Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 36 of 129
Found at i:7508626 original size:43 final size:44
Alignment explanation
Indices: 7508578--7508883 Score: 143
Period size: 43 Copynumber: 7.2 Consensus size: 44
7508568 AAATGACTCG
* ** * *
7508578 AAACTCTTCTAAGTAGAGATTC-ACAA-TTTGTGGAGAATAAACA
1 AAACTCCTCTAAACAGAGATTCAACAACTTT-TGAAAAATAAACA
7508621 AAACTCCTCTAAACAGAGATTCAACAACTTTTGAAAAATAAACA
1 AAACTCCTCTAAACAGAGATTCAACAACTTTTGAAAAATAAACA
** * * ** ** *
7508665 AAGTTCCTCTAATCAAAGGCTCAATGAC-CTTGAAAAATAAACA
1 AAACTCCTCTAAACAGAGATTCAACAACTTTTGAAAAATAAACA
** ** * ** *
7508708 AGGCTCCTCTAATA-AGAGGCTCGATGAC-TTTGAAAAATAAATA
1 AAACTCCTCTAA-ACAGAGATTCAACAACTTTTGAAAAATAAACA
* * ** *
7508751 AGGAA-----ATAAATA-AGGCTCAACAAC-TTTGGAAAATAAACA
1 A--AACTCCTCTAAACAGAGATTCAACAACTTTTGAAAAATAAACA
* * ** ** *
7508790 AAACTCTTCTAAATAGAGGCTCAATGACTTTTGAAAACTAAACA
1 AAACTCCTCTAAACAGAGATTCAACAACTTTTGAAAAATAAACA
* * * *
7508834 AAGCTCCTCTAAATAGAGGTTCAACGAC-TTTGAAAAATAAACA
1 AAACTCCTCTAAACAGAGATTCAACAACTTTTGAAAAATAAACA
7508877 AAACTCC
1 AAACTCC
7508884 CCGACAATTA
Statistics
Matches: 210, Mismatches: 40, Indels: 26
0.76 0.14 0.09
Matches are distributed among these distances:
37 2 0.01
39 24 0.11
40 4 0.02
42 6 0.03
43 99 0.47
44 72 0.34
45 3 0.01
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (44 bp):
AAACTCCTCTAAACAGAGATTCAACAACTTTTGAAAAATAAACA
Found at i:7508673 original size:44 final size:43
Alignment explanation
Indices: 7508613--7508883 Score: 239
Period size: 43 Copynumber: 6.3 Consensus size: 43
7508603 ATTTGTGGAG
* * ** *
7508613 AATAAACAAAACTCCTCTAAACAGAGATTCAACAACTTTTGAAA
1 AATAAACAAAGCTCCTCTAAATAGAGGCTCAACGAC-TTTGAAA
* * * *
7508657 AATAAACAAAGTTCCTCT-AATCAAAGGCTCAATGACCTTGAAA
1 AATAAACAAAGCTCCTCTAAAT-AGAGGCTCAACGACTTTGAAA
* * *
7508700 AATAAACAAGGCTCCTCT-AATAAGAGGCTCGATGACTTTGAAA
1 AATAAACAAAGCTCCTCTAAAT-AGAGGCTCAACGACTTTGAAA
* **** * *
7508743 AATAAA-TAAG--GAAATAAATA-AGGCTCAACAACTTTGGAA
1 AATAAACAAAGCTCCTCTAAATAGAGGCTCAACGACTTTGAAA
* * *
7508782 AATAAACAAAACTCTTCTAAATAGAGGCTCAATGACTTTTGAAA
1 AATAAACAAAGCTCCTCTAAATAGAGGCTCAACGAC-TTTGAAA
* *
7508826 ACTAAACAAAGCTCCTCTAAATAGAGGTTCAACGACTTTGAAA
1 AATAAACAAAGCTCCTCTAAATAGAGGCTCAACGACTTTGAAA
*
7508869 AATAAACAAAACTCC
1 AATAAACAAAGCTCC
7508884 CCGACAATTA
Statistics
Matches: 179, Mismatches: 41, Indels: 15
0.76 0.17 0.06
Matches are distributed among these distances:
39 21 0.12
40 4 0.02
41 3 0.02
42 8 0.04
43 81 0.45
44 62 0.35
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.23
Consensus pattern (43 bp):
AATAAACAAAGCTCCTCTAAATAGAGGCTCAACGACTTTGAAA
Found at i:7508801 original size:82 final size:83
Alignment explanation
Indices: 7508680--7508831 Score: 200
Period size: 82 Copynumber: 1.8 Consensus size: 83
7508670 CCTCTAATCA
** ** *
7508680 AAGGCTCAATGACCTTGAAAAATAAACAAGGCTCCTCT-AATAAGAGGCTCGATGAC-TTTGAAA
1 AAGGCTCAACAACCTTGAAAAATAAACAAAACTCCTCTAAAT-AGAGGCTCAATGACTTTTGAAA
7508743 AATAAATAAGGAAATAAAT
65 AATAAATAAGGAAATAAAT
* * *
7508762 AAGGCTCAACAACTTTGGAAAATAAACAAAACTCTTCTAAATAGAGGCTCAATGACTTTTGAAAA
1 AAGGCTCAACAACCTTGAAAAATAAACAAAACTCCTCTAAATAGAGGCTCAATGACTTTTGAAAA
*
7508827 CTAAA
66 ATAAA
7508832 CAAAGCTCCT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
82 44 0.75
83 15 0.25
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (83 bp):
AAGGCTCAACAACCTTGAAAAATAAACAAAACTCCTCTAAATAGAGGCTCAATGACTTTTGAAAA
ATAAATAAGGAAATAAAT
Found at i:7508833 original size:126 final size:126
Alignment explanation
Indices: 7508641--7508874 Score: 321
Period size: 126 Copynumber: 1.9 Consensus size: 126
7508631 AAACAGAGAT
**
7508641 TCAACAACTTTTGAAAAATAAACAAAGTTCCTCTAATCAAAGGCTCAATGACCTTGAAAAATAAA
1 TCAACAACTTTTGAAAAATAAACAAAACTCCTCTAATCAAAGGCTCAATGACCTTGAAAAATAAA
* * *
7508706 CAAGGCTCCTCT-AATAAGAGGCTCGATGACTTTGAAAAATAAATAAGGAAATAAATAAGGC
66 CAAAGCTCCTCTAAAT-AGAGGCTCAACGACTTTGAAAAATAAATAAGGAAATAAATAAGGC
* * * * *
7508767 TCAACAAC-TTTGGAAAATAAACAAAACTCTTCTAAAT-AGAGGCTCAATGACTTTTGAAAACTA
1 TCAACAACTTTTGAAAAATAAACAAAACTCCTCT-AATCAAAGGCTCAATGAC-CTTGAAAAATA
*
7508830 AACAAAGCTCCTCTAAATAGAGGTTCAACGACTTTGAAAAATAAA
64 AACAAAGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAA
7508875 CAAAACTCCC
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
125 34 0.36
126 57 0.61
127 3 0.03
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (126 bp):
TCAACAACTTTTGAAAAATAAACAAAACTCCTCTAATCAAAGGCTCAATGACCTTGAAAAATAAA
CAAAGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAGGAAATAAATAAGGC
Found at i:7519295 original size:49 final size:50
Alignment explanation
Indices: 7519231--7519333 Score: 136
Period size: 49 Copynumber: 2.1 Consensus size: 50
7519221 TGCAAATGAT
* * *
7519231 AATGTTAAAACATGAGTATGAAAATGATACATAAAAGGAGATGATATGGA
1 AATGTTAAAACATGAGCATGAAAATAATACATAAAAGGAAATGATATGGA
* * * *
7519281 AATGTT-AAACATGAGCATGAAAATAATGCATAGAATGAAATGATATGGG
1 AATGTTAAAACATGAGCATGAAAATAATACATAAAAGGAAATGATATGGA
7519330 AATG
1 AATG
7519334 ATGTAGATGC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 40 0.87
50 6 0.13
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.24
Consensus pattern (50 bp):
AATGTTAAAACATGAGCATGAAAATAATACATAAAAGGAAATGATATGGA
Found at i:7520481 original size:58 final size:55
Alignment explanation
Indices: 7520414--7520572 Score: 162
Period size: 58 Copynumber: 2.9 Consensus size: 55
7520404 TTCCTTTTGA
****
7520414 ATTTCTAAATTTTTCACCATTTAGGCCTATTTAGAAATTCTCTTTATTTATTTTTGTT
1 ATTTCTAAATTTTTCACCATTTAGGCCTATTTAGAAATTCT-TTTATTT-TCAAAG-T
* * * * *
7520472 ATTTCTAAATTTTTCAGCATTTTGGACAATTTAGAAATACTTTT-TTTTCAAAGT
1 ATTTCTAAATTTTTCACCATTTAGGCCTATTTAGAAATTCTTTTATTTTCAAAGT
* *
7520526 -TTT-TAAATTTTTTACTATTTAGGCCTATTTAGAAATTCTTTTTATTT
1 ATTTCTAAATTTTTCACCATTTAGGCCTATTTAGAAATTC-TTTTATTT
7520573 CCTTTTTGGA
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
52 28 0.34
53 7 0.08
54 4 0.05
55 2 0.02
56 3 0.04
57 3 0.04
58 36 0.43
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (55 bp):
ATTTCTAAATTTTTCACCATTTAGGCCTATTTAGAAATTCTTTTATTTTCAAAGT
Found at i:7521964 original size:4 final size:4
Alignment explanation
Indices: 7521955--7521988 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
7521945 ATAAAAAGAA
7521955 AAAT AAAT AAAT AACAT -AAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AA
7521989 TTAATTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 24 0.86
5 2 0.07
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:7521968 original size:20 final size:20
Alignment explanation
Indices: 7521943--7521988 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
7521933 ACTTTAGAAA
7521943 AAATAA-AAAGAAAAATAAAT
1 AAATAACAAA-AAAAATAAAT
* *
7521963 AAATAACATAATAAATAAAT
1 AAATAACAAAAAAAATAAAT
7521983 AAATAA
1 AAATAA
7521989 TTAATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (20 bp):
AAATAACAAAAAAAATAAAT
Found at i:7523638 original size:18 final size:18
Alignment explanation
Indices: 7523600--7523638 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7523590 TCCTTTGACT
*
7523600 AAAAACAAAATTAAATCA
1 AAAAACAAAATAAAATCA
7523618 AAAAACAAAAATAAAAT-A
1 AAAAAC-AAAATAAAATCA
7523636 AAA
1 AAA
7523639 TTAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (18 bp):
AAAAACAAAATAAAATCA
Found at i:7523649 original size:15 final size:15
Alignment explanation
Indices: 7523601--7523658 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
7523591 CCTTTGACTA
*
7523601 AAAACAAAATTAAAT
1 AAAATAAAATTAAAT
7523616 CAAAA-AACAA--AAAT
1 -AAAATAA-AATTAAAT
7523630 AAAATAAAATTAAAT
1 AAAATAAAATTAAAT
* *
7523645 TAAATTAAATTAAA
1 AAAATAAAATTAAA
7523659 ACTCAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 6 0.17
14 6 0.17
15 18 0.50
16 6 0.17
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAATAAAATTAAAT
Found at i:7524611 original size:2 final size:2
Alignment explanation
Indices: 7524604--7524638 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7524594 CTAAGATGTG
7524604 TA TA TA 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 TA TA TA T
7524639 TAATCCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7526196 original size:8 final size:8
Alignment explanation
Indices: 7526183--7526208 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
7526173 TTAAAATTTT
7526183 TAATTTAA
1 TAATTTAA
7526191 TAATTTAA
1 TAATTTAA
7526199 TAATTTAA
1 TAATTTAA
7526207 TA
1 TA
7526209 TTTTGTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TAATTTAA
Found at i:7533366 original size:40 final size:40
Alignment explanation
Indices: 7533322--7533405 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
7533312 ACACTTGTAA
*
7533322 TGTAGGAAGAAATACCTTGATTAATATCAAAAAAGGTACT
1 TGTAGGAAGAAATACCTTAATTAATATCAAAAAAGGTACT
* * ** *
7533362 TGTAGGAAGAAATGCCTTAATTGATATCAATTAAGGTGCT
1 TGTAGGAAGAAATACCTTAATTAATATCAAAAAAGGTACT
7533402 TGTA
1 TGTA
7533406 AGAACAAACA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (40 bp):
TGTAGGAAGAAATACCTTAATTAATATCAAAAAAGGTACT
Found at i:7535813 original size:19 final size:19
Alignment explanation
Indices: 7535789--7535835 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
7535779 TCAAATCAAA
* *
7535789 TTATATATATCTTGAATTT
1 TTATATAAATCTTAAATTT
*
7535808 TTATATAAATTTTAAATTT
1 TTATATAAATCTTAAATTT
7535827 TTATA-AAAT
1 TTATATAAAT
7535836 AAAAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATATAAATCTTAAATTT
Found at i:7540915 original size:2 final size:2
Alignment explanation
Indices: 7540910--7540938 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7540900 ATTGGGTGTG
7540910 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
7540939 TTGATTGAAC
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:7543756 original size:29 final size:27
Alignment explanation
Indices: 7543715--7543774 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
7543705 GCTGAACCAG
*
7543715 AGAAGAAGAAAAAAAACGATGGAAGAAAA
1 AGAAGAAGAAAAAAAA-GAGGGAA-AAAA
*
7543744 AGAATAAGAAAAAAAAGAGGGAAAAAA
1 AGAAGAAGAAAAAAAAGAGGGAAAAAA
7543771 AGAA
1 AGAA
7543775 AGGTTTTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 8 0.28
28 6 0.21
29 15 0.52
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.03
Consensus pattern (27 bp):
AGAAGAAGAAAAAAAAGAGGGAAAAAA
Found at i:7543862 original size:18 final size:17
Alignment explanation
Indices: 7543828--7543869 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
7543818 GAAGAAAGAG
7543828 AGAAAAAGAGAAAGGAA
1 AGAAAAAGAGAAAGGAA
7543845 AGAAAGAAGA-AAATGGAA
1 AGAAA-AAGAGAAA-GGAA
7543863 AGAAAAA
1 AGAAAAA
7543870 AAAAAAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.02
Consensus pattern (17 bp):
AGAAAAAGAGAAAGGAA
Found at i:7543875 original size:18 final size:17
Alignment explanation
Indices: 7543828--7543875 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
7543818 GAAGAAAGAG
* *
7543828 AGAAAAAGAGAAAGGAA
1 AGAAAAAAAAAAAGGAA
* *
7543845 AGAAAGAAGAAAATGGAA
1 AGAAA-AAAAAAAAGGAA
7543863 AGAAAAAAAAAAA
1 AGAAAAAAAAAAA
7543876 AGCTTTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (17 bp):
AGAAAAAAAAAAAGGAA
Found at i:7543899 original size:24 final size:23
Alignment explanation
Indices: 7543867--7543923 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 23
7543857 ATGGAAAGAA
*
7543867 AAAAAAAAAAGCTTTGAAAAGTGT-
1 AAAAAAAAAAGC-ATGAAAA-TGTC
7543891 AAAAAAAAAAGCATGAAAATGTC
1 AAAAAAAAAAGCATGAAAATGTC
7543914 AAAAAAAAAA
1 AAAAAAAAAA
7543924 AAAAAGAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 3 0.10
23 16 0.52
24 12 0.39
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.14
Consensus pattern (23 bp):
AAAAAAAAAAGCATGAAAATGTC
Found at i:7543924 original size:24 final size:25
Alignment explanation
Indices: 7543866--7543924 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
7543856 AATGGAAAGA
*
7543866 AAAAAAAAAAAGCTTTGAAAAGTGT
1 AAAAAAAAAAAGCTATGAAAAGTGT
7543891 -AAAAAAAAAAGC-ATGAAAA-TGT
1 AAAAAAAAAAAGCTATGAAAAGTGT
7543913 CAAAAAAAAAAA
1 -AAAAAAAAAAA
7543925 AAAAGAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 3 0.10
23 6 0.19
24 22 0.71
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (25 bp):
AAAAAAAAAAAGCTATGAAAAGTGT
Found at i:7544013 original size:24 final size:24
Alignment explanation
Indices: 7543938--7544034 Score: 97
Period size: 24 Copynumber: 3.8 Consensus size: 24
7543928 AGAAAGGCAG
*
7543938 TTTGAAAAGTAAAAAAAAAAGGGCAAC
1 TTTGAAAAGTAAAAAAAAAA---AAAC
* *
7543965 TTTGAAAATTCAATACAAAAAAAAAAG
1 TTTGAAAAGT-AA-A-AAAAAAAAAAC
7543992 TTTGAAACA-TAAAAAAAAAAAAAC
1 TTTGAAA-AGTAAAAAAAAAAAAAC
7544016 TTTGAAAAGTAAAAAAAAA
1 TTTGAAAAGTAAAAAAAAA
7544035 GGAGGGGAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
23 1 0.02
24 27 0.44
25 1 0.02
26 2 0.03
27 19 0.31
28 3 0.05
29 1 0.02
30 7 0.11
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (24 bp):
TTTGAAAAGTAAAAAAAAAAAAAC
Found at i:7544090 original size:25 final size:25
Alignment explanation
Indices: 7544056--7544111 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
7544046 CTGAAAGGTA
* *
7544056 AAAAAATAAATGGGGTTTGAACAAT
1 AAAAAATAAATGGGCTTTGAACAAC
*
7544081 AAAAAATAAATGTGCTTTGAACAAC
1 AAAAAATAAATGGGCTTTGAACAAC
7544106 AAAAAA
1 AAAAAA
7544112 GAAAAAGCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (25 bp):
AAAAAATAAATGGGCTTTGAACAAC
Found at i:7544302 original size:3 final size:3
Alignment explanation
Indices: 7544294--7544320 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7544284 TTACGATTTA
7544294 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
7544321 TACAATGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7544956 original size:8 final size:8
Alignment explanation
Indices: 7544945--7545102 Score: 58
Period size: 8 Copynumber: 19.5 Consensus size: 8
7544935 CTACAACCCC
7544945 AAAACCTT
1 AAAACCTT
7544953 AAAACC-T
1 AAAACCTT
* *
7544960 AAAATCTC
1 AAAACCTT
* *
7544968 GAAACCCT
1 AAAACCTT
**
7544976 AAATTCTT
1 AAAACCTT
*
7544984 AAAACATT
1 AAAACCTT
7544992 AAAA-CTT
1 AAAACCTT
*
7544999 AAAACCCT
1 AAAACCTT
* *
7545007 AACACCCT
1 AAAACCTT
7545015 AAAACCTT
1 AAAACCTT
*
7545023 GGAAACC-T
1 -AAAACCTT
**
7545031 AAAATATT
1 AAAACCTT
7545039 AAAACAACCTT
1 --AA-AACCTT
7545050 AAAAACCTT
1 -AAAACCTT
*
7545059 GAAATCC-T
1 -AAAACCTT
7545067 AAAATCC-T
1 AAAA-CCTT
7545075 AAAACCTT
1 AAAACCTT
*
7545083 GAAA-CTCT
1 AAAACCT-T
*
7545091 AAAACATT
1 AAAACCTT
7545099 AAAA
1 AAAA
7545103 TGAAACCCTA
Statistics
Matches: 109, Mismatches: 30, Indels: 22
0.68 0.19 0.14
Matches are distributed among these distances:
7 22 0.20
8 61 0.56
9 17 0.16
10 5 0.05
11 4 0.04
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (8 bp):
AAAACCTT
Found at i:7557148 original size:70 final size:70
Alignment explanation
Indices: 7557085--7557334 Score: 245
Period size: 70 Copynumber: 3.6 Consensus size: 70
7557075 CTTATGGCTT
* * * *
7557085 AGTCCTGGTCATCTTTATTCTTCGACTTATAGTTCAATACT-GGTCATTTTTATTTTTTGACTTA
1 AGTCCTGGTCATCTTTATGCTTTGACTCATAGTTCAAT-CTAGATCATTTTTATTTTTTGACTTA
* *
7557149 CCACTG
65 CGACTC
* * * * *
7557155 AGT-CTCGATCATCTTTATTCTTTAACTTATTGTTCAATCTCA-ATCATTTTTATTTTTTGACTT
1 AGTCCT-GGTCATCTTTATGCTTTGACTCATAGTTCAATCT-AGATCATTTTTATTTTTTGACTT
7557218 ACGACTC
64 ACGACTC
* * * * * * * **
7557225 AGGCCCGGTCATGTTTATGCTTTGACTCACAGTTCAATCTAGATCATTTTTATTTCTTAATTTGT
1 AGTCCTGGTCATCTTTATGCTTTGACTCATAGTTCAATCTAGATCATTTTTATTTTTTGACTTAC
7557290 GACTC
66 GACTC
* * *
7557295 AATCCTTGTCATCTTTATGCTTAGACTCATAGTTCAATCT
1 AGTCCTGGTCATCTTTATGCTTTGACTCATAGTTCAATCT
7557335 CGCCCGGTCA
Statistics
Matches: 147, Mismatches: 28, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
69 5 0.03
70 141 0.96
71 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (70 bp):
AGTCCTGGTCATCTTTATGCTTTGACTCATAGTTCAATCTAGATCATTTTTATTTTTTGACTTAC
GACTC
Found at i:7557172 original size:35 final size:35
Alignment explanation
Indices: 7557128--7557225 Score: 97
Period size: 35 Copynumber: 2.8 Consensus size: 35
7557118 TCAATACTGG
* * *
7557128 TCATTTTTATTTTTTGACTTACCACTGAGTCTCGA
1 TCATTTTTATTTTTTGACTTACCACTCAATCTCAA
* * * ****
7557163 TCATCTTTATTCTTTAACTTATTGTTCAATCTCAA
1 TCATTTTTATTTTTTGACTTACCACTCAATCTCAA
*
7557198 TCATTTTTATTTTTTGACTTACGACTCA
1 TCATTTTTATTTTTTGACTTACCACTCA
7557226 GGCCCGGTCA
Statistics
Matches: 46, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.51
Consensus pattern (35 bp):
TCATTTTTATTTTTTGACTTACCACTCAATCTCAA
Found at i:7557277 original size:35 final size:35
Alignment explanation
Indices: 7557233--7557386 Score: 82
Period size: 35 Copynumber: 4.3 Consensus size: 35
7557223 TCAGGCCCGG
7557233 TCATGTTTATGCTTTGACTCACAGTTCAATCTAGA
1 TCATGTTTATGCTTTGACTCACAGTTCAATCTAGA
* * *** * *
7557268 TCATTTTTATTTCTTAATTTGTGAC---TCAATCCTTG-
1 TCATGTTTA-TGCTT--TGACTCACAGTTCAAT-CTAGA
* * * * *
7557303 TCATCTTTATGCTTAGACTCATAGTTCAATCTCGCCCGG
1 TCATGTTTATGCTTTGACTCACAGTTCAATCT----AGA
*
7557342 TCATGTTTATACTTTGACTCACAGTTCAATCTAGA
1 TCATGTTTATGCTTTGACTCACAGTTCAATCTAGA
*
7557377 TCATTTTTAT
1 TCATGTTTAT
7557387 TTCCTAATTT
Statistics
Matches: 84, Mismatches: 23, Indels: 24
0.64 0.18 0.18
Matches are distributed among these distances:
32 2 0.02
34 6 0.07
35 36 0.43
36 7 0.08
38 5 0.06
39 28 0.33
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (35 bp):
TCATGTTTATGCTTTGACTCACAGTTCAATCTAGA
Found at i:7557359 original size:109 final size:109
Alignment explanation
Indices: 7557227--7557445 Score: 402
Period size: 109 Copynumber: 2.0 Consensus size: 109
7557217 TACGACTCAG
* *
7557227 GCCCGGTCATGTTTATGCTTTGACTCACAGTTCAATCTAGATCATTTTTATTTCTTAATTTGTGA
1 GCCCGGTCATGTTTATACTTTGACTCACAGTTCAATCTAGATCATTTTTATTTCCTAATTTGTGA
*
7557292 CTCAATCCTTGTCATCTTTATGCTTAGACTCATAGTTCAATCTC
66 CTCAATCCTTGTCATCTTTATGCTTAGACTCATAATTCAATCTC
*
7557336 GCCCGGTCATGTTTATACTTTGACTCACAGTTCAATCTAGATCATTTTTATTTCCTAATTTGTTA
1 GCCCGGTCATGTTTATACTTTGACTCACAGTTCAATCTAGATCATTTTTATTTCCTAATTTGTGA
7557401 CTCAATCCTTGTCATCTTTATGCTTAGACTCATAATTCAATCTC
66 CTCAATCCTTGTCATCTTTATGCTTAGACTCATAATTCAATCTC
7557445 G
1 G
7557446 ATCATTTTTA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 106 1.00
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (109 bp):
GCCCGGTCATGTTTATACTTTGACTCACAGTTCAATCTAGATCATTTTTATTTCCTAATTTGTGA
CTCAATCCTTGTCATCTTTATGCTTAGACTCATAATTCAATCTC
Found at i:7557607 original size:140 final size:141
Alignment explanation
Indices: 7557436--7557741 Score: 336
Period size: 140 Copynumber: 2.2 Consensus size: 141
7557426 AGACTCATAA
* ** **
7557436 TTCAATCTCGATCATTTTTATTT-TTTGACTTAC-GGTTCAATCCTAGCCATATTTATTTTTCGA
1 TTCAATCTTGATCATTTTTATTTCTTTGACTTACAACTT-AATCCTAGCCATATTTATGCTTCGA
** * * * *
7557499 CTTGTGATTCAGTTTCGGTCACT-TTTATTCCTTGAA-TTATAGTTTAGTC-CTGGTCGCTTTTA
65 CTCATGATTCAATCTCGGTCA-TATTTATT-CTTGAACTTATAGTTTAGTCTC-GCTCACTTTTA
* *
7557561 TTTCTTGACTTGCGG
127 TTCCTTGACTTGCAG
* * *
7557576 TTCAATCTTGGTCATTTTAATTTCTTT-ACTTACAACTTAATCCTTGCCATATTTATGCTTCGAC
1 TTCAATCTTGATCATTTTTATTTCTTTGACTTACAACTTAATCCTAGCCATATTTATGCTTCGAC
* * * * *
7557640 TCATGGTTCAATCTCGTTCATATTTATTCTTTAACTTGTGGTTTAGTCTCGCTCACTTTTATTCC
66 TCATGATTCAATCTCGGTCATATTTATTCTTGAACTTATAGTTTAGTCTCGCTCACTTTTATTCC
*
7557705 TTGACTTGTAG
131 TTGACTTGCAG
7557716 TTCAATCTTGATCATTTTTATTTCTT
1 TTCAATCTTGATCATTTTTATTTCTT
7557742 GATTTGCGAC
Statistics
Matches: 137, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
139 6 0.04
140 125 0.91
141 6 0.04
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.49
Consensus pattern (141 bp):
TTCAATCTTGATCATTTTTATTTCTTTGACTTACAACTTAATCCTAGCCATATTTATGCTTCGAC
TCATGATTCAATCTCGGTCATATTTATTCTTGAACTTATAGTTTAGTCTCGCTCACTTTTATTCC
TTGACTTGCAG
Found at i:7557735 original size:35 final size:35
Alignment explanation
Indices: 7557645--7557743 Score: 99
Period size: 35 Copynumber: 2.8 Consensus size: 35
7557635 TCGACTCATG
* * * * *
7557645 GTTCAATCTCGTTCATATTTATTCTTTAACTTGTG
1 GTTCAATCTCGATCATTTTTATTCCTTGACTTGTA
* * * *
7557680 GTTTAGTCTCGCTCACTTTTATTCCTTGACTTGTA
1 GTTCAATCTCGATCATTTTTATTCCTTGACTTGTA
* *
7557715 GTTCAATCTTGATCATTTTTATTTCTTGA
1 GTTCAATCTCGATCATTTTTATTCCTTGA
7557744 TTTGCGACTC
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (35 bp):
GTTCAATCTCGATCATTTTTATTCCTTGACTTGTA
Found at i:7557894 original size:35 final size:35
Alignment explanation
Indices: 7557847--7557924 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 35
7557837 CTTATCCTTA
* *
7557847 GACTTATTGTTCAAT-CTCAATCGTTTTTATTTTCT
1 GACTTATGGTTCAATCCT-AATCATTTTTATTTTCT
* * *
7557882 GACTTATGGTTCAGTCCTGATCATTTTTATTTTTT
1 GACTTATGGTTCAATCCTAATCATTTTTATTTTCT
7557917 GACTTATG
1 GACTTATG
7557925 ATTTAGTCTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 35 0.95
36 2 0.05
ACGTcount: A:0.19, C:0.15, G:0.13, T:0.53
Consensus pattern (35 bp):
GACTTATGGTTCAATCCTAATCATTTTTATTTTCT
Found at i:7557946 original size:35 final size:35
Alignment explanation
Indices: 7557872--7557956 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
7557862 CTCAATCGTT
* * * *
7557872 TTTATTTTCTGACTTATGGTTCAGTCCTGATCATT
1 TTTATTTTTTGACTTATGATTCAGTCCTCATCATC
*
7557907 TTTATTTTTTGACTTATGATTTAGT-CTCATTCATC
1 TTTATTTTTTGACTTATGATTCAGTCCTCA-TCATC
7557942 TTTATTTTTTTGACT
1 TTTA-TTTTTTGACT
7557957 CATTACGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 3 0.07
35 30 0.70
36 10 0.23
ACGTcount: A:0.18, C:0.14, G:0.11, T:0.58
Consensus pattern (35 bp):
TTTATTTTTTGACTTATGATTCAGTCCTCATCATC
Found at i:7558055 original size:18 final size:18
Alignment explanation
Indices: 7558032--7558070 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7558022 ATGCCTTAAA
*
7558032 AAATAATAGAT-AAATAAT
1 AAATAATA-ATCAAAAAAT
7558050 AAATAATAATCAAAAAAT
1 AAATAATAATCAAAAAAT
7558068 AAA
1 AAA
7558071 AAAACAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
AAATAATAATCAAAAAAT
Found at i:7558090 original size:17 final size:18
Alignment explanation
Indices: 7558068--7558109 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
7558058 ATCAAAAAAT
**
7558068 AAAAAAACAA-ATGTTAA
1 AAAAAAACAATAAATTAA
*
7558085 AAAAAATCAATAAATTAA
1 AAAAAAACAATAAATTAA
7558103 AAAAAAA
1 AAAAAAA
7558110 GAAAAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (18 bp):
AAAAAAACAATAAATTAA
Found at i:7559659 original size:12 final size:12
Alignment explanation
Indices: 7559638--7559720 Score: 70
Period size: 12 Copynumber: 7.2 Consensus size: 12
7559628 TTAAATTTAA
7559638 AATAAGTAAAAT
1 AATAAGTAAAAT
*
7559650 AATAATTAAAGAT
1 AATAAGTAAA-AT
7559663 AA-AA-TAAAATT
1 AATAAGTAAAA-T
7559674 AATAAGTAAAAT
1 AATAAGTAAAAT
*
7559686 AA-AAGAAAAAAT
1 AATAAG-TAAAAT
*
7559698 AAAAAG-AAAAT
1 AATAAGTAAAAT
7559709 AA-AA-TAAAAT
1 AATAAGTAAAAT
7559719 AA
1 AA
7559721 ATCAAAACAA
Statistics
Matches: 62, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
10 10 0.16
11 17 0.27
12 23 0.37
13 12 0.19
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (12 bp):
AATAAGTAAAAT
Found at i:7559683 original size:18 final size:18
Alignment explanation
Indices: 7559638--7559689 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
7559628 TTAAATTTAA
7559638 AATAAGTAAAATAATAATT
1 AATAAGTAAAATAA-AATT
7559657 -A-AAGATAAAATAAAATT
1 AATAAG-TAAAATAAAATT
7559674 AATAAGTAAAATAAAA
1 AATAAGTAAAATAAAA
7559690 GAAAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.23
18 20 0.67
19 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (18 bp):
AATAAGTAAAATAAAATT
Found at i:7559708 original size:36 final size:34
Alignment explanation
Indices: 7559638--7559721 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 34
7559628 TTAAATTTAA
** * *
7559638 AATAAGTAAAATAATAATTAAAGATAAAATAAAATT
1 AATAAGTAAAATAA-AAGAAAAAATAAAAGAAAA-T
7559674 AATAAGTAAAATAAAAGAAAAAATAAAAAGAAAAT
1 AATAAGTAAAATAAAAGAAAAAAT-AAAAGAAAAT
7559709 AA-AA-TAAAATAAA
1 AATAAGTAAAATAAA
7559722 TCAAAACAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
33 9 0.21
34 2 0.05
35 10 0.23
36 22 0.51
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (34 bp):
AATAAGTAAAATAAAAGAAAAAATAAAAGAAAAT
Found at i:7559732 original size:5 final size:5
Alignment explanation
Indices: 7559635--7559721 Score: 63
Period size: 5 Copynumber: 16.8 Consensus size: 5
7559625 TTGTTAAATT
*
7559635 TAAAA T-AAG TAAAA TAATAA TTAAAGA TAAAA TAAAA TTAATAA GTAAAA
1 TAAAA TAAAA TAAAA TAA-AA -TAAA-A TAAAA TAAAA -TAA-AA -TAAAA
* * *
7559685 TAAAA GAAAA -AATA -AAAA GAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
7559722 TCAAAACAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
4 9 0.13
5 38 0.56
6 12 0.18
7 9 0.13
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:7559736 original size:17 final size:16
Alignment explanation
Indices: 7559681--7559750 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 16
7559671 ATTAATAAGT
*
7559681 AAAATAAAAGAAAAAATA
1 AAAAT-AAAGTAAAAA-A
* * *
7559699 AAAAGAAAAT-AAAAT
1 AAAATAAAGTAAAAAA
7559714 AAAATAAA-TCAAAACAA
1 AAAATAAAGT-AAAA-AA
7559731 AAAATAAAGTAAAAAA
1 AAAATAAAGTAAAAAA
7559747 AAAA
1 AAAA
7559751 AAGCAAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
14 1 0.02
15 7 0.17
16 13 0.31
17 16 0.38
18 5 0.12
ACGTcount: A:0.81, C:0.03, G:0.04, T:0.11
Consensus pattern (16 bp):
AAAATAAAGTAAAAAA
Found at i:7560677 original size:30 final size:32
Alignment explanation
Indices: 7560632--7560699 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 32
7560622 AAAACTAAAG
* * *
7560632 TTAAAAGCCTAAAATTAAAACTCAAATC-ACA
1 TTAAAAACCTAAAATTAAAAATCAAATCGAAA
*
7560663 TTAAAAACC-AAAATTAAAAATTAAATCGAAA
1 TTAAAAACCTAAAATTAAAAATCAAATCGAAA
7560694 TTAAAA
1 TTAAAA
7560700 TTTTTGGGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (32 bp):
TTAAAAACCTAAAATTAAAAATCAAATCGAAA
Found at i:7561412 original size:17 final size:17
Alignment explanation
Indices: 7561380--7561416 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7561370 AATAGAGAAA
7561380 AATAAAAGAAGAAAGAG
1 AATAAAAGAAGAAAGAG
7561397 AATAAGAAGAAG-AAGAG
1 AATAA-AAGAAGAAAGAG
7561414 AAT
1 AAT
7561417 GAGAGGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (17 bp):
AATAAAAGAAGAAAGAG
Found at i:7572556 original size:119 final size:119
Alignment explanation
Indices: 7572346--7572814 Score: 532
Period size: 119 Copynumber: 3.9 Consensus size: 119
7572336 TTATTCGCTT
* * * * *
7572346 ACTTGATCTTGGCT-TAGTCAGATCATTTCTTATGATTCATGGTTTCGTCTTGATTATTTATTCT
1 ACTTGATCTTGGCTCAATTCAGATCATTTCTTATGATTCGTGGTTTCATCTCGATTATTTATTCT
* * *
7572410 CGACCTTGACTCGATCCTAGTCGCTTTATTTCGACTCGTGGTTTTATTTCGGTC
66 CGACCTTGACTCGATCCTAGTCGCTTTATTTTGACTCGTGGTTTCATCTCGGTC
* * * *
7572464 ACTTGATCTTGGCTTAGTTCAAATCATTTTTTATGATTCGTGG-TTCTATCTCGATTATTTATTC
1 ACTTGATCTTGGCTCAATTCAGATCATTTCTTATGATTCGTGGTTTC-ATCTCGATTATTTATTC
* * *
7572528 TCAACCTTGACTCGATCCTAGTCGCTTTATTTTGACTCGTAGTTTCATCCCGGTC
65 TCGACCTTGACTCGATCCTAGTCGCTTTATTTTGACTCGTGGTTTCATCTCGGTC
* *
7572583 ACTTGATCTTGACTCAATTTAGATCATTTCTTATGATTCGTGGTTTCATCTCGATTATTTATTCT
1 ACTTGATCTTGGCTCAATTCAGATCATTTCTTATGATTCGTGGTTTCATCTCGATTATTTATTCT
* * * * * * * *
7572648 TGACATTGACTC-AGTCGT-GATCACTTTATTTTGAGTCATGATTTCATCTCGTTC
66 CGACCTTGACTCGA-TCCTAG-TCGCTTTATTTTGACTCGTGGTTTCATCTCGGTC
* * * * *
7572702 ACTTGATCTTGGATCAATTCAGATCATTTTTTATAATTCGTGGTTCCATCCCGATTATTTATTCT
1 ACTTGATCTTGGCTCAATTCAGATCATTTCTTATGATTCGTGGTTTCATCTCGATTATTTATTCT
* ** * ** * * *
7572767 TGATTTTGACTTGATTTTGGTCACTTTATTTTGACTCATGGTTTCATC
66 CGACCTTGACTCGATCCTAGTCGCTTTATTTTGACTCGTGGTTTCATC
7572815 ACAATTGTTT
Statistics
Matches: 299, Mismatches: 45, Indels: 13
0.84 0.13 0.04
Matches are distributed among these distances:
118 19 0.06
119 275 0.92
120 5 0.02
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (119 bp):
ACTTGATCTTGGCTCAATTCAGATCATTTCTTATGATTCGTGGTTTCATCTCGATTATTTATTCT
CGACCTTGACTCGATCCTAGTCGCTTTATTTTGACTCGTGGTTTCATCTCGGTC
Found at i:7572796 original size:238 final size:238
Alignment explanation
Indices: 7572365--7572866 Score: 594
Period size: 238 Copynumber: 2.1 Consensus size: 238
7572355 TGGCTTAGTC
* * *
7572365 AGATCATTTCTTATGATTCATGGTTTCGTCTTGATTATTTATTCTCGACCTTGACTCGATCCTAG
1 AGATCATTTCTTATGATTCATGGTTTCATCTCGATTATTTATTCTCGACATTGACTCGATCCTAG
* * * * * * * *
7572430 TCGCTTTATTTCGACTCGTGGTTTTATTTCGGTCACTTGATCTTGGCTTAGTTCAAATCATTTTT
66 TCACTTTATTTCGACTCATGATTTCATCTCGGTCACTTGATCTTGGATCAATTCAAATCATTTTT
* * * *
7572495 TATGATTCGTGGTTCTATCTCGATTATTTATTCTCAACCTTGACTCGATCCTAGTCGCTTTATTT
131 TATAATTCGTGGTTCCATCCCGATTATTTATTCTCAACCTTGACTCGATCCTAGTCACTTTATTT
* * ** * *
7572560 TGACTCGTAGTTTCATCCCGGTCACTTGATCTTGACTCAATTT
196 TGACTCATAGTTTCATCACAATCACTTAATCTTAACTCAATTT
* * *
7572603 AGATCATTTCTTATGATTCGTGGTTTCATCTCGATTATTTATTCTTGACATTGACTC-AGTCGT-
1 AGATCATTTCTTATGATTCATGGTTTCATCTCGATTATTTATTCTCGACATTGACTCGA-TCCTA
* * * *
7572666 GATCACTTTATTTTGAGTCATGATTTCATCTCGTTCACTTGATCTTGGATCAATTCAGATCATTT
65 G-TCACTTTATTTCGACTCATGATTTCATCTCGGTCACTTGATCTTGGATCAATTCAAATCATTT
** ** * ** *
7572731 TTTATAATTCGTGGTTCCATCCCGATTATTTATTCTTGATTTTGACTTGATTTTGGTCACTTTAT
129 TTTATAATTCGTGGTTCCATCCCGATTATTTATTCTCAACCTTGACTCGATCCTAGTCACTTTAT
* *** *
7572796 TTTGACTCATGGTTTCATCACAATTGTTTAATCTTAACTCAGTTT
194 TTTGACTCATAGTTTCATCACAATCACTTAATCTTAACTCAATTT
*
7572841 AAATCATTTCTTATGATTCATGGTTT
1 AGATCATTTCTTATGATTCATGGTTT
7572867 TGTCGTGATC
Statistics
Matches: 219, Mismatches: 43, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
237 2 0.01
238 217 0.99
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.47
Consensus pattern (238 bp):
AGATCATTTCTTATGATTCATGGTTTCATCTCGATTATTTATTCTCGACATTGACTCGATCCTAG
TCACTTTATTTCGACTCATGATTTCATCTCGGTCACTTGATCTTGGATCAATTCAAATCATTTTT
TATAATTCGTGGTTCCATCCCGATTATTTATTCTCAACCTTGACTCGATCCTAGTCACTTTATTT
TGACTCATAGTTTCATCACAATCACTTAATCTTAACTCAATTT
Found at i:7573186 original size:15 final size:15
Alignment explanation
Indices: 7573145--7573187 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
7573135 GGCCAATTTT
*
7573145 GGCCCATTTTGGCCA
1 GGCCCATTTTGGTCA
**
7573160 GGCTTATTTTGGTCA
1 GGCCCATTTTGGTCA
*
7573175 GGCCCATCTTGGT
1 GGCCCATTTTGGT
7573188 TTAGGCTTAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.12, C:0.26, G:0.28, T:0.35
Consensus pattern (15 bp):
GGCCCATTTTGGTCA
Found at i:7574053 original size:23 final size:23
Alignment explanation
Indices: 7574026--7574073 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
7574016 AGGTTTTCCC
*
7574026 TTTTTCATTTTATTTGATTTTAT
1 TTTTTCATTTGATTTGATTTTAT
* *
7574049 TTTTTGATTTGATTTTATTTTAT
1 TTTTTCATTTGATTTGATTTTAT
7574072 TT
1 TT
7574074 CTAACCCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (23 bp):
TTTTTCATTTGATTTGATTTTAT
Found at i:7574060 original size:18 final size:17
Alignment explanation
Indices: 7574033--7574069 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
7574023 CCCTTTTTCA
7574033 TTTTATTTGATTTTATT
1 TTTTATTTGATTTTATT
7574050 TTTTGATTTGATTTTATT
1 TTTT-ATTTGATTTTATT
7574068 TT
1 TT
7574070 ATTTCTAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (17 bp):
TTTTATTTGATTTTATT
Found at i:7574858 original size:21 final size:21
Alignment explanation
Indices: 7574834--7574881 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
7574824 TGGAACATCT
7574834 AAATTATTTTTTTATATTTTA
1 AAATTATTTTTTTATATTTTA
*
7574855 AAATTATTTTTTTATTTTTTA
1 AAATTATTTTTTTATATTTTA
*
7574876 ACATTA
1 AAATTA
7574882 AAAATTATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
AAATTATTTTTTTATATTTTA
Found at i:7582412 original size:48 final size:49
Alignment explanation
Indices: 7582318--7582416 Score: 121
Period size: 48 Copynumber: 2.0 Consensus size: 49
7582308 AAACACTACA
* * * **
7582318 TTTTATATAAGAATAACATAGTCTTTGATATATTTTACTTTTTATTTTT
1 TTTTATATAACAAAAACATAGTCTTTGATATATTTCACTTCATATTTTT
*
7582367 TTTTA-ATAACAAAAACGTAGTCTTTGACTATA-TTCACTTCATATTTTT
1 TTTTATATAACAAAAACATAGTCTTTGA-TATATTTCACTTCATATTTTT
7582415 TT
1 TT
7582417 GGTCAAAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
48 34 0.79
49 9 0.21
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (49 bp):
TTTTATATAACAAAAACATAGTCTTTGATATATTTCACTTCATATTTTT
Found at i:7583912 original size:6 final size:7
Alignment explanation
Indices: 7583891--7583916 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7583881 ATATCATCTC
7583891 AATTAAA
1 AATTAAA
7583898 AATTAAA
1 AATTAAA
7583905 AATTAAA
1 AATTAAA
7583912 AATTA
1 AATTA
7583917 GAGATCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AATTAAA
Found at i:7586034 original size:17 final size:16
Alignment explanation
Indices: 7586007--7586038 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7585997 ACTAACTACT
7586007 ATAAAAATAAAAATGA
1 ATAAAAATAAAAATGA
7586023 ATAAAGAATAAAAATG
1 ATAAA-AATAAAAATG
7586039 TAAGCTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (16 bp):
ATAAAAATAAAAATGA
Found at i:7596783 original size:21 final size:20
Alignment explanation
Indices: 7596759--7596826 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 20
7596749 AAAATATTTT
7596759 TAAAATAAATAAATAATAAAA
1 TAAAATAAA-AAATAATAAAA
**
7596780 TAAAATAAAAAACCATAAAA
1 TAAAATAAAAAATAATAAAA
* *
7596800 AATAAATAAAAAATTATAAAA
1 TA-AAATAAAAAATAATAAAA
*
7596821 AAAAAT
1 TAAAAT
7596827 TGACTCGGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 14 0.34
21 27 0.66
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAAATAAAAAATAATAAAA
Found at i:7596818 original size:10 final size:10
Alignment explanation
Indices: 7596762--7596822 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
7596752 ATATTTTTAA
7596762 AATAAATAAAT
1 AATAAA-AAAT
7596773 AATAAAATAA-
1 AATAAAA-AAT
*
7596783 AATAAAAAAC
1 AATAAAAAAT
*
7596793 CATAAAAAAT
1 AATAAAAAAT
7596803 AAATAAAAAAT
1 -AATAAAAAAT
*
7596814 TATAAAAAA
1 AATAAAAAA
7596823 AAATTGACTC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
9 2 0.05
10 24 0.56
11 17 0.40
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (10 bp):
AATAAAAAAT
Found at i:7598227 original size:44 final size:44
Alignment explanation
Indices: 7598174--7598270 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
7598164 TGAGTTGTGG
* * *
7598174 ATGGCAGTGAGGTGATGACA-TGGTGTTCAAG-GAAAGATGGCAGA
1 ATGGTAGTGAGGTGATGA-AGTGGTGCTCAAGCAAAAG-TGGCAGA
* *
7598218 ATGGTAGTGAGGTGATGAAGTGGTGCTCATGCAAAAGTGGTAGA
1 ATGGTAGTGAGGTGATGAAGTGGTGCTCAAGCAAAAGTGGCAGA
7598262 ATGGTAGTG
1 ATGGTAGTG
7598271 GCGAATGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.02
44 41 0.89
45 4 0.09
ACGTcount: A:0.30, C:0.07, G:0.39, T:0.24
Consensus pattern (44 bp):
ATGGTAGTGAGGTGATGAAGTGGTGCTCAAGCAAAAGTGGCAGA
Found at i:7598697 original size:13 final size:12
Alignment explanation
Indices: 7598659--7598729 Score: 51
Period size: 12 Copynumber: 5.7 Consensus size: 12
7598649 ACTAAAATTT
7598659 TAAA-AAATGAA
1 TAAATAAATGAA
7598670 TAAATAAATGAA
1 TAAATAAATGAA
7598682 TAAGATAAAT-ATA
1 TAA-ATAAATGA-A
7598695 TAAAAATAAATGCAA
1 T--AAATAAATG-AA
7598710 TAATAATAAA--AA
1 T-A-AATAAATGAA
7598722 TAAATAAA
1 TAAATAAA
7598730 ATAAAATAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
10 6 0.12
11 5 0.10
12 14 0.27
13 8 0.15
14 8 0.15
15 10 0.19
16 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.24
Consensus pattern (12 bp):
TAAATAAATGAA
Found at i:7598718 original size:21 final size:21
Alignment explanation
Indices: 7598662--7598740 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
7598652 AAAATTTTAA
* *
7598662 AAAATGAATAA-ATAAATGAAT
1 AAAAT-AATAATAAAAATAAAT
*
7598683 AAGATAAATATATAAAAATAAAT
1 AAAAT-AATA-ATAAAAATAAAT
**
7598706 GCAATAATAATAAAAATAAAT
1 AAAATAATAATAAAAATAAAT
7598727 AAAATAA-AATAAAA
1 AAAATAATAATAAAA
7598741 TTGACAATTG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 7 0.15
21 25 0.53
22 5 0.11
23 10 0.21
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAATAATAATAAAAATAAAT
Found at i:7605869 original size:3 final size:3
Alignment explanation
Indices: 7605863--7605940 Score: 149
Period size: 3 Copynumber: 26.3 Consensus size: 3
7605853 TATTTTGTTA
7605863 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7605911 T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7605941 TTGCTTAAGG
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 72 0.97
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7615776 original size:144 final size:146
Alignment explanation
Indices: 7615551--7615919 Score: 421
Period size: 145 Copynumber: 2.6 Consensus size: 146
7615541 TTAAAACATC
* * * *
7615551 AAAAATCATGAAATATTATAAAATTGATATCTGAAAA-G-TTCATGAAAA-CTCGAGTTCGAAAA
1 AAAAATCATGAAATATTATAAAATTAAGAT-TTAAAATGTTTCATGAAAATCTCGAGCTCGAAAA
* **** * *
7615613 GGTCAAATTACAAAAATACCTTTATAGGGTTATTTTAGTAATTTCATATTTTT-AAGGTATTGCT
65 GATCAAATTACAAAAATACCTTTATAAAAATATTTTAGTAATTTCACATTTTTCAAGGTACTGCT
*
7615677 ATGATTTCAAATGCATA
130 ATGATTTCAAATGCACA
* * *
7615694 AAAAATCATGAAATATTATAATATTAAGATTTAAAATGTTTCATAAAAATCT-GAGCTCAGAAAT
1 AAAAATCATGAAATATTATAAAATTAAGATTTAAAATGTTTCATGAAAATCTCGAGCTC-GAAAA
* ** *
7615758 GAT-AAATTACAAAAATACCTTTATAAAAATATTTTAGTAATTTTACATTTTTCGGGGTACTGTT
65 GATCAAATTACAAAAATACCTTTATAAAAATATTTTAGTAATTTCACATTTTTCAAGGTACTGCT
*
7615822 GTGATTTCAAATGCACA
130 ATGATTTCAAATGCACA
** **
7615839 AAAAATCATGAAATATTATAAAATTAAGATTTAAAAAT-TTTCATGAAAAT-TTAAGCTCGGGAA
1 AAAAATCATGAAATATTATAAAATTAAGATTT-AAAATGTTTCATGAAAATCTCGAGCTCGAAAA
* *
7615902 GGTCAAATTAGAAAAATA
65 GATCAAATTACAAAAATA
7615920 TTGCTTATAG
Statistics
Matches: 190, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
142 5 0.03
143 28 0.15
144 62 0.33
145 90 0.47
146 5 0.03
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (146 bp):
AAAAATCATGAAATATTATAAAATTAAGATTTAAAATGTTTCATGAAAATCTCGAGCTCGAAAAG
ATCAAATTACAAAAATACCTTTATAAAAATATTTTAGTAATTTCACATTTTTCAAGGTACTGCTA
TGATTTCAAATGCACA
Found at i:7616213 original size:49 final size:50
Alignment explanation
Indices: 7616108--7616228 Score: 149
Period size: 49 Copynumber: 2.4 Consensus size: 50
7616098 TGACTTTAAA
*
7616108 ATTCTTAATAGGTAAGTTTGACTTGCAAGAGAAGAATTCTAAAAAGAAAAGT
1 ATTCTTAATAGGCAAGTTTGACTT--AAGAGAAGAATTCTAAAAAGAAAAGT
* * *
7616160 ATTCTTAATAGGCAAGTTTGACTT-AGAGAAGAATTCTAAGAGGAGAGAG-
1 ATTCTTAATAGGCAAGTTTGACTTAAGAGAAGAATTCTAAAAAGA-AAAGT
7616209 ATTCTTAAT-GAGCAAGTTTG
1 ATTCTTAATAG-GCAAGTTTG
7616229 TATGGTTATA
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
48 1 0.02
49 36 0.57
50 3 0.05
52 23 0.37
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (50 bp):
ATTCTTAATAGGCAAGTTTGACTTAAGAGAAGAATTCTAAAAAGAAAAGT
Found at i:7616798 original size:25 final size:25
Alignment explanation
Indices: 7616770--7616850 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
7616760 GAAATATGAG
* *
7616770 AAGAGTTGAAGATTCAAGATGTGGA
1 AAGAGCTGAAGATTCGAGATGTGGA
* *
7616795 AAGAGCCGAAGGTTCGAGATGT-GA
1 AAGAGCTGAAGATTCGAGATGTGGA
*
7616819 AAGAGCTGAA-AGTTCGAGATGTGGG
1 AAGAGCTGAAGA-TTCGAGATGTGGA
7616844 AAGAGCT
1 AAGAGCT
7616851 AAAGGTTTGG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 21 0.45
25 26 0.55
ACGTcount: A:0.36, C:0.09, G:0.36, T:0.20
Consensus pattern (25 bp):
AAGAGCTGAAGATTCGAGATGTGGA
Found at i:7616833 original size:24 final size:25
Alignment explanation
Indices: 7616786--7616854 Score: 97
Period size: 24 Copynumber: 2.8 Consensus size: 25
7616776 TGAAGATTCA
* *
7616786 AGATGTGGAAAGAGCCGAAGGTTCG
1 AGATGTGGAAAGAGCTGAAAGTTCG
7616811 AGATGT-GAAAGAGCTGAAAGTTCG
1 AGATGTGGAAAGAGCTGAAAGTTCG
*
7616835 AGATGTGGGAAGAGCT-AAAG
1 AGATGTGGAAAGAGCTGAAAG
7616855 GTTTGGGAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 26 0.65
25 14 0.35
ACGTcount: A:0.36, C:0.09, G:0.38, T:0.17
Consensus pattern (25 bp):
AGATGTGGAAAGAGCTGAAAGTTCG
Found at i:7616856 original size:49 final size:50
Alignment explanation
Indices: 7616746--7616857 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 50
7616736 AAGTGGTATC
* *
7616746 AGAGCTGAAGGTTTGAAATATGAGAAGAGTTGAAGATTCAAGATGTGGAA
1 AGAGCTGAAGGTTCGAAATATGAGAAGAGCTGAAGATTCAAGATGTGGAA
* * * * *
7616796 AGAGCCGAAGGTTCGAGATGTGA-AAGAGCTGAA-AGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTCGAAATATGAGAAGAGCTGAAGA-TTCAAGATGTGGAA
*
7616845 AGAGCTAAAGGTT
1 AGAGCTGAAGGTT
7616858 TGGGAAGTGC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.02
49 32 0.62
50 19 0.37
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (50 bp):
AGAGCTGAAGGTTCGAAATATGAGAAGAGCTGAAGATTCAAGATGTGGAA
Found at i:7617122 original size:11 final size:11
Alignment explanation
Indices: 7617106--7617147 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
7617096 AATCCCATAA
7617106 GAGATTTGTTT
1 GAGATTTGTTT
*
7617117 GAGATTTGTTA
1 GAGATTTGTTT
*
7617128 AAGATTTGTTT
1 GAGATTTGTTT
*
7617139 GGGATTTGT
1 GAGATTTGT
7617148 CAGATATTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:7617260 original size:51 final size:53
Alignment explanation
Indices: 7617172--7617322 Score: 160
Period size: 51 Copynumber: 3.0 Consensus size: 53
7617162 TGGACAAGAA
* * * *
7617172 GACTTGCAAAAGAAGAATT-TCAAGAGAAAGAGGATTCTTAATA-GTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGAGGATTCTTAATAGGCAAGTTT
*
7617223 GACTTGCAAGAGAAGAATTCTAAAAAGAAA-AGTATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGAGGATTCTTAATAGGCAAGTTT
* *
7617275 GACTT---AGA-AAGAATTCT-AAGAGAGAGA-GATTCTTAAT-GAGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGAGGATTCTTAATAG-GCAAGTTT
7617322 G
1 G
7617323 TATGGTTATA
Statistics
Matches: 88, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
46 1 0.01
47 24 0.27
48 10 0.11
49 3 0.03
51 30 0.34
52 20 0.23
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (53 bp):
GACTTGCAAGAGAAGAATTCTAAAAAGAAAGAGGATTCTTAATAGGCAAGTTT
Found at i:7617291 original size:48 final size:48
Alignment explanation
Indices: 7617182--7617322 Score: 130
Period size: 47 Copynumber: 2.9 Consensus size: 48
7617172 GACTTGCAAA
* *
7617182 AGAAGAATT-TCAAGAGAAAGAGGATTCTTAATA-GTAAGTTTGACTTGCAAG
1 AGAAGAATTCT-AAAAGAAA-A-GATTCTTAATAGGCAAGTTTGACTT--AAG
7617233 AGAAGAATTCTAAAAAGAAAAGTATTCTTAATAGGCAAGTTTGACTT-AG
1 AGAAGAATTCT-AAAAGAAAAG-ATTCTTAATAGGCAAGTTTGACTTAAG
* *
7617282 A-AAGAATTCTAAGAGAGAGAGATTCTTAAT-GAGCAAGTTTG
1 AGAAGAATTCTAAAAGA-AAAGATTCTTAATAG-GCAAGTTTG
7617323 TATGGTTATA
Statistics
Matches: 80, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
46 1 0.01
47 23 0.29
48 12 0.15
49 3 0.04
50 1 0.01
51 20 0.25
52 20 0.25
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.28
Consensus pattern (48 bp):
AGAAGAATTCTAAAAGAAAAGATTCTTAATAGGCAAGTTTGACTTAAG
Found at i:7618087 original size:19 final size:20
Alignment explanation
Indices: 7618063--7618104 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
7618053 TATTATTATA
7618063 AATATTAA-ATT-TTAATATT
1 AATATTAATATTATTAAT-TT
7618082 AATATTAATATTATTAATTT
1 AATATTAATATTATTAATTT
7618102 AAT
1 AAT
7618105 TTTTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 8 0.38
21 5 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATATTAATATTATTAATTT
Found at i:7618110 original size:12 final size:14
Alignment explanation
Indices: 7618078--7618115 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
7618068 TAAATTTTAA
7618078 TATTAATATTAATAT
1 TATTAAT-TTAATAT
7618093 TATTAATTTAAT-T
1 TATTAATTTAATAT
7618106 T-TTAATTTAA
1 TATTAATTTAA
7618116 AAAATATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.39
13 2 0.09
14 5 0.22
15 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTAATTTAATAT
Found at i:7620101 original size:5 final size:6
Alignment explanation
Indices: 7620083--7620108 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7620073 TTAAAAATTA
7620083 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
7620109 CCAAGTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:7623995 original size:214 final size:211
Alignment explanation
Indices: 7623503--7624133 Score: 779
Period size: 214 Copynumber: 3.0 Consensus size: 211
7623493 TTAAACAATC
* * ** *
7623503 GATTGAAGAACATTGACCTAAATGATGATTTTACCTTATTATTTCCTAATTTTGTCATCAACTCA
1 GATTGAAGAACATTGACCTAGATGATGATTTTACCTTATTATTTCTTAATTCAGCCATCAACTCA
* *
7623568 TATTAGAAAAGCTCACAAATCAATAAAAAAATTCAAAC-TTTTT-TTTTC-TTCTT-TTTT----
66 TATCAGAAAAGCTCACAAATCAACAAAAAAATTCAAACTTTTTTCTTTTCTTTCTTCTTTTACAA
* *
7623625 -AAAAAAAATTCAAGATTTTGACAAATAGGTATGTGTTTTTGTTGGGATTCTTGTTGTTGTTAGA
131 AAAAAAAAATTCAAGATTTTGACAAATAGGTATATGTTTTTGTTGGGGTTCTTGTTGTTGTTA-A
*
7623689 TGATGATGATGATTATC
195 TGATGATGATGATTATT
* * * * * *
7623706 GATCGAA-AATATTGACCTAGATG-TGATTTTGCCTTATTGTTTCTTGATTCCGCCATCAACTCA
1 GATTGAAGAACATTGACCTAGATGATGATTTTACCTTATTATTTCTTAATTCAGCCATCAACTCA
* ** **
7623769 TATCAAAAAAGCTTGCAAATCAACAAAAAAATTTGAACTTTTTTCTTTTCTTTCTTTCTTTTACA
66 TATCAGAAAAGCTCACAAATCAACAAAAAAATTCAAACTTTTTTCTTTTCTTTC-TTCTTTTAC-
*
7623834 AAAAAAAAAAAAGTTCAAGATTTTGACAAAT-GAGTATATGTTTTTGTTGGGGTTCTTGTTATTG
129 -AAAAAAAAAAA-TTCAAGATTTTGACAAATAG-GTATATGTTTTTGTTGGGGTTCTTGTTGTTG
7623898 TTAATGATGATGATGATTATT
191 TTAATGATGATGATGATTATT
* * *
7623919 GATTGAAGAACATT-ACCCAGATGATGATTTT-CTCTTATTATTTCTTAATTCAGCCATCGACCC
1 GATTGAAGAACATTGACCTAGATGATGATTTTAC-CTTATTATTTCTTAATTCAGCCATCAACTC
* * * *
7623982 ATATCAGAAAAGCTCACAAATCAACAAGAATATTCAAAGTTTTTTCTTTTATTTCTTCTTTTACT
65 ATATCAGAAAAGCTCACAAATCAACAAAAAAATTCAAACTTTTTTCTTTTCTTTCTTCTTTTAC-
* * * * *
7624047 AAAAAAAAAAATTCAAGATTTTGACAAATAGGTTTATGTTTTTGTTGGAGTTGTTGTTGTTGATG
129 AAAAAAAAAAATTCAAGATTTTGACAAATAGGTATATGTTTTTGTTGGGGTTCTTGTTGTTGTTA
7624112 ATGATGATGATGATTATT
194 ATGATGATGATGATTATT
7624130 -ATTG
1 GATTG
7624134 CATTTTACTT
Statistics
Matches: 365, Mismatches: 45, Indels: 29
0.83 0.10 0.07
Matches are distributed among these distances:
201 64 0.18
202 19 0.05
203 11 0.03
204 3 0.01
205 2 0.01
206 4 0.01
210 4 0.01
211 64 0.18
212 12 0.03
213 50 0.14
214 132 0.36
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (211 bp):
GATTGAAGAACATTGACCTAGATGATGATTTTACCTTATTATTTCTTAATTCAGCCATCAACTCA
TATCAGAAAAGCTCACAAATCAACAAAAAAATTCAAACTTTTTTCTTTTCTTTCTTCTTTTACAA
AAAAAAAAATTCAAGATTTTGACAAATAGGTATATGTTTTTGTTGGGGTTCTTGTTGTTGTTAAT
GATGATGATGATTATT
Found at i:7626340 original size:28 final size:27
Alignment explanation
Indices: 7626297--7626373 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 27
7626287 TTAAAGAATT
*
7626297 TTTTTATTTTATTATTTTATTTAAATGAA
1 TTTTTA-TTT-TTATTTTATTTAAATAAA
*
7626326 TTTTTATATTTTATTTTCTTTAAATAAA
1 TTTTTAT-TTTTATTTTATTTAAATAAA
*
7626354 TCTTTATTTTTATTTATATT
1 TTTTTATTTTTATTT-TATT
7626374 CAAGTATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 8 0.19
28 26 0.62
29 8 0.19
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.68
Consensus pattern (27 bp):
TTTTTATTTTTATTTTATTTAAATAAA
Found at i:7626658 original size:30 final size:30
Alignment explanation
Indices: 7626593--7626681 Score: 108
Period size: 30 Copynumber: 2.9 Consensus size: 30
7626583 GTATTTAATC
* * **
7626593 TTTAATTTACATCAAAATAAATTTTTTTAGTA
1 TTTAATTTATATCTAAATAAA--TTTTTAACA
7626625 TTTAATTTATATCTAAATAAATTTTTAACA
1 TTTAATTTATATCTAAATAAATTTTTAACA
7626655 TTTAATTTATATCTAAA-AAATTATTTA
1 TTTAATTTATATCTAAATAAATT-TTTA
7626682 TATAAATTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.10
30 28 0.54
32 19 0.37
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.51
Consensus pattern (30 bp):
TTTAATTTATATCTAAATAAATTTTTAACA
Found at i:7627471 original size:30 final size:32
Alignment explanation
Indices: 7627435--7627504 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
7627425 CGAAATTAAT
* * *
7627435 AAAATATTATTTTTTAAATATA-A-ATATTTA
1 AAAATATTATTATATAAATATATATATAATTA
*
7627465 AAAATATCATTATATAAATATATATATAATTA
1 AAAATATTATTATATAAATATATATATAATTA
7627497 AAAA-ATTA
1 AAAATATTA
7627505 AAAAATTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 19 0.58
31 4 0.12
32 10 0.30
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
AAAATATTATTATATAAATATATATATAATTA
Found at i:7628071 original size:20 final size:18
Alignment explanation
Indices: 7628042--7628092 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
7628032 ATTTTTATAA
*
7628042 ATTTTAAAATTAATAAATT
1 ATTTTTAAATTAATAAA-T
7628061 GATTTTTAAA-TATATAAAT
1 -ATTTTTAAATTA-ATAAAT
7628080 -TTTTTAAATTAAT
1 ATTTTTAAATTAAT
7628093 TTAAAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 10 0.36
18 2 0.07
19 3 0.11
20 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTTTTAAATTAATAAAT
Found at i:7629818 original size:10 final size:10
Alignment explanation
Indices: 7629803--7629833 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
7629793 TAATCTTAAT
7629803 TTTAATTTTG
1 TTTAATTTTG
7629813 TTTAATTTTG
1 TTTAATTTTG
7629823 TTTAATTTTG
1 TTTAATTTTG
7629833 T
1 T
7629834 GATTGGTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (10 bp):
TTTAATTTTG
Found at i:7633396 original size:28 final size:28
Alignment explanation
Indices: 7633364--7633418 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
7633354 GAAAAACGCA
7633364 AAAGTAATTATTATAAACTTAATATGTG
1 AAAGTAATTATTATAAACTTAATATGTG
*
7633392 AAAGTAATTATTGTAAACTTAATATGT
1 AAAGTAATTATTATAAACTTAATATGT
7633419 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (28 bp):
AAAGTAATTATTATAAACTTAATATGTG
Found at i:7634060 original size:21 final size:22
Alignment explanation
Indices: 7634034--7634159 Score: 78
Period size: 22 Copynumber: 5.8 Consensus size: 22
7634024 AGTAATCACT
*
7634034 ATAATTTAGTAGT-AATTATTA
1 ATAATTTAATAGTAAATTATTA
7634055 ATAATTTAATAGTAAATTA-TA
1 ATAATTTAATAGTAAATTATTA
* * * * * *
7634076 TGTAACTTAGTAATAAATTAGTG
1 -ATAATTTAATAGTAAATTATTA
* *
7634099 ATAACTTAATAGTAAATAAATT-
1 ATAATTTAATAGTAAAT-TATTA
* * * *
7634121 GTAATTTAATAGTCAATAATTG
1 ATAATTTAATAGTAAATTATTA
* *
7634143 ATAACTTAATAGCAAAT
1 ATAATTTAATAGTAAAT
7634160 CAATAAAAAT
Statistics
Matches: 82, Mismatches: 18, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
21 18 0.22
22 61 0.74
23 3 0.04
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.40
Consensus pattern (22 bp):
ATAATTTAATAGTAAATTATTA
Found at i:7634108 original size:44 final size:45
Alignment explanation
Indices: 7634055--7634159 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 45
7634045 GTAATTATTA
* * * *
7634055 ATAATTTAATAGTAAATTATA-TGTAACTTAGTAATAAATTAGTG
1 ATAACTTAATAGTAAATTAAATTGTAACTTAATAATAAATAAGTG
* * * *
7634099 ATAACTTAATAGTAAA-TAAATTGTAATTTAATAGTCAATAATTG
1 ATAACTTAATAGTAAATTAAATTGTAACTTAATAATAAATAAGTG
*
7634143 ATAACTTAATAGCAAAT
1 ATAACTTAATAGTAAAT
7634160 CAATAAAAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
43 3 0.06
44 47 0.94
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (45 bp):
ATAACTTAATAGTAAATTAAATTGTAACTTAATAATAAATAAGTG
Found at i:7634129 original size:22 final size:22
Alignment explanation
Indices: 7634055--7634159 Score: 97
Period size: 22 Copynumber: 4.8 Consensus size: 22
7634045 GTAATTATTA
* *
7634055 ATAATTTAATAGTAAATTATATG
1 ATAACTTAATAGTAAATAAT-TG
* * * *
7634078 -TAACTTAGTAATAAATTAGTG
1 ATAACTTAATAGTAAATAATTG
7634099 ATAACTTAATAGTAAATAAATTG
1 ATAACTTAATAGTAAAT-AATTG
* *
7634122 -TAATTTAATAGTCAATAATTG
1 ATAACTTAATAGTAAATAATTG
*
7634143 ATAACTTAATAGCAAAT
1 ATAACTTAATAGTAAAT
7634160 CAATAAAAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
21 7 0.11
22 56 0.85
23 3 0.05
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (22 bp):
ATAACTTAATAGTAAATAATTG
Found at i:7634319 original size:22 final size:22
Alignment explanation
Indices: 7634237--7634355 Score: 82
Period size: 22 Copynumber: 5.5 Consensus size: 22
7634227 CATAACAATA
* * *
7634237 TAATAATAAATCAAAGATATCT
1 TAATAATAAATTAATGATAACT
*
7634259 TAATAA-AAA-TAAGTAATAACT
1 TAATAATAAATTAA-TGATAACT
* * * * * *
7634280 TAGTAGTTAATCATTGATAGCT
1 TAATAATAAATTAATGATAACT
*
7634302 TAGTAATAAATTAATGATAACT
1 TAATAATAAATTAATGATAACT
* * *
7634324 TAATAGTAAATT-GTGATAATT
1 TAATAATAAATTAATGATAACT
7634345 TAATAATAAAT
1 TAATAATAAAT
7634356 CAGTTTCAAA
Statistics
Matches: 73, Mismatches: 21, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
20 2 0.03
21 29 0.40
22 41 0.56
23 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (22 bp):
TAATAATAAATTAATGATAACT
Found at i:7634342 original size:21 final size:21
Alignment explanation
Indices: 7634294--7634355 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
7634284 AGTTAATCAT
* * *
7634294 TGATAGCTTAGTAATAAATTAA
1 TGATAACTTAATAATAAATT-G
*
7634316 TGATAACTTAATAGTAAATTG
1 TGATAACTTAATAATAAATTG
*
7634337 TGATAATTTAATAATAAAT
1 TGATAACTTAATAATAAAT
7634356 CAGTTTCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (21 bp):
TGATAACTTAATAATAAATTG
Found at i:7634452 original size:22 final size:22
Alignment explanation
Indices: 7634400--7634454 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
7634390 TTAATCATAA
* *
7634400 ATAATTTAATAGTAAATCAATG
1 ATAATTTAGTAATAAATCAATG
*
7634422 ATAACTTAGTAATAAAT-AATTG
1 ATAATTTAGTAATAAATCAA-TG
7634444 ATAATTTAGTA
1 ATAATTTAGTA
7634455 TCTACTCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (22 bp):
ATAATTTAGTAATAAATCAATG
Found at i:7634515 original size:22 final size:22
Alignment explanation
Indices: 7634487--7634568 Score: 96
Period size: 22 Copynumber: 3.8 Consensus size: 22
7634477 GTAAATCAAT
* *
7634487 ATAACTTAATAATAAATCATCG
1 ATAACTTAATAATAAATCAGCA
*
7634509 ATAACTTAATAATTAATCAGCA
1 ATAACTTAATAATAAATCAGCA
*
7634531 ATAACTTAATAATAAATTAAG-A
1 ATAACTTAATAATAAA-TCAGCA
*
7634553 ATAATTTAAT-ATAAAT
1 ATAACTTAATAATAAAT
7634569 TAGTGATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 1 0.02
21 5 0.09
22 44 0.83
23 3 0.06
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.34
Consensus pattern (22 bp):
ATAACTTAATAATAAATCAGCA
Found at i:7634648 original size:22 final size:23
Alignment explanation
Indices: 7634604--7634660 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
7634594 TTATGGATAA
* * *
7634604 TTTAGTAGTAAATCATTAGAAAT
1 TTTAGTAGTAAATAATCAAAAAT
7634627 TTTA-TAGTAAATAATCAAAAA-
1 TTTAGTAGTAAATAATCAAAAAT
*
7634648 TTAAGTAGTAAAT
1 TTTAGTAGTAAAT
7634661 CAATTATAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 22 0.76
23 4 0.14
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.37
Consensus pattern (23 bp):
TTTAGTAGTAAATAATCAAAAAT
Found at i:7634739 original size:22 final size:21
Alignment explanation
Indices: 7634709--7634793 Score: 100
Period size: 22 Copynumber: 3.9 Consensus size: 21
7634699 GTAAACATTG
7634709 ATAATTTAGTAGTAAATTATTA
1 ATAATTTAGTAGTAAATTA-TA
* *
7634731 ATAACTTAGTAGTAAATCAATA
1 ATAATTTAGTAGTAAAT-TATA
*
7634753 ATAAATTAGTTA-TAAATTGATA
1 ATAATTTAG-TAGTAAATT-ATA
7634775 ATAATTTAGTAGTAAATTA
1 ATAATTTAGTAGTAAATTA
7634794 GTTACCATTG
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
21 3 0.06
22 48 0.89
23 3 0.06
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.40
Consensus pattern (21 bp):
ATAATTTAGTAGTAAATTATA
Found at i:7634885 original size:22 final size:22
Alignment explanation
Indices: 7634860--7634923 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
7634850 AATTTTATAA
7634860 TAAATCATTAATAACTTAA-CAG
1 TAAATCATTAATAACTTAATC-G
* * *
7634882 TAAATTATCAATAATTTAATCG
1 TAAATCATTAATAACTTAATCG
*
7634904 TAAATCATTCATAACTTAAT
1 TAAATCATTAATAACTTAAT
7634924 GATAACTCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (22 bp):
TAAATCATTAATAACTTAATCG
Found at i:7634940 original size:16 final size:16
Alignment explanation
Indices: 7634919--7634950 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7634909 CATTCATAAC
*
7634919 TTAATGATAACTCATT
1 TTAATGATAAATCATT
7634935 TTAATGATAAATCATT
1 TTAATGATAAATCATT
7634951 CATAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (16 bp):
TTAATGATAAATCATT
Found at i:7634967 original size:22 final size:21
Alignment explanation
Indices: 7634941--7635047 Score: 97
Period size: 22 Copynumber: 4.9 Consensus size: 21
7634931 CATTTTAATG
* *
7634941 ATAAATCATTCATAAATTATTA
1 ATAAATCATT-ATAATTTAGTA
*
7634963 GTAAATCATATATAATTTAGTA
1 ATAAATCAT-TATAATTTAGTA
7634985 ATAAATCATTGATAATTTAGTA
1 ATAAATCATT-ATAATTTAGTA
* * **
7635007 ATAAATCACTAACAATACAGTA
1 ATAAATCA-TTATAATTTAGTA
*
7635029 ATAAATCAATGATAATTTA
1 ATAAATC-ATTATAATTTA
7635048 ATTATCCATT
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.01
22 65 0.94
23 3 0.04
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (21 bp):
ATAAATCATTATAATTTAGTA
Found at i:7635012 original size:44 final size:44
Alignment explanation
Indices: 7634941--7635047 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
7634931 CATTTTAATG
* * * * * **
7634941 ATAAATCATTCATAAATTATTAGTAAATCA-TATATAATTTAGTA
1 ATAAATCATTGATAATTTAGTAATAAATCACTA-ACAATACAGTA
7634985 ATAAATCATTGATAATTTAGTAATAAATCACTAACAATACAGTA
1 ATAAATCATTGATAATTTAGTAATAAATCACTAACAATACAGTA
*
7635029 ATAAATCAATGATAATTTA
1 ATAAATCATTGATAATTTA
7635048 ATTATCCATT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 52 0.96
45 2 0.04
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (44 bp):
ATAAATCATTGATAATTTAGTAATAAATCACTAACAATACAGTA
Found at i:7635547 original size:22 final size:22
Alignment explanation
Indices: 7635517--7635571 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
7635507 GTAAATTAAT
*
7635517 ATAAATTAATAGTAACTCATCA
1 ATAAATTAATAGTAAATCATCA
* * *
7635539 ATAACTTAATAGTAAATTATGA
1 ATAAATTAATAGTAAATCATCA
*
7635561 ATAATTTAATA
1 ATAAATTAATA
7635572 TAATTCAGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.36
Consensus pattern (22 bp):
ATAAATTAATAGTAAATCATCA
Found at i:7635740 original size:22 final size:22
Alignment explanation
Indices: 7635626--7635753 Score: 73
Period size: 22 Copynumber: 5.8 Consensus size: 22
7635616 TACATTTTTT
*
7635626 ATAACTTTA-TAGTAAATAATTA
1 ATAAC-TTAGTAGTAAATCATTA
* * * * *
7635648 AAAAATTAAGTACTAAATCAATG
1 ATAACTT-AGTAGTAAATCATTA
*
7635671 ATAA-TATAATAGTAAAT-ATATA
1 ATAACT-TAGTAGTAAATCAT-TA
* * * * *
7635693 ATAGCATAATAATAAATCATTG
1 ATAACTTAGTAGTAAATCATTA
* *
7635715 ATAATTTAGTAGTAAATTATTA
1 ATAACTTAGTAGTAAATCATTA
7635737 ATAACTTAGTAGTAAAT
1 ATAACTTAGTAGTAAAT
7635754 AACTAAATTA
Statistics
Matches: 77, Mismatches: 23, Indels: 12
0.69 0.21 0.11
Matches are distributed among these distances:
21 3 0.04
22 59 0.77
23 15 0.19
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.36
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATCATTA
Found at i:7635753 original size:44 final size:43
Alignment explanation
Indices: 7635547--7635753 Score: 114
Period size: 44 Copynumber: 4.7 Consensus size: 43
7635537 CAATAACTTA
* * * * *
7635547 ATAGTAAATTATGAATAATTTAAT-ATAATTCAGTGATAATTT
1 ATAGTAAATTATTAATAACTTAGTAATAAATCAATGATAATTT
* * * * * *** *
7635589 GATAATGAATCA-TAGATAATTTAGTAATACATTTTTTATAACTTT
1 -ATAGTAAATTATTA-ATAACTTAGTAATAAATCAATGATAA-TTT
* * * * *
7635634 ATAGTAAATAATTAAAAAATTAAGTACTAAATCAATGATAATATA
1 ATAGTAAATTATTAATAACTT-AGTAATAAATCAATGATAAT-TT
* * * *
7635679 ATAGTAAA-TATATAATAGCATAATAATAAATCATTGATAATTT
1 ATAGTAAATTAT-TAATAACTTAGTAATAAATCAATGATAATTT
*
7635722 AGTAGTAAATTATTAATAACTTAGTAGTAAAT
1 A-TAGTAAATTATTAATAACTTAGTAATAAAT
7635754 AACTAAATTA
Statistics
Matches: 119, Mismatches: 36, Indels: 17
0.69 0.21 0.10
Matches are distributed among these distances:
42 1 0.01
43 19 0.16
44 64 0.54
45 35 0.29
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (43 bp):
ATAGTAAATTATTAATAACTTAGTAATAAATCAATGATAATTT
Found at i:7635897 original size:22 final size:22
Alignment explanation
Indices: 7635846--7636029 Score: 142
Period size: 22 Copynumber: 8.4 Consensus size: 22
7635836 AATAGTAGAT
* *
7635846 TAGTTAATCATTAATAACTTTAA
1 TAGTAAATCATTGATAA-TTTAA
*
7635869 TAGTAAATCATTGATAAATTAA
1 TAGTAAATCATTGATAATTTAA
* * *
7635891 TAATAAATGAATT-ATAGTTT-A
1 TAGTAAAT-CATTGATAATTTAA
* **
7635912 TAATAAATCATAAATAATTTAA
1 TAGTAAATCATTGATAATTTAA
* * *
7635934 TAGTAAATCATTTATAAATCAA
1 TAGTAAATCATTGATAATTTAA
*
7635956 TAGTAAATCAATGATAATTTAGA
1 TAGTAAATCATTGATAATTTA-A
*
7635979 -AGTAAATCATTGAT-ATCATAA
1 TAGTAAATCATTGATAAT-TTAA
* * * *
7636000 TAGTAAATCACTAATAATATAG
1 TAGTAAATCATTGATAATTTAA
7636022 TAGTAAAT
1 TAGTAAAT
7636030 TAATAATAAC
Statistics
Matches: 130, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
20 2 0.02
21 18 0.14
22 89 0.68
23 21 0.16
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (22 bp):
TAGTAAATCATTGATAATTTAA
Found at i:7635939 original size:65 final size:67
Alignment explanation
Indices: 7635851--7635988 Score: 190
Period size: 65 Copynumber: 2.1 Consensus size: 67
7635841 TAGATTAGTT
* * * * * *
7635851 AATCATTAATAACTTTAATAGTAAATCATTGATAAATTAATAATAAATGAATTATAGTTTATAA-
1 AATCATAAATAACTTTAATAGTAAATCATTGATAAATCAATAATAAATCAATGATAATTTAGAAG
7635915 TA
66 TA
* *
7635917 AATCATAAATAA-TTTAATAGTAAATCATTTATAAATCAATAGTAAATCAATGATAATTTAGAAG
1 AATCATAAATAACTTTAATAGTAAATCATTGATAAATCAATAATAAATCAATGATAATTTAGAAG
7635981 TA
66 TA
7635983 AATCAT
1 AATCAT
7635989 TGATATCATA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 44 0.70
66 19 0.30
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.37
Consensus pattern (67 bp):
AATCATAAATAACTTTAATAGTAAATCATTGATAAATCAATAATAAATCAATGATAATTTAGAAG
TA
Found at i:7636458 original size:21 final size:21
Alignment explanation
Indices: 7636433--7636530 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
7636423 AACTAACATA
7636433 AAAAGTTATCAAAATTGTATC
1 AAAAGTTATCAAAATTGTATC
* * * *
7636454 GAAAGTTATTAAAATTTTATT
1 AAAAGTTATCAAAATTGTATC
* * *
7636475 AAAAGTTATCAAACTTTTAAC
1 AAAAGTTATCAAAATTGTATC
* * *
7636496 AAAGGTTATTAAAA-TATAT-
1 AAAAGTTATCAAAATTGTATC
7636515 AAAAGGTTATCAAAAT
1 AAAA-GTTATCAAAAT
7636531 AAAAATTTAT
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
19 3 0.05
20 12 0.20
21 44 0.75
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (21 bp):
AAAAGTTATCAAAATTGTATC
Found at i:7636479 original size:42 final size:40
Alignment explanation
Indices: 7636433--7636530 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 40
7636423 AACTAACATA
* *
7636433 AAAAGTTATCAAAATTGTATCGAAA-GTTATTAAAATTTTATT
1 AAAAGTTATCAAAATTGTAAC-AAAGGTTATTAAAA-TATA-T
* *
7636475 AAAAGTTATCAAACTTTTAACAAAGGTTATTAAAATATAT
1 AAAAGTTATCAAAATTGTAACAAAGGTTATTAAAATATAT
7636515 AAAAGGTTATCAAAAT
1 AAAA-GTTATCAAAAT
7636531 AAAAATTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
40 5 0.10
41 16 0.33
42 28 0.57
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (40 bp):
AAAAGTTATCAAAATTGTAACAAAGGTTATTAAAATATAT
Found at i:7636534 original size:16 final size:16
Alignment explanation
Indices: 7636513--7636546 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7636503 ATTAAAATAT
*
7636513 ATAAAAGGTTATCAAA
1 ATAAAAAGTTATCAAA
*
7636529 ATAAAAATTTATCAAA
1 ATAAAAAGTTATCAAA
7636545 AT
1 AT
7636547 TTATTAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
ATAAAAAGTTATCAAA
Found at i:7636557 original size:9 final size:10
Alignment explanation
Indices: 7636433--7636560 Score: 50
Period size: 10 Copynumber: 12.9 Consensus size: 10
7636423 AACTAACATA
*
7636433 AAAAGTTATC
1 AAAATTTATC
7636443 AAAATTGTATC
1 AAAATT-TATC
* * *
7636454 GAAAGTTATT
1 AAAATTTATC
*
7636464 AAAATTTTATT
1 AAAA-TTTATC
*
7636475 AAAAGTTATC
1 AAAATTTATC
* *
7636485 AAACTTTTAAC
1 AAA-ATTTATC
** *
7636496 AAAGGTTATT
1 AAAATTTATC
*
7636506 AAAATATAT-
1 AAAATTTATC
*
7636515 AAAAGGTTATC
1 AAAA-TTTATC
7636526 AAAA--TA--
1 AAAATTTATC
7636532 AAAATTTATC
1 AAAATTTATC
*
7636542 AAAATTTATT
1 AAAATTTATC
*
7636552 AAATTTTAT
1 AAAATTTAT
7636561 TTGTATTATA
Statistics
Matches: 87, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
6 4 0.05
8 4 0.05
9 4 0.05
10 47 0.54
11 28 0.32
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.38
Consensus pattern (10 bp):
AAAATTTATC
Found at i:7638281 original size:3 final size:3
Alignment explanation
Indices: 7638273--7638308 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
7638263 ATCCGAAATA
7638273 AAT AAT AAT AATT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AA
7638309 AGGATTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7646806 original size:21 final size:21
Alignment explanation
Indices: 7646782--7646837 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
7646772 TATAATTTTG
*
7646782 ATTTTGATAATTTTTAATAAA
1 ATTTTGATAACTTTTAATAAA
* *
7646803 ATTTTAATAACTTTTAATACA
1 ATTTTGATAACTTTTAATAAA
*
7646824 ATTTTGGTAACTTT
1 ATTTTGATAACTTT
7646838 CGATATTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (21 bp):
ATTTTGATAACTTTTAATAAA
Found at i:7646869 original size:63 final size:64
Alignment explanation
Indices: 7646796--7646918 Score: 149
Period size: 63 Copynumber: 1.9 Consensus size: 64
7646786 TGATAATTTT
** * *
7646796 TAATAAAATTTTAATAACTTTTAATACAATTTTGGTAA-CTTTCGATATTAGTTTAGTAACTTA
1 TAATAAAATTTTAATAACCATTAATAAAATTTTGGTAACCTTTCGATATAAGTTTAGTAACTTA
* ** * * *
7646859 TAATATAATTTTCGTAACCATTGATAAAATTTTGGTAACCTTTTGATATAATTTTAGTAA
1 TAATAAAATTTTAATAACCATTAATAAAATTTTGGTAACCTTTCGATATAAGTTTAGTAA
7646919 TTAACTTTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
63 31 0.63
64 18 0.37
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (64 bp):
TAATAAAATTTTAATAACCATTAATAAAATTTTGGTAACCTTTCGATATAAGTTTAGTAACTTA
Found at i:7646875 original size:21 final size:20
Alignment explanation
Indices: 7646794--7646918 Score: 79
Period size: 21 Copynumber: 6.0 Consensus size: 20
7646784 TTTGATAATT
* *
7646794 TTTAATAAAATTTTAATAAC
1 TTTAATATAATTTTAGTAAC
* *
7646814 TTTTAATACAATTTTGGTAAC
1 -TTTAATATAATTTTAGTAAC
* * *
7646835 TTTCGATATTAGTTTAGTAAC
1 TTT-AATATAATTTTAGTAAC
*
7646856 TTATAATATAATTTTCGTAACC
1 TT-TAATATAATTTTAGTAA-C
* * * *
7646878 ATTGATAAAATTTTGGTAACC
1 TTTAATATAATTTTAGTAA-C
*
7646899 TTTTGATATAATTTTAGTAA
1 -TTTAATATAATTTTAGTAA
7646919 TTAACTTTTT
Statistics
Matches: 81, Mismatches: 19, Indels: 7
0.76 0.18 0.07
Matches are distributed among these distances:
20 3 0.04
21 59 0.73
22 19 0.23
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (20 bp):
TTTAATATAATTTTAGTAAC
Found at i:7646897 original size:42 final size:42
Alignment explanation
Indices: 7646798--7646918 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 42
7646788 ATAATTTTTA
* * * *
7646798 ATAAAATTTTAATAACTTTTAATACAATTTTGGTAACTTTCG
1 ATAAAATTTTAGTAACTTTTAATATAATTTTAGTAACATTCG
** * * *
7646840 ATATTAGTTTAGTAACTTATAATATAATTTTCGTAACCATT-G
1 ATAAAATTTTAGTAACTTTTAATATAATTTTAGTAA-CATTCG
* *
7646882 ATAAAATTTTGGTAACCTTTTGATATAATTTTAGTAA
1 ATAAAATTTTAGTAA-CTTTTAATATAATTTTAGTAA
7646919 TTAACTTTTT
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 41 0.66
43 21 0.34
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.45
Consensus pattern (42 bp):
ATAAAATTTTAGTAACTTTTAATATAATTTTAGTAACATTCG
Found at i:7647300 original size:22 final size:22
Alignment explanation
Indices: 7647275--7647466 Score: 119
Period size: 22 Copynumber: 8.7 Consensus size: 22
7647265 ACCATCAAGC
* *
7647275 TATCAATGATTTATTGCTAAAT
1 TATCAATGATTTACTACTAAAT
7647297 TATCAATGATTTACTACTAAAT
1 TATCAATGATTTACTACTAAAT
* * *
7647319 TGAT-ATTGATTTGCTACTAATT
1 T-ATCAATGATTTACTACTAAAT
7647341 TA-CAAATGATTTACTACTAAAT
1 TATC-AATGATTTACTACTAAAT
* ** *
7647363 TGTTGATGATTTACTACTAAGT
1 TATCAATGATTTACTACTAAAT
* **
7647385 TACTC-ATAATTTGTTA-TAAAGT
1 TA-TCAATGATTTACTACTAAA-T
* * *
7647407 TAT-AATTAATTTACTATTAATT
1 TATCAA-TGATTTACTACTAAAT
7647429 TATCAATGATTTA-TGAC-AAACT
1 TATCAATGATTTACT-ACTAAA-T
* *
7647451 TATCAATAATTAACTA
1 TATCAATGATTTACTA
7647467 ATCTATTACT
Statistics
Matches: 131, Mismatches: 26, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
21 9 0.07
22 113 0.86
23 9 0.07
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (22 bp):
TATCAATGATTTACTACTAAAT
Found at i:7647502 original size:22 final size:22
Alignment explanation
Indices: 7647476--7647917 Score: 186
Period size: 22 Copynumber: 20.0 Consensus size: 22
7647466 AATCTATTAC
*
7647476 TAAATTATCATTGATTTACAAT
1 TAAATTATCATTGATTTACTAT
* *
7647498 TAAATTATTATTGATTTACTAC
1 TAAATTATCATTGATTTACTAT
* * *
7647520 TAAGTTATCAATAATTTAC-ATT
1 TAAATTATCATTGATTTACTA-T
* *
7647542 TAAATTATCAATGATTTATTAT
1 TAAATTATCATTGATTTACTAT
** *
7647564 TATGTTATTATAT-ATTTACTAT
1 TAAATTATCAT-TGATTTACTAT
*
7647586 TATATTATCATTGATTTACTACT
1 TAAATTATCATTGATTTACTA-T
* * * *
7647609 TAATTTTTTATT-ATTTACTAC
1 TAAATTATCATTGATTTACTAT
* * * * *
7647630 AAAACTATTGCA--AATTTATTAC
1 TAAATTA-T-CATTGATTTACTAT
* *
7647652 TAAATTAAC-TATGATTTATTAT
1 TAAATTATCAT-TGATTTACTAT
* * * *
7647674 GAAGTTATCACTAATTTA-TAT
1 TAAATTATCATTGATTTACTAT
* *
7647695 TAAATTAATTA-TAATTTACTAT
1 TAAATT-ATCATTGATTTACTAT
* * *
7647717 TAAGTTATTGA-TGATTAACTAT
1 TAAATTA-TCATTGATTTACTAT
*
7647739 TACTAAGTTAT-ATTGATTTACTTT
1 TA--AA-TTATCATTGATTTACTAT
* * * *
7647763 TAAATTTTCAATGATTAACTAC
1 TAAATTATCATTGATTTACTAT
* * *
7647785 TAAAATATCATTCATTTTACTAC
1 TAAATTATCATTGA-TTTACTAT
* *
7647808 TAAGTTAT-TTATGATTTACTAT
1 TAAATTATCAT-TGATTTACTAT
* * * * *
7647830 TAATTTTATCAATAAATTATTAT
1 TAA-ATTATCATTGATTTACTAT
** * *
7647853 TAAATTAAAACTAATTTACTAT
1 TAAATTATCATTGATTTACTAT
* *
7647875 TAAATTATCACTAATTTACTAT
1 TAAATTATCATTGATTTACTAT
* *
7647897 TAAATTATCAATGATTAACTA
1 TAAATTATCATTGATTTACTA
7647918 CAAAGTTATC
Statistics
Matches: 315, Mismatches: 81, Indels: 48
0.71 0.18 0.11
Matches are distributed among these distances:
20 1 0.00
21 23 0.07
22 232 0.74
23 43 0.14
24 13 0.04
25 3 0.01
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (22 bp):
TAAATTATCATTGATTTACTAT
Found at i:7647571 original size:11 final size:10
Alignment explanation
Indices: 7647555--7647625 Score: 52
Period size: 11 Copynumber: 6.5 Consensus size: 10
7647545 ATTATCAATG
7647555 ATTTATTATT
1 ATTTATTATT
7647565 ATGTTATTATAT
1 AT-TTATTAT-T
*
7647577 ATTTACTATT
1 ATTTATTATT
*
7647587 ATATTATCATT
1 AT-TTATTATT
*
7647598 GATTTACTACTT
1 -ATTTATTA-TT
*
7647610 AATTTTTTATT
1 -ATTTATTATT
7647621 ATTTA
1 ATTTA
7647626 CTACAAAACT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
10 9 0.19
11 25 0.53
12 13 0.28
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (10 bp):
ATTTATTATT
Found at i:7647712 original size:43 final size:44
Alignment explanation
Indices: 7647642--7647724 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
7647632 AACTATTGCA
* *
7647642 AATTTATTACTAAATTAACTATGATTTATTATGAAGTTATCACT
1 AATTTATTACTAAATTAACTATAATTTACTATGAAGTTATCACT
* * *
7647686 AATTTA-TATTAAATTAATTATAATTTACTATTAAGTTAT
1 AATTTATTACTAAATTAACTATAATTTACTATGAAGTTAT
7647725 TGATGATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 28 0.82
44 6 0.18
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (44 bp):
AATTTATTACTAAATTAACTATAATTTACTATGAAGTTATCACT
Found at i:7647760 original size:46 final size:47
Alignment explanation
Indices: 7647708--7647831 Score: 114
Period size: 46 Copynumber: 2.7 Consensus size: 47
7647698 ATTAATTATA
* ** *
7647708 ATTTACTATTAAGTTATTGATGATTAACTATTACTAAGTTAT-ATTG
1 ATTTACTATTAAGTTATTAATGATTAACTATTACTAAAATATCATTC
* *
7647754 ATTTACTTTTAAATT-TTCAATGATTAAC---TACTAAAATATCATTC
1 ATTTACTATTAAGTTATT-AATGATTAACTATTACTAAAATATCATTC
* * *
7647798 ATTTTACTACTAAGTTATTTATGATTTACTATTA
1 A-TTTACTATTAAGTTATTAATGATTAACTATTA
7647832 ATTTTATCAA
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
43 9 0.15
44 4 0.07
45 21 0.35
46 24 0.40
48 2 0.03
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (47 bp):
ATTTACTATTAAGTTATTAATGATTAACTATTACTAAAATATCATTC
Found at i:7648238 original size:22 final size:22
Alignment explanation
Indices: 7648213--7648354 Score: 71
Period size: 22 Copynumber: 6.5 Consensus size: 22
7648203 ATGACTAACA
* *
7648213 ATTACATTATTAGTTATTTACT
1 ATTACATTATTAATGATTTACT
7648235 ATTA-AGTTATTAATGATTTACT
1 ATTACA-TTATTAATGATTTACT
* * * *
7648257 ACTACATTATCAATAATTTATT
1 ATTACATTATTAATGATTTACT
* * *
7648279 TTTA-ATTTATGAATGATTT-GT
1 ATTACA-TTATTAATGATTTACT
* * *
7648300 CATTAAATTATGAGTGATTTA-T
1 -ATTACATTATTAATGATTTACT
*
7648322 CATTA-AGTTATTAATTATTT-CT
1 -ATTACA-TTATTAATGATTTACT
*
7648344 ATTAAATTATT
1 ATTACATTATT
7648355 GGTAATTTAC
Statistics
Matches: 95, Mismatches: 16, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
21 13 0.14
22 80 0.84
23 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.51
Consensus pattern (22 bp):
ATTACATTATTAATGATTTACT
Found at i:7648265 original size:44 final size:43
Alignment explanation
Indices: 7648213--7648384 Score: 148
Period size: 44 Copynumber: 4.0 Consensus size: 43
7648203 ATGACTAACA
* *
7648213 ATTACATTATTAGTTATTTACTATTAAGTTATTAATGATTTACT
1 ATTAAATTATTAGTAATTTACTATTAAGTTATTAATGATTT-CT
* * * * * * * * *
7648257 ACTACATTATCAATAATTTATTTTTAATTTATGAATGATTTGT
1 ATTAAATTATTAGTAATTTACTATTAAGTTATTAATGATTTCT
* * *
7648300 CATTAAATTATGAGTGATTTA-TCATTAAGTTATTAATTATTTCT
1 -ATTAAATTATTAGTAATTTACT-ATTAAGTTATTAATGATTTCT
* * * *
7648344 ATTAAATTATTGGTAATTTACCACTAAGTTATTGATGATTT
1 ATTAAATTATTAGTAATTTACTATTAAGTTATTAATGATTT
7648385 ATTATAAATT
Statistics
Matches: 99, Mismatches: 26, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
43 35 0.35
44 64 0.65
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (43 bp):
ATTAAATTATTAGTAATTTACTATTAAGTTATTAATGATTTCT
Found at i:7648384 original size:22 final size:22
Alignment explanation
Indices: 7648291--7648385 Score: 68
Period size: 22 Copynumber: 4.4 Consensus size: 22
7648281 TAATTTATGA
** *
7648291 ATGATTTGTCATTAAATTA-TG
1 ATGATTTACCATTAAGTTATTG
* *
7648312 AGTGATTTATCATTAAGTTATTA
1 A-TGATTTACCATTAAGTTATTG
* * *
7648335 ATTATTT-CTATTAAATTATTG
1 ATGATTTACCATTAAGTTATTG
* * *
7648356 GTAATTTACCACTAAGTTATTG
1 ATGATTTACCATTAAGTTATTG
7648378 ATGATTTA
1 ATGATTTA
7648386 TTATAAATTT
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
21 16 0.29
22 38 0.68
23 2 0.04
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (22 bp):
ATGATTTACCATTAAGTTATTG
Found at i:7648522 original size:19 final size:19
Alignment explanation
Indices: 7648500--7648539 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
7648490 ATTATCATTG
*
7648500 ATTTATTACTAAATTATTA
1 ATTTACTACTAAATTATTA
7648519 ATTTACTACTAAATTATTA
1 ATTTACTACTAAATTATTA
7648538 AT
1 AT
7648540 GATTTACTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTACTACTAAATTATTA
Found at i:7648546 original size:22 final size:22
Alignment explanation
Indices: 7648454--7648827 Score: 113
Period size: 22 Copynumber: 17.2 Consensus size: 22
7648444 TGATTAACTA
* * *
7648454 ATTTATTACTAAATTATCAATG
1 ATTTACTATTAAATTATTAATG
* * *
7648476 TAATTTACTATTATATTATCATTG
1 --ATTTACTATTAAATTATTAATG
* *
7648500 ATTTATTACTAAATTATT-A--
1 ATTTACTATTAAATTATTAATG
*
7648519 ATTTACTACTAAATTATTAATG
1 ATTTACTATTAAATTATTAATG
* *
7648541 ATTTACTGTTATATT-TTATAT-
1 ATTTACTATTAAATTATTA-ATG
* ** *
7648562 AGTTACTATTATGTTATTATTG
1 ATTTACTATTAAATTATTAATG
* * * *
7648584 ATTTACTATTTAATTTTTGATT
1 ATTTACTATTAAATTATTAATG
* ** *
7648606 ATTTACCAGAAAATTA-TCATG
1 ATTTACTATTAAATTATTAATG
* * *
7648627 AATTTACCACTATATTATCT-ATG
1 -ATTTACTATTAAATTAT-TAATG
**
7648650 ATTTA-TATTAAATTATGCATG
1 ATTTACTATTAAATTATTAATG
* * * *
7648671 ATTTATTATTAAGTTATCATTG
1 ATTTACTATTAAATTATTAATG
* * ** * ** *
7648693 ATTAACTAATATGTAATCGATA
1 ATTTACTATTAAATTATTAATG
* * *
7648715 ATTTACTATTAAGTTA-TATTA
1 ATTTACTATTAAATTATTAATG
* *
7648736 ATTTATTGTT-AATT-TTCAATG
1 ATTTACTATTAAATTATT-AATG
* * * *
7648757 ATTAATTATTAAATTATCAATT
1 ATTTACTATTAAATTATTAATG
* * *
7648779 ATTTACTACTAATTTATTATTG
1 ATTTACTATTAAATTATTAATG
* * * *
7648801 ACTTACTACTAAGTTATTTATG
1 ATTTACTATTAAATTATTAATG
7648823 ATTTA
1 ATTTA
7648828 GTACTATCAA
Statistics
Matches: 256, Mismatches: 79, Indels: 32
0.70 0.22 0.09
Matches are distributed among these distances:
19 17 0.07
20 5 0.02
21 55 0.21
22 156 0.61
23 4 0.02
24 19 0.07
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (22 bp):
ATTTACTATTAAATTATTAATG
Found at i:7648832 original size:22 final size:22
Alignment explanation
Indices: 7648779--7648833 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
7648769 ATTATCAATT
*
7648779 ATTTACTACTAATTTATTATTG
1 ATTTACTACTAAGTTATTATTG
*
7648801 ACTTACTACTAAGTTATT-TATG
1 ATTTACTACTAAGTTATTAT-TG
*
7648823 ATTTAGTACTA
1 ATTTACTACTA
7648834 TCAATTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTTACTACTAAGTTATTATTG
Found at i:7649092 original size:22 final size:22
Alignment explanation
Indices: 7649054--7649157 Score: 70
Period size: 22 Copynumber: 4.8 Consensus size: 22
7649044 ATTATTACTA
*
7649054 ATTTACTA-AAAAGTTATCAATT
1 ATTTACTACTAAA-TTATCAATT
*
7649076 ATTTACTACTAAATTAT-TATT
1 ATTTACTACTAAATTATCAATT
* * * *
7649097 CATTTACTATTAAGTTATCACTA
1 -ATTTACTACTAAATTATCAATT
* * * *
7649120 ATTTAATATTAAATTATCGATG
1 ATTTACTACTAAATTATCAATT
*
7649142 A-TTACTACTAAGTTAT
1 ATTTACTACTAAATTAT
7649158 ACTAATTACA
Statistics
Matches: 64, Mismatches: 15, Indels: 7
0.74 0.17 0.08
Matches are distributed among these distances:
21 15 0.23
22 45 0.70
23 4 0.06
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (22 bp):
ATTTACTACTAAATTATCAATT
Found at i:7649094 original size:44 final size:44
Alignment explanation
Indices: 7649044--7649136 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
7649034 ATTATTATAT
* *
7649044 ATTATTACTAATTTACTAAAAAGTTATCAATTATTTACTACTAA
1 ATTATTACTAATTTACTAAAAAGTTATCAATAATTTAATACTAA
* * ** * *
7649088 ATTATTATTCATTTACTATTAAGTTATCACTAATTTAATATTAA
1 ATTATTACTAATTTACTAAAAAGTTATCAATAATTTAATACTAA
7649132 ATTAT
1 ATTAT
7649137 CGATGATTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (44 bp):
ATTATTACTAATTTACTAAAAAGTTATCAATAATTTAATACTAA
Found at i:7649193 original size:42 final size:43
Alignment explanation
Indices: 7649064--7649199 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 43
7649054 ATTTACTAAA
* * * * * * * *
7649064 AAGTTATCAATTATTTACTACTAAATTATTATTCATTTACTATT
1 AAGTTATCACTAATTTAATATTAAATTATCAATGA-TTACTACT
*
7649108 AAGTTATCACTAATTTAATATTAAATTATCGATGATTACTACT
1 AAGTTATCACTAATTTAATATTAAATTATCAATGATTACTACT
* * *
7649151 AAGTTAT-ACTAA-TTACAT-TTAAATTTTTAATGATTAATTACT
1 AAGTTATCACTAATTTA-ATATTAAATTATCAATGATT-ACTACT
7649193 AAGTTAT
1 AAGTTAT
7649200 TAATTATGTA
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 17 0.22
42 19 0.25
43 14 0.18
44 27 0.35
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (43 bp):
AAGTTATCACTAATTTAATATTAAATTATCAATGATTACTACT
Found at i:7651598 original size:17 final size:16
Alignment explanation
Indices: 7651550--7651598 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
7651540 AAAGCTTAAT
7651550 TTTTTATT-TAAAAAA
1 TTTTTATTATAAAAAA
*
7651565 -TTTTATTATACATAAA
1 TTTTTATTATA-AAAAA
7651581 TTTTTATTATATAAAAA
1 TTTTTATTATA-AAAAA
7651598 T
1 T
7651599 ATTAAAATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 7 0.25
15 2 0.07
16 4 0.14
17 15 0.54
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTTATTATAAAAAA
Found at i:7651612 original size:33 final size:31
Alignment explanation
Indices: 7651536--7651616 Score: 76
Period size: 33 Copynumber: 2.6 Consensus size: 31
7651526 CGATCTATCC
* *
7651536 ATTAAAA-GCTTAATTTTTTATTTAAAAAAT
1 ATTAAAATGCATAAATTTTTATTTAAAAAAT
* ** *
7651566 TTTATTATACATAAATTTTTATTATATAAAAAT
1 ATTAAAATGCATAAATTTTTATT-TA-AAAAAT
7651599 ATTAAAATGCAT-AATTTT
1 ATTAAAATGCATAAATTTT
7651617 AAAAAATAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
30 4 0.11
31 12 0.32
32 8 0.21
33 14 0.37
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (31 bp):
ATTAAAATGCATAAATTTTTATTTAAAAAAT
Found at i:7661917 original size:12 final size:13
Alignment explanation
Indices: 7661902--7661933 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
7661892 AATACATATA
7661902 TAAATATAA-AAT
1 TAAATATAATAAT
7661914 TAAATA-AATAAT
1 TAAATATAATAAT
7661926 TAAATATA
1 TAAATATA
7661934 TATTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 15 0.83
13 1 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAATATAATAAT
Found at i:7662483 original size:20 final size:18
Alignment explanation
Indices: 7662460--7662504 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
7662450 TATATTTAAT
7662460 AAATAAATAAAAAACAATAA
1 AAATAAAT-AAAAACAA-AA
*
7662480 AAATATATAAAAACAAAA
1 AAATAAATAAAAACAAAA
7662498 AAATAAA
1 AAATAAA
7662505 AATAAAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 8 0.35
20 7 0.30
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (18 bp):
AAATAAATAAAAACAAAA
Found at i:7662489 original size:24 final size:24
Alignment explanation
Indices: 7662457--7662510 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
7662447 TGATATATTT
*
7662457 AATAAATAAATAA-AAAACAATAAA
1 AATAAATAAA-AACAAAAAAATAAA
*
7662481 AATATATAAAAACAAAAAAATAAA
1 AATAAATAAAAACAAAAAAATAAA
7662505 AATAAA
1 AATAAA
7662511 AAGTAGAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.17
Consensus pattern (24 bp):
AATAAATAAAAACAAAAAAATAAA
Done.