Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 70 of 84
Found at i:15118556 original size:25 final size:25
Alignment explanation
Indices: 15118509--15118556 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
15118499 ATTTGCATGT
*
15118509 TATTTGCATGATTTTTATTATATGA
1 TATTTGCATGATTTTTATGATATGA
15118534 TATTTGCATG-TTTTTCATGATAT
1 TATTTGCATGATTTTT-ATGATAT
15118557 TTTTGGTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.56
Consensus pattern (25 bp):
TATTTGCATGATTTTTATGATATGA
Found at i:15119518 original size:14 final size:15
Alignment explanation
Indices: 15119486--15119519 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15119476 ATACAAATTT
15119486 AAAACTAAATCATTA
1 AAAACTAAATCATTA
*
15119501 AAAATTAAAT-ATTA
1 AAAACTAAATCATTA
15119515 AAAAC
1 AAAAC
15119520 AAAGGAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAACTAAATCATTA
Found at i:15121928 original size:20 final size:20
Alignment explanation
Indices: 15121882--15121929 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
15121872 TTTGGATATT
* * **
15121882 AAAAGAAAGGGAAATTATCG
1 AAAAAAAAGAGAAATTATAA
15121902 AAAAAAAAGAGAAATTATAA
1 AAAAAAAAGAGAAATTATAA
15121922 AAAAAAAA
1 AAAAAAAA
15121930 AGGTTAGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.71, C:0.02, G:0.15, T:0.12
Consensus pattern (20 bp):
AAAAAAAAGAGAAATTATAA
Found at i:15124532 original size:23 final size:22
Alignment explanation
Indices: 15124490--15124533 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
15124480 CAGAAACCAA
*
15124490 AGGAAATCAAAAATGAAAAATG
1 AGGAAATCAAAAAAGAAAAATG
15124512 AGGAGAATCAAATAAAGAAAAA
1 AGGA-AATCAAA-AAAGAAAAA
15124534 GATAAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 7 0.37
24 8 0.42
ACGTcount: A:0.66, C:0.05, G:0.18, T:0.11
Consensus pattern (22 bp):
AGGAAATCAAAAAAGAAAAATG
Found at i:15125578 original size:136 final size:134
Alignment explanation
Indices: 15125400--15125645 Score: 293
Period size: 133 Copynumber: 1.8 Consensus size: 134
15125390 TTACAAATCT
* *
15125400 AAAAATAAGGTTTTTACCAACATATTGAAAAAGCTATAGATTTGTAACAAAAATTAAATTTCAAG
1 AAAAATAAGGTTTTTACCAACATATTGAAAAAGCTATAGATTT-TAA-AAAAAGTAAAGTT-AAG
* * * *
15125465 AAAAACAAAA-AATATATATAGTTTTC-TAAAAGCCTTACCAAGATATTGGAGGGCTTGTGGATT
63 AAAAA-AAAAGAAAAGAAATAGTTTTCATAAAAGCC-TACCAACATATTGGAGGGCTTGTGGATT
15125528 TATATTTAG
126 TATATTTAG
* * * * * *
15125537 AAAAATAAGG-TTTTACTAACATATTGGAAAA-TTTTATGATTTTTAATAAAGTAAAGTTAAGAA
1 AAAAATAAGGTTTTTACCAACATATTGAAAAAGCTATA-GATTTTAAAAAAAGTAAAGTTAAGAA
*
15125600 AAAAAAAGAAAAGAAATAGTTTTCATAAAATCCTACCAACATATTG
65 AAAAAAAGAAAAGAAATAGTTTTCATAAAAGCCTACCAACATATTG
15125646 AAAGGTAATT
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
132 4 0.04
133 33 0.35
134 17 0.18
135 5 0.05
136 24 0.26
137 10 0.11
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.32
Consensus pattern (134 bp):
AAAAATAAGGTTTTTACCAACATATTGAAAAAGCTATAGATTTTAAAAAAAGTAAAGTTAAGAAA
AAAAAAGAAAAGAAATAGTTTTCATAAAAGCCTACCAACATATTGGAGGGCTTGTGGATTTATAT
TTAG
Found at i:15126881 original size:18 final size:18
Alignment explanation
Indices: 15126858--15126893 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15126848 AAAATAACCT
15126858 ACCTTTGCTATTGTATCC
1 ACCTTTGCTATTGTATCC
15126876 ACCTTTGCTATTGTATCC
1 ACCTTTGCTATTGTATCC
15126894 TCCCCTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.11, T:0.44
Consensus pattern (18 bp):
ACCTTTGCTATTGTATCC
Found at i:15128456 original size:12 final size:12
Alignment explanation
Indices: 15128439--15128463 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15128429 ATAAATGAAA
15128439 TGAGAAAATGAT
1 TGAGAAAATGAT
15128451 TGAGAAAATGAT
1 TGAGAAAATGAT
15128463 T
1 T
15128464 TATGTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (12 bp):
TGAGAAAATGAT
Found at i:15130847 original size:66 final size:66
Alignment explanation
Indices: 15130748--15130879 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
15130738 GAAATTCGAG
15130748 AAAATTTTTTAAATAATGTGATGTTTTTAGTTATTGTTCATAACTATACTTTCAGCATGAATTCA
1 AAAATTTTTTAAATAATGTGATGTTTTTAGTTATTGTTCATAACTATACTTTCAGCATGAATTCA
15130813 C
66 C
15130814 AAAATTTTTTAAATAATGTGATGTTTTTAGTTATTGTTCATAACTATACTTTCAGCATGAATTCA
1 AAAATTTTTTAAATAATGTGATGTTTTTAGTTATTGTTCATAACTATACTTTCAGCATGAATTCA
15130879 C
66 C
15130880 GTATTTGGAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (66 bp):
AAAATTTTTTAAATAATGTGATGTTTTTAGTTATTGTTCATAACTATACTTTCAGCATGAATTCA
C
Found at i:15133860 original size:16 final size:16
Alignment explanation
Indices: 15133839--15133872 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
15133829 ACAAATAATA
15133839 ATGATGATTTATGATG
1 ATGATGATTTATGATG
15133855 ATGATGATTTATGATG
1 ATGATGATTTATGATG
15133871 AT
1 AT
15133873 TTTAAAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (16 bp):
ATGATGATTTATGATG
Found at i:15139920 original size:11 final size:11
Alignment explanation
Indices: 15139887--15139921 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
15139877 TCAAGCTATT
*
15139887 TTATTTTTTTG
1 TTATTTTTTTA
*
15139898 GTATTTTTTTA
1 TTATTTTTTTA
15139909 TTATTTTTTTA
1 TTATTTTTTTA
15139920 TT
1 TT
15139922 TATGTGTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (11 bp):
TTATTTTTTTA
Found at i:15140496 original size:62 final size:63
Alignment explanation
Indices: 15140425--15140563 Score: 244
Period size: 63 Copynumber: 2.2 Consensus size: 63
15140415 AAATTGACCC
*
15140425 AAAAATTTAGGAATCCAA-TAAAAAAATAAATAAAGAGAATTTCTAAATAGGCCCAAATGGTG
1 AAAAATTTAGAAATCCAATTAAAAAAATAAATAAAGAGAATTTCTAAATAGGCCCAAATGGTG
*
15140487 AAAAATTTAGAAATCCAATTAAAAAAATAAATAAAGAGAATTTCTAAGTAGGCCCAAATGGTG
1 AAAAATTTAGAAATCCAATTAAAAAAATAAATAAAGAGAATTTCTAAATAGGCCCAAATGGTG
*
15140550 AAAAATTTAAAAAT
1 AAAAATTTAGAAAT
15140564 TCTAAAAGAA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
62 17 0.23
63 56 0.77
ACGTcount: A:0.55, C:0.09, G:0.13, T:0.24
Consensus pattern (63 bp):
AAAAATTTAGAAATCCAATTAAAAAAATAAATAAAGAGAATTTCTAAATAGGCCCAAATGGTG
Found at i:15144611 original size:21 final size:21
Alignment explanation
Indices: 15144587--15144629 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
15144577 TCACTAATGG
*
15144587 ATGAAAAAGAGAAA-GAGAAAA
1 ATGAAAAA-AAAAATGAGAAAA
15144608 ATGAAAAAAAAAATGAGAAAA
1 ATGAAAAAAAAAATGAGAAAA
15144629 A
1 A
15144630 AGAGAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (21 bp):
ATGAAAAAAAAAATGAGAAAA
Found at i:15146124 original size:22 final size:22
Alignment explanation
Indices: 15146098--15146196 Score: 112
Period size: 22 Copynumber: 4.4 Consensus size: 22
15146088 TCTTCGAATA
15146098 AGAATCTTTGAGTTCTT-AAATG
1 AGAATCTTTGAGTT-TTCAAATG
* *
15146120 AGAATCTTTAAGAAATCTTCAAATG
1 AGAATCTTT--G-AGTTTTCAAATG
* *
15146145 AGAATCTTTAAGTTTTCATATG
1 AGAATCTTTGAGTTTTCAAATG
15146167 AGAATCTTTGAGTTTT-AAATG
1 AGAATCTTTGAGTTTTCAAATG
15146188 AGAATCTTT
1 AGAATCTTT
15146197 AAAGTGTGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
21 13 0.20
22 33 0.51
24 3 0.05
25 16 0.25
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.40
Consensus pattern (22 bp):
AGAATCTTTGAGTTTTCAAATG
Found at i:15146148 original size:25 final size:25
Alignment explanation
Indices: 15146086--15146156 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 25
15146076 TAAAATTATG
* *
15146086 AATCTTCGAATAAGAATCTTT--GA
1 AATCTTCAAATGAGAATCTTTAAGA
**
15146109 GTTCTT-AAATGAGAATCTTTAAGA
1 AATCTTCAAATGAGAATCTTTAAGA
15146133 AATCTTCAAATGAGAATCTTTAAG
1 AATCTTCAAATGAGAATCTTTAAG
15146157 TTTTCATATG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
22 12 0.31
23 4 0.10
24 6 0.15
25 17 0.44
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (25 bp):
AATCTTCAAATGAGAATCTTTAAGA
Found at i:15146149 original size:47 final size:47
Alignment explanation
Indices: 15146086--15146175 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
15146076 TAAAATTATG
* *
15146086 AATCTTCGAATAAGAATCTTTGAGTTCTT-AAATGAGAATCTTTAAGA
1 AATCTTCAAATAAGAATCTTTAAGTT-TTCAAATGAGAATCTTTAAGA
* *
15146133 AATCTTCAAATGAGAATCTTTAAGTTTTCATATGAGAATCTTT
1 AATCTTCAAATAAGAATCTTTAAGTTTTCAAATGAGAATCTTT
15146176 GAGTTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 2 0.05
47 36 0.95
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (47 bp):
AATCTTCAAATAAGAATCTTTAAGTTTTCAAATGAGAATCTTTAAGA
Found at i:15146152 original size:14 final size:13
Alignment explanation
Indices: 15146111--15146152 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
15146101 ATCTTTGAGT
15146111 TCTTAAATGAGAA
1 TCTTAAATGAGAA
*
15146124 TCTTTAA-GA-AA
1 TCTTAAATGAGAA
15146135 TCTTCAAATGAGAA
1 TCTT-AAATGAGAA
15146149 TCTT
1 TCTT
15146153 TAAGTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 6 0.25
12 4 0.17
13 8 0.33
14 6 0.25
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (13 bp):
TCTTAAATGAGAA
Found at i:15146755 original size:42 final size:42
Alignment explanation
Indices: 15146613--15146806 Score: 173
Period size: 42 Copynumber: 4.7 Consensus size: 42
15146603 TCGAGGAGCT
* * ** * *
15146613 TTTTATTTTTCAAAA-TTATGGTGTTTCTGTTTAAATG-AGC
1 TTTTATTTTTCAAAAGTTGTTGTGCCTCTGTTTAAAAGAACC
* * * * * *
15146653 ATTTATTTTTTC-AAAGTTATGGTGCCTCTATTT-AAAGGA-G
1 TTTTA-TTTTTCAAAAGTTGTTGTGCCTCTGTTTAAAAGAACC
15146693 TATTTATTTTTCAAAAGTTGTTGTGCCTCTGTTTAAAAGAACC
1 T-TTTATTTTTCAAAAGTTGTTGTGCCTCTGTTTAAAAGAACC
* * * * *
15146736 TTTTAGTTTTCAAAAGTTGTTATGCCTCTGTTTAGAGGAGCC
1 TTTTATTTTTCAAAAGTTGTTGTGCCTCTGTTTAAAAGAACC
*
15146778 TTTTATTTTTCAAAAATTGTTGTGCCTCT
1 TTTTATTTTTCAAAAGTTGTTGTGCCTCT
15146807 ATTAAGATGA
Statistics
Matches: 127, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
40 16 0.13
41 43 0.34
42 67 0.53
43 1 0.01
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (42 bp):
TTTTATTTTTCAAAAGTTGTTGTGCCTCTGTTTAAAAGAACC
Found at i:15146823 original size:42 final size:41
Alignment explanation
Indices: 15146606--15146829 Score: 161
Period size: 42 Copynumber: 5.4 Consensus size: 41
15146596 ATGATTGTCG
* * * ** *
15146606 AGGAGCTTTTTATTTTTCAAAA-TTATGGTGTTTCTGTTTAA
1 AGGAGCCTTTTATTTTTCAAAAGTTGTTGTGCCTCT-ATTAA
* * * *
15146647 ATGAG-CATTTATTTTTTC-AAAGTTATGGTGCCTCTATTTAA
1 AGGAGCCTTTTA-TTTTTCAAAAGTTGTTGTGCCTCTA-TTAA
*
15146688 AGGAG--TATTTATTTTTCAAAAGTTGTTGTGCCTCTGTTTAA
1 AGGAGCCT-TTTATTTTTCAAAAGTTGTTGTGCCTCT-ATTAA
* * * * * *
15146729 AAGAACCTTTTAGTTTTCAAAAGTTGTTATGCCTCTGTTTAG
1 AGGAGCCTTTTATTTTTCAAAAGTTGTTGTGCCTCT-ATTAA
*
15146771 AGGAGCCTTTTATTTTTCAAAAATTGTTGTGCCTCTATTAA
1 AGGAGCCTTTTATTTTTCAAAAGTTGTTGTGCCTCTATTAA
* *
15146812 GATGAGTCTTTTTATTTT
1 -AGGAG-CCTTTTATTTT
15146830 CCAAGGTCAT
Statistics
Matches: 148, Mismatches: 25, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
40 13 0.09
41 58 0.39
42 66 0.45
43 11 0.07
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (41 bp):
AGGAGCCTTTTATTTTTCAAAAGTTGTTGTGCCTCTATTAA
Found at i:15146857 original size:13 final size:13
Alignment explanation
Indices: 15146839--15146863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15146829 TCCAAGGTCA
15146839 TTGATCCTTTGTG
1 TTGATCCTTTGTG
15146852 TTGATCCTTTGT
1 TTGATCCTTTGT
15146864 TTAGGGGAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.20, T:0.56
Consensus pattern (13 bp):
TTGATCCTTTGTG
Found at i:15146923 original size:11 final size:10
Alignment explanation
Indices: 15146902--15146927 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
15146892 GTCTGACTTT
15146902 AAAAAACAAA
1 AAAAAACAAA
15146912 AAAAAACAAA
1 AAAAAACAAA
15146922 AAAAAA
1 AAAAAA
15146928 GTATGTCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:15147936 original size:18 final size:17
Alignment explanation
Indices: 15147862--15147936 Score: 59
Period size: 17 Copynumber: 4.4 Consensus size: 17
15147852 CCAATCGAGC
15147862 TATTTTGTTTTTTTTAG
1 TATTTTGTTTTTTTTAG
*
15147879 TATTTT-TTTATTTTTTG
1 TATTTTGTTT-TTTTTAG
*
15147896 -ATTTAT-TTTTATTTATG
1 TATTT-TGTTTTTTTTA-G
*
15147913 T-GTTTGTTTTTTCTTAG
1 TATTTTGTTTTTT-TTAG
15147930 TATTTTG
1 TATTTTG
15147937 CATGATTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
16 12 0.27
17 26 0.58
18 7 0.16
ACGTcount: A:0.13, C:0.01, G:0.11, T:0.75
Consensus pattern (17 bp):
TATTTTGTTTTTTTTAG
Found at i:15148520 original size:59 final size:61
Alignment explanation
Indices: 15148441--15148573 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 61
15148431 TAAATGGTGA
*
15148441 AAAATTTAGGAATCCAATAAAAAATAAATAAA-AAAAATTCTAAATAGGCCCAAAT-GATAG
1 AAAATTTAGAAATCCAATAAAAAATAAATAAAGAAAAATTCTAAATAGGCCCAAATAG-TAG
* * * *
15148501 AAAA-TTAGAAATCCAATAAAAAATAAATAAAGAGAATTTCTAAGTAGGCCTAAATAGTAG
1 AAAATTTAGAAATCCAATAAAAAATAAATAAAGAAAAATTCTAAATAGGCCCAAATAGTAG
15148561 AAAATTTAGAAAT
1 AAAATTTAGAAAT
15148574 TTCAAGAGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
59 26 0.40
60 30 0.46
61 9 0.14
ACGTcount: A:0.57, C:0.08, G:0.11, T:0.23
Consensus pattern (61 bp):
AAAATTTAGAAATCCAATAAAAAATAAATAAAGAAAAATTCTAAATAGGCCCAAATAGTAG
Found at i:15150216 original size:17 final size:18
Alignment explanation
Indices: 15150190--15150223 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15150180 AATGCTGATA
15150190 AAAATATTAT-TTTATTT
1 AAAATATTATATTTATTT
*
15150207 AAAATTTTATATTTATT
1 AAAATATTATATTTATT
15150224 GAGTGAGCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AAAATATTATATTTATTT
Found at i:15151288 original size:61 final size:60
Alignment explanation
Indices: 15151194--15151315 Score: 149
Period size: 61 Copynumber: 2.0 Consensus size: 60
15151184 GTTGTTTATG
* * * *
15151194 TTTGAATTATTTCAGTCAGTCTTTCTCAAACAACATGTTTCATAATTTACCTT-AAAGTCA
1 TTTGAATTATCTCAATCAGTCTTTCTCAAACAACATATCTCATAATTT-CCTTCAAAGTCA
* *
15151254 TTTGAATTTATCTCAATCAGTC-TTCTTCCAACAACATATCTCATAATTTGCTTCAAAGTCA
1 TTTGAA-TTATCTCAATCAGTCTTTC-TCAAACAACATATCTCATAATTTCCTTCAAAGTCA
15151315 T
1 T
15151316 CTACCACATG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
60 12 0.23
61 41 0.77
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.41
Consensus pattern (60 bp):
TTTGAATTATCTCAATCAGTCTTTCTCAAACAACATATCTCATAATTTCCTTCAAAGTCA
Found at i:15151790 original size:2 final size:2
Alignment explanation
Indices: 15151783--15151811 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15151773 AATTTTAAAG
15151783 AT 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 AT A
15151812 AACGTTAATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15152154 original size:20 final size:20
Alignment explanation
Indices: 15152112--15152156 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15152102 TTATTTAAGC
* *
15152112 AAAATGAAACCAATGTTAGA
1 AAAATGAAACCAATGTCAAA
*
15152132 AAAATGAAACCTATGTCAAA
1 AAAATGAAACCAATGTCAAA
15152152 AAAAT
1 AAAAT
15152157 TCAACTAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.58, C:0.11, G:0.11, T:0.20
Consensus pattern (20 bp):
AAAATGAAACCAATGTCAAA
Found at i:15155906 original size:3 final size:3
Alignment explanation
Indices: 15155898--15155928 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15155888 TTTCAAAGGG
15155898 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
15155929 TATTATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:15155933 original size:3 final size:3
Alignment explanation
Indices: 15155927--15155955 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
15155917 AATAATAATA
15155927 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
15155956 ATGCAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15158644 original size:16 final size:16
Alignment explanation
Indices: 15158614--15158660 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
15158604 TTTGGGTTTG
*
15158614 TTTTAAGTTTTAATTAT
1 TTTTAA-TTTGAATTAT
15158631 TTTTAATTTGAATTAT
1 TTTTAATTTGAATTAT
* *
15158647 TTTTTATTCGAATT
1 TTTTAATTTGAATT
15158661 TGATACTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 21 0.78
17 6 0.22
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (16 bp):
TTTTAATTTGAATTAT
Found at i:15158711 original size:14 final size:14
Alignment explanation
Indices: 15158678--15158728 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 14
15158668 TCATATCATT
15158678 AATTCTAAATTATTTTA
1 AATT-TAAATTA--TTA
15158695 AATTTAAATTATTA
1 AATTTAAATTATTA
* *
15158709 AATTTTAA-TAATA
1 AATTTAAATTATTA
15158722 AATTTAA
1 AATTTAA
15158729 TTTTGAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 10 0.32
14 10 0.32
16 7 0.23
17 4 0.13
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTTAAATTATTA
Found at i:15161572 original size:17 final size:18
Alignment explanation
Indices: 15161550--15161587 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
15161540 TTTACGAACA
*
15161550 AGAGAGA-GATTAATTTT
1 AGAGAGATGAGTAATTTT
15161567 AGAGAGATGAGTAATTTT
1 AGAGAGATGAGTAATTTT
15161585 AGA
1 AGA
15161588 TAGGATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (18 bp):
AGAGAGATGAGTAATTTT
Found at i:15162706 original size:56 final size:57
Alignment explanation
Indices: 15162552--15162738 Score: 178
Period size: 56 Copynumber: 3.2 Consensus size: 57
15162542 AATATTTTTG
* * ** * *
15162552 AAATATTTTTTATTTTAAGAAAATTGATACTTCAATTTTTCCTTAAAACATTCTTTTTTGA
1 AAATA-TTTTTATTTAAAGAAAATTGATAGTTCAACCTTTCCTCAAAACA-T-TTTTAT-A
* *
15162613 AACATTTTTTTTTATTTAAAGAAAATTGATAGTTCAACCTTTCGTCAAAACA-TTTTATA
1 AA-A--TATTTTTATTTAAAGAAAATTGATAGTTCAACCTTTCCTCAAAACATTTTTATA
** * * * *
15162672 AAATATTTTTATTTAGGGAAAATTGATAGTTCAACTTTTCCTTAAAATATTTTTTTA
1 AAATATTTTTATTTAAAGAAAATTGATAGTTCAACCTTTCCTCAAAACATTTTTATA
15162729 AAATATTTTT
1 AAATATTTTT
15162739 TATTGGGCTA
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
56 39 0.37
57 16 0.15
58 1 0.01
59 3 0.03
60 5 0.05
61 2 0.02
62 1 0.01
63 38 0.36
64 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (57 bp):
AAATATTTTTATTTAAAGAAAATTGATAGTTCAACCTTTCCTCAAAACATTTTTATA
Found at i:15162740 original size:12 final size:13
Alignment explanation
Indices: 15162713--15162739 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15162703 CAACTTTTCC
15162713 TTAAAATATTTTT
1 TTAAAATATTTTT
15162726 TTAAAATATTTTT
1 TTAAAATATTTTT
15162739 T
1 T
15162740 ATTGGGCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTAAAATATTTTT
Found at i:15164694 original size:18 final size:18
Alignment explanation
Indices: 15164646--15164719 Score: 53
Period size: 18 Copynumber: 4.2 Consensus size: 18
15164636 GACTTTTAGC
* *
15164646 TTCACAAGA-ATTTCAAG
1 TTCACAAGACTTTTCAAA
* * *
15164663 TTTACAAAAATTTTCAAA
1 TTCACAAGACTTTTCAAA
**
15164681 TTCGTAAGACTTTT-AAA
1 TTCACAAGACTTTTCAAA
* *
15164698 TTTACAAGATTTTTCAAA
1 TTCACAAGACTTTTCAAA
15164716 TTCA
1 TTCA
15164720 TAAAATTTCA
Statistics
Matches: 41, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
17 20 0.49
18 21 0.51
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (18 bp):
TTCACAAGACTTTTCAAA
Found at i:15164727 original size:18 final size:18
Alignment explanation
Indices: 15164668--15164727 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
15164658 TCAAGTTTAC
* *
15164668 AAAAATTTTCAAATTCGT
1 AAAATTTTTCAAATTCAT
* * * *
15164686 AAGACTTTT-AAATTTAC
1 AAAATTTTTCAAATTCAT
*
15164703 AAGATTTTTCAAATTCAT
1 AAAATTTTTCAAATTCAT
15164721 AAAATTT
1 AAAATTT
15164728 CAGGTTTGCA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 13 0.41
18 19 0.59
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (18 bp):
AAAATTTTTCAAATTCAT
Found at i:15164745 original size:35 final size:34
Alignment explanation
Indices: 15164702--15164807 Score: 110
Period size: 35 Copynumber: 3.1 Consensus size: 34
15164692 TTTAAATTTA
**
15164702 CAAGATTTTTCAAATTCATAA-AATTTCAGGTTTG
1 CAAGATTTTT-AAATTCATAAGAATTAAAGGTTTG
*
15164736 CAAGAATTTTTAGATTCATAAGAATTAAAGGTTTG
1 CAAG-ATTTTTAAATTCATAAGAATTAAAGGTTTG
* *
15164771 CAAGATTTTGAAATTTCACT-AGAATT-AAGATTTG
1 CAAGATTTTTAAA-TTCA-TAAGAATTAAAGGTTTG
15164805 CAA
1 CAA
15164808 AAACTTGAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
34 30 0.48
35 31 0.50
36 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (34 bp):
CAAGATTTTTAAATTCATAAGAATTAAAGGTTTG
Found at i:15164834 original size:17 final size:17
Alignment explanation
Indices: 15164755--15164839 Score: 77
Period size: 17 Copynumber: 4.9 Consensus size: 17
15164745 TTAGATTCAT
* *
15164755 AAGAATTAAAGGTTTGC
1 AAGAATTGAAGATTTGC
*
15164772 AAGATTTTGAA-ATTT-C
1 AAGA-ATTGAAGATTTGC
15164788 ACTAGAATT-AAGATTTGC
1 A--AGAATTGAAGATTTGC
*
15164806 AAAAACTTGAAGATTTGC
1 AAGAA-TTGAAGATTTGC
15164824 AAGAATTGAAGATTTG
1 AAGAATTGAAGATTTG
15164840 TAAATTTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
16 7 0.13
17 26 0.47
18 22 0.40
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (17 bp):
AAGAATTGAAGATTTGC
Found at i:15164957 original size:22 final size:23
Alignment explanation
Indices: 15164922--15164965 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
15164912 AATCCAAAAA
*
15164922 TTCACATTAAAAAATTTTAAAGG
1 TTCACATTAAAAAATTTCAAAGG
*
15164945 TTCACATT-CAAAATTTCAAAG
1 TTCACATTAAAAAATTTCAAAG
15164966 AATGTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (23 bp):
TTCACATTAAAAAATTTCAAAGG
Found at i:15165021 original size:45 final size:46
Alignment explanation
Indices: 15164954--15165080 Score: 141
Period size: 45 Copynumber: 2.7 Consensus size: 46
15164944 GTTCACATTC
* * *
15164954 AAAATTTCAAAGAATGTT-ATTTGAAAAACTTTAGCGATTCACATC-
1 AAAATTTCAAAG-ATTTTCATTTGAAAAACTTTAGAGATTCACAACT
**
15164999 AGTATTTCAAAGATTTTCATTTGAAAAACTTCTAGAGATTCACAACT
1 AAAATTTCAAAGATTTTCATTTGAAAAACTT-TAGAGATTCACAACT
* **
15165046 AAAATTTCAAATATTTTCATAAAGAAAAACTTTAG
1 AAAATTTCAAAGATTTTCAT-TTGAAAAACTTTAG
15165081 TGTTTTATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
44 4 0.06
45 23 0.34
46 12 0.18
47 20 0.29
48 9 0.13
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (46 bp):
AAAATTTCAAAGATTTTCATTTGAAAAACTTTAGAGATTCACAACT
Found at i:15165520 original size:24 final size:26
Alignment explanation
Indices: 15165493--15165554 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
15165483 CATTCACTAC
*
15165493 ATGATGCAAATAC-ATGA-CCAAACA
1 ATGATGCAAATACAATGATCAAAACA
*
15165517 ATGATGCAAATGCAATGATCAAAACA
1 ATGATGCAAATACAATGATCAAAACA
* *
15165543 AAGATTCAAATA
1 ATGATGCAAATA
15165555 TTCACTGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 12 0.39
25 4 0.13
26 15 0.48
ACGTcount: A:0.52, C:0.16, G:0.13, T:0.19
Consensus pattern (26 bp):
ATGATGCAAATACAATGATCAAAACA
Found at i:15170572 original size:57 final size:56
Alignment explanation
Indices: 15170435--15170759 Score: 246
Period size: 58 Copynumber: 5.7 Consensus size: 56
15170425 TTTAAAAAAT
* * *
15170435 AATA-TTTTATTTAAGGAAAATTTGATACTTTCAACTTTTTC--CAAATA-TTTTTCA
1 AATATTTTTATTTAAGGAAAA-TTGATAC-TTCAACTTTTTCTTAAAACATTTTTTAA
* * * *
15170489 AATATTTTTTATTTTACGAAAATTGATACTTCAACTTTTGCTTAAAACATATTTTTGA
1 AATA-TTTTTATTTAAGGAAAATTGATACTTCAACTTTTTCTTAAAACAT-TTTTTAA
* * * * *
15170547 AATATTTTTATTAAAGGAAAATTGATAATTCAACTTTTCCTCAAAACCTTTTTTCAA
1 AATATTTTTATTTAAGGAAAATTGATACTTCAACTTTTTCTTAAAACATTTTTT-AA
* * * * * *
15170604 AATTTTTTTTATTTAAGAAAAATTGAAACTTTAACTTTTTC-TCAAATATTTTTTAAA
1 AA-TATTTTTATTTAAGGAAAATTGATACTTCAACTTTTTCTTAAAACATTTTTT-AA
* * * * ***
15170661 AATGTTTTTATATTTAAGAAAAATTGATACATCAACTTTTTCTCAACATGTTTTTTTAA
1 AAT-ATTTT-TATTTAAGGAAAATTGATACTTCAACTTTTTCTTAA-AACATTTTTTAA
* * * *
15170720 ATATTTTTTTATTCAAGGCAAATTGATAACATCAACTTTT
1 A-ATATTTTTATTTAAGGAAAATTGAT-ACTTCAACTTTT
15170760 CCTAAAAAAA
Statistics
Matches: 220, Mismatches: 37, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
54 15 0.07
55 7 0.03
56 24 0.11
57 59 0.27
58 85 0.39
59 21 0.10
60 9 0.04
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (56 bp):
AATATTTTTATTTAAGGAAAATTGATACTTCAACTTTTTCTTAAAACATTTTTTAA
Found at i:15175555 original size:35 final size:34
Alignment explanation
Indices: 15175507--15175572 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
15175497 AGATGAGGAA
*
15175507 GAAGAAAAGGAAAAATAAAAAATAAAAAAAGAAGG
1 GAAGAAAAGGAAAAA-AAAAAAGAAAAAAAGAAGG
*
15175542 GAAGAGAAA-GAAAAAAAATAAGAAAAAAAGA
1 GAAGA-AAAGGAAAAAAAAAAAGAAAAAAAGA
15175573 GAGAGATGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 14 0.50
35 11 0.39
36 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (34 bp):
GAAGAAAAGGAAAAAAAAAAAGAAAAAAAGAAGG
Found at i:15178521 original size:105 final size:105
Alignment explanation
Indices: 15178336--15178542 Score: 324
Period size: 105 Copynumber: 2.0 Consensus size: 105
15178326 GATTATTTCA
* **
15178336 AGTTAACCTTTTATTGAATTGAATTAACTCTAATCTAATTTCGGTCCATTTTGCTTTCGGGTCAT
1 AGTTAAACTTTTATTGAATTGAATTAACTCTAATCTAATTTCGGTCCATTTTGCTTTCCAGTCAT
** * * *
15178401 TTAGGGCTTGGGCTAATCCATGTTTAGGTTGATTTATTCG
66 TTAGCACTTGAGCTAATCCATGTTCAGATTGATTTATTCG
15178441 AGTTAAACTTTTATTGAATTGAATTAACTCTAATCTAATTTCGGTCCATTTTGCTTTCCAGTCAT
1 AGTTAAACTTTTATTGAATTGAATTAACTCTAATCTAATTTCGGTCCATTTTGCTTTCCAGTCAT
* *
15178506 TTAGCATTTGAGCTAATTCATGTTCAGATTGATTTAT
66 TTAGCACTTGAGCTAATCCATGTTCAGATTGATTTAT
15178543 ATTTCGGTTG
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 92 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (105 bp):
AGTTAAACTTTTATTGAATTGAATTAACTCTAATCTAATTTCGGTCCATTTTGCTTTCCAGTCAT
TTAGCACTTGAGCTAATCCATGTTCAGATTGATTTATTCG
Found at i:15178814 original size:21 final size:21
Alignment explanation
Indices: 15178766--15178809 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
15178756 CTTATAAATC
*
15178766 ATAAATTATTTACAAAAATTT
1 ATAAATTATTTAAAAAAATTT
15178787 ATAAATTATTTAAATATAAATTT
1 ATAAATTATTTAAA-A-AAATTT
15178810 TAATTTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 1 0.05
23 6 0.30
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAAATTATTTAAAAAAATTT
Found at i:15179516 original size:21 final size:21
Alignment explanation
Indices: 15179492--15179533 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15179482 CTTATAAAAT
* *
15179492 ATTAAATATTAAATTTTAATA
1 ATTAAAAATTAAATCTTAATA
15179513 ATTAAAAATTAAATCTTAATA
1 ATTAAAAATTAAATCTTAATA
15179534 GTTTCTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTAAAAATTAAATCTTAATA
Found at i:15180362 original size:11 final size:12
Alignment explanation
Indices: 15180348--15180406 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
15180338 TAATTTTAAT
15180348 TTTAAAATAT-A
1 TTTAAAATATAA
15180359 TTTAAAATATAA
1 TTTAAAATATAA
* *
15180371 TCTAAAAAATAA
1 TTTAAAATATAA
**
15180383 TTTTTAA-AT-A
1 TTTAAAATATAA
15180393 TTTAAAATAGTAA
1 TTTAAAATA-TAA
15180406 T
1 T
15180407 AAATCTAAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
10 6 0.16
11 13 0.35
12 16 0.43
13 2 0.05
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (12 bp):
TTTAAAATATAA
Found at i:15182864 original size:20 final size:21
Alignment explanation
Indices: 15182827--15182867 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
15182817 TTGAACTTTA
15182827 AAAATATATAAAAAAAGGGGG
1 AAAATATATAAAAAAAGGGGG
* *
15182848 AAAA-ATATAGAAGAAGGGGG
1 AAAATATATAAAAAAAGGGGG
15182868 TGAAGGGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.29, T:0.12
Consensus pattern (21 bp):
AAAATATATAAAAAAAGGGGG
Found at i:15186252 original size:16 final size:17
Alignment explanation
Indices: 15186226--15186262 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
15186216 GGATGGGTTC
15186226 AATTGATATTATTGATT
1 AATTGATATTATTGATT
15186243 AATT-ATATTATTGATT
1 AATTGATATTATTGATT
15186259 AATT
1 AATT
15186263 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (17 bp):
AATTGATATTATTGATT
Found at i:15186273 original size:8 final size:8
Alignment explanation
Indices: 15186260--15186311 Score: 52
Period size: 8 Copynumber: 6.1 Consensus size: 8
15186250 TTATTGATTA
15186260 ATTTTTTT
1 ATTTTTTT
*
15186268 ATTTTTTG
1 ATTTTTTT
15186276 ATCTTTTATT
1 AT-TTTT-TT
15186286 ATTTTATTT
1 ATTTT-TTT
15186295 -TTGTTTTT
1 ATT-TTTTT
15186303 ATTTTTTT
1 ATTTTTTT
15186311 A
1 A
15186312 ATTAGATGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 20 0.54
9 13 0.35
10 4 0.11
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (8 bp):
ATTTTTTT
Found at i:15186769 original size:182 final size:173
Alignment explanation
Indices: 15186428--15186786 Score: 506
Period size: 174 Copynumber: 2.0 Consensus size: 173
15186418 TATTTTTTTT
* * *
15186428 AAATCTATGCATTAAATTTTGTAAAAGAATAAGACTAATGGGGGTGTCTATGTCACACTTTTAGT
1 AAATCTATGCATTAAATTTTGTAAAAAAATAAGACTAATGGAGGTGTCGATGTCACACTTTTAGT
*
15186493 AGGCTTCCTTTTCTTTTCTTTTACTTTTTTGCCATTCTTTTTTTTTAATTTTTATTTTTTTAATT
66 AGGCTTCCTTTTCTTTTCTTTTACTTTTTTGCCATTCTTTTTTTTTAATTTTTAGTTTTTTAATT
*
15186558 AGAAAAATTTTGTAAGAAATGGATCAATGGAGGTTGGATGATA
131 AGAAAAATTTTGTAAGAAATGGATCAATGGAGGTTGAATGATA
*
15186601 AAATCTATGCATTAAATTTTGTAAAAAAAATAAGA-TCAATGGAGGTGTCGATGTCGCACTTTTA
1 AAATCTATGCATTAAATTTTGT-AAAAAAATAAGACT-AATGGAGGTGTCGATGTCACACTTTTA
* * * *
15186665 TTTGGCTTCTTTTTCTTTTCTTTTACTTTTTTGCCATTCCTTTTTTCTTTTTTTTACTTTTCTAG
64 GTAGGCTTCCTTTTCTTTTCTTTTACTTTTTTGCCATT-C-----T-TTTTTTTTAATTTT-TAG
*
15186730 TTTTTTAATTAGAAAAATTTTGTAAGAAATAGG-TCAATGGATGTTGAATGATA
121 TTTTTTAATTAGAAAAATTTTGTAAGAAAT-GGATCAATGGAGGTTGAATGATA
15186783 AAAT
1 AAAT
15186787 AATCTATTTT
Statistics
Matches: 164, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
173 23 0.14
174 70 0.43
175 1 0.01
180 1 0.01
181 13 0.08
182 54 0.33
183 2 0.01
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.47
Consensus pattern (173 bp):
AAATCTATGCATTAAATTTTGTAAAAAAATAAGACTAATGGAGGTGTCGATGTCACACTTTTAGT
AGGCTTCCTTTTCTTTTCTTTTACTTTTTTGCCATTCTTTTTTTTTAATTTTTAGTTTTTTAATT
AGAAAAATTTTGTAAGAAATGGATCAATGGAGGTTGAATGATA
Found at i:15187639 original size:17 final size:17
Alignment explanation
Indices: 15187619--15187662 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
15187609 TCATTTAATT
*
15187619 TTATATTTATATATG-TA
1 TTATATTAATA-ATGTTA
15187636 TTATATTAATAATGTTA
1 TTATATTAATAATGTTA
15187653 TTATA-TAATA
1 TTATATTAATA
15187663 CCTTAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTATATTAATAATGTTA
Found at i:15187697 original size:11 final size:11
Alignment explanation
Indices: 15187683--15187712 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
15187673 AAAATATTAT
15187683 ATTTATATATA
1 ATTTATATATA
*
15187694 ATTTAAATATA
1 ATTTATATATA
15187705 ATTTATAT
1 ATTTATAT
15187713 TAAAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTTATATATA
Found at i:15189231 original size:16 final size:16
Alignment explanation
Indices: 15189207--15189237 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15189197 CATCTAACAT
*
15189207 AAAGTTAATGTTGATA
1 AAAGCTAATGTTGATA
15189223 AAAGCTAATGTTGAT
1 AAAGCTAATGTTGAT
15189238 TTGCCATCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (16 bp):
AAAGCTAATGTTGATA
Found at i:15198868 original size:2 final size:2
Alignment explanation
Indices: 15198861--15198891 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15198851 CAAGTCTAGG
15198861 AT AT 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 AT AT A
15198892 GATTTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15200908 original size:2 final size:2
Alignment explanation
Indices: 15200901--15200933 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15200891 ATGAGCCAAC
15200901 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 T
15200934 TTGAAAGGCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15202834 original size:3 final size:3
Alignment explanation
Indices: 15202820--15202881 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
15202810 CTTAATCATT
* * *
15202820 TAA TATA TAA TAA TAA TAA TAA TCA TAA TAA TAA TCA TAA TCA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
15202866 TCA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
15202882 TTTATTTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
3 47 0.94
4 3 0.06
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:15202847 original size:12 final size:12
Alignment explanation
Indices: 15202820--15202878 Score: 91
Period size: 12 Copynumber: 4.8 Consensus size: 12
15202810 CTTAATCATT
*
15202820 TAATATATAATAA
1 TAATA-ATAATCA
15202833 TAATAATAATCA
1 TAATAATAATCA
15202845 TAATAATAATCA
1 TAATAATAATCA
*
15202857 TAATCATAATCA
1 TAATAATAATCA
15202869 TAATAATAAT
1 TAATAATAAT
15202879 AATTTTATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
12 38 0.88
13 5 0.12
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATAATAATCA
Found at i:15204551 original size:17 final size:17
Alignment explanation
Indices: 15204526--15204568 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
15204516 TATCTTTTTA
*
15204526 TTTTCAATTTTTTTAAT
1 TTTTTAATTTTTTTAAT
*
15204543 TTTTTAATTTTTTTCAT
1 TTTTTAATTTTTTTAAT
*
15204560 GTTTTAATT
1 TTTTTAATT
15204569 AATTTAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTTTAATTTTTTTAAT
Found at i:15205310 original size:50 final size:48
Alignment explanation
Indices: 15205256--15205362 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 48
15205246 ATTTTGTTTG
*
15205256 AAAATGGCTACTCATAAACAGAGGCTTTAAAACTTTAAGAATCTTGCCTA
1 AAAATGGCTACCCATAAACAGAGG-TTTAAAACTTTAA-AATCTTGCCTA
* * * * **
15205306 AAAATGACTCCCCTTAAATAGAGGTTTGGAACTTTAAAATCTTGCCTA
1 AAAATGGCTACCCATAAACAGAGGTTTAAAACTTTAAAATCTTGCCTA
15205354 AAAATGGCT
1 AAAATGGCT
15205363 TTTTCTAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 19 0.39
49 11 0.22
50 19 0.39
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (48 bp):
AAAATGGCTACCCATAAACAGAGGTTTAAAACTTTAAAATCTTGCCTA
Found at i:15205384 original size:49 final size:49
Alignment explanation
Indices: 15205286--15205446 Score: 166
Period size: 50 Copynumber: 3.3 Consensus size: 49
15205276 GAGGCTTTAA
* * *
15205286 AACTTTAAGAATCTTGCCTAAAAATGAC-TCCCCTTAAAT-AGAGGTTTGG
1 AACTTTAA-AATCTTGCCTAAAAATGGCTTCCCC-TAAATAAAAGCTTTGG
***
15205335 AACTTTAAAATCTTGCCTAAAAATGGCTTTTTCTAAATAAAAGCTTTGG
1 AACTTTAAAATCTTGCCTAAAAATGGCTTCCCCTAAATAAAAGCTTTGG
* * * * *
15205384 AACTTTAAAATTCTTGTCC-GAAAATGGCTCCCCCTAAATAGAGGCTTTGA
1 AACTTTAAAA-TCTTG-CCTAAAAATGGCTTCCCCTAAATAAAAGCTTTGG
15205434 AACTTTAAAATCT
1 AACTTTAAAATCT
15205447 AAAGTGTTTT
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
48 23 0.24
49 31 0.33
50 38 0.40
51 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (49 bp):
AACTTTAAAATCTTGCCTAAAAATGGCTTCCCCTAAATAAAAGCTTTGG
Found at i:15205791 original size:23 final size:23
Alignment explanation
Indices: 15205765--15205851 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
15205755 AGATAATCTA
*
15205765 GGCTTAAAGTGCCAATTAATTTG
1 GGCTTAAAGTGTCAATTAATTTG
*
15205788 GGCTTAAAGTGTC-ATCTAATCTG
1 GGCTTAAAGTGTCAAT-TAATTTG
* *
15205811 GGCTTAAAGTATCAACTAATTTG
1 GGCTTAAAGTGTCAATTAATTTG
*
15205834 GGCTTGAAA-TCTCAATTA
1 GGCTT-AAAGTGTCAATTA
15205852 TGCTAGTTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
22 2 0.04
23 48 0.89
24 4 0.07
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (23 bp):
GGCTTAAAGTGTCAATTAATTTG
Found at i:15207834 original size:142 final size:141
Alignment explanation
Indices: 15207574--15207838 Score: 343
Period size: 142 Copynumber: 1.9 Consensus size: 141
15207564 TTTTTGAAAC
* * * * *
15207574 ATTTGACTTCAATTTTAACATTCTACTTTGTTGAGTTCTATCTTATTTTTACTTAAGATTCTAAC
1 ATTTGACTTCAACTTTAACATTCAACTTTCTTGAATTCTATCTTATTTTTACTTAAAATTCTAAC
* * * *
15207639 TAATGCTTAATTTACTTTTTACCTCAGACTCTCATCTCTGAGGTGTATATCTTTCTTTTTTTAAA
66 TAATGCTTAATTCACTTTTTACCCCAGACTCTCATCTCTGAGATGCATATCTTTCTTTTTTTAAA
15207704 AAAAAAAATAT
131 AAAAAAAATAT
* *
15207715 ATTTGACTTCAACTTTAGCATTCAACTTTCTTGAATTCTATCTTCTTTTTTACTTAAAATTCTAA
1 ATTTGACTTCAACTTTAACATTCAACTTTCTTGAATTCTATCTT-ATTTTTACTTAAAATTCTAA
* * * * * * *
15207780 CTGAA-GTTTTATTCACTTTTTGCCCCGGACTCTCATCTTTGATATGCATGTCTTTCTTT
65 CT-AATGCTTAATTCACTTTTTACCCCAGACTCTCATCTCTGAGATGCATATCTTTCTTT
15207839 CTTTGCTTTT
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
141 39 0.38
142 63 0.61
143 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.48
Consensus pattern (141 bp):
ATTTGACTTCAACTTTAACATTCAACTTTCTTGAATTCTATCTTATTTTTACTTAAAATTCTAAC
TAATGCTTAATTCACTTTTTACCCCAGACTCTCATCTCTGAGATGCATATCTTTCTTTTTTTAAA
AAAAAAAATAT
Found at i:15211700 original size:20 final size:18
Alignment explanation
Indices: 15211672--15211720 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
15211662 GTCTTTTTAT
*
15211672 TTCTCTTTTTTTCTTTCTC
1 TTCTTTTTTTTTCTTTC-C
*
15211691 TTCTTATTTTCATTCTTTCC
1 TTCTT-TTTT-TTTCTTTCC
15211711 TTCTTTTTTT
1 TTCTTTTTTT
15211721 ACCTACTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 8 0.32
20 10 0.40
21 7 0.28
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (18 bp):
TTCTTTTTTTTTCTTTCC
Found at i:15211708 original size:21 final size:20
Alignment explanation
Indices: 15211682--15211719 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
15211672 TTCTCTTTTT
15211682 TTCTTTCTCTTCTTATTTTCA
1 TTCTTTC-CTTCTTATTTTCA
15211703 TTCTTTCCTTCTT-TTTT
1 TTCTTTCCTTCTTATTTT
15211720 TACCTACTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 6 0.35
21 7 0.41
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (20 bp):
TTCTTTCCTTCTTATTTTCA
Found at i:15212562 original size:18 final size:17
Alignment explanation
Indices: 15212510--15212553 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
15212500 AAAGAGTAAT
15212510 TTTCTTTTATTTATGCTTT-
1 TTTCTTTTATTT-T--TTTC
15212529 TTTCTTTTATTTTTTTC
1 TTTCTTTTATTTTTTTC
15212546 TTTCTTTT
1 TTTCTTTT
15212554 TCTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.12
17 8 0.33
18 1 0.04
19 12 0.50
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTCTTTTATTTTTTTC
Found at i:15214607 original size:3 final size:3
Alignment explanation
Indices: 15214599--15214635 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
15214589 CTTAATCACT
15214599 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
15214636 TTTATTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:15214720 original size:5 final size:5
Alignment explanation
Indices: 15214710--15214734 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15214700 GTAAACATGT
15214710 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
15214735 CCATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:15219315 original size:193 final size:191
Alignment explanation
Indices: 15219078--15219501 Score: 461
Period size: 193 Copynumber: 2.2 Consensus size: 191
15219068 AACAATTTCC
* * * *
15219078 CATTTATTTCAAAATTTTTA-CAAAATTACATTTTATTTATTATTTGCTTG-AGAACAAATGTCA
1 CATTTATTTC-TAATTTTTATAAAAATTACATTTTATTTATTATTTACTTGAAG-ACAAATATCA
* *
15219141 ATT-ATTTTTATTGAAAATTTT-TAAAAAATTTCACAATTTGGGATACTTTTTAGAAAAAAATTT
64 ATTAATTTTAATTG-AAATTTTCT-AAAAATTTCACAATATGGGATA--TTTTAGAAAAAAATTT
* * * * * * *
15219204 CACCTAAAAATTTCTAAG-AAATTAACCATTTGT-AATTCAT-TTGAATTTTATCCTTGGAATAA
125 CACCTAAAAATTTATAAGAAAATCAACCATTTATGAATTC-TCAT-AATTTCATCATTGAAATAA
15219266 TTTT
188 TTTT
* *
15219270 CATTTATTTCTATATTTTTATAAAAATTACATTTTATTTATTATTTATTTGAAGATAAATATCAA
1 CATTTATTTCTA-ATTTTTATAAAAATTACATTTTATTTATTATTTACTTGAAGACAAATATCAA
* * * * *
15219335 TTAATTTTAATTGGACTTTTCCTAAAATTTTCACCATATGGGATATTTTAGAAAAAATTTTCACC
65 TTAATTTTAATTGAAATTTT-CTAAAAATTTCACAATATGGGATATTTTAGAAAAAAATTTCACC
* *
15219400 TAAAAATTTATTAGAAAATCAACCATTTATGATTTCTCATAATTTCATCATTGAAATAATTTT
129 TAAAAATTTATAAGAAAATCAACCATTTATGAATTCTCATAATTTCATCATTGAAATAATTTT
*
15219463 CA-TTACTTT-TGAAATTTTATAAAAATTACATTTTTATTT
1 CATTTA-TTTCT-AATTTTTATAAAAATTACA-TTTTATTT
15219502 TCTTATTTTT
Statistics
Matches: 197, Mismatches: 23, Indels: 23
0.81 0.09 0.09
Matches are distributed among these distances:
191 1 0.01
192 69 0.35
193 91 0.46
194 35 0.18
195 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (191 bp):
CATTTATTTCTAATTTTTATAAAAATTACATTTTATTTATTATTTACTTGAAGACAAATATCAAT
TAATTTTAATTGAAATTTTCTAAAAATTTCACAATATGGGATATTTTAGAAAAAAATTTCACCTA
AAAATTTATAAGAAAATCAACCATTTATGAATTCTCATAATTTCATCATTGAAATAATTTT
Found at i:15224553 original size:21 final size:21
Alignment explanation
Indices: 15224529--15224569 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
15224519 AACATTTAGA
*
15224529 AATTCACAAATAAAATTCAAT
1 AATTCAAAAATAAAATTCAAT
15224550 AATTCAAAAATAAAATTCAA
1 AATTCAAAAATAAAATTCAA
15224570 AGATTTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTCAAAAATAAAATTCAAT
Found at i:15224596 original size:23 final size:22
Alignment explanation
Indices: 15224557--15224622 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 22
15224547 AATAATTCAA
15224557 AAAT-AAAATTCAAAGATTTGT
1 AAATAAAAATTCAAAGATTTGT
15224578 AAATAAAAATATCAAAGATTTGT
1 AAATAAAAAT-TCAAAGATTTGT
** *
15224601 ATTTAAAATTTTCAAAGATTTG
1 AAATAAAA-ATTCAAAGATTTG
15224623 CAATTGAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 4 0.10
22 5 0.13
23 29 0.74
24 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (22 bp):
AAATAAAAATTCAAAGATTTGT
Found at i:15224632 original size:23 final size:23
Alignment explanation
Indices: 15224565--15224634 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
15224555 AAAAATAAAA
* *
15224565 TTCAAAGATTTGTAAATAAAAAT
1 TTCAAAGATTTGTAATTAAAATT
* *
15224588 ATCAAAGATTTGTATTTAAAATT
1 TTCAAAGATTTGTAATTAAAATT
* *
15224611 TTCAAAGATTTGCAATTGAAATT
1 TTCAAAGATTTGTAATTAAAATT
15224634 T
1 T
15224635 AGAGATTCCC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (23 bp):
TTCAAAGATTTGTAATTAAAATT
Found at i:15224707 original size:65 final size:67
Alignment explanation
Indices: 15224601--15224885 Score: 270
Period size: 65 Copynumber: 4.4 Consensus size: 67
15224591 AAAGATTTGT
* **
15224601 ATTT-AAAATTTTCAAAGATTTGC--AATTGAAATTTAGAGATTCCCATCTAAAGATTCAATTAT
1 ATTTGAAAATTTT-AAAGATTT-CATAATTGAAATTTAGAGATTCTCATCTAAAGATTCAAAAAT
**
15224663 TCGT
64 TCAC
* * *
15224667 ATTTGAAAATTTTAAA-ATTTCATAATTG-AATTTAGAGATTCTCATCTAAGGGTTCAAAGATTC
1 ATTTGAAAATTTTAAAGATTTCATAATTGAAATTTAGAGATTCTCATCTAAAGATTCAAAAATTC
15224730 AC
66 AC
* * * *
15224732 ATTTGAAAATTTTAAAGA-TTCACAACT-ATAATTTAAAGATTCTCACCTAAAGATTCAAAAATT
1 ATTTGAAAATTTTAAAGATTTCATAATTGA-AATTTAGAGATTCTCATCTAAAGATTCAAAAATT
15224795 CAC
65 CAC
* * * * * *
15224798 ATTTG-AAATTTCAAAG--TTCCTAATTGAAATTTAGATATTCTCAACTAAAAATTCAAAGATTC
1 ATTTGAAAATTTTAAAGATTTCATAATTGAAATTTAGAGATTCTCATCTAAAGATTCAAAAATTC
15224860 AC
66 AC
* *
15224862 AATTG-AAA-TTTAGAGATTTTCATA
1 ATTTGAAAATTTTAAAGA-TTTCATA
15224886 TAAAATTCTA
Statistics
Matches: 182, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
63 5 0.03
64 46 0.25
65 68 0.37
66 55 0.30
67 8 0.04
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.37
Consensus pattern (67 bp):
ATTTGAAAATTTTAAAGATTTCATAATTGAAATTTAGAGATTCTCATCTAAAGATTCAAAAATTC
AC
Found at i:15224868 original size:130 final size:131
Alignment explanation
Indices: 15224630--15224869 Score: 313
Period size: 130 Copynumber: 1.8 Consensus size: 131
15224620 TTGCAATTGA
* * ** ** *
15224630 AATTTAGAGATTCCCATCTAAAGATTCAATTATTCGTATTTGAAAATTTTAAAATTTCATAATTG
1 AATTTAAAGATTCCCACCTAAAGATTCAAAAATTCACATTTGAAAATTTTAAAAGTTCATAATTG
* *** *
15224695 AATTTAGAGATTCTCATCTAAGGGTTCAAAGATTCACATTTGAAAATTTTAAAGATTCACAACTA
66 AATTTAGAGATTCTCAACTAAAAATTCAAAGATTCACAATTGAAAATTTTAAAGATTCACAACTA
15224760 T
131 T
* * *
15224761 AATTTAAAGATTCTCACCTAAAGATTCAAAAATTCACATTTG-AAA-TTTCAAAGTTCCTAATTG
1 AATTTAAAGATTCCCACCTAAAGATTCAAAAATTCACATTTGAAAATTTTAAAAGTTCATAATTG
*
15224824 AAATTTAGATATTCTCAACTAAAAATTCAAAGATTCACAATTGAAA
66 -AATTTAGAGATTCTCAACTAAAAATTCAAAGATTCACAATTGAAA
15224870 TTTAGAGATT
Statistics
Matches: 92, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
129 15 0.16
130 42 0.46
131 35 0.38
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (131 bp):
AATTTAAAGATTCCCACCTAAAGATTCAAAAATTCACATTTGAAAATTTTAAAAGTTCATAATTG
AATTTAGAGATTCTCAACTAAAAATTCAAAGATTCACAATTGAAAATTTTAAAGATTCACAACTA
T
Found at i:15224878 original size:21 final size:21
Alignment explanation
Indices: 15224792--15224938 Score: 68
Period size: 21 Copynumber: 6.8 Consensus size: 21
15224782 AGATTCAAAA
* *
15224792 ATTCACATTTGAAATTTCAAAG
1 ATTCACAATTGAAATTT-AGAG
*
15224814 -TTC-CTAATTGAAATTTAGAT
1 ATTCAC-AATTGAAATTTAGAG
* ** * *
15224834 ATTCTCAACTAAAAATTCAAAG
1 ATTCACAA-TTGAAATTTAGAG
15224856 ATTCACAATTGAAATTTAGAG
1 ATTCACAATTGAAATTTAGAG
** *
15224877 ATTTTC-ATATAAAATTCTA-AG
1 ATTCACAAT-TGAAATT-TAGAG
* * *
15224898 ATTCATATTTGAAAATTTTGAAG
1 ATTCACAATTG-AAATTTAG-AG
15224921 ATTCACAATTGAACATTT
1 ATTCACAATTGAA-ATTT
15224939 TAAAGATTAT
Statistics
Matches: 90, Mismatches: 24, Indels: 21
0.67 0.18 0.16
Matches are distributed among these distances:
20 5 0.06
21 44 0.49
22 26 0.29
23 15 0.17
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (21 bp):
ATTCACAATTGAAATTTAGAG
Found at i:15224890 original size:43 final size:42
Alignment explanation
Indices: 15224685--15224911 Score: 129
Period size: 42 Copynumber: 5.3 Consensus size: 42
15224675 ATTTTAAAAT
* * **
15224685 TTCATAATTG-AATTTAGAGATTCTCATCTAAGGGTTCAAAGA
1 TTCACAATTGAAATTTAGAGATTCTCAACTAA-AATTCAAAGA
* * * * *
15224727 TTCACATTTGAAAATTTTAAAGATTCACAACTATAATTTAAAGA
1 TTCACAATTG-AAA-TTTAGAGATTCTCAACTAAAATTCAAAGA
* ** * * * * * ** *
15224771 TTCTCACCTAAAGATTCAAAAATTCACATTTGAAATTTCAAAG-
1 TTCACAATTGAA-ATTTAGAGATTCTCAACT-AAAATTCAAAGA
*
15224814 TTC-CTAATTGAAATTTAGATATTCTCAACTAAAAATTCAAAGA
1 TTCAC-AATTGAAATTTAGAGATTCTCAACT-AAAATTCAAAGA
* *
15224857 TTCACAATTGAAATTTAGAGATTTTCATA-TAAAATTCTAAGA
1 TTCACAATTGAAATTTAGAGATTCTCA-ACTAAAATTCAAAGA
* *
15224899 TTCATATTTGAAA
1 TTCACAATTGAAA
15224912 ATTTTGAAGA
Statistics
Matches: 140, Mismatches: 36, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
42 53 0.38
43 46 0.33
44 26 0.19
45 15 0.11
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (42 bp):
TTCACAATTGAAATTTAGAGATTCTCAACTAAAATTCAAAGA
Found at i:15224892 original size:64 final size:64
Alignment explanation
Indices: 15224629--15224901 Score: 216
Period size: 64 Copynumber: 4.2 Consensus size: 64
15224619 TTTGCAATTG
* * ** **
15224629 AAATTTAGAGATTCCCATCTAAAGATTCAATTATTCGTATTTGAAAATTTTAAA-ATT-TCATAA
1 AAATTTAGAGATTCTCAACTAAAGATTCAAAGATTCACATTTG-AAA-TTTAAAGATTCTCAT-A
*
15224692 TT
63 TA
* * * * *
15224694 GAATTTAGAGATTCTCATCTAAGGGTTCAAAGATTCACATTTGAAAATTTTAAAGATTCACA-AC
1 AAATTTAGAGATTCTCAACTAAAGATTCAAAGATTCACATTTG-AAA-TTTAAAGATTCTCATA-
15224758 TA
63 TA
* * * * *
15224760 TAATTTAAAGATTCTCACCTAAAGATTCAAAAATTCACATTTGAAATTTCAAAG-TTCCTAAT-T
1 AAATTTAGAGATTCTCAACTAAAGATTCAAAGATTCACATTTGAAATTT-AAAGATT-CTCATAT
*
15224823 G
64 A
* * * * *
15224824 AAATTTAGATATTCTCAACTAAAAATTCAAAGATTCACAATTGAAATTTAGAGATTTTCATATA
1 AAATTTAGAGATTCTCAACTAAAGATTCAAAGATTCACATTTGAAATTTAAAGATTCTCATATA
15224888 AAATTCTA-AGATTC
1 AAATT-TAGAGATTC
15224902 ATATTTGAAA
Statistics
Matches: 168, Mismatches: 31, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
63 6 0.04
64 61 0.36
65 58 0.35
66 41 0.24
67 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (64 bp):
AAATTTAGAGATTCTCAACTAAAGATTCAAAGATTCACATTTGAAATTTAAAGATTCTCATATA
Found at i:15225099 original size:32 final size:32
Alignment explanation
Indices: 15225063--15225144 Score: 110
Period size: 32 Copynumber: 2.5 Consensus size: 32
15225053 TTCATTTGCT
*
15225063 AAATGCTAAAATTCAAAGCTTCTCATGTGAGA
1 AAATGCTAAAATTCAAAACTTCTCATGTGAGA
* * *
15225095 AAATGCTAAAACTCAAAACTTCTCATTTGGGA
1 AAATGCTAAAATTCAAAACTTCTCATGTGAGA
*
15225127 AAATGTTAAAAATTCAAA
1 AAATGCT-AAAATTCAAA
15225145 TATATACATT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 34 0.79
33 9 0.21
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (32 bp):
AAATGCTAAAATTCAAAACTTCTCATGTGAGA
Found at i:15225253 original size:31 final size:31
Alignment explanation
Indices: 15225209--15225288 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 31
15225199 AGACTCACAT
*
15225209 CTAAAA-TCAAAAGATTCTCATTAGAAAAATG
1 CTAAAATTC-AAAGATTCACATTAGAAAAATG
** *
15225240 CTAAAATTCAAAGATAAACATTTGAAAAATG
1 CTAAAATTCAAAGATTCACATTAGAAAAATG
* * *
15225271 ATAAAGTTCAGAGATTCA
1 CTAAAATTCAAAGATTCA
15225289 TATTTTGAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
31 37 0.95
32 2 0.05
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (31 bp):
CTAAAATTCAAAGATTCACATTAGAAAAATG
Found at i:15225335 original size:86 final size:87
Alignment explanation
Indices: 15225233--15225410 Score: 218
Period size: 86 Copynumber: 2.1 Consensus size: 87
15225223 TTCTCATTAG
*
15225233 AAAAATGCTAAAATTCAAAGATAAACATTTGAA-AAATGATAAAG-TTCAGAGATTCATATTTTG
1 AAAAATGCTAAAATTCAAAGATAAACATTTGAATAAATG-TAAAGATTCAGAGATTCACA-TTTG
* * *
15225296 AACTTCAAAGATTTTTAT-TAGAA
64 AAATTCAAAGATTCTTATCTAAAA
* **** * *
15225319 AAAAATGCTAAAATTCAAGGATTTTTATTTGAATAAATGTTAAGATTTAGAGATTCACATTTGAA
1 AAAAATGCTAAAATTCAAAGATAAACATTTGAATAAATGTAAAGATTCAGAGATTCACATTTGAA
15225384 ATTCAAAGATTCTTATCTAAAA
66 ATTCAAAGATTCTTATCTAAAA
15225406 AAAAA
1 AAAAA
15225411 CCTATAAGAT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
86 52 0.67
87 26 0.33
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (87 bp):
AAAAATGCTAAAATTCAAAGATAAACATTTGAATAAATGTAAAGATTCAGAGATTCACATTTGAA
ATTCAAAGATTCTTATCTAAAA
Found at i:15225460 original size:23 final size:23
Alignment explanation
Indices: 15225434--15225524 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
15225424 ATTTGAAATA
* *
15225434 TTCAAATATTCGCATTTAAAAGG
1 TTCAAAGATTCACATTTAAAAGG
* **
15225457 TTCAAAGATTCACTTTTAAAAAT
1 TTCAAAGATTCACATTTAAAAGG
* * *
15225480 TTTAAAGATTTACATTTGAAAGG
1 TTCAAAGATTCACATTTAAAAGG
*
15225503 TTCAAAGATTAACATTTGAAAA
1 TTCAAAGATTCACATTT-AAAA
15225525 ATCAATTTCC
Statistics
Matches: 53, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
23 50 0.94
24 3 0.06
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (23 bp):
TTCAAAGATTCACATTTAAAAGG
Found at i:15227208 original size:14 final size:16
Alignment explanation
Indices: 15227177--15227214 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
15227167 TTTATCAATT
*
15227177 TTTCTTTCATTTTTTC
1 TTTCTTTCATTTTATC
15227193 TTT-TTTC-TTTTATC
1 TTTCTTTCATTTTATC
15227207 TTTCTTTC
1 TTTCTTTC
15227215 CTTCATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 9 0.45
15 8 0.40
16 3 0.15
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCTTTCATTTTATC
Found at i:15233919 original size:8 final size:8
Alignment explanation
Indices: 15233906--15233935 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
15233896 AATAACTCAC
15233906 CTAAAGAA
1 CTAAAGAA
15233914 CTAAAGAA
1 CTAAAGAA
15233922 CTAAAAGAA
1 CT-AAAGAA
15233931 CTAAA
1 CTAAA
15233936 AAGATAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (8 bp):
CTAAAGAA
Found at i:15233930 original size:9 final size:9
Alignment explanation
Indices: 15233908--15233936 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15233898 TAACTCACCT
15233908 AAAGAACT-
1 AAAGAACTA
15233916 AAAGAACTA
1 AAAGAACTA
15233925 AAAGAACTA
1 AAAGAACTA
15233934 AAA
1 AAA
15233937 AGATAGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.69, C:0.10, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAGAACTA
Found at i:15241031 original size:203 final size:203
Alignment explanation
Indices: 15240682--15241094 Score: 711
Period size: 203 Copynumber: 2.0 Consensus size: 203
15240672 ACTCTTCCAC
* *
15240682 AGAAAATGCATTATCTTATACCATACACAATCACCCTCAACTAAAATTTAAAACTTCACTCCCAT
1 AGAAAATGCATAATCTTATACCATACACAATCACCCTCAACTAAAATTTAAAAATTCACTCCCAT
15240747 AAGCATGTTTCGCCATCCTAAATTTTGCTTATTGCAAATCAACATACCATGATTAACAACTCATC
66 AAGCATGTTTCGCCATCCTAAATTTTGCTTATTGCAAATCAACATACCATGATTAACAACTCATC
*
15240812 AACATCAATATTGAAATGATGGCAAGTATCATTGCCACCAATTAGTGTAGTCCATGATCCTACCC
131 AACATCAATATTGAAATGATGGCAAGTATCATTGCCACCAATTAGTGGAGTCCATGATCCTACCC
15240877 ACTACCCA
196 ACTACCCA
* * *
15240885 AGAAAATGTATAATCTTATACCATACACACTCACCCTCAACTAAAATTTAAAAATTCACTCCTAT
1 AGAAAATGCATAATCTTATACCATACACAATCACCCTCAACTAAAATTTAAAAATTCACTCCCAT
* *
15240950 GAGCATGTTTCGCCATCCTAAATTTT-CATTATTGCAAATCAACATACCATGATTAACAACTTAT
66 AAGCATGTTTCGCCATCCTAAATTTTGC-TTATTGCAAATCAACATACCATGATTAACAACTCAT
*
15241014 CAACATCAATATTGAAATGATGGCAAGTATCATTGCCACCAATTAGTGGAGTCTATGATCCTACC
130 CAACATCAATATTGAAATGATGGCAAGTATCATTGCCACCAATTAGTGGAGTCCATGATCCTACC
*
15241079 CGCTACCCA
195 CACTACCCA
*
15241088 ACAAAAT
1 AGAAAAT
15241095 TACATGTTAC
Statistics
Matches: 198, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
202 1 0.01
203 197 0.99
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.29
Consensus pattern (203 bp):
AGAAAATGCATAATCTTATACCATACACAATCACCCTCAACTAAAATTTAAAAATTCACTCCCAT
AAGCATGTTTCGCCATCCTAAATTTTGCTTATTGCAAATCAACATACCATGATTAACAACTCATC
AACATCAATATTGAAATGATGGCAAGTATCATTGCCACCAATTAGTGGAGTCCATGATCCTACCC
ACTACCCA
Found at i:15245279 original size:278 final size:278
Alignment explanation
Indices: 15244782--15245617 Score: 1645
Period size: 278 Copynumber: 3.0 Consensus size: 278
15244772 CTGGCTATAC
*
15244782 ATATTGTAGTTTTCAAGAATCGGTAGACGGCATTATCAATAACAGCACTTCATTGATCAAAACAC
1 ATATTGTAGTTTTCAAGAATCGGTAGACAGCATTATCAATAACAGCACTTCATTGATCAAAACAC
15244847 ATTAAAGTTTGGAAACTATTTAGAGACTCCATAAATAGGAATGTGAAATGAGTCCAACATAGATC
66 ATTAAAGTTTGGAAACTATTTAGAGACTCCATAAATAGGAATGTGAAATGAGTCCAACATAGATC
*
15244912 CAACTCTTTTGTGTCAACACATATCCAACACAAAAACCAAAGATGGGAATGGGTATATGACTGCT
131 CAACTCTTTTGTGTCAACACTTATCCAACACAAAAACCAAAGATGGGAATGGGTATATGACTGCT
15244977 ACACAAATCCTTTGTATCACTGAGAATAAAAAGAATATGAGAAATATCAAATTTGCAAAGCACAA
196 ACACAAATCCTTTGTATCACTGAGAATAAAAAGAATATGAGAAATATCAAATTTGCAAAGCACAA
15245042 AGTTCAGATAAGTGATAA
261 AGTTCAGATAAGTGATAA
15245060 ATATTGTAGTTTTCAAGAATCGGTAGACAGCATTATCAATAACAGCACTTCATTGATCAAAACAC
1 ATATTGTAGTTTTCAAGAATCGGTAGACAGCATTATCAATAACAGCACTTCATTGATCAAAACAC
15245125 ATTAAAGTTTGGAAACTATTTAGAGACTCCATAAATAGGAATGTGAAATGAGTCCAACATAGATC
66 ATTAAAGTTTGGAAACTATTTAGAGACTCCATAAATAGGAATGTGAAATGAGTCCAACATAGATC
15245190 CAACTCTTTTGTGTCAACACTTATCCAACACAAAAACCAAAGATGGGAATGGGTATATGACTGCT
131 CAACTCTTTTGTGTCAACACTTATCCAACACAAAAACCAAAGATGGGAATGGGTATATGACTGCT
*
15245255 ACACAAATCCTTTGTCTCACTGAGAATAAAAAGAATATGAGAAATATCAAATTTGCAAAGCACAA
196 ACACAAATCCTTTGTATCACTGAGAATAAAAAGAATATGAGAAATATCAAATTTGCAAAGCACAA
15245320 AGTTCAGATAAGTGATAA
261 AGTTCAGATAAGTGATAA
15245338 ATATTGTAGTTTTCAAGAATCGGTAGACAGCATTATCAATAACAGCACTTCATTGATCAAAACAC
1 ATATTGTAGTTTTCAAGAATCGGTAGACAGCATTATCAATAACAGCACTTCATTGATCAAAACAC
15245403 ATTAAAGTTTGGAAACTATTTAGAGACTCCATAAATAGGAATGTGAAATGAGTCCAACATAGATC
66 ATTAAAGTTTGGAAACTATTTAGAGACTCCATAAATAGGAATGTGAAATGAGTCCAACATAGATC
15245468 CAACTCTTTTGTGTCAACACTTATCCAACACAAAAACCAAAGATGGGAATGGGTATATGACTGCT
131 CAACTCTTTTGTGTCAACACTTATCCAACACAAAAACCAAAGATGGGAATGGGTATATGACTGCT
15245533 ACACAAATCCTTTGTATCACTGAGAATAAAAAGAATATGAGAAATATCAAATTTGCAAAGCACAA
196 ACACAAATCCTTTGTATCACTGAGAATAAAAAGAATATGAGAAATATCAAATTTGCAAAGCACAA
15245598 AGTTCAGATAAGTGATAA
261 AGTTCAGATAAGTGATAA
15245616 AT
1 AT
15245618 TTCCCCAATG
Statistics
Matches: 554, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
278 554 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (278 bp):
ATATTGTAGTTTTCAAGAATCGGTAGACAGCATTATCAATAACAGCACTTCATTGATCAAAACAC
ATTAAAGTTTGGAAACTATTTAGAGACTCCATAAATAGGAATGTGAAATGAGTCCAACATAGATC
CAACTCTTTTGTGTCAACACTTATCCAACACAAAAACCAAAGATGGGAATGGGTATATGACTGCT
ACACAAATCCTTTGTATCACTGAGAATAAAAAGAATATGAGAAATATCAAATTTGCAAAGCACAA
AGTTCAGATAAGTGATAA
Found at i:15249519 original size:18 final size:18
Alignment explanation
Indices: 15249496--15249533 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15249486 ACGGCGTGAG
15249496 AAAATT-TTAAAAAATTAA
1 AAAATTATT-AAAAATTAA
*
15249514 AAAATTATTTAAAATTAA
1 AAAATTATTAAAAATTAA
15249532 AA
1 AA
15249534 TGTTCATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATTATTAAAAATTAA
Found at i:15252154 original size:7 final size:7
Alignment explanation
Indices: 15252134--15252179 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
15252124 TTTTTAATTT
15252134 ATTAAAA
1 ATTAAAA
15252141 A-TAAAA
1 ATTAAAA
15252147 ATTTAAAAA
1 A-TT-AAAA
15252156 ATTAAAA
1 ATTAAAA
15252163 ATTAAAA
1 ATTAAAA
*
15252170 ATGAAAA
1 ATTAAAA
15252177 ATT
1 ATT
15252180 TTATACTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.18
7 20 0.59
8 3 0.09
9 5 0.15
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (7 bp):
ATTAAAA
Found at i:15252176 original size:22 final size:22
Alignment explanation
Indices: 15252134--15252177 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15252124 TTTTTAATTT
*
15252134 ATTAAAAATAAAAATTTAAAAA
1 ATTAAAAATAAAAATTGAAAAA
15252156 ATTAAAAATTAAAAA-TGAAAAA
1 ATTAAAAA-TAAAAATTGAAAAA
15252178 TTTTATACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
ATTAAAAATAAAAATTGAAAAA
Found at i:15264320 original size:22 final size:22
Alignment explanation
Indices: 15264292--15264335 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15264282 ATTTTTTGTC
*
15264292 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGGAATACAAATA
15264314 CTTAATTCTAGGAATACAAATA
1 CTTAATTCTAGGAATACAAATA
15264336 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGGAATACAAATA
Found at i:15266068 original size:15 final size:16
Alignment explanation
Indices: 15266043--15266081 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
15266033 CATGTATACA
*
15266043 ATATTTCTG-TTTATC
1 ATATTTTTGTTTTATC
*
15266058 TTATTTTTGTTTTATC
1 ATATTTTTGTTTTATC
15266074 ATATTTTT
1 ATATTTTT
15266082 CTTCTGTGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.69
Consensus pattern (16 bp):
ATATTTTTGTTTTATC
Found at i:15269242 original size:22 final size:22
Alignment explanation
Indices: 15269214--15269257 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15269204 CTAAATCTTC
*
15269214 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15269236 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15269258 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:15272961 original size:23 final size:25
Alignment explanation
Indices: 15272906--15272964 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
15272896 AAAGGGTTTG
* * *
15272906 GCAATGAAGGCCTAAACAGGATTCG
1 GCAATGAAGGCCTAAACAGAAGTCA
15272931 GCAATGAAGGCCTAAA-A-AAGTCA
1 GCAATGAAGGCCTAAACAGAAGTCA
15272954 GCAATGAAGGC
1 GCAATGAAGGC
15272965 TGAAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 14 0.45
24 1 0.03
25 16 0.52
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (25 bp):
GCAATGAAGGCCTAAACAGAAGTCA
Found at i:15273137 original size:22 final size:22
Alignment explanation
Indices: 15273109--15273152 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15273099 CTAAATCTTC
*
15273109 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15273131 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15273153 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:15273827 original size:4 final size:4
Alignment explanation
Indices: 15273820--15273850 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
15273810 TATATATATA
15273820 TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
15273851 GTAACAGGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:15277624 original size:35 final size:35
Alignment explanation
Indices: 15277580--15277651 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
15277570 TTAATTTGGT
*
15277580 TTATTTAATTATTAATTTT-AAGAAACGATAATTGA
1 TTATCTAATTATTAATTTTAAAG-AACGATAATTGA
15277615 TTATCTAATTATTAATTTTAAAGAACGATAATTGA
1 TTATCTAATTATTAATTTTAAAGAACGATAATTGA
15277650 TT
1 TT
15277652 GAATTAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 32 0.91
36 3 0.09
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (35 bp):
TTATCTAATTATTAATTTTAAAGAACGATAATTGA
Found at i:15285150 original size:16 final size:15
Alignment explanation
Indices: 15285130--15285174 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
15285120 CATTTTGGAT
15285130 TTGAGTCATTTCAGG
1 TTGAGTCATTTCAGG
*
15285145 TATGAGTCATTTTAGG
1 T-TGAGTCATTTCAGG
*
15285161 TTCAAGTCATTTCA
1 TT-GAGTCATTTCA
15285175 AGTTTCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (15 bp):
TTGAGTCATTTCAGG
Found at i:15287895 original size:29 final size:30
Alignment explanation
Indices: 15287839--15287931 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 30
15287829 ATAAAAAATA
*
15287839 ATTTAGATAAAAATTAAAGGTTAAGGGCTT
1 ATTTAGGTAAAAATTAAAGGTTAAGGGCTT
*
15287869 ATTTAGGTAAAAATTAAA-GTTAGGGGCTT
1 ATTTAGGTAAAAATTAAAGGTTAAGGGCTT
* ** *
15287898 ATTTAGGTATAAATTAAATATTAAAGGCTT
1 ATTTAGGTAAAAATTAAAGGTTAAGGGCTT
15287928 ATTT
1 ATTT
15287932 GGCTGCAATG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 27 0.48
30 29 0.52
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (30 bp):
ATTTAGGTAAAAATTAAAGGTTAAGGGCTT
Found at i:15289126 original size:151 final size:151
Alignment explanation
Indices: 15288852--15289145 Score: 588
Period size: 151 Copynumber: 1.9 Consensus size: 151
15288842 AAGAGGGAGA
15288852 AAGACAGGCTTGTTGTTATTTACTTGGTGATACTCATAAAAGAAAACAGTAAGAGGAATACATAA
1 AAGACAGGCTTGTTGTTATTTACTTGGTGATACTCATAAAAGAAAACAGTAAGAGGAATACATAA
15288917 ATTATTATTACCTTATGGATGGGAAATTAGGAAAAGAAAGAAATCAAATATATAAAAAATTTAAG
66 ATTATTATTACCTTATGGATGGGAAATTAGGAAAAGAAAGAAATCAAATATATAAAAAATTTAAG
15288982 GCTTAATTAGACATAAACAAG
131 GCTTAATTAGACATAAACAAG
15289003 AAGACAGGCTTGTTGTTATTTACTTGGTGATACTCATAAAAGAAAACAGTAAGAGGAATACATAA
1 AAGACAGGCTTGTTGTTATTTACTTGGTGATACTCATAAAAGAAAACAGTAAGAGGAATACATAA
15289068 ATTATTATTACCTTATGGATGGGAAATTAGGAAAAGAAAGAAATCAAATATATAAAAAATTTAAG
66 ATTATTATTACCTTATGGATGGGAAATTAGGAAAAGAAAGAAATCAAATATATAAAAAATTTAAG
15289133 GCTTAATTAGACA
131 GCTTAATTAGACA
15289146 AGTAACTGCA
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 143 1.00
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (151 bp):
AAGACAGGCTTGTTGTTATTTACTTGGTGATACTCATAAAAGAAAACAGTAAGAGGAATACATAA
ATTATTATTACCTTATGGATGGGAAATTAGGAAAAGAAAGAAATCAAATATATAAAAAATTTAAG
GCTTAATTAGACATAAACAAG
Found at i:15291378 original size:18 final size:18
Alignment explanation
Indices: 15291355--15291659 Score: 225
Period size: 18 Copynumber: 17.6 Consensus size: 18
15291345 AATTTTACTT
*
15291355 ATAAATAATATTACATTA
1 ATAAATAATATTATATTA
*
15291373 ATAAATAA-ATAATATTA
1 ATAAATAATATTATATTA
* * *
15291390 TATTAATAA-ATAACATT-
1 -ATAAATAATATTATATTA
* *
15291407 AT--ATTATAATATATTA
1 ATAAATAATATTATATTA
* *
15291423 ATAAATAATATAATATGA
1 ATAAATAATATTATATTA
15291441 ATAAATAATA-TACTATTA
1 ATAAATAATATTA-TATTA
15291459 AT--ATAATA-TATA--A
1 ATAAATAATATTATATTA
15291472 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
*
15291490 ATGAATAATATTATATTA
1 ATAAATAATATTATATTA
* *
15291508 GTAAATCATA-TATA--A
1 ATAAATAATATTATATTA
15291523 AT-AATAATATTATATTA
1 ATAAATAATATTATATTA
15291540 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
* *
15291558 GTAAATCATATATTA-ATAA
1 ATAAAT-A-ATATTATATTA
* *
15291577 ATAATATTATAATATATTA
1 ATAA-ATAATATTATATTA
*
15291596 ATAAATAATA-CACTATTA
1 ATAAATAATATTA-TATTA
*
15291614 ATAAATATTATTA-A-TA
1 ATAAATAATATTATATTA
* * *
15291630 GATATATATTAATATATTA
1 -ATAAATAATATTATATTA
15291649 ATAAATAATAT
1 ATAAATAATAT
15291660 AAGGAATAAT
Statistics
Matches: 228, Mismatches: 35, Indels: 48
0.73 0.11 0.15
Matches are distributed among these distances:
13 3 0.01
14 9 0.04
15 19 0.08
16 18 0.08
17 28 0.12
18 126 0.55
19 17 0.07
20 8 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:15291430 original size:15 final size:15
Alignment explanation
Indices: 15291383--15291660 Score: 135
Period size: 15 Copynumber: 17.6 Consensus size: 15
15291373 ATAAATAAAT
*
15291383 AATATTATATTAATA
1 AATAATATATTAATA
*
15291398 AAT-A-ACATT-ATA
1 AATAATATATTAATA
*
15291410 TTATAATATATTAATA
1 -AATAATATATTAATA
15291426 AATAATATAATATGAATA
1 AATAATAT-AT-T-AATA
* *
15291444 AATAATATACTATTA
1 AATAATATATTAATA
*
15291459 ATATAATATATAAATA
1 A-ATAATATATTAATA
15291475 AATAATATTATATTAATGAA
1 AAT-A-A-TATATTAAT--A
* *
15291495 TAATATTATATTAGTA
1 -AATAATATATTAATA
* *
15291511 AATCATATATAAATAA
1 AATAATATATTAAT-A
*
15291527 TAATATTATATTAATA
1 -AATAATATATTAATA
*
15291543 AATAATATTATATTAGTA
1 AAT-A-A-TATATTAATA
*
15291561 AATCATATATTAATA
1 AATAATATATTAATA
15291576 AAT-A-ATA-T--T-
1 AATAATATATTAATA
15291585 -ATAATATATTAATA
1 AATAATATATTAATA
15291599 AATAATACACTATTAATA
1 AATAAT--A-TATTAATA
* *
15291617 AATATTATTAATAGATA
1 AATAATA-TATTA-ATA
15291634 TATATTAATATATTAATA
1 -A-A-TAATATATTAATA
15291652 AATAATATA
1 AATAATATA
15291661 AGGAATAATA
Statistics
Matches: 201, Mismatches: 29, Indels: 66
0.68 0.10 0.22
Matches are distributed among these distances:
8 2 0.01
9 1 0.00
10 4 0.02
11 1 0.00
12 4 0.02
13 10 0.05
14 2 0.01
15 57 0.28
16 30 0.15
17 19 0.09
18 57 0.28
19 5 0.02
20 6 0.03
21 3 0.01
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:15291448 original size:50 final size:51
Alignment explanation
Indices: 15291369--15291661 Score: 237
Period size: 50 Copynumber: 5.7 Consensus size: 51
15291359 ATAATATTAC
* *
15291369 ATTAATAAATAA-ATAATATTATATTAATAA-ATAACATTA-TATTATAATAT
1 ATTAATAAATAATATAATATTA-ATAAATAATATAACATTAGTA-AATAATAT
* *
15291419 ATTAATAAATAATATAATATGAATAAATAATAT-ACTATTA--ATATAATAT
1 ATTAATAAATAATATAATATTAATAAATAATATAAC-ATTAGTAAATAATAT
* * * * * *
15291468 ATAAATAAATAATATTATATTAATGAATAATATTATATTAGTAAATCATAT
1 ATTAATAAATAATATAATATTAATAAATAATATAACATTAGTAAATAATAT
* * * * *
15291519 ATAAAT-AATAATATTATATTAATAAATAATATTATATTAGTAAATCATAT
1 ATTAATAAATAATATAATATTAATAAATAATATAACATTAGTAAATAATAT
* *
15291569 ATTAATAAATAATATTATAATATATTAATAAATAATA-CACTATTAATAAAT-AT-T
1 ATTAATAAAT-A-A-TAT-A-ATATTAATAAATAATATAAC-ATTAGTAAATAATAT
*
15291623 ATTAATAGATATATATTAATATATTAATAAATAATATAA
1 ATTAATAAATA-ATA-T-A-ATATTAATAAATAATATAA
15291662 GGAATAATAA
Statistics
Matches: 211, Mismatches: 17, Indels: 26
0.83 0.07 0.10
Matches are distributed among these distances:
49 41 0.19
50 71 0.34
51 30 0.14
52 3 0.01
53 24 0.11
54 14 0.07
55 3 0.01
56 25 0.12
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (51 bp):
ATTAATAAATAATATAATATTAATAAATAATATAACATTAGTAAATAATAT
Found at i:15291460 original size:29 final size:27
Alignment explanation
Indices: 15291428--15291546 Score: 81
Period size: 29 Copynumber: 4.4 Consensus size: 27
15291418 TATTAATAAA
15291428 TAATATAATATGAATAAATAATATACTAT
1 TAATATAATATGAAT-AATAATATA-TAT
15291457 TAATATAATAT--ATAAATAA-ATAATAT
1 TAATATAATATGAAT-AATAATAT-ATAT
* * *
15291483 T-ATATTA-ATGAATAATATTATATTAG
1 TAATATAATATGAATAATAATATA-TAT
*
15291509 TAA-ATCATATATAAATAATAATATTATAT
1 TAATAT-A-ATATGAATAATAATA-TATAT
15291538 TAATA-AATA
1 TAATATAATA
15291547 ATATTATATT
Statistics
Matches: 72, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
24 2 0.03
25 10 0.14
26 15 0.21
27 13 0.18
28 2 0.03
29 27 0.38
30 3 0.04
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (27 bp):
TAATATAATATGAATAATAATATATAT
Found at i:15291490 original size:117 final size:117
Alignment explanation
Indices: 15291355--15291588 Score: 278
Period size: 117 Copynumber: 2.0 Consensus size: 117
15291345 AATTTTACTT
* *
15291355 ATAAATAATATTACATTAATAAATAA-ATAATATTA-T-ATTAATAAATAACATTATATTATAAT
1 ATAAATAATATTACATTAATAAATAATATAATATTAGTAAATAATAAATAA-A-TA-ATAATAAT
*
15291417 ATATTAATAAATAATATAATATGAATAAATAATATACTATTAATATAATA-TATAA
63 ATATTAATAAATAATATAATATGAATAAATAATATACTAATAA-ATAATATTATAA
* * * * * *
15291472 ATAAATAATATTATATTAATGAATAATATTATATTAGTAAATCATATATAAATAATAATATTATA
1 ATAAATAATATTACATTAATAAATAATATAATATTAGTAAATAATAAATAAATAATAATAATATA
* * * * *
15291537 TTAATAAATAATATTATATTAGTAAATCATATATTAATAAATAATATTATAA
66 TTAATAAATAATATAATATGAATAAATAATATACTAATAAATAATATTATAA
15291589 TATATTAATA
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
116 6 0.06
117 72 0.73
118 10 0.10
119 2 0.02
120 9 0.09
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (117 bp):
ATAAATAATATTACATTAATAAATAATATAATATTAGTAAATAATAAATAAATAATAATAATATA
TTAATAAATAATATAATATGAATAAATAATATACTAATAAATAATATTATAA
Found at i:15291534 original size:32 final size:33
Alignment explanation
Indices: 15291416--15291587 Score: 118
Period size: 33 Copynumber: 5.1 Consensus size: 33
15291406 TATATTATAA
* *
15291416 TATATTAATAAATAATATA-ATATGAATAAATAA
1 TATATTAATAAATAATATATAAATGAAT-AATAT
* * *
15291449 TATACTATTAATATAATATATAAATAAATAATAT
1 TATATTAATAA-ATAATATATAAATGAATAATAT
* * * *
15291483 TATATTAATGAATAATAT-TATATTAGTAA-AT
1 TATATTAATAAATAATATATAAATGAATAATAT
* *
15291514 CATATATAA-ATAATAATATTATATTAATAAATAATAT
1 TATAT-TAATA-AATAATA-TATA--AATGAATAATAT
* * * *
15291551 TATATTAGTAAATCATATATTAATAAATAATAT
1 TATATTAATAAATAATATATAAATGAATAATAT
15291584 TATA
1 TATA
15291588 ATATATTAAT
Statistics
Matches: 109, Mismatches: 20, Indels: 20
0.73 0.13 0.13
Matches are distributed among these distances:
31 6 0.06
32 18 0.17
33 33 0.30
34 22 0.20
35 9 0.08
36 14 0.13
37 7 0.06
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (33 bp):
TATATTAATAAATAATATATAAATGAATAATAT
Found at i:15291572 original size:38 final size:37
Alignment explanation
Indices: 15291416--15291659 Score: 150
Period size: 35 Copynumber: 7.0 Consensus size: 37
15291406 TATATTATAA
* * *
15291416 TATATTAATAAATA-ATATAATATGAATAAATAATA-
1 TATATTAGTAAATATATATTATATTAATAAATAATAT
*
15291451 TACTA-T--T-AATATA-A-TATATAAATAAATAATAT
1 TA-TATTAGTAAATATATATTATATTAATAAATAATAT
* * * *
15291483 TATATTAATGAATA-ATATTATATTAGTAAATCATA-
1 TATATTAGTAAATATATATTATATTAATAAATAATAT
*
15291518 TATA--AAT-AATA-ATATTATATTAATAAATAATAT
1 TATATTAGTAAATATATATTATATTAATAAATAATAT
* * *
15291551 TATATTAGTAAATCATATATTA-ATAAATAATATTATAA
1 TATATTAGTAAAT-ATATATTATATTAATAA-ATAATAT
* * *
15291589 TATATTAATAAATA-ATA-CACTATTAATAAATATTAT
1 TATATTAGTAAATATATATTA-TATTAATAAATAATAT
* *
15291625 TA-A-TAG-ATATATATTAATATATTAATAAATAATAT
1 TATATTAGTAAATATA-TATTATATTAATAAATAATAT
15291660 AAGGAATAAT
Statistics
Matches: 167, Mismatches: 21, Indels: 42
0.73 0.09 0.18
Matches are distributed among these distances:
31 17 0.10
32 31 0.19
33 13 0.08
34 5 0.03
35 33 0.20
36 29 0.17
37 16 0.10
38 23 0.14
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (37 bp):
TATATTAGTAAATATATATTATATTAATAAATAATAT
Found at i:15291767 original size:15 final size:15
Alignment explanation
Indices: 15291734--15291786 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
15291724 CTATTATTAA
*
15291734 AATA-TAATTATTTT
1 AATATTAATAATTTT
15291748 GAATATTAATAATTTT
1 -AATATTAATAATTTT
*
15291764 AATAATAAATAATTTTT
1 AAT-ATTAATAA-TTTT
15291781 AATATT
1 AATATT
15291787 TTAATAGGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 7 0.22
16 18 0.56
17 7 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AATATTAATAATTTT
Found at i:15291785 original size:32 final size:35
Alignment explanation
Indices: 15291703--15291786 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 35
15291693 TTATATTAAC
*
15291703 ATAATATTTTAATGTTAAATACTATTATTAAAATATA
1 ATAAT-TTTTAATATTAAATAC-ATTATTAAAATATA
* *
15291740 ATTATTTTGAATATT-AATA-ATT-TTAATAATA-A
1 ATAATTTTTAATATTAAATACATTATTAA-AATATA
15291772 ATAATTTTTAATATT
1 ATAATTTTTAATATT
15291787 TTAATAGGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
32 18 0.44
33 7 0.17
35 4 0.10
36 8 0.20
37 4 0.10
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.50
Consensus pattern (35 bp):
ATAATTTTTAATATTAAATACATTATTAAAATATA
Found at i:15291932 original size:14 final size:14
Alignment explanation
Indices: 15291913--15291946 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
15291903 ATATAAATAA
15291913 TTTTTAAAAATTAT
1 TTTTTAAAAATTAT
*
15291927 TTTTTAAAAGTTAT
1 TTTTTAAAAATTAT
15291941 TTTTTA
1 TTTTTA
15291947 CGAAACAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTTTAAAAATTAT
Found at i:15292409 original size:47 final size:47
Alignment explanation
Indices: 15292340--15292431 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
15292330 TAAATAAAAT
*
15292340 TATTATATTCTAATCTTTACACATATCAAATATAATATAAGATGACA
1 TATTATATTCTAATCTTTACACATATCAAATACAATATAAGATGACA
*
15292387 TATTATATTCTAAT-TCTTACACATATCAAATACAATATAGGATGA
1 TATTATATTCTAATCT-TTACACATATCAAATACAATATAAGATGA
15292432 TATTATTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
46 1 0.02
47 41 0.98
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.38
Consensus pattern (47 bp):
TATTATATTCTAATCTTTACACATATCAAATACAATATAAGATGACA
Found at i:15293415 original size:12 final size:12
Alignment explanation
Indices: 15293394--15293425 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
15293384 TTTCATATTT
15293394 AAAT-TTTTAAA
1 AAATATTTTAAA
15293405 AAATATTTT-AA
1 AAATATTTTAAA
15293416 AAATATTTTA
1 AAATATTTTA
15293426 GATTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATATTTTAAA
Found at i:15293795 original size:30 final size:30
Alignment explanation
Indices: 15293761--15293831 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
15293751 TTCTTTACAT
15293761 AAATGGTCACTTAGCTATAAG-GTTATTTTA
1 AAATGGTCACTTAGCTAT-AGTGTTATTTTA
15293791 AAATGGTCACTTAGCTATAGTGTTATTTTA
1 AAATGGTCACTTAGCTATAGTGTTATTTTA
15293821 AAATGGTCACT
1 AAATGGTCACT
15293832 AAAATATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 2 0.05
30 38 0.95
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (30 bp):
AAATGGTCACTTAGCTATAGTGTTATTTTA
Found at i:15293818 original size:256 final size:259
Alignment explanation
Indices: 15293535--15294014 Score: 867
Period size: 257 Copynumber: 1.9 Consensus size: 259
15293525 TAAATTACAT
* *
15293535 AAATGGTCATTTTGCTATAGGGTTATTTTAAAATGCTCACTAAAATATTAAAATTTTTAATTTAG
1 AAATGGTCACTTAGCTATAGGGTTATTTTAAAATGCTCACTAAAATATTAAAATTTTTAATTTAG
15293600 TCACTAATGTTTGAATTAGTG-TTTTTTTTAGTTAATTTAATGTTAAATTGTAACATCTATCTAA
66 TCACTAATGTTTGAATTAGTGTTTTTTTTTAGTTAATTTAATGTTAAATTGTAACATCTATCTAA
* *
15293664 CATTGCTTAACCTATTAAATACGGTCAATTCCACATCATACATTTTTTTCACATCACATAAAATT
131 CATTGCTTAACCTATCAAATACGGTCAATTCCACATCATACATTTTTTTCACATCACACAAAATT
15293729 ACAAC-TTTTTTTTA-TTTGTTCCTTCTTTACATAAATGGTCACTTAGCTATAAGGTTATTTTA
196 ACAACTTTTTTTTTATTTTGTTCCTTCTTTACATAAATGGTCACTTAGCTATAAGGTTATTTTA
* *
15293791 AAATGGTCACTTAGCTATAGTGTTATTTTAAAATGGTCACTAAAATATTAAAATTTTTAATTTAG
1 AAATGGTCACTTAGCTATAGGGTTATTTTAAAATGCTCACTAAAATATTAAAATTTTTAATTTAG
15293856 TCACTAATGTTTGAATTAGTGTTTTTTTTTAGTTAATTTAATGTTAAATTGTAACATCTATCTAA
66 TCACTAATGTTTGAATTAGTGTTTTTTTTTAGTTAATTTAATGTTAAATTGTAACATCTATCTAA
*
15293921 CATTGCTTAACCTATCAAATACGGTCAATTCCACATCATACATTTTTTTCACTTCACACAAAATT
131 CATTGCTTAACCTATCAAATACGGTCAATTCCACATCATACATTTTTTTCACATCACACAAAATT
*
15293986 ACAACTTTTTTTTTATTTTTTTCCTTCTT
196 ACAACTTTTTTTTTATTTTGTTCCTTCTT
15294015 ATCTATTTTT
Statistics
Matches: 213, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
256 82 0.38
257 110 0.52
258 9 0.04
259 12 0.06
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (259 bp):
AAATGGTCACTTAGCTATAGGGTTATTTTAAAATGCTCACTAAAATATTAAAATTTTTAATTTAG
TCACTAATGTTTGAATTAGTGTTTTTTTTTAGTTAATTTAATGTTAAATTGTAACATCTATCTAA
CATTGCTTAACCTATCAAATACGGTCAATTCCACATCATACATTTTTTTCACATCACACAAAATT
ACAACTTTTTTTTTATTTTGTTCCTTCTTTACATAAATGGTCACTTAGCTATAAGGTTATTTTA
Found at i:15294054 original size:30 final size:29
Alignment explanation
Indices: 15293991--15294065 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 29
15293981 AAATTACAAC
*
15293991 TTTTTTTTTATTTTTTTCCTTCTTATCTA
1 TTTTTTTTTATTCTTTTCCTTCTTATCTA
*
15294020 TTTTTTTCTTATTCTTTT-CTGT-TTAT-TC
1 TTTTTTT-TTATTCTTTTCCT-TCTTATCTA
15294048 TTTTTTTTTACTTCTTTT
1 TTTTTTTTTA-TTCTTTT
15294066 TTTTTTCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 3 0.07
28 15 0.37
29 13 0.32
30 10 0.24
ACGTcount: A:0.08, C:0.13, G:0.01, T:0.77
Consensus pattern (29 bp):
TTTTTTTTTATTCTTTTCCTTCTTATCTA
Found at i:15294065 original size:13 final size:12
Alignment explanation
Indices: 15294021--15294076 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 12
15294011 TCTTATCTAT
15294021 TTTTTTCTTATTC
1 TTTTTT-TTATTC
15294034 TTTTCTGTTTATTC
1 TTTT-T-TTTATTC
15294048 TTTTTTTTTACTTC
1 -TTTTTTTTA-TTC
15294062 TTTTTTTT-TTC
1 TTTTTTTTATTC
15294073 TTTT
1 TTTT
15294077 CCTCTGGTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
11 7 0.18
13 16 0.41
14 11 0.28
15 5 0.13
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTTTTATTC
Found at i:15294066 original size:29 final size:30
Alignment explanation
Indices: 15293990--15294066 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 30
15293980 AAAATTACAA
15293990 CTTTTTTTTTATT-TTTTTCCTTCTTATCT
1 CTTTTTTTTTATTCTTTTTCCTTCTTATCT
*
15294019 ATTTTTTTCTTATTC-TTTT-CTGT-TTAT-T
1 CTTTTTTT-TTATTCTTTTTCCT-TCTTATCT
15294047 CTTTTTTTTTACTTCTTTTT
1 CTTTTTTTTTA-TTCTTTTT
15294067 TTTTTCTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
27 3 0.07
28 11 0.27
29 17 0.41
30 10 0.24
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.77
Consensus pattern (30 bp):
CTTTTTTTTTATTCTTTTTCCTTCTTATCT
Found at i:15294633 original size:30 final size:31
Alignment explanation
Indices: 15294599--15294664 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
15294589 GTAGTTCAAT
**
15294599 TTATTTT-TAATGAACTTTGGTTGCAAAA-GA
1 TTATTTTGTAATGAAC-TTGGTACCAAAAGGA
15294629 TTATTTTGTAATGAACTTGGTACCAAAAGGA
1 TTATTTTGTAATGAACTTGGTACCAAAAGGA
15294660 TTATT
1 TTATT
15294665 ATTATCAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (31 bp):
TTATTTTGTAATGAACTTGGTACCAAAAGGA
Found at i:15295111 original size:21 final size:21
Alignment explanation
Indices: 15295081--15295125 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15295071 TTAGTATCAT
* *
15295081 AAACTTTTTATCAACAAAAAG
1 AAACTCTTTAGCAACAAAAAG
**
15295102 AAACTCTTTAGCAATTAAAAG
1 AAACTCTTTAGCAACAAAAAG
15295123 AAA
1 AAA
15295126 AAAAAAACCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (21 bp):
AAACTCTTTAGCAACAAAAAG
Found at i:15299298 original size:19 final size:20
Alignment explanation
Indices: 15299262--15299299 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15299252 ATTATTGAAC
*
15299262 TTGTAAAAGCATAAAAGAAT
1 TTGTAAAACCATAAAAGAAT
15299282 TTGTAAAACCA-AAAAGAA
1 TTGTAAAACCATAAAAGAA
15299300 ATAAAGAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (20 bp):
TTGTAAAACCATAAAAGAAT
Found at i:15302387 original size:15 final size:15
Alignment explanation
Indices: 15302369--15302424 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 15
15302359 AGAAAATGAC
*
15302369 TAAAAAGAAAAAAAT
1 TAAAAATAAAAAAAT
*
15302384 TAAAAAT-TAAAAAT
1 TAAAAATAAAAAAAT
*
15302398 T-AAAATAATAAAAT
1 TAAAAATAAAAAAAT
*
15302412 AAAAAATAAAAAA
1 TAAAAATAAAAAA
15302425 GAAAAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 5 0.15
14 12 0.36
15 16 0.48
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (15 bp):
TAAAAATAAAAAAAT
Found at i:15302424 original size:7 final size:7
Alignment explanation
Indices: 15302377--15302431 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
15302367 ACTAAAAAGA
15302377 AAAAAAT
1 AAAAAAT
*
15302384 TAAAAAT
1 AAAAAAT
*
15302391 TAAAAAT
1 AAAAAAT
*
15302398 -TAAAAT
1 AAAAAAT
15302404 AATAAAAT
1 AA-AAAAT
15302412 AAAAAAT
1 AAAAAAT
*
15302419 AAAAAAG
1 AAAAAAT
15302426 AAAAAA
1 AAAAAA
15302432 AAAGTTCAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 5 0.12
7 30 0.71
8 7 0.17
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (7 bp):
AAAAAAT
Done.