CCAGAAACAGTAAATGTGACAAAGTCA
76424886 CCAG
1 CCAG
76424890 TACAGTACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGAAACAGTAAATGTGACAAAGTCA
Found at i:76424890 original size:27 final size:26
Alignment explanation
Indices: 76424838--76424896 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
76424828 GCTGCCAGAA
*
76424838 ACAGTAAATGTGGCAAAGTCACCAGT
1 ACAGTAAATGTGACAAAGTCACCAGT
* *
76424864 ATCAGTGAATGTGACATAGTCACCAGT
1 A-CAGTAAATGTGACAAAGTCACCAGT
76424891 ACAGTA
1 ACAGTA
76424897 CTTCCTCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
ACAGTAAATGTGACAAAGTCACCAGT
Found at i:76425062 original size:27 final size:27
Alignment explanation
Indices: 76425032--76425170 Score: 197
Period size: 27 Copynumber: 5.1 Consensus size: 27
76425022 GGGCATAATC
* * *
76425032 GTCATTTTACCATATAGGGGTACTACA
1 GTCATTTTACCCTACAGGGGTATTACA
*
76425059 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACA
76425086 GTCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACA
*
76425113 GTCATTTTACCCTACAGGGCTATTACA
1 GTCATTTTACCCTACAGGGGTATTACA
* * * *
76425140 ATCATTTTACCCTATAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACA
76425167 GTCA
1 GTCA
76425171 AATAACGACC
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACA
Found at i:76427275 original size:41 final size:43
Alignment explanation
Indices: 76427193--76427330 Score: 106
Period size: 45 Copynumber: 3.2 Consensus size: 43
76427183 TCTCAGAAGG
* * *
76427193 GGTCTTACATGCTATCACATATCGATGCCACTGTCCCAGACAA
1 GGTCTTACATGCAATCAAATATCGATGCCACTATCCCAGACAA
* *
76427236 GGTCTTACATG-AATCAAATA-CGATGCCGA-TATCCTAGACAT
1 GGTCTTACATGCAATCAAATATCGATGCC-ACTATCCCAGACAA
* * * * *
76427277 GGTTTTACACGTAACAA-CATATATCGATGCCAAC-GTCCCAGACAT
1 GGTCTTACA--T-GCAATCAAATATCGATGCC-ACTATCCCAGACAA
76427322 GGTCTTACA
1 GGTCTTACA
76427331 CGAGAACACA
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
41 24 0.32
42 8 0.11
43 12 0.16
44 5 0.07
45 27 0.36
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGCAATCAAATATCGATGCCACTATCCCAGACAA
Found at i:76427342 original size:45 final size:43
Alignment explanation
Indices: 76427211--76427343 Score: 128
Period size: 45 Copynumber: 3.0 Consensus size: 43
76427201 ATGCTATCAC
* * *
76427211 ATATCGATGCCACTGTCCCAGACAAGGTCTTACATGAATCA-A-
1 ATATCGATGCCAC-GTCCCAGACATGGTCTTACACGAAACACAT
** * * *
76427253 ATA-CGATGCCGATATCCTAGACATGGTTTTACACGTAACAACAT
1 ATATCGATGCC-ACGTCCCAGACATGGTCTTACACGAAAC-ACAT
76427297 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAGAACACAT
1 ATATCGATGCC-ACGTCCCAGACATGGTCTTACACGA-AACACAT
76427342 AT
1 AT
76427344 TAGAAATCCT
Statistics
Matches: 71, Mismatches: 14, Indels: 9
0.76 0.15 0.10
Matches are distributed among these distances:
41 26 0.37
42 5 0.07
43 1 0.01
44 3 0.04
45 33 0.46
46 3 0.04
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATATCGATGCCACGTCCCAGACATGGTCTTACACGAAACACAT
Found at i:76430335 original size:3 final size:3
Alignment explanation
Indices: 76430321--76430385 Score: 114
Period size: 3 Copynumber: 21.7 Consensus size: 3
76430311 AAACAAATAC
76430321 AAT AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
76430367 AAT AAT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
76430386 CATATGTTAT
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 55 0.92
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:76430729 original size:7 final size:7
Alignment explanation
Indices: 76430713--76430819 Score: 59
Period size: 7 Copynumber: 15.7 Consensus size: 7
76430703 AATAAATGAA
*
76430713 ATAATTT
1 ATAATAT
76430720 ATAATAT
1 ATAATAT
76430727 ATAATAT
1 ATAATAT
*
76430734 A-AAAAT
1 ATAATAT
* *
76430740 GTAAGTTT
1 ATAA-TAT
*
76430748 TTAA-A-
1 ATAATAT
76430753 ATAATAT
1 ATAATAT
76430760 ATAATAT
1 ATAATAT
*
76430767 A-AATAA
1 ATAATAT
76430773 ATAAATAT
1 AT-AATAT
76430781 ATAAGATAT
1 AT-A-ATAT
76430790 ATAAGT-T
1 ATAA-TAT
76430797 A-AA-AT
1 ATAATAT
76430802 ATAATAT
1 ATAATAT
76430809 ATAATA-
1 ATAATAT
76430815 ATAAT
1 ATAAT
76430820 TTACAAATTT
Statistics
Matches: 79, Mismatches: 10, Indels: 23
0.71 0.09 0.21
Matches are distributed among these distances:
5 5 0.06
6 19 0.24
7 35 0.44
8 14 0.18
9 6 0.08
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:76430854 original size:12 final size:13
Alignment explanation
Indices: 76430835--76430865 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
76430825 AATTTTGAAA
76430835 ATATAAATAATAT
1 ATATAAATAATAT
76430848 A-ATAAATAATAT
1 ATATAAATAATAT
76430860 ATATAA
1 ATATAA
76430866 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:76430863 original size:16 final size:15
Alignment explanation
Indices: 76430840--76430870 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
76430830 TGAAAATATA
76430840 AATAATATAATAAAT
1 AATAATATAATAAAT
76430855 AATATATATAATAAAT
1 AATA-ATATAATAAAT
76430871 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:76431209 original size:18 final size:18
Alignment explanation
Indices: 76431173--76431288 Score: 164
Period size: 18 Copynumber: 6.5 Consensus size: 18
76431163 AATCATATCT
*
76431173 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
76431192 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
76431210 TCTAAGATTGCAATGATA
1 TCTAAGATTGCAATCATA
*
76431228 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
76431245 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
76431263 TTTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
76431280 TCTAAGATT
1 TCTAAGATT
76431289 ACATATCATT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
17 29 0.33
18 48 0.55
19 11 0.12
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:76431250 original size:35 final size:35
Alignment explanation
Indices: 76431173--76431297 Score: 178
Period size: 35 Copynumber: 3.5 Consensus size: 35
76431163 AATCATATCT
* *
76431173 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATA
*
76431210 TCTAAGATTGCAATGATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
76431245 TCTAAGATTGCAATCATATTTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
76431280 TCTAAGATTACATATCAT
1 TCTAAGATTGCA-ATCAT
76431298 TGAAGATTAT
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
35 50 0.62
36 20 0.25
37 11 0.14
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:76431250 original size:53 final size:53
Alignment explanation
Indices: 76431173--76431297 Score: 180
Period size: 53 Copynumber: 2.3 Consensus size: 53
76431163 AATCATATCT
*
76431173 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGCAATGATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATATCTAAGATTG-AATCATA
* *
76431228 TCTAAGATTG-TATCATATCTAAGATTGCAATCATATTTAAGATTGTATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATATCTAAGATTGAATCATA
*
76431280 TCTAAGATTACATATCAT
1 TCTAAGATT-GATATCAT
76431298 TGAAGATTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
52 14 0.22
53 34 0.53
54 6 0.09
55 10 0.16
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (53 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATATCTAAGATTGAATCATA
Found at i:76434475 original size:41 final size:42
Alignment explanation
Indices: 76434386--76434531 Score: 111
Period size: 41 Copynumber: 3.4 Consensus size: 42
76434376 CAAAGCTAAC
* * * * *
76434386 GTCCCCGACGTGGTCTTACATGCTATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACG-AATCAAATATCGATGCCACT
*
76434429 GTCCCAGATA-GAGTCTTACACGAATCAAATAT-GATGCCGA-T
1 GTCCCAGACATG-GTCTTACACGAATCAAATATCGATGCC-ACT
* *
76434470 GTCCCAGACATGGTCTTACACATAACTACATATATCGATGCCAAC-
1 GTCCCAGACATGGTCTTACAC-GAA-T-CAAATATCGATGCC-ACT
* *
76434515 GTCCCAAACGTGGTCTT
1 GTCCCAGACATGGTCTT
76434532 TCTCGAGAAC
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
41 25 0.30
42 13 0.16
43 17 0.20
44 6 0.07
45 22 0.27
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAATCAAATATCGATGCCACT
Found at i:76440232 original size:13 final size:14
Alignment explanation
Indices: 76440216--76440245 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
76440206 ATGCTTGATG
76440216 TTAATTGAA-GTAA
1 TTAATTGAATGTAA
76440229 TTAATTGAATGTAA
1 TTAATTGAATGTAA
76440243 TTA
1 TTA
76440246 TCTATTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TTAATTGAATGTAA
Found at i:76443032 original size:19 final size:18
Alignment explanation
Indices: 76443004--76443043 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
76442994 GAATACTTCC
76443004 ATAAACGATAACTTATTCT
1 ATAAACGATAACTTATT-T
*
76443023 ATAAATGATAACTTATTT
1 ATAAACGATAACTTATTT
76443041 ATA
1 ATA
76443044 GGCGGTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (18 bp):
ATAAACGATAACTTATTT
Found at i:76444295 original size:17 final size:17
Alignment explanation
Indices: 76444234--76444295 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
76444224 AAACAAGGCT
76444234 AACAATATAAAAA-TATA
1 AACAA-ATAAAAAGTATA
* *
76444251 AATAAATAAACAAGTAAA
1 AACAAATAAA-AAGTATA
* * *
76444269 AACTATTAAAAAGTTTA
1 AACAAATAAAAAGTATA
76444286 AACAAATAAA
1 AACAAATAAA
76444296 TAAAAAATGA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
16 5 0.15
17 19 0.56
18 10 0.29
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (17 bp):
AACAAATAAAAAGTATA
Found at i:76444308 original size:12 final size:12
Alignment explanation
Indices: 76444284--76444322 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
76444274 TTAAAAAGTT
76444284 TAAACAAATAAA
1 TAAACAAATAAA
76444296 TAAA-AAATGAAA
1 TAAACAAAT-AAA
*
76444308 TAAGCAAATAAA
1 TAAACAAATAAA
76444320 TAA
1 TAA
76444323 TTAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 4 0.17
12 16 0.67
13 4 0.17
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (12 bp):
TAAACAAATAAA
Found at i:76444316 original size:20 final size:18
Alignment explanation
Indices: 76444293--76444338 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
76444283 TTAAACAAAT
76444293 AAATAAAAAATGAAATAA
1 AAATAAAAAATGAAATAA
* *
76444311 GCAAATAAATAATTAAATAA
1 --AAATAAAAAATGAAATAA
76444331 AAATAAAA
1 AAATAAAA
76444339 TATAACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
AAATAAAAAATGAAATAA
Found at i:76444328 original size:12 final size:12
Alignment explanation
Indices: 76444289--76444490 Score: 66
Period size: 12 Copynumber: 16.5 Consensus size: 12
76444279 AAGTTTAAAC
76444289 AAATAAATAA-A
1 AAATAAATAATA
**
76444300 AAATGAAATAAGC
1 AAAT-AAATAATA
*
76444313 AAATAAATAATT
1 AAATAAATAATA
76444325 AAATAAA-AATA
1 AAATAAATAATA
*
76444336 AAAT--ATAACA
1 AAATAAATAATA
* *
76444346 AATTACA-AATGA
1 AAATAAATAAT-A
*
76444358 CAATAATAATAATA
1 AAAT-A-AATAATA
76444372 ATAATAACATAATA
1 A-AATAA-ATAATA
76444386 GAAAT-AATAATA
1 -AAATAAATAATA
76444398 ATAAT-AATAATAA
1 A-AATAAATAAT-A
76444411 AGAATAAA-AATA
1 A-AATAAATAATA
*
76444423 GTAATAAA-AATA
1 -AAATAAATAATA
* * *
76444435 ATATTAATAGTA
1 AAATAAATAATA
**
76444447 ATAAT-AATGGTA
1 A-AATAAATAATA
76444459 ATAATAAATAATA
1 A-AATAAATAATA
*
76444472 GTAAT-AATAATA
1 -AAATAAATAATA
76444484 ATAATAA
1 A-AATAA
76444491 TAGTAACAAT
Statistics
Matches: 146, Mismatches: 23, Indels: 42
0.69 0.11 0.20
Matches are distributed among these distances:
9 1 0.01
10 6 0.04
11 18 0.12
12 74 0.51
13 26 0.18
14 14 0.10
15 7 0.05
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:76444367 original size:3 final size:3
Alignment explanation
Indices: 76444359--76444513 Score: 143
Period size: 3 Copynumber: 51.3 Consensus size: 3
76444349 TACAAATGAC
*
76444359 AAT AAT AAT AAT AAT AAT AA- CAT AAT AGA- AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * * * *
76444403 AAT AAT AAAG AAT AAA AAT AGT AAT AAA AAT AAT ATT AAT AGT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * *
76444449 AAT AAT GGT AAT AAT AAAT AAT AGT AAT AAT AAT AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
76444495 AAC AAT AGT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
76444514 TATTAAATTA
Statistics
Matches: 119, Mismatches: 28, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
2 2 0.02
3 111 0.93
4 6 0.05
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Done.