Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 67 of 129
Found at i:10335601 original size:108 final size:110
Alignment explanation
Indices: 10335477--10335742 Score: 331
Period size: 108 Copynumber: 2.4 Consensus size: 110
10335467 ATAGAAAAAT
* * *
10335477 AAAAAAATAGAAAATATTTTTAAATTGACCCAAATGGTGGAAACTTTAGAAATCCAACAAA-AAA
1 AAAAAAA-AAAAAATATTTCTAAATTGACCCAAATGGTGGAAAATTTAGAAATCCAACAAACAAA
* * *
10335541 AAGAGAATTTTTAAATAGGCCCAAATGATGGAAAA-CTTAGAAATT-
65 AAGAGAAATTCTAAATAGGCCCAAATGAT-GAAAATCTTAAAAATTC
*** * * *
10335586 TTGAAAAAAAAAATATTTCTAAATTGACCCAAATGATGAAAAATTTAGAAATCCAACAAACAAAG
1 AAAAAAAAAAAAATATTTCTAAATTGACCCAAATGGTGGAAAATTTAGAAATCCAACAAACAAAA
* *
10335651 AGAGAAATTCTAAATAGGCCCAAATGGTGAAAATTTTAAAAATTC
66 AGAGAAATTCTAAATAGGCCCAAATGATGAAAATCTTAAAAATTC
* *
10335696 AAAAAAAAAAGAAATATTTCTAATTTGACCCAAATTGTGGAATAATT
1 AAAAAAAAAA-AAATATTTCTAAATTGACCCAAATGGTGGAA-AATT
10335743 AGATATATTT
Statistics
Matches: 131, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
108 53 0.40
109 40 0.31
110 7 0.05
111 27 0.21
112 4 0.03
ACGTcount: A:0.52, C:0.11, G:0.12, T:0.26
Consensus pattern (110 bp):
AAAAAAAAAAAAATATTTCTAAATTGACCCAAATGGTGGAAAATTTAGAAATCCAACAAACAAAA
AGAGAAATTCTAAATAGGCCCAAATGATGAAAATCTTAAAAATTC
Found at i:10335676 original size:56 final size:55
Alignment explanation
Indices: 10335505--10335718 Score: 186
Period size: 56 Copynumber: 3.9 Consensus size: 55
10335495 TTTAAATTGA
* * * * *
10335505 CCCAAATGGTGGAAACTTTAGAAATCCAACAAAAAAAAGAGAATTTTTAAATAGG
1 CCCAAATGATGAAAAATTTAGAAATCCAACAAAAAAGAGAGAATTTCTAAATAGG
* * ** * * *
10335560 CCCAAATGATGGAAAACTTAGAAATTTTGAA-AAAAAA-A-A-TATTTCTAAATTGA
1 CCCAAATGATGAAAAATTTAGAAA--TCCAACAAAAAAGAGAGAATTTCTAAATAGG
*
10335613 CCCAAATGATGAAAAATTTAGAAATCCAACAAACAAAGAGAGAAATTCTAAATAGG
1 CCCAAATGATGAAAAATTTAGAAATCCAACAAA-AAAGAGAGAATTTCTAAATAGG
* * * * * *
10335669 CCCAAATGGTGAAAATTTTAAAAATTCAA-AAAAAAAAGAAATATTTCTAA
1 CCCAAATGATGAAAAATTTAGAAATCCAACAAAAAAGAGAGA-ATTTCTAA
10335719 TTTGACCCAA
Statistics
Matches: 127, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
51 3 0.02
52 3 0.02
53 35 0.28
54 9 0.07
55 33 0.26
56 41 0.32
57 3 0.02
ACGTcount: A:0.52, C:0.12, G:0.13, T:0.23
Consensus pattern (55 bp):
CCCAAATGATGAAAAATTTAGAAATCCAACAAAAAAGAGAGAATTTCTAAATAGG
Found at i:10337703 original size:46 final size:46
Alignment explanation
Indices: 10337621--10337742 Score: 203
Period size: 46 Copynumber: 2.7 Consensus size: 46
10337611 CAAATAAGTC
*
10337621 ATTACACATATAAGCATAT-AATTATTTATTAATAACAATCAAATT
1 ATTACTCATATAAGCATATCAATTATTTATTAATAACAATCAAATT
10337666 ATTACTCATATAAGCATATCAATTATTTATTAATAACAATCAAATT
1 ATTACTCATATAAGCATATCAATTATTTATTAATAACAATCAAATT
*
10337712 ATTA-TGCACATAAGCATATCAATTATTTATT
1 ATTACT-CATATAAGCATATCAATTATTTATT
10337743 TTATGTATTT
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
45 19 0.26
46 54 0.74
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.39
Consensus pattern (46 bp):
ATTACTCATATAAGCATATCAATTATTTATTAATAACAATCAAATT
Found at i:10337741 original size:25 final size:23
Alignment explanation
Indices: 10337630--10337741 Score: 103
Period size: 22 Copynumber: 4.9 Consensus size: 23
10337620 CATTACACAT
*
10337630 ATAAGCATAT-AATTATTTATTA
1 ATAAGCATATCAATTATTTATCA
10337652 ATAA-CA-ATCAAATTA-TTACTCA
1 ATAAGCATATC-AATTATTTA-TCA
*
10337674 TATAAGCATATCAATTATTTATTA
1 -ATAAGCATATCAATTATTTATCA
10337698 ATAA-CA-ATCAAATTA-TTATGCA
1 ATAAGCATATC-AATTATTTAT-CA
10337720 CATAAGCATATCAATTATTTAT
1 -ATAAGCATATCAATTATTTAT
10337742 TTTATGTATT
Statistics
Matches: 74, Mismatches: 3, Indels: 23
0.74 0.03 0.23
Matches are distributed among these distances:
20 2 0.03
21 12 0.16
22 19 0.26
23 12 0.16
24 16 0.22
25 13 0.18
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.39
Consensus pattern (23 bp):
ATAAGCATATCAATTATTTATCA
Found at i:10342288 original size:21 final size:21
Alignment explanation
Indices: 10342262--10342305 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
10342252 TAAAAACATC
10342262 TTAAATAATCTTGTTCAATTT
1 TTAAATAATCTTGTTCAATTT
*
10342283 TTAAATAATCTTTTTCAATTT
1 TTAAATAATCTTGTTCAATTT
10342304 TT
1 TT
10342306 TTAAAGATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (21 bp):
TTAAATAATCTTGTTCAATTT
Found at i:10342340 original size:83 final size:83
Alignment explanation
Indices: 10342200--10342354 Score: 181
Period size: 83 Copynumber: 1.9 Consensus size: 83
10342190 AAAAAATGTC
* * *** * *
10342200 TTAAATAATTTTGTTCAATTTTTTATTAGGATTATTTAAGGTGTTTTCAGGCTAAAAACATCTTA
1 TTAAATAATTTTGTTCAATTTTTTATAAAGATTATTTAAGACATTTTCAGGCTAAAAACACCGTA
10342265 AATAATCTTGTTCAATTT
66 AATAATCTTGTTCAATTT
* *
10342283 TTAAATAATCTTT-TTCAATTTTTT-TAAAGATTATTTAAGACATTTT-TGGCTAAAAAAATACC
1 TTAAATAAT-TTTGTTCAATTTTTTATAAAGATTATTTAAGACATTTTCAGGCT--AAAAACACC
10342345 GTAAATAATC
63 GTAAATAATC
10342355 CTTAAAAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
81 4 0.07
82 17 0.28
83 36 0.60
84 3 0.05
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (83 bp):
TTAAATAATTTTGTTCAATTTTTTATAAAGATTATTTAAGACATTTTCAGGCTAAAAACACCGTA
AATAATCTTGTTCAATTT
Found at i:10342914 original size:62 final size:61
Alignment explanation
Indices: 10342844--10343013 Score: 209
Period size: 62 Copynumber: 2.7 Consensus size: 61
10342834 TTTTTAAGAT
* **
10342844 AAATACCTTAAATAATCTCCTTTAAAAAAATTAGAGATTATTTAAGGTATTTTTTTTGTCAA
1 AAATACCTTAAATAATCTCTTTTAAAAAAATTAGAGATTATTTAAGG-ATTTTTTTTACCAA
* * * *
10342906 AAATACCTTAAATAATAT-TTTTCAAAAAATTGAAGAGATTATTTAATGCTTTTTTTTACCAA
1 AAATACCTTAAATAATCTCTTTTAAAAAAATT--AGAGATTATTTAAGGATTTTTTTTACCAA
10342968 AAATACCTTAAATAATC-CATTTTAAAAAAATATTAGAGATTATTTA
1 AAATACCTTAAATAATCTC-TTTT-AAAAAA-ATTAGAGATTATTTA
10343014 TGATGTTTTT
Statistics
Matches: 93, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
61 11 0.12
62 44 0.47
63 30 0.32
64 5 0.05
65 3 0.03
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (61 bp):
AAATACCTTAAATAATCTCTTTTAAAAAAATTAGAGATTATTTAAGGATTTTTTTTACCAA
Found at i:10342933 original size:122 final size:124
Alignment explanation
Indices: 10342782--10343013 Score: 287
Period size: 122 Copynumber: 1.9 Consensus size: 124
10342772 CTTTTCGTAA
* * *
10342782 AAAAATACCTTAAATAATACAGTCTAAAAAGTGAA-AGGTATTATTTAA-GAC-TTTTTTAAGAT
1 AAAAATACCTTAAATAATACAGTCAAAAAAGTGAAGA-G-ATTATTTAATG-CTTTTTTTAACAA
10342844 AAATACCTTAAATAATCTC-CTTT-AAAAAA-ATTAGAGATTATTTAAGGTATTTTTTTTGTC
63 AAATACCTTAAATAATC-CACTTTAAAAAAATATTAGAGATTATTTAAGGTATTTTTTTTGTC
*** * *
10342904 AAAAATACCTTAAATAATATTTTTCAAAAAATTGAAGAGATTATTTAATGCTTTTTTTTACCAAA
1 AAAAATACCTTAAATAATA-CAGTCAAAAAAGTGAAGAGATTATTTAATGC-TTTTTTTAACAAA
*
10342969 AATACCTTAAATAATCCATTTTAAAAAAATATTAGAGATTATTTA
64 AATACCTTAAATAATCCACTTTAAAAAAATATTAGAGATTATTTA
10343014 TGATGTTTTT
Statistics
Matches: 93, Mismatches: 9, Indels: 12
0.82 0.08 0.11
Matches are distributed among these distances:
122 29 0.31
123 14 0.15
124 29 0.31
125 6 0.06
126 15 0.16
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (124 bp):
AAAAATACCTTAAATAATACAGTCAAAAAAGTGAAGAGATTATTTAATGCTTTTTTTAACAAAAA
TACCTTAAATAATCCACTTTAAAAAAATATTAGAGATTATTTAAGGTATTTTTTTTGTC
Found at i:10343031 original size:62 final size:61
Alignment explanation
Indices: 10342782--10343047 Score: 199
Period size: 62 Copynumber: 4.3 Consensus size: 61
10342772 CTTTTCGTAA
* * * * * * * *
10342782 AAAAATACCTTAAATAATACAGTCTAAAAAGTGA-AAG-GTATTATTTAA-GACTTTTTTAAG
1 AAAAATACCTTAAATAATCCATTTTAAAAAAT-ATTAGAG-ATTATTTAATGATTTTTTTGAC
* * * *
10342842 ATAAATACCTTAAATAATCTC-CTTTAAAAAA-ATTAGAGATTATTTAAGGTATTTTTTTTGTC
1 AAAAATACCTTAAATAATC-CATTTTAAAAAATATTAGAGATTATTTAATG-A-TTTTTTTGAC
* * *
10342904 AAAAATACCTTAAATAAT--ATTTTTCAAAAAAT-TGAAGAGATTATTTAATGCTTTTTTTTACC
1 AAAAATACCTTAAATAATCCA-TTTT-AAAAAATAT-TAGAGATTATTTAATGATTTTTTTGA-C
*
10342966 AAAAATACCTTAAATAATCCATTTTAAAAAAATATTAGAGATTATTT-ATGATGTTTTTGGAC
1 AAAAATACCTTAAATAATCCATTTT-AAAAAATATTAGAGATTATTTAATGAT-TTTTTTGAC
***
10343028 AAAAAGGTCTTAAATAATCC
1 AAAAATACCTTAAATAATCC
10343048 CCTCATATTT
Statistics
Matches: 165, Mismatches: 25, Indels: 30
0.75 0.11 0.14
Matches are distributed among these distances:
58 1 0.01
59 11 0.07
60 26 0.16
61 12 0.07
62 71 0.43
63 42 0.25
64 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.38
Consensus pattern (61 bp):
AAAAATACCTTAAATAATCCATTTTAAAAAATATTAGAGATTATTTAATGATTTTTTTGAC
Found at i:10345738 original size:22 final size:22
Alignment explanation
Indices: 10345690--10345738 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
10345680 TATGATAATT
*
10345690 ATTCAAGAATTAATATATATGA
1 ATTCTAGAATTAATATATATGA
10345712 ATTCTAGAATTAATATATATGA
1 ATTCTAGAATTAATATATATGA
10345734 ATTCT
1 ATTCT
10345739 TTCCAATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (22 bp):
ATTCTAGAATTAATATATATGA
Found at i:10345822 original size:17 final size:17
Alignment explanation
Indices: 10345800--10345844 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
10345790 AACTTCAGGT
*
10345800 ATCACACTTTTTCGGAG
1 ATCACACTTTTTCAGAG
*
10345817 ATCACA-TCTTTTCAGAT
1 ATCACACT-TTTTCAGAG
10345834 ATCACACTTTT
1 ATCACACTTTT
10345845 ACTTGGAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 1 0.04
17 22 0.92
18 1 0.04
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (17 bp):
ATCACACTTTTTCAGAG
Found at i:10347196 original size:42 final size:43
Alignment explanation
Indices: 10347136--10347217 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
10347126 ATTAGGTGAA
* * *
10347136 TTTTTTGTTCCATGTTTGTTACACGT-AAATAATTTACATAAT
1 TTTTTTGTTACATATTTGTTACACATAAAATAATTTACATAAT
*
10347178 TTTTTTGTTACATATTTGTTGCACATAAAATAATTTACAT
1 TTTTTTGTTACATATTTGTTACACATAAAATAATTTACAT
10347218 GAATACCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 22 0.63
43 13 0.37
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (43 bp):
TTTTTTGTTACATATTTGTTACACATAAAATAATTTACATAAT
Found at i:10349076 original size:14 final size:14
Alignment explanation
Indices: 10349057--10349085 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10349047 CTGTGAAAGC
10349057 CTGCTACCGTGAAG
1 CTGCTACCGTGAAG
10349071 CTGCTACCGTGAAG
1 CTGCTACCGTGAAG
10349085 C
1 C
10349086 CGGCGTCGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.31, G:0.28, T:0.21
Consensus pattern (14 bp):
CTGCTACCGTGAAG
Found at i:10350055 original size:22 final size:22
Alignment explanation
Indices: 10350010--10350057 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
10350000 TTTCCCCACC
*
10350010 TTTGAGGGTGTTCATAAGAAAAT
1 TTTGAGGGTGTCCAT-AGAAAAT
10350033 TTTGAGGGTGTCCACT-GAAAAT
1 TTTGAGGGTGTCCA-TAGAAAAT
10350055 TTT
1 TTT
10350058 ACTTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 13 0.57
24 1 0.04
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (22 bp):
TTTGAGGGTGTCCATAGAAAAT
Found at i:10351663 original size:28 final size:28
Alignment explanation
Indices: 10351623--10351699 Score: 136
Period size: 28 Copynumber: 2.8 Consensus size: 28
10351613 AATTTGATTT
*
10351623 TTTATTATTATATAATAAATAAATAAAG
1 TTTATTATTATATAATAAATAAATAAAA
10351651 TTTATTATTATATAATAAATAAATAAAA
1 TTTATTATTATATAATAAATAAATAAAA
*
10351679 TTTATTATTATATAATTAATA
1 TTTATTATTATATAATAAATA
10351700 TGAATTAACT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (28 bp):
TTTATTATTATATAATAAATAAATAAAA
Found at i:10353953 original size:2 final size:2
Alignment explanation
Indices: 10353948--10353972 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10353938 GGCATCCCTT
10353948 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
10353973 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10355184 original size:2 final size:2
Alignment explanation
Indices: 10355179--10355207 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10355169 TAGTAGTTTG
10355179 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
10355208 TTAATAAAAA
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:10358945 original size:21 final size:22
Alignment explanation
Indices: 10358919--10358959 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10358909 AATGATGAAG
10358919 GAAATTATATTTT-TTTTGTTA
1 GAAATTATATTTTATTTTGTTA
* *
10358940 GAAATTTTTTTTTATTTTGT
1 GAAATTATATTTTATTTTGT
10358960 AATATCTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (22 bp):
GAAATTATATTTTATTTTGTTA
Found at i:10361467 original size:46 final size:47
Alignment explanation
Indices: 10361404--10361497 Score: 156
Period size: 46 Copynumber: 2.0 Consensus size: 47
10361394 TTTTTAAGTC
*
10361404 TTTGAAAAGTTTCTCTCATTAGAGGTTTTATAACTTTTGAAAATAAA
1 TTTGAAAAGTTTCTCTCATTAGAGGTTTCATAACTTTTGAAAATAAA
10361451 TTTG-AAAG-TTCATCTCATTAGAGGTTTCATAACTTTTGAAAATAAA
1 TTTGAAAAGTTTC-TCTCATTAGAGGTTTCATAACTTTTGAAAATAAA
10361497 T
1 T
10361498 ATAAAAGCTG
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
45 3 0.07
46 38 0.84
47 4 0.09
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (47 bp):
TTTGAAAAGTTTCTCTCATTAGAGGTTTCATAACTTTTGAAAATAAA
Found at i:10361531 original size:46 final size:45
Alignment explanation
Indices: 10361417--10361531 Score: 122
Period size: 46 Copynumber: 2.5 Consensus size: 45
10361407 GAAAAGTTTC
* * * *
10361417 TCTCATTAGAGGTTTTATAACTTTTGAAAATAAATTTGAAAGTTCA
1 TCTCATTAAAGG-TTTATAACTTTTGAAAATAAATATAAAAGCTCA
* **
10361463 TCTCATTAGAGGTTTCATAACTTTTGAAAATAAATATAAAAGCTGT
1 TCTCATTAAAGGTTT-ATAACTTTTGAAAATAAATATAAAAGCTCA
* *
10361509 TCTCTTTAAAGGATTTAAAACTT
1 TCTCATTAAAGG-TTTATAACTT
10361532 AAAAAATATA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 3 0.05
46 53 0.90
47 3 0.05
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.40
Consensus pattern (45 bp):
TCTCATTAAAGGTTTATAACTTTTGAAAATAAATATAAAAGCTCA
Found at i:10364430 original size:31 final size:31
Alignment explanation
Indices: 10364390--10364451 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
10364380 ATTCCACTAT
*
10364390 TTTATTTTTATTTTTTTATTGTTTTCTTTGC
1 TTTACTTTTATTTTTTTATTGTTTTCTTTGC
* *
10364421 TTTACTTTTATTTTTTTTTTTTTTTCTTTGC
1 TTTACTTTTATTTTTTTATTGTTTTCTTTGC
10364452 ACATATCCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.79
Consensus pattern (31 bp):
TTTACTTTTATTTTTTTATTGTTTTCTTTGC
Found at i:10364929 original size:22 final size:21
Alignment explanation
Indices: 10364886--10364929 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10364876 TTTAGATCTC
**
10364886 TTTTAAGATTTTTCAAGTTTT
1 TTTTAAGATTTTTCAAAATTT
*
10364907 TTTTTAGATTTATTCAAAATTT
1 TTTTAAGATTT-TTCAAAATTT
10364929 T
1 T
10364930 CAAGTGCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (21 bp):
TTTTAAGATTTTTCAAAATTT
Found at i:10369576 original size:20 final size:20
Alignment explanation
Indices: 10369551--10369588 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10369541 TCTAAAAATT
10369551 ATTTTTATTTAAAAATATTA
1 ATTTTTATTTAAAAATATTA
*
10369571 ATTTTTATTTCAAAATAT
1 ATTTTTATTTAAAAATAT
10369589 AAAATTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTTATTTAAAAATATTA
Found at i:10369745 original size:3 final size:3
Alignment explanation
Indices: 10369737--10369776 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
10369727 ATTTTATTTC
*
10369737 TTA TTA TTA TTA -TA TTA TTA TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10369777 GTAAACATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10370179 original size:25 final size:25
Alignment explanation
Indices: 10370129--10370185 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
10370119 TTATTATTAA
** * *
10370129 AATA-TTTAAAAATAATTTTAATTT
1 AATATTTTAAAAATAAAATAAAATT
10370153 AATATTTTAAAAATAAAATAAAATT
1 AATATTTTAAAAATAAAATAAAATT
*
10370178 AAAATTTT
1 AATATTTT
10370186 TTATTAGCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AATATTTTAAAAATAAAATAAAATT
Found at i:10371569 original size:24 final size:24
Alignment explanation
Indices: 10371542--10371592 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
10371532 AAAAGATATA
*
10371542 TTTTTAAATTATCAAAAAATCCAT
1 TTTTTAAATAATCAAAAAATCCAT
* *
10371566 TTTTTAAGTAATCAAGAAATCCAT
1 TTTTTAAATAATCAAAAAATCCAT
10371590 TTT
1 TTT
10371593 AAAGATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (24 bp):
TTTTTAAATAATCAAAAAATCCAT
Found at i:10371601 original size:24 final size:24
Alignment explanation
Indices: 10371541--10371601 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
10371531 TAAAAGATAT
*
10371541 ATTTTTAAA-TTATCAAAAAATCC
1 ATTTTTAAAGTAATCAAAAAATCC
* *
10371564 ATTTTTTAAGTAATCAAGAAATCC
1 ATTTTTAAAGTAATCAAAAAATCC
10371588 A-TTTTAAAGATAAT
1 ATTTTTAAAG-TAAT
10371602 ATATAGTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 15 0.47
24 17 0.53
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (24 bp):
ATTTTTAAAGTAATCAAAAAATCC
Found at i:10372585 original size:27 final size:27
Alignment explanation
Indices: 10372537--10372588 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
10372527 AAGTAAACTA
*
10372537 TTTTTTTGTCAAATTTTATTATTATAT
1 TTTTTTTGTCAAAATTTATTATTATAT
10372564 TTTTATTTGTCAAAATTT-TTATTAT
1 TTTT-TTTGTCAAAATTTATTATTAT
10372589 TTTGAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (27 bp):
TTTTTTTGTCAAAATTTATTATTATAT
Found at i:10372674 original size:28 final size:27
Alignment explanation
Indices: 10372614--10372674 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
10372604 AATTATTTTA
10372614 ATATAAAAATAATAAAATAAATAAAAT
1 ATATAAAAATAATAAAATAAATAAAAT
* * * *
10372641 ATTATAAAAGTATTAAAATTAATATATAT
1 A-TATAAAAATAATAAAATAAATA-AAAT
10372670 ATATA
1 ATATA
10372675 GTATTTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.04
28 23 0.82
29 4 0.14
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (27 bp):
ATATAAAAATAATAAAATAAATAAAAT
Found at i:10373415 original size:12 final size:12
Alignment explanation
Indices: 10373398--10373481 Score: 50
Period size: 12 Copynumber: 7.1 Consensus size: 12
10373388 ATCATGCAAC
*
10373398 ATCATGTAATAA
1 ATCATGCAATAA
*
10373410 ATCATG-TA-AA
1 ATCATGCAATAA
10373420 ATCATG-AA-AA
1 ATCATGCAATAA
* *
10373430 ATTAGGCAATAA
1 ATCATGCAATAA
*
10373442 ATTATGCAATAAA
1 ATCATGCAAT-AA
* *
10373455 ATACCATGTAATAT
1 AT--CATGCAATAA
10373469 ATCATGCAATAA
1 ATCATGCAATAA
10373481 A
1 A
10373482 CATAATATCA
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
10 15 0.26
11 3 0.05
12 26 0.46
13 4 0.07
14 3 0.05
15 6 0.11
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.29
Consensus pattern (12 bp):
ATCATGCAATAA
Found at i:10373788 original size:1 final size:1
Alignment explanation
Indices: 10373782--10373807 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
10373772 AGTTTTCTTC
10373782 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
10373808 CTCATCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10373865 original size:16 final size:15
Alignment explanation
Indices: 10373846--10373889 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
10373836 ATATACATAT
*
10373846 AAAAAAACAGAAAAA
1 AAAAAAAAAGAAAAA
*
10373861 AAAAAATAATGAAAAA
1 AAAAAA-AAAGAAAAA
10373877 AAAAAAAAA-AAAA
1 AAAAAAAAAGAAAA
10373890 CCAAAAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 4 0.16
15 8 0.32
16 13 0.52
ACGTcount: A:0.89, C:0.02, G:0.05, T:0.05
Consensus pattern (15 bp):
AAAAAAAAAGAAAAA
Found at i:10373895 original size:20 final size:20
Alignment explanation
Indices: 10373856--10373897 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10373846 AAAAAAACAG
* **
10373856 AAAAAAAAAAATAATGAAAA
1 AAAAAAAAAAAAAACCAAAA
10373876 AAAAAAAAAAAAAACCAAAA
1 AAAAAAAAAAAAAACCAAAA
10373896 AA
1 AA
10373898 CTTTACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.88, C:0.05, G:0.02, T:0.05
Consensus pattern (20 bp):
AAAAAAAAAAAAAACCAAAA
Found at i:10377766 original size:13 final size:13
Alignment explanation
Indices: 10377750--10377775 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10377740 AATTAAACCT
10377750 TAAACTTAACAAA
1 TAAACTTAACAAA
10377763 TAAACTTAACAAA
1 TAAACTTAACAAA
10377776 AAGCAAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAACTTAACAAA
Found at i:10379666 original size:21 final size:21
Alignment explanation
Indices: 10379637--10379678 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10379627 CGACGTAATA
10379637 ATTATAATTGATA-AAATCAGTT
1 ATTATAATT-ATAGAAAT-AGTT
10379659 ATTA-AATTATAGAAATAGTT
1 ATTATAATTATAGAAATAGTT
10379679 TCTATACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (21 bp):
ATTATAATTATAGAAATAGTT
Found at i:10380678 original size:21 final size:21
Alignment explanation
Indices: 10380643--10380686 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10380633 GTTATAGTAT
10380643 TTTTAATAAAATTTTTACT-TA
1 TTTTAATAAAA-TTTTACTATA
* *
10380664 TTTTAATATAGTTTTACTATA
1 TTTTAATAAAATTTTACTATA
10380685 TT
1 TT
10380687 AATTTCATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTAATAAAATTTTACTATA
Found at i:10381095 original size:31 final size:31
Alignment explanation
Indices: 10381025--10381123 Score: 119
Period size: 31 Copynumber: 3.2 Consensus size: 31
10381015 TTTATATTAG
* ** * *
10381025 AGGAATTAAATTTCAAATTTCATGTGAGCACA
1 AGGAACTAAATTTCAAATTTCATGCAAGTA-T
*
10381057 AGG-ACTAAATTTCAAATTTCATACAAGTAT
1 AGGAACTAAATTTCAAATTTCATGCAAGTAT
*
10381087 AGGAACTAAATTTTAAATTTCATGCAAGTAT
1 AGGAACTAAATTTCAAATTTCATGCAAGTAT
10381118 AGGAAC
1 AGGAAC
10381124 CATTAGCAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
30 3 0.05
31 52 0.90
32 3 0.05
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (31 bp):
AGGAACTAAATTTCAAATTTCATGCAAGTAT
Found at i:10386163 original size:24 final size:24
Alignment explanation
Indices: 10386134--10386195 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
10386124 GATATCATTC
10386134 AAATATAATATTA-ATCATGCAAT
1 AAATATAATATTATATCATGCAAT
*
10386157 AACATATAATATCATATCATGCAAT
1 AA-ATATAATATTATATCATGCAAT
*
10386182 AAATATAAAATTAT
1 AAATATAATATTAT
10386196 GCAATAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.06
24 20 0.59
25 12 0.35
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (24 bp):
AAATATAATATTATATCATGCAAT
Found at i:10386291 original size:20 final size:20
Alignment explanation
Indices: 10386268--10386376 Score: 94
Period size: 20 Copynumber: 5.2 Consensus size: 20
10386258 AAATAAATTA
*
10386268 ATAATCATGTAATTAAATAT
1 ATAATCATGCAATTAAATAT
10386288 ATAATCATGCAATTAACA-AT
1 ATAATCATGCAATTAA-ATAT
* *
10386308 GTAAAACATGCAATTAAATAT
1 AT-AATCATGCAATTAAATAT
* *
10386329 ATAATAATGCAAATAAAAATAT
1 ATAATCATGC-AAT-TAAATAT
* *
10386351 ATAAACCATGCAAATAAATAT
1 AT-AATCATGCAATTAAATAT
*
10386372 GTAAT
1 ATAAT
10386377 TAAATATATA
Statistics
Matches: 70, Mismatches: 13, Indels: 12
0.74 0.14 0.13
Matches are distributed among these distances:
20 27 0.39
21 27 0.39
22 10 0.14
23 6 0.09
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.30
Consensus pattern (20 bp):
ATAATCATGCAATTAAATAT
Found at i:10386323 original size:41 final size:43
Alignment explanation
Indices: 10386273--10386376 Score: 131
Period size: 41 Copynumber: 2.5 Consensus size: 43
10386263 AATTAATAAT
* * * * *
10386273 CATGTAATTAAATATATAATCATGCAATTAACAATGTA-AAA-
1 CATGCAATTAAATATATAATAATGCAAATAAAAATATATAAAC
10386314 CATGCAATTAAATATATAATAATGCAAATAAAAATATATAAAC
1 CATGCAATTAAATATATAATAATGCAAATAAAAATATATAAAC
* *
10386357 CATGCAAATAAATATGTAAT
1 CATGCAATTAAATATATAAT
10386377 TAAATATATA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 33 0.61
42 3 0.06
43 18 0.33
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.30
Consensus pattern (43 bp):
CATGCAATTAAATATATAATAATGCAAATAAAAATATATAAAC
Found at i:10386419 original size:22 final size:22
Alignment explanation
Indices: 10386379--10386420 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10386369 TATGTAATTA
*
10386379 AATATATAACTATGCAAATAGT
1 AATATATAACCATGCAAATAGT
10386401 AATATATAAACCATG-AAATA
1 AATATAT-AACCATGCAAATA
10386421 AACATTCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.29
Consensus pattern (22 bp):
AATATATAACCATGCAAATAGT
Found at i:10386448 original size:54 final size:55
Alignment explanation
Indices: 10386311--10386526 Score: 294
Period size: 54 Copynumber: 4.0 Consensus size: 55
10386301 TAACAATGTA
* *
10386311 AAACATGCAATTAAATATATAATAATGCAAATAAAAATATATAAACCATGCAAAT
1 AAACATGCAATTAAATATATAATCATGCAAATAATAATATATAAACCATGCAAAT
* * *
10386366 AAATATGTAATTAAATATATAA-CTATGCAAATAGTAATATATAAACCATG-AAAT
1 AAACATGCAATTAAATATATAATC-ATGCAAATAATAATATATAAACCATGCAAAT
* * *
10386420 AAACATTCCATTAAATATATAATCATGCAAATAATAATATATAAA-TATGCAAAT
1 AAACATGCAATTAAATATATAATCATGCAAATAATAATATATAAACCATGCAAAT
* * * *
10386474 AAACATGCAATTAAATATATAATCATGCAAATAAGAGTACATAAATCATGCAA
1 AAACATGCAATTAAATATATAATCATGCAAATAATAATATATAAACCATGCAA
10386527 TCATGTAAAT
Statistics
Matches: 140, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
53 3 0.02
54 86 0.61
55 51 0.36
ACGTcount: A:0.55, C:0.11, G:0.06, T:0.28
Consensus pattern (55 bp):
AAACATGCAATTAAATATATAATCATGCAAATAATAATATATAAACCATGCAAAT
Found at i:10386452 original size:32 final size:31
Alignment explanation
Indices: 10386401--10386507 Score: 90
Period size: 32 Copynumber: 3.7 Consensus size: 31
10386391 TGCAAATAGT
*
10386401 AATATATAAACCATG-AAATAAACATTCCATTA
1 AATATAT-AATCATGCAAATAAACATT-CATTA
10386433 AATATATAATCATGCAAAT--A-A-T-A--A
1 AATATATAATCATGCAAATAAACATTCATTA
* *
10386457 TATATA-AAT-ATGCAAATAAACATGCAATTA
1 AATATATAATCATGCAAATAAACATTC-ATTA
10386487 AATATATAATCATGCAAATAA
1 AATATATAATCATGCAAATAA
10386508 GAGTACATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 22
0.70 0.05 0.26
Matches are distributed among these distances:
22 8 0.13
23 3 0.05
24 7 0.12
25 1 0.02
26 1 0.02
28 2 0.03
29 1 0.02
30 7 0.12
31 9 0.15
32 21 0.35
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (31 bp):
AATATATAATCATGCAAATAAACATTCATTA
Found at i:10386458 original size:22 final size:22
Alignment explanation
Indices: 10386433--10386475 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10386423 CATTCCATTA
10386433 AATATAT-AATCATGCAAATAAT
1 AATATATAAAT-ATGCAAATAAT
10386455 AATATATAAATATGCAAATAA
1 AATATATAAATATGCAAATAA
10386476 ACATGCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (22 bp):
AATATATAAATATGCAAATAAT
Found at i:10386500 original size:20 final size:22
Alignment explanation
Indices: 10386472--10386527 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
10386462 AAATATGCAA
* *
10386472 ATAAACATGCAATTAA-A-TAT
1 ATAATCATGCAATTAAGAGTAC
*
10386492 ATAATCATGCAAATAAGAGTAC
1 ATAATCATGCAATTAAGAGTAC
10386514 ATAAATCATGCAAT
1 AT-AATCATGCAAT
10386528 CATGTAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 14 0.48
21 1 0.03
22 4 0.14
23 10 0.34
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (22 bp):
ATAATCATGCAATTAAGAGTAC
Found at i:10386537 original size:31 final size:30
Alignment explanation
Indices: 10386494--10386556 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
10386484 TTAAATATAT
*
10386494 AATCATGCAAATAAGAGTACATAAATCATGC
1 AATCATGCAAATAAGAATACATAAA-CATGC
* * *
10386525 AATCATGTAAATAATAATATATAAACATGC
1 AATCATGCAAATAAGAATACATAAACATGC
10386555 AA
1 AA
10386557 AATATGCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (30 bp):
AATCATGCAAATAAGAATACATAAACATGC
Found at i:10386606 original size:20 final size:20
Alignment explanation
Indices: 10386583--10386624 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10386573 AATTATGCAA
*
10386583 ATAAACATATAATTAAATAT
1 ATAAACATATAAATAAATAT
* *
10386603 ATAACCATGTAAATAAATAT
1 ATAAACATATAAATAAATAT
10386623 AT
1 AT
10386625 TAATAATCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAACATATAAATAAATAT
Found at i:10386624 original size:163 final size:161
Alignment explanation
Indices: 10386311--10386618 Score: 356
Period size: 163 Copynumber: 1.9 Consensus size: 161
10386301 TAACAATGTA
* *
10386311 AAACATGCAATTAAATATATAATAATGCAAATAAAAATATATAAACCATGCAAATAAATATGTAA
1 AAACATGCAATTAAATATATAATAATGCAAATAAAAATACATAAACCATGCAAAT--ACATGTAA
* * * *
10386376 TTAAATATATAACTATGCAAATAGTAATATATAAACCATGAAATAAACATTCCATTAAATATATA
64 TAAAATATATAACTATGCAAATAGCAATAAATAAACCATGAAATAAACATTCAATTAAATATATA
*
10386441 ATCATGCAAATAATAATATATAAATATGCAAAT
129 ACCATGCAAATAATAATATATAAATATGCAAAT
* * * *
10386474 AAACATGCAATTAAATATATAATCATGCAAATAAGAGTACATAAATCATGC-AAT-CATGTAAAT
1 AAACATGCAATTAAATATATAATAATGCAAATAAAAATACATAAACCATGCAAATACATGT-AAT
**
10386537 AATAATATATAAAC-ATGCAAAATATGCAATTAAA-ATAATTATGCAAATAAACATAT-AATTAA
65 AA-AATATAT-AACTATGC-AAATA-GCAA-TAAATA-AACCATG-AAATAAACAT-TCAATTAA
*
10386599 ATATATAACCATGTAAATAA
122 ATATATAACCATGCAAATAA
10386619 ATATATTAAT
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
159 4 0.03
160 4 0.03
161 11 0.09
162 11 0.09
163 50 0.41
164 8 0.07
165 33 0.27
166 1 0.01
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (161 bp):
AAACATGCAATTAAATATATAATAATGCAAATAAAAATACATAAACCATGCAAATACATGTAATA
AAATATATAACTATGCAAATAGCAATAAATAAACCATGAAATAAACATTCAATTAAATATATAAC
CATGCAAATAATAATATATAAATATGCAAAT
Found at i:10386657 original size:23 final size:23
Alignment explanation
Indices: 10386627--10386688 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
10386617 AAATATATTA
10386627 ATAATCATGCAATCAAATTAAAT
1 ATAATCATGCAATCAAATTAAAT
* *
10386650 ATAATCATACAAGT-AAA-TATAT
1 ATAATCATGCAA-TCAAATTAAAT
*
10386672 -TAATCATGCAAACAAAT
1 ATAATCATGCAATCAAAT
10386689 ATATTAGACA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
21 13 0.41
22 4 0.12
23 14 0.44
24 1 0.03
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (23 bp):
ATAATCATGCAATCAAATTAAAT
Found at i:10386677 original size:21 final size:21
Alignment explanation
Indices: 10386628--10386694 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
10386618 AATATATTAA
* * *
10386628 TAATCATGCAATCAAATTAAAT
1 TAATCATACAAACAAA-TATAT
**
10386650 ATAATCATACAAGTAAATATAT
1 -TAATCATACAAACAAATATAT
*
10386672 TAATCATGCAAACAAATATAT
1 TAATCATACAAACAAATATAT
10386693 TA
1 TA
10386695 GACAAATAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
21 20 0.54
22 4 0.11
23 13 0.35
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.31
Consensus pattern (21 bp):
TAATCATACAAACAAATATAT
Found at i:10386736 original size:20 final size:18
Alignment explanation
Indices: 10386698--10386743 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
10386688 TATATTAGAC
10386698 AAATAAATTATCATACAA
1 AAATAAATTATCATACAA
* *
10386716 ATATAATATTAGTCATGCAA
1 AAATAA-ATTA-TCATACAA
10386736 AAATAAAT
1 AAATAAAT
10386744 ACCATGCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 5 0.22
19 6 0.26
20 12 0.52
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (18 bp):
AAATAAATTATCATACAA
Found at i:10387741 original size:85 final size:84
Alignment explanation
Indices: 10387646--10387905 Score: 317
Period size: 85 Copynumber: 3.1 Consensus size: 84
10387636 CTTTTTTTTT
* ** * * * *
10387646 AAATGTTCCCCCATAGTTGAGGCTTTGGAACCTTTGAAAAATAAAATACTTTCCCACAACTAAGG
1 AAATGTTCCCCCACAACTAAGGCTTT-GAAACTTTGAAAAATAAAATACTCTCCCACAACTAATG
*
10387711 CTTTGGAACTTTTGAAAATA
65 CTTTGAAACTTTTGAAAATA
* * * *
10387731 AAATGCTCCCCTACAACTAAGGCTTT-AAAGCTTTGAAAACTAAAATGA-TCCCCCACAACTAAT
1 AAATGTTCCCCCACAACTAAGGCTTTGAAA-CTTTGAAAAATAAAAT-ACTCTCCCACAACTAAT
10387794 GCTTTGAAACTTTTGAAAAATA
64 GCTTTGAAACTTTTG-AAAATA
* * * *
10387816 AAATGTTCCCCCACAACTAAGGCCTTGAAACTTTGAAAAATAAAATGCTCTCCCACAACTGATAC
1 AAATGTTCCCCCACAACTAAGGCTTTGAAACTTTGAAAAATAAAATACTCTCCCACAACTAATGC
10387881 TTTGAAACTTTTGGAAAATA
66 TTTGAAACTTTT-GAAAATA
10387901 AAATG
1 AAATG
10387906 AGATCATTCA
Statistics
Matches: 149, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
83 2 0.01
84 41 0.28
85 102 0.68
86 4 0.03
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (84 bp):
AAATGTTCCCCCACAACTAAGGCTTTGAAACTTTGAAAAATAAAATACTCTCCCACAACTAATGC
TTTGAAACTTTTGAAAATA
Found at i:10387747 original size:42 final size:42
Alignment explanation
Indices: 10387665--10387905 Score: 274
Period size: 42 Copynumber: 5.7 Consensus size: 42
10387655 CCCATAGTTG
* * * *
10387665 AGGCTTTGGAACCTTTGAAAAATAAAATACTTTCCCACAACTA
1 AGGCTTTGAAACTTTTGAAAAATAAAATGC-TCCCCACAACTA
*
10387708 AGGCTTTGGAACTTTTG-AAAATAAAATGCTCCCCTACAACTA
1 AGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCC-ACAACTA
* *
10387750 AGGCTTT-AAAGC-TTTGAAAACTAAAATGATCCCCCACAACTA
1 AGGCTTTGAAA-CTTTTGAAAAATAAAATGCT-CCCCACAACTA
* *
10387792 ATGCTTTGAAACTTTTGAAAAATAAAATGTTCCCCCACAACTA
1 AGGCTTTGAAACTTTTGAAAAATAAAATGCT-CCCCACAACTA
* *
10387835 AGGCCTTGAAAC-TTTGAAAAATAAAATGCTCTCCCACAACTG
1 AGGCTTTGAAACTTTTGAAAAATAAAATGCTC-CCCACAACTA
** *
10387877 ATACTTTGAAACTTTTGGAAAATAAAATG
1 AGGCTTTGAAACTTTTGAAAAATAAAATG
10387906 AGATCATTCA
Statistics
Matches: 173, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
41 11 0.06
42 86 0.50
43 76 0.44
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.28
Consensus pattern (42 bp):
AGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCACAACTA
Found at i:10389366 original size:10 final size:10
Alignment explanation
Indices: 10389351--10389399 Score: 55
Period size: 10 Copynumber: 4.6 Consensus size: 10
10389341 TAAGTTTTTA
10389351 TTTTTTATTT
1 TTTTTTATTT
10389361 TTTTTTATTT
1 TTTTTTATTT
10389371 TTTTGTT-TTACT
1 TTTT-TTATT--T
10389383 TTTTTTACTTT
1 TTTTTTA-TTT
10389394 TTTTTT
1 TTTTTT
10389400 TTTGCACATC
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
10 16 0.47
11 11 0.32
12 5 0.15
13 2 0.06
ACGTcount: A:0.08, C:0.04, G:0.02, T:0.86
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:10389402 original size:23 final size:23
Alignment explanation
Indices: 10389345--10389402 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
10389335 TCAGTTTAAG
* *
10389345 TTTTTATTTTTTATTTTTTTTTA
1 TTTTTTTTTTTTATCTTTTTTTA
*
10389368 TTTTTTTGTTTTA-CTTTTTTTA
1 TTTTTTTTTTTTATCTTTTTTTA
10389390 CTTTTTTTTTTTT
1 -TTTTTTTTTTTT
10389403 GCACATCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 8 0.27
23 22 0.73
ACGTcount: A:0.09, C:0.03, G:0.02, T:0.86
Consensus pattern (23 bp):
TTTTTTTTTTTTATCTTTTTTTA
Found at i:10396140 original size:20 final size:19
Alignment explanation
Indices: 10396115--10396215 Score: 75
Period size: 18 Copynumber: 5.4 Consensus size: 19
10396105 TGCAAGAATG
*
10396115 TCATGCAAATATATTAATTA
1 TCATGCAAATATA-TAATAA
*
10396135 TCATGC-AATA-ATAACAA
1 TCATGCAAATATATAATAA
* *
10396152 TCATGTAAATATATAA-CA
1 TCATGCAAATATATAATAA
*
10396170 TTATGCAAATATATTAATAA
1 TCATGCAAATATA-TAATAA
* * * *
10396190 TTATGCAATTAAAT-ATAG
1 TCATGCAAATATATAATAA
10396208 TCATGCAA
1 TCATGCAA
10396216 TTATGCACAC
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
17 9 0.14
18 27 0.41
19 12 0.18
20 18 0.27
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.35
Consensus pattern (19 bp):
TCATGCAAATATATAATAA
Found at i:10396293 original size:24 final size:24
Alignment explanation
Indices: 10396260--10396320 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
10396250 GATATCATTC
*
10396260 AATATAATATTA-ATCATGCAATA
1 AATATAATATTATATCATACAATA
*
10396283 ATATATAATATCATATCATACAATA
1 A-ATATAATATTATATCATACAATA
*
10396308 AATATAAAATTAT
1 AATATAATATTAT
10396321 GCAATAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 20 0.62
25 11 0.34
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (24 bp):
AATATAATATTATATCATACAATA
Found at i:10396323 original size:44 final size:43
Alignment explanation
Indices: 10396251--10396333 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
10396241 ATGCAATTAG
* *
10396251 ATATCATTCAATATAATATTAATCATGCAATAATATATAATATC
1 ATATCATACAATATAATATAAATCATGCAATAATA-ATAATATC
*
10396295 ATATCATACAATA-AATATAAAATTATGCAATAATAATAA
1 ATATCATACAATATAATAT-AAATCATGCAATAATAATAA
10396334 CAATAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 9 0.26
44 26 0.74
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (43 bp):
ATATCATACAATATAATATAAATCATGCAATAATAATAATATC
Found at i:10396431 original size:20 final size:20
Alignment explanation
Indices: 10396408--10396518 Score: 65
Period size: 20 Copynumber: 5.8 Consensus size: 20
10396398 AATTATGCAG
*
10396408 TTAAATATATAATCATATAA
1 TTAAATATATAATCATACAA
* * *
10396428 TTAACA-ATGTAAACATGCAA
1 TTAA-ATATATAATCATACAA
*
10396448 TTAAATATATAATCATGCAA
1 TTAAATATATAATCATACAA
* * *
10396468 ATAAA-A-ATACAT-AAACCA
1 TTAAATATATA-ATCATACAA
**
10396486 TGCAA-ATAT-AT-ATACAA
1 TTAAATATATAATCATACAA
10396503 TTAAATATATAATCAT
1 TTAAATATATAATCAT
10396519 GCAAATAATA
Statistics
Matches: 67, Mismatches: 17, Indels: 14
0.68 0.17 0.14
Matches are distributed among these distances:
17 9 0.13
18 13 0.19
19 8 0.12
20 36 0.54
21 1 0.01
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.32
Consensus pattern (20 bp):
TTAAATATATAATCATACAA
Found at i:10396513 original size:55 final size:55
Alignment explanation
Indices: 10396445--10396579 Score: 195
Period size: 55 Copynumber: 2.5 Consensus size: 55
10396435 TGTAAACATG
*
10396445 CAATTAAATATATAATCATGCAAATAAAAATACATAAACCATGCAAATATATATA
1 CAATTAAATATATAATCATGCAAATAAAAATACATAAACCATGCAAATAAATATA
* * * * *
10396500 CAATTAAATATATAATCATGCAAATAATAATATATCAAGCATGCAAATAAATATG
1 CAATTAAATATATAATCATGCAAATAAAAATACATAAACCATGCAAATAAATATA
10396555 CAATT-AA-A-ATAATCATGCAAATAAA
1 CAATTAAATATATAATCATGCAAATAAA
10396580 CATGTAATTA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
52 16 0.22
53 1 0.01
54 2 0.03
55 54 0.74
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (55 bp):
CAATTAAATATATAATCATGCAAATAAAAATACATAAACCATGCAAATAAATATA
Found at i:10396524 original size:16 final size:17
Alignment explanation
Indices: 10396484--10396531 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
10396474 ATACATAAAC
10396484 CATGCAAATATAT-ATA
1 CATGCAAATATATAATA
*
10396500 CAAT-TAAATATATAAT-
1 C-ATGCAAATATATAATA
10396516 CATGCAAATA-ATAATA
1 CATGCAAATATATAATA
10396532 TATCAAGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
15 7 0.27
16 15 0.58
17 4 0.15
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.31
Consensus pattern (17 bp):
CATGCAAATATATAATA
Found at i:10396545 original size:23 final size:22
Alignment explanation
Indices: 10396506--10396549 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
10396496 TATACAATTA
*
10396506 AATATATAATCATGCAAATAAT
1 AATATATAAGCATGCAAATAAT
10396528 AATATATCAAGCATGCAAATAA
1 AATATAT-AAGCATGCAAATAA
10396550 ATATGCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.27
Consensus pattern (22 bp):
AATATATAAGCATGCAAATAAT
Found at i:10396572 original size:29 final size:31
Alignment explanation
Indices: 10396539--10396614 Score: 111
Period size: 29 Copynumber: 2.5 Consensus size: 31
10396529 ATATATCAAG
10396539 CATGCAAATAAATATGCAATTAAA-AT-AAT
1 CATGCAAATAAATATGCAATTAAACATAAAT
* *
10396568 CATGCAAATAAACATGTAATTAAACATAGAAT
1 CATGCAAATAAATATGCAATTAAACATA-AAT
10396600 CATGCAAATAAATAT
1 CATGCAAATAAATAT
10396615 ATTAATAATC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
29 22 0.54
30 2 0.05
32 17 0.41
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.26
Consensus pattern (31 bp):
CATGCAAATAAATATGCAATTAAACATAAAT
Found at i:10396618 original size:29 final size:27
Alignment explanation
Indices: 10396539--10396630 Score: 91
Period size: 29 Copynumber: 3.3 Consensus size: 27
10396529 ATATATCAAG
10396539 CATGCAAATAAATATGCAATTAAAATAAT
1 CATGCAAATAAATAT--AATTAAAATAAT
*
10396568 CATGCAAATAAACATGTAATTAAACATAGAAT
1 CATGCAAAT-AA-ATATAATTAAA-AT--AAT
10396600 CATGCAAATAAATAT-ATT--AATAAT
1 CATGCAAATAAATATAATTAAAATAAT
10396624 CATGCAA
1 CATGCAA
10396631 TCAAATTAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
24 10 0.18
26 2 0.04
27 1 0.02
29 19 0.34
30 7 0.12
31 5 0.09
32 12 0.21
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (27 bp):
CATGCAAATAAATATAATTAAAATAAT
Found at i:10396669 original size:21 final size:21
Alignment explanation
Indices: 10396597--10396686 Score: 63
Period size: 21 Copynumber: 4.0 Consensus size: 21
10396587 TTAAACATAG
* *
10396597 AATCATGCAAATAAATATATTAAT
1 AATCATACAAACAAATATA-T--T
* * *
10396621 AATCATGCAATCAAATTAAATAT
1 AATCATACAAACAAA-TATAT-T
* *
10396644 AATCATATAAATAAATATATT
1 AATCATACAAACAAATATATT
*
10396665 AATCATGCAAACAAATATATT
1 AATCATACAAACAAATATATT
10396686 A
1 A
10396687 GGTAAATAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
21 20 0.37
22 4 0.07
23 13 0.24
24 14 0.26
25 3 0.06
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.32
Consensus pattern (21 bp):
AATCATACAAACAAATATATT
Found at i:10396716 original size:34 final size:34
Alignment explanation
Indices: 10396638--10396716 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
10396628 CAATCAAATT
*
10396638 AAATATAATCATATAAATAAATATATTAATCATGC
1 AAATATAAT-ATATAAATAAATAAATTAATCATGC
* **
10396673 AAACA-AATATATTAGGTAAATAAATT-ATCATGC
1 AAATATAATATA-TAAATAAATAAATTAATCATGC
10396706 AAATATAATAT
1 AAATATAATAT
10396717 TAGTCATGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
33 14 0.38
34 19 0.51
35 4 0.11
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (34 bp):
AAATATAATATATAAATAAATAAATTAATCATGC
Found at i:10396725 original size:20 final size:18
Alignment explanation
Indices: 10396690--10396735 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 18
10396680 TATATTAGGT
10396690 AAATAAATTATCATGCAA
1 AAATAAATTATCATGCAA
*
10396708 ATATAATATTAGTCATGCAA
1 AAATAA-ATTA-TCATGCAA
10396728 AAATAAAT
1 AAATAAAT
10396736 ACCACGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 6 0.25
20 13 0.54
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (18 bp):
AAATAAATTATCATGCAA
Found at i:10406138 original size:2 final size:2
Alignment explanation
Indices: 10406131--10406165 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
10406121 ATTGGAAAGG
*
10406131 AT AT AT AT AT GT 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 AT AT A
10406166 AACTTAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10407337 original size:19 final size:17
Alignment explanation
Indices: 10407304--10407365 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 17
10407294 TTTTCAAAAC
10407304 TATTTTTTTT-ATTTTG
1 TATTTTTTTTCATTTTG
*
10407320 TCATTTTTTTTCACTTTTT
1 T-ATTTTTTTTCA-TTTTG
*
10407339 TAATTTTTATTCAATTTTTG
1 T-ATTTTTTTTC-A-TTTTG
10407359 TATTTTT
1 TATTTTT
10407366 GATTAATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
16 1 0.03
17 9 0.24
18 1 0.03
19 20 0.54
20 6 0.16
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.74
Consensus pattern (17 bp):
TATTTTTTTTCATTTTG
Found at i:10407711 original size:22 final size:23
Alignment explanation
Indices: 10407675--10407728 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
10407665 AACTTTTCTC
*
10407675 TTTTTTA-ATTTTTTTCTT-TGA
1 TTTTTTATATTATTTTCTTATGA
*
10407696 TTTTTTATATTATTTTCTTATTA
1 TTTTTTATATTATTTTCTTATGA
*
10407719 TTTCTTATAT
1 TTTTTTATAT
10407729 GCTTTTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 7 0.25
22 10 0.36
23 11 0.39
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTTTATATTATTTTCTTATGA
Found at i:10407734 original size:23 final size:22
Alignment explanation
Indices: 10407686--10407735 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
10407676 TTTTTAATTT
* *
10407686 TTTTCTTTGATTTTTTATATTA
1 TTTTCTTTGATTTCTTATATGA
* *
10407708 TTTTCTTATTATTTCTTATATGC
1 TTTTCTT-TGATTTCTTATATGA
10407731 TTTTC
1 TTTTC
10407736 AATTTTTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.16, C:0.10, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTTCTTTGATTTCTTATATGA
Found at i:10407820 original size:10 final size:9
Alignment explanation
Indices: 10407807--10407976 Score: 58
Period size: 9 Copynumber: 17.1 Consensus size: 9
10407797 TTTTATTCAA
10407807 TTTTTATCTT
1 TTTTTAT-TT
10407817 TTTTTA-TT
1 TTTTTATTT
10407825 TTTTTATTT
1 TTTTTATTT
*
10407834 TTGATTCATTAT
1 TT--TTTATT-T
*
10407846 TTTTGA-TT
1 TTTTTATTT
* *
10407854 TTCTTACTT
1 TTTTTATTT
*
10407863 TTTATATTTT
1 TTTTTA-TTT
10407873 TTATTGTATTT
1 TT-TT-TATTT
10407884 TTGTTTATTTT
1 TT-TTTA-TTT
10407895 ATATTTTATATT
1 -T-TTTTAT-TT
*
10407907 TTTGTATTT
1 TTTTTATTT
* *
10407916 TATTTATCT
1 TTTTTATTT
*
10407925 TTTTTGTTT
1 TTTTTATTT
10407934 TGCTTTAATATTTT
1 T--TTT--TA-TTT
10407948 TTTCTTATTT
1 TTT-TTATTT
*
10407958 TATTTT-TAT
1 T-TTTTATTT
10407967 TTTTTATTT
1 TTTTTATTT
10407976 T
1 T
10407977 GGTTGATTTT
Statistics
Matches: 121, Mismatches: 19, Indels: 41
0.67 0.10 0.23
Matches are distributed among these distances:
8 17 0.14
9 32 0.26
10 26 0.21
11 25 0.21
12 14 0.12
13 3 0.02
14 4 0.03
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (9 bp):
TTTTTATTT
Found at i:10407826 original size:7 final size:7
Alignment explanation
Indices: 10407816--10408011 Score: 83
Period size: 7 Copynumber: 25.7 Consensus size: 7
10407806 ATTTTTATCT
10407816 TTTTTTA
1 TTTTTTA
10407823 TTTTTTTA
1 -TTTTTTA
*
10407831 TTTTTGA
1 TTTTTTA
**
10407838 TTCATTA
1 TTTTTTA
*
10407845 TTTTTGA
1 TTTTTTA
10407852 TTTTCTTA
1 TTTT-TTA
10407860 CTTTTTATA
1 -TTTTT-TA
10407869 TTTTTTA
1 TTTTTTA
10407876 TTGTATTT-
1 TT-T-TTTA
*
10407884 TTGTTTA
1 TTTTTTA
*
10407891 TTTTATA
1 TTTTTTA
*
10407898 TTTTATA
1 TTTTTTA
10407905 TTTTTGTA
1 TTTTT-TA
10407913 TTTTATTTA
1 -TTT-TTTA
10407922 TCTTTTT-
1 T-TTTTTA
**
10407929 TGTTTTGC
1 T-TTTTTA
**
10407937 TTTAATA
1 TTTTTTA
*
10407944 TTTTTTTC
1 -TTTTTTA
10407952 TTATTTTA
1 TT-TTTTA
10407960 -TTTTTA
1 TTTTTTA
10407966 TTTTTTA
1 TTTTTTA
10407973 TTTTGGTTGA
1 TTTT--TT-A
10407983 TTTTTTA
1 TTTTTTA
*
10407990 TTTCTTTC
1 TTT-TTTA
10407998 TTTATTTA
1 TTT-TTTA
10408006 TATTTT
1 T-TTTT
10408012 CATAAATTTT
Statistics
Matches: 144, Mismatches: 25, Indels: 38
0.70 0.12 0.18
Matches are distributed among these distances:
6 8 0.06
7 62 0.43
8 47 0.33
9 20 0.14
10 7 0.05
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (7 bp):
TTTTTTA
Found at i:10407841 original size:36 final size:35
Alignment explanation
Indices: 10407796--10407910 Score: 97
Period size: 36 Copynumber: 3.1 Consensus size: 35
10407786 ATTTTTGAAA
* *
10407796 TTTTTATTCAATTTTTATCTTTTTTTATTTTTTTAT
1 TTTTGATTCAATTTTTAT-TTTTTTTATTTTTATAT
*
10407832 TTTTGATTCATTATTTTTGA-TTTTCTTACTTTTTATAT
1 TTTTGATTCA--ATTTTT-ATTTTTTTTA-TTTTTATAT
* ** * *
10407870 TTTTTATTGTATTTTTGTTTATTTTATATTTTATAT
1 TTTTGATTCAATTTTTATTTTTTTTAT-TTTTATAT
10407906 TTTTG
1 TTTTG
10407911 TATTTTATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
35 1 0.02
36 33 0.52
37 7 0.11
38 21 0.33
39 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (35 bp):
TTTTGATTCAATTTTTATTTTTTTTATTTTTATAT
Found at i:10407899 original size:22 final size:22
Alignment explanation
Indices: 10407861--10407918 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
10407851 ATTTTCTTAC
* *
10407861 TTTTTATATTTTTTATTGTAT-
1 TTTTTGTATTTTATATTGTATA
* *
10407882 TTTTGTTTATTTTATATTTTATA
1 TTTT-TGTATTTTATATTGTATA
10407905 TTTTTGTATTTTAT
1 TTTTTGTATTTTAT
10407919 TTATCTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 4 0.13
22 23 0.74
23 4 0.13
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (22 bp):
TTTTTGTATTTTATATTGTATA
Found at i:10407906 original size:24 final size:23
Alignment explanation
Indices: 10407880--10407992 Score: 62
Period size: 23 Copynumber: 4.9 Consensus size: 23
10407870 TTTTTATTGT
10407880 ATTTTTGTTTATTTTATATTTTAT
1 ATTTTTGTTTATTTTATATTTT-T
*
10407904 ATTTTTG--TATTTTAT-TTATCT
1 ATTTTTGTTTATTTTATATT-TTT
10407925 -TTTTTGTTT-TGCTTTAATATTTTT
1 ATTTTTGTTTAT--TTT-ATATTTTT
10407949 -TTCTTAT-TTTATTTT-TATTTTTT
1 ATT-TT-TGTTTATTTTATA-TTTTT
* * *
10407972 ATTTTGGTTGATTTTTTATTT
1 ATTTTTGTTTATTTTATATTT
10407993 CTTTCTTTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 29
0.68 0.04 0.28
Matches are distributed among these distances:
20 6 0.08
21 4 0.06
22 12 0.17
23 20 0.28
24 20 0.28
25 7 0.10
26 2 0.03
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.75
Consensus pattern (23 bp):
ATTTTTGTTTATTTTATATTTTT
Found at i:10407957 original size:42 final size:42
Alignment explanation
Indices: 10407911--10408011 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
10407901 TATATTTTTG
* * *
10407911 TATTTTATTTATCTTTTTTGTTTTGCTTTAATATTTT-TTTCT
1 TATTTTATTTATATTTTTTATTTTG-GTTAATATTTTATTTCT
* * *
10407953 TATTTTATTTTTATTTTTTATTTTGGTTGATTTTTTATTTCT
1 TATTTTATTTATATTTTTTATTTTGGTTAATATTTTATTTCT
10407995 T-TCTTTATTTATATTTT
1 TAT-TTTATTTATATTTT
10408012 CATAAATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 9 0.18
42 41 0.82
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (42 bp):
TATTTTATTTATATTTTTTATTTTGGTTAATATTTTATTTCT
Found at i:10407958 original size:11 final size:10
Alignment explanation
Indices: 10407807--10407971 Score: 59
Period size: 10 Copynumber: 15.2 Consensus size: 10
10407797 TTTTATTCAA
*
10407807 TTTTTATCTT
1 TTTTTATTTT
10407817 TTTTTA--TT
1 TTTTTATTTT
10407825 TTTTTATTTT
1 TTTTTATTTT
10407835 TGATTCATTATTTT
1 T--TT--TTATTTT
*
10407849 TGATTTTCTTACTT
1 T--TTTTATT--TT
*
10407863 TTTATATTTT
1 TTTTTATTTT
10407873 TTATTGTATTTT
1 TT-TT-TATTTT
*
10407885 TGTTTATTTT
1 TTTTTATTTT
*
10407895 ATATTTTATATT
1 -T-TTTTATTTT
*
10407907 TTTGTA-TTT
1 TTTTTATTTT
*
10407916 TATTTATCTTT
1 TTTTTAT-TTT
*
10407927 TTTGTT-TTGCT
1 TTT-TTATT-TT
**
10407938 TTAATATTTT
1 TTTTTATTTT
10407948 TTTCTTATTTT
1 TTT-TTATTTT
10407959 ATTTTTATTTT
1 -TTTTTATTTT
10407970 TT
1 TT
10407972 ATTTTGGTTG
Statistics
Matches: 118, Mismatches: 18, Indels: 38
0.68 0.10 0.22
Matches are distributed among these distances:
8 8 0.07
9 6 0.05
10 30 0.25
11 29 0.25
12 30 0.25
14 15 0.13
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:10407974 original size:29 final size:28
Alignment explanation
Indices: 10407816--10407976 Score: 92
Period size: 29 Copynumber: 5.4 Consensus size: 28
10407806 ATTTTTATCT
* * *
10407816 TTTTTTATTTTTTTATTTTTGATTCATTA
1 TTTTTTATTTTTTTCTTTTTTATT-TTTA
* *
10407845 TTTTTGATTTTCTTACTTTTTATATTTTT-
1 TTTTTTATTTT-TTTCTTTTT-TATTTTTA
* *
10407874 TATTGTATTTTTGTT-TATTTTATATTTTATA
1 TTTTTTATTTTT-TTCT-TTTT-TATTTT-TA
* **
10407905 TTTTTGTATTTTATTTATCTTTTTTGTTTTGC
1 TTTTT-TA-TTT-TTT-TCTTTTTTATTTTTA
**
10407937 TTTAATATTTTTTTCTTATTTTATTTTTA
1 TTTTTTATTTTTTTCTT-TTTTATTTTTA
10407966 TTTTTTATTTT
1 TTTTTTATTTT
10407977 GGTTGATTTT
Statistics
Matches: 99, Mismatches: 21, Indels: 24
0.69 0.15 0.17
Matches are distributed among these distances:
28 6 0.06
29 50 0.51
30 13 0.13
31 8 0.08
32 5 0.05
33 9 0.09
34 7 0.07
35 1 0.01
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (28 bp):
TTTTTTATTTTTTTCTTTTTTATTTTTA
Found at i:10412864 original size:50 final size:51
Alignment explanation
Indices: 10412778--10412873 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 51
10412768 TTCAAAATGG
*
10412778 TTTTTAAAGTTTGTTGCCTATCTTCACAAGAGCCC-TTTTCAAAAAGAGAT
1 TTTTTAAAGTTTGTTGCCTATCTTCACAAGAACCCTTTTTCAAAAAGAGAT
* * ***
10412828 TTTTTAAAGTTTGTTGCCTATTTTTATGGGAACCCTTTTTCAAAAA
1 TTTTTAAAGTTTGTTGCCTATCTTCACAAGAACCCTTTTTCAAAAA
10412874 AAATAAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 29 0.74
51 10 0.26
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (51 bp):
TTTTTAAAGTTTGTTGCCTATCTTCACAAGAACCCTTTTTCAAAAAGAGAT
Found at i:10414333 original size:20 final size:22
Alignment explanation
Indices: 10414293--10414336 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
10414283 ATAAAGGAGG
10414293 AAAAGAAAAAAAATGTGAAAGA
1 AAAAGAAAAAAAATGTGAAAGA
10414315 AAAAGAAAAAAAAT-T-AAAGA
1 AAAAGAAAAAAAATGTGAAAGA
10414335 AA
1 AA
10414337 GCTTGAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.32
21 1 0.05
22 14 0.64
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAGAAAAAAAATGTGAAAGA
Found at i:10414411 original size:11 final size:11
Alignment explanation
Indices: 10414372--10414415 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
10414362 CCTTTTCTTG
*
10414372 CATTTTCATTA
1 CATTTTCATAA
* *
10414383 CATTCTCATCA
1 CATTTTCATAA
10414394 CATTTTTCATAA
1 CA-TTTTCATAA
10414406 CATTTTCATA
1 CATTTTCATA
10414416 TTGGTTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.48
Consensus pattern (11 bp):
CATTTTCATAA
Found at i:10419983 original size:43 final size:43
Alignment explanation
Indices: 10419900--10419984 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
10419890 GGTGGGAGAG
* * *
10419900 GATATCATGAGCCAACCTTATATAAGGCCATGAACTGGTATAA
1 GATATCATGAACCAACCTTATATAAGGCCACGAACAGGTATAA
* *
10419943 GATATCATGAACC-ACCTATGTATAAGGCCACGATCAGGTATA
1 GATATCATGAACCAACCT-TATATAAGGCCACGAACAGGTATA
10419985 TGTGCCAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 4 0.11
43 32 0.89
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (43 bp):
GATATCATGAACCAACCTTATATAAGGCCACGAACAGGTATAA
Found at i:10421541 original size:2 final size:2
Alignment explanation
Indices: 10421534--10421565 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
10421524 GCTTAAAACA
*
10421534 AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10421566 GTGAACAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10424930 original size:20 final size:21
Alignment explanation
Indices: 10424907--10424945 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10424897 AAAAATTAGA
10424907 AAGAAAAA-AATGAAAAAAAG
1 AAGAAAAATAATGAAAAAAAG
*
10424927 AAGAAAAATCATGAAAAAA
1 AAGAAAAATAATGAAAAAA
10424946 GGCTCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.08
Consensus pattern (21 bp):
AAGAAAAATAATGAAAAAAAG
Found at i:10425083 original size:15 final size:15
Alignment explanation
Indices: 10425063--10425109 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
10425053 AAGTGCCTTT
10425063 AAAAGAAAACAAAAC
1 AAAAGAAAACAAAAC
*
10425078 AAAAGACAA-AAAA-
1 AAAAGAAAACAAAAC
10425091 AAAA-AAAACAAAAAC
1 AAAAGAAAAC-AAAAC
10425106 AAAA
1 AAAA
10425110 ACAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 3 0.11
13 4 0.15
14 8 0.30
15 12 0.44
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (15 bp):
AAAAGAAAACAAAAC
Found at i:10425088 original size:7 final size:6
Alignment explanation
Indices: 10425068--10425114 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
10425058 CCTTTAAAAG
10425068 AAAAC- AAAACA AAAGAC- AAAA-A AAAA-A AAAACA AAAACA AAAACA
1 AAAACA AAAACA AAA-ACA AAAACA AAAACA AAAACA AAAACA AAAACA
10425113 AA
1 AA
10425115 TATAAAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
5 15 0.39
6 21 0.55
7 2 0.05
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:10425091 original size:1 final size:1
Alignment explanation
Indices: 10425085--10425146 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
10425075 AACAAAAGAC
* * * * * * * *
10425085 AAAAAAAAAAAAAACAAAAACAAAAACAAATATAAAATAAAAAAATAAAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10425147 GTTTCGAACA
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.87, C:0.05, G:0.00, T:0.08
Consensus pattern (1 bp):
A
Found at i:10425098 original size:27 final size:29
Alignment explanation
Indices: 10425063--10425128 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 29
10425053 AAGTGCCTTT
*
10425063 AAAAGAAAAC-AAAACAAAAGACAAA-A-A
1 AAAAAAAAACAAAAACAAAA-ACAAATATA
10425090 AAAAAAAAACAAAAACAAAAACAAATATA
1 AAAAAAAAACAAAAACAAAAACAAATATA
10425119 AAATAAAAAA
1 AAA-AAAAAA
10425129 ATAAAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
27 14 0.41
28 10 0.29
29 4 0.12
30 6 0.18
ACGTcount: A:0.83, C:0.09, G:0.03, T:0.05
Consensus pattern (29 bp):
AAAAAAAAACAAAAACAAAAACAAATATA
Found at i:10425107 original size:33 final size:31
Alignment explanation
Indices: 10425063--10425147 Score: 82
Period size: 34 Copynumber: 2.6 Consensus size: 31
10425053 AAGTGCCTTT
*
10425063 AAAAGAAAACAAAACAAAAGACAAAAAAAAAA
1 AAAAAAAAACAAAACAAAAGA-AAAAAAAAAA
* *
10425095 AAAACAAAAACAAAAACAAATATAAAATAAAAAA
1 AAAA-AAAAAC-AAAACAAA-AGAAAAAAAAAAA
* *
10425129 ATAAAAAAATAAAA-AAAAG
1 AAAAAAAAACAAAACAAAAG
10425148 TTTCGAACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
30 1 0.02
31 3 0.07
32 8 0.18
33 10 0.23
34 20 0.45
35 2 0.05
ACGTcount: A:0.84, C:0.07, G:0.04, T:0.06
Consensus pattern (31 bp):
AAAAAAAAACAAAACAAAAGAAAAAAAAAAA
Found at i:10425113 original size:39 final size:39
Alignment explanation
Indices: 10425068--10425143 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
10425058 CCTTTAAAAG
10425068 AAAACAAA-ACAAAAGACAAAAAAAAAAAAAACAAAAACA
1 AAAACAAATACAAAAGA-AAAAAAAAAAAAAACAAAAACA
* * * *
10425107 AAAACAAATATAAAATAAAAAAATAAAAAAATAAAAA
1 AAAACAAATACAAAAGAAAAAAAAAAAAAAACAAAAA
10425144 AAAGTTTCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 26 0.81
40 6 0.19
ACGTcount: A:0.84, C:0.08, G:0.01, T:0.07
Consensus pattern (39 bp):
AAAACAAATACAAAAGAAAAAAAAAAAAAAACAAAAACA
Found at i:10425769 original size:144 final size:141
Alignment explanation
Indices: 10425500--10425951 Score: 467
Period size: 144 Copynumber: 3.2 Consensus size: 141
10425490 ATTTGGATTC
* * * * * * * *
10425500 TTGAAAATCTTAATTGCACCTTA-TAAGGGTGAAATTACTAGAATGCCCTTTGGGGTATTTTTGT
1 TTGAAAACCTTGATTGCACCTCAGAAAAGGTGAAATTACTAAAATGCCTTTTGGGGTATTTTCGT
*** *
10425564 AATTTGATTTTTTTTGGTTGATTTTCTATGAAAAACTTCATATCATATTTTAATGTTATTTCATG
66 AATTTGATTTTTCGAGGTTG-TTTTCTATGAAAAACTTCATATCATATTTTAATATTATTTCATG
* *
10425629 AGTTTTGAAGCA
130 AATTTTGATGCA
* * ** * *
10425641 TTGCAAACCATGATTGCACCTTTGAAAAGTTGAAATTACCAAAATGCCTTTTGTGGGTATTTTCG
1 TTGAAAACCTTGATTGCACCTCAGAAAAGGTGAAATTACTAAAATGCCTTTTG-GGGTATTTTCG
* * *
10425706 TAATTTGATGTTCTCGAGGTTGGCTTTTCT-TGAAAAAATTCAGATCATATTTTAATATTATTTC
65 TAATTTGAT-TTTTCGAGGTT-G-TTTTCTATGAAAAACTTCATATCATATTTTAATATTATTTC
*
10425770 ATGAATTTTGATGAA
127 ATGAATTTTGATGCA
* * * * ** *
10425785 TTGAAAACCTTGATTGCACCTCAGATATGGTGAAATTACTAAAATATCCTTTAGAAGTATTTTCA
1 TTGAAAACCTTGATTGCACCTCAGAAAAGGTGAAATTACTAAAAT-GCCTTTTGGGGTATTTTCG
* * * * * * *
10425850 TAATTTGATCTTTTCGAAGTCAGTTTTTTGTGAAAAGCTTCATATCTTATTTTAATATTATTCCA
65 TAATTTGAT-TTTTCGAGGT-TGTTTTCTATGAAAAACTTCATATCATATTTTAATATTATTTCA
*
10425915 TGAATTTTGATCCA
128 TGAATTTTGATGCA
10425929 TTGAAAACCTTGATTGCACCTCA
1 TTGAAAACCTTGATTGCACCTCA
10425952 AAATGATAAA
Statistics
Matches: 256, Mismatches: 48, Indels: 11
0.81 0.15 0.03
Matches are distributed among these distances:
141 18 0.07
142 23 0.09
143 24 0.09
144 178 0.70
145 13 0.05
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (141 bp):
TTGAAAACCTTGATTGCACCTCAGAAAAGGTGAAATTACTAAAATGCCTTTTGGGGTATTTTCGT
AATTTGATTTTTCGAGGTTGTTTTCTATGAAAAACTTCATATCATATTTTAATATTATTTCATGA
ATTTTGATGCA
Found at i:10426021 original size:144 final size:141
Alignment explanation
Indices: 10425500--10426029 Score: 435
Period size: 144 Copynumber: 3.7 Consensus size: 141
10425490 ATTTGGATTC
* * * * * * * * ** **
10425500 TTGAAAATCTTAATTGCACCTTATAAGGGTGAAATTACTAGAATGCCCTTTGGGGTATTTTTGTA
1 TTGAAAACCTTGATTGCACCTCAAAATGATGAAATTAC-AAAATACCCTTTAAGGTATTTTCATA
** * *
10425565 ATTTGAT-TTTTTTTGGTTGATTTTCTATGAAAAACTTCATATCATATTTTAATGTTATTTCATG
65 ATTTGATCTTTTTAAGGTTGATTTTCTGTGAAAAACTTCATATCATATTTTAATATTATTTCATG
* *
10425629 AGTTTTGAAGCA
130 AATTTTGATGCA
* * * * * * **
10425641 TTGCAAACCATGATTGCACCTTTGAAAA-GTTGAAATTACCAAAATGCCTTTTGTGGGTATTTTC
1 TTGAAAACCTTGATTGCACC--TCAAAATGATGAAATTA-CAAAATACCCTTT-AAGGTATTTTC
* * * ** * * *
10425705 GTAATTTGATGTTCTCGAGGTTGGCTTTTCT-TGAAAAAATTCAGATCATATTTTAATATTATTT
62 ATAATTTGATCTTTTTAAGGTT-GATTTTCTGTGAAAAACTTCATATCATATTTTAATATTATTT
*
10425769 CATGAATTTTGATGAA
126 CATGAATTTTGATGCA
* * * *
10425785 TTGAAAACCTTGATTGCACCTCAGATATGGTGAAATTACTAAAATATCCTTTAGAAGTATTTTCA
1 TTGAAAACCTTGATTGCACCTCA-AAATGATGAAATTAC-AAAATACCCTTTA-AGGTATTTTCA
* * * * * *
10425850 TAATTTGATCTTTTCGAA-G-TCAGTTTTTTGTGAAAAGCTTCATATCTTATTTTAATATTATTC
63 TAATTTGATCTTTT-TAAGGTTGA-TTTTCTGTGAAAAACTTCATATCATATTTTAATATTATTT
*
10425913 CATGAATTTTGATCCA
126 CATGAATTTTGATGCA
* *
10425929 TTGAAAACCTTGATTGCACCTCAAAATGATAAAATTATCAAAATACCCTTTAAGGCTAATTTTCT
1 TTGAAAACCTTGATTGCACCTCAAAATGATGAAATTA-CAAAATACCCTTTAAGG-T-ATTTTCA
10425994 TAATTTGAGT-TTTTTAAGGTTGATTTT-TCGTGAAAA
63 TAATTTGA-TCTTTTTAAGGTTGATTTTCT-GTGAAAA
10426030 GCTCCAAATC
Statistics
Matches: 313, Mismatches: 56, Indels: 37
0.77 0.14 0.09
Matches are distributed among these distances:
141 16 0.05
142 23 0.07
143 60 0.19
144 203 0.65
145 11 0.04
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (141 bp):
TTGAAAACCTTGATTGCACCTCAAAATGATGAAATTACAAAATACCCTTTAAGGTATTTTCATAA
TTTGATCTTTTTAAGGTTGATTTTCTGTGAAAAACTTCATATCATATTTTAATATTATTTCATGA
ATTTTGATGCA
Found at i:10427666 original size:20 final size:20
Alignment explanation
Indices: 10427544--10427654 Score: 109
Period size: 20 Copynumber: 5.6 Consensus size: 20
10427534 ACCCTAAACT
*
10427544 TCAAACCCTAAACCTTAAAG
1 TCAAACCTTAAACCTTAAAG
** * *
10427564 TCAAATATTAAACCCTAACG
1 TCAAACCTTAAACCTTAAAG
* * *
10427584 T-TAACTCATAAACCCTAAAG
1 TCAAAC-CTTAAACCTTAAAG
*
10427604 TC-AACCTTAAACCTTAAAA
1 TCAAACCTTAAACCTTAAAG
*
10427623 TCAAACCTTAAACCTTGAAG
1 TCAAACCTTAAACCTTAAAG
10427643 TCAAACCTTAAA
1 TCAAACCTTAAA
10427655 ATCTAAAGTC
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
19 15 0.21
20 58 0.79
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (20 bp):
TCAAACCTTAAACCTTAAAG
Found at i:10427740 original size:41 final size:42
Alignment explanation
Indices: 10427687--10427776 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 42
10427677 TAGTGGAAAC
* *
10427687 CCTAAA-CTAACCCTAA-ACTTAACTTAAACCCTAAATC-TAA
1 CCTAAACCAAACCCTAACA-TTAACTTAAACCCTAAACCATAA
*
10427727 CCTAAACCAAACCCTAACATTACCTTAAACCCTAAACCATAA
1 CCTAAACCAAACCCTAACATTAACTTAAACCCTAAACCATAA
*
10427769 ACTAAACC
1 CCTAAACC
10427777 TTAAACCCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 6 0.14
41 26 0.60
42 11 0.26
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (42 bp):
CCTAAACCAAACCCTAACATTAACTTAAACCCTAAACCATAA
Found at i:10437830 original size:22 final size:21
Alignment explanation
Indices: 10437798--10437846 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
10437788 AATTTTTTAA
*
10437798 AAAATTACAGT-TTAAGATATT
1 AAAATTACAGTATTAAAAT-TT
10437819 AAAATTATCAGTATTAAAATTT
1 AAAATTA-CAGTATTAAAATTT
10437841 AAAATT
1 AAAATT
10437847 TAAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
22 12 0.48
23 6 0.24
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (21 bp):
AAAATTACAGTATTAAAATTT
Found at i:10438247 original size:63 final size:62
Alignment explanation
Indices: 10438137--10438265 Score: 215
Period size: 63 Copynumber: 2.1 Consensus size: 62
10438127 TCAAAGAATG
**
10438137 ATTC-TTTTAAAATATTTATCATTCTTTTTCTTATACTTGATTAGTTGGTATATATTGACTA
1 ATTCTTTTTAAAATATTTATCATTCTTTTTCTTATACTACATTAGTTGGTATATATTGACTA
*
10438198 ATTCTTTTTAAAATATTTATCACTTTTTTTTCTTATACTACATTAGTTGGTATATATTGACTA
1 ATTCTTTTTAAAATATTTATCA-TTCTTTTTCTTATACTACATTAGTTGGTATATATTGACTA
10438261 ATTCT
1 ATTCT
10438266 GTGACAGATT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
61 4 0.06
62 17 0.27
63 42 0.67
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (62 bp):
ATTCTTTTTAAAATATTTATCATTCTTTTTCTTATACTACATTAGTTGGTATATATTGACTA
Found at i:10438525 original size:30 final size:31
Alignment explanation
Indices: 10438457--10438526 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 31
10438447 TTTTTATTAC
* * * *
10438457 ACCTGAATAAGTCTTTAATCTTTATTTTGCAT
1 ACCTAAATAAGTCATTAACCTTTAATTT-CAT
10438489 -CC-AAATAAGTCATTAACCTTTAATTT-AT
1 ACCTAAATAAGTCATTAACCTTTAATTTCAT
10438517 ACCTAAATAA
1 ACCTAAATAA
10438527 ATTTTTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
28 2 0.06
29 2 0.06
30 26 0.81
31 2 0.06
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (31 bp):
ACCTAAATAAGTCATTAACCTTTAATTTCAT
Found at i:10439710 original size:14 final size:15
Alignment explanation
Indices: 10439691--10439732 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
10439681 TATAATTTTA
*
10439691 AATTATAATTA-ATT
1 AATTATAATTATAAT
10439705 AATTAT-ATTATAAT
1 AATTATAATTATAAT
10439719 AATTATGAATTATA
1 AATTAT-AATTATA
10439733 TGTTCTAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 4 0.17
14 14 0.58
16 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
AATTATAATTATAAT
Found at i:10441533 original size:15 final size:15
Alignment explanation
Indices: 10441513--10441544 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10441503 TCATAAAATC
10441513 TAAACACAAACTTCA
1 TAAACACAAACTTCA
*
10441528 TAAACACAAGCTTCA
1 TAAACACAAACTTCA
10441543 TA
1 TA
10441545 CACAGTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (15 bp):
TAAACACAAACTTCA
Found at i:10441596 original size:47 final size:47
Alignment explanation
Indices: 10441542--10441633 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
10441532 CACAAGCTTC
10441542 ATACACAGTAAGTCTAAGTCTCAAATAAAATCAATGAGCAATACATA
1 ATACACAGTAAGTCTAAGTCTCAAATAAAATCAATGAGCAATACATA
* *
10441589 ATACACAGTAAGTCTAAGTCTTAAATAACATCAATGAGCAATACA
1 ATACACAGTAAGTCTAAGTCTCAAATAAAATCAATGAGCAATACA
10441634 CAAGCTCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (47 bp):
ATACACAGTAAGTCTAAGTCTCAAATAAAATCAATGAGCAATACATA
Found at i:10446438 original size:20 final size:20
Alignment explanation
Indices: 10446410--10446448 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10446400 TTTATTTTAA
*
10446410 GATTCATTTATATTTATTTG
1 GATTCATTTATATTCATTTG
*
10446430 GATTTATTTATATTCATTT
1 GATTCATTTATATTCATTT
10446449 AAGATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (20 bp):
GATTCATTTATATTCATTTG
Found at i:10446776 original size:27 final size:27
Alignment explanation
Indices: 10446723--10446772 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
10446713 AAACATGCAT
10446723 TTTTCATCTTCTTCTCTCTTTTTTCAC
1 TTTTCATCTTCTTCTCTCTTTTTTCAC
*
10446750 TTTTCAT-TTCTTTTCT-TTTTTTC
1 TTTTCATCTTCTTCTCTCTTTTTTC
10446773 TCACAAGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 8 0.36
27 7 0.32
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTCATCTTCTTCTCTCTTTTTTCAC
Found at i:10449543 original size:19 final size:18
Alignment explanation
Indices: 10449449--10449543 Score: 68
Period size: 19 Copynumber: 4.9 Consensus size: 18
10449439 ATGAAAAAAT
10449449 ATCATGCAAATATAATAATA
1 ATCATGC-AAT-TAATAATA
*
10449469 ATCATACAATTAATAAATA
1 ATCATGCAATTAAT-AATA
*
10449488 ATCATGCAAGT-AT-ATA
1 ATCATGCAATTAATAATA
*
10449504 ATCATGTAAATAAAATAATAATAA
1 ATCATG-CAAT----TAATAAT-A
10449528 ATCATGCAATTAATAA
1 ATCATGCAATTAATAA
10449544 ATCACACAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
16 9 0.15
17 2 0.03
18 6 0.10
19 22 0.37
20 6 0.10
21 1 0.02
22 2 0.03
23 5 0.08
24 7 0.12
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.31
Consensus pattern (18 bp):
ATCATGCAATTAATAATA
Found at i:10449789 original size:20 final size:20
Alignment explanation
Indices: 10449757--10449798 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
10449747 ATCATGTAAT
10449757 ATCATGCAAATAATAAATATA
1 ATCATGCAAATAATAAAT-TA
10449778 ATCATG-AAATAATAAATTA
1 ATCATGCAAATAATAAATTA
10449797 AT
1 AT
10449799 AAAAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (20 bp):
ATCATGCAAATAATAAATTA
Found at i:10450845 original size:18 final size:18
Alignment explanation
Indices: 10450797--10450851 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
10450787 AAAAATATTA
10450797 AAATTAAAAGATCAAAAATC
1 AAATTAAAA-AT-AAAAATC
*
10450817 AAATTAAAAATTAAAATC
1 AAATTAAAAATAAAAATC
10450835 AAAGTT-AAAATAAAAAT
1 AAA-TTAAAAATAAAAAT
10450852 AAAAATCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 19 0.59
19 4 0.12
20 9 0.28
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.24
Consensus pattern (18 bp):
AAATTAAAAATAAAAATC
Found at i:10452241 original size:213 final size:213
Alignment explanation
Indices: 10451874--10452299 Score: 651
Period size: 213 Copynumber: 2.0 Consensus size: 213
10451864 TGGAAAAGGT
* * *
10451874 TCAATTCAAGAGGAAGTTTTCACTAGCTTACACAGAGATTATCACCTCACGAGAGTGTAAGTAAT
1 TCAATTCAAGAGGAAGTTTTCACTAGCTTACACAAAGATTATCACCTCACGAAAGTGGAAGTAAT
* * ** *
10451939 TGCTCCTTCCTAAAAAGGAACAAAACTTAGATCTAGAGCTTATGCATTAATGCATGTATAATGTA
66 TACTCCTTCCTAAAAAGGAACAAAACTTAGATCTAGAGATTACACATTAATGCAAGTATAATGTA
*
10452004 TATGAAGGAACATGCCAATCCAAATAATCAAATAAATTAGTACACATAAAAAATCAAAATCTACA
131 TATGAAGGAACATACCAATCCAAATAATCAAATAAATTAGTACACATAAAAAATCAAAATCTACA
10452069 AAATAAACAAATAAATTA
196 AAATAAACAAATAAATTA
** * * *
10452087 TCAATTCAATTGGAAGTTTTCACTAGCTTACACAAA-AGTTATCTCCTCATGAAAGTGGAGGTAA
1 TCAATTCAAGAGGAAGTTTTCACTAGCTTACACAAAGA-TTATCACCTCACGAAAGTGGAAGTAA
* *
10452151 TTACTCTCTT-CTAAGAAAGG-ACAAAACTTAGATCTAGAGATTACATATTAATGCAAGTGTAAT
65 TTACTC-CTTCCTAA-AAAGGAACAAAACTTAGATCTAGAGATTACACATTAATGCAAGTATAAT
*
10452214 GTATGTGAAGGAACATACCAATCCAAATAATCAAATAAATTAGTACACATAAAAAATCAAAATCT
128 GTATATGAAGGAACATACCAATCCAAATAATCAAATAAATTAGTACACATAAAAAATCAAAATCT
10452279 ACAAAATAAACAAATAAATTA
193 ACAAAATAAACAAATAAATTA
10452300 GTACACATAA
Statistics
Matches: 193, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
212 1 0.01
213 184 0.95
214 8 0.04
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (213 bp):
TCAATTCAAGAGGAAGTTTTCACTAGCTTACACAAAGATTATCACCTCACGAAAGTGGAAGTAAT
TACTCCTTCCTAAAAAGGAACAAAACTTAGATCTAGAGATTACACATTAATGCAAGTATAATGTA
TATGAAGGAACATACCAATCCAAATAATCAAATAAATTAGTACACATAAAAAATCAAAATCTACA
AAATAAACAAATAAATTA
Found at i:10452309 original size:22 final size:21
Alignment explanation
Indices: 10452246--10452314 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
10452236 CCAAATAATC
10452246 AAATAAATTAGTACACATAAA
1 AAATAAATTAGTACACATAAA
* * *
10452267 AAATCAAAAT-CTACAAAATAAA
1 AAAT-AAATTAGTAC-ACATAAA
10452289 CAAATAAATTAGTACACATAAA
1 -AAATAAATTAGTACACATAAA
10452311 AAAT
1 AAAT
10452315 TATAAGCTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
21 11 0.29
22 20 0.53
23 7 0.18
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.22
Consensus pattern (21 bp):
AAATAAATTAGTACACATAAA
Found at i:10452331 original size:22 final size:22
Alignment explanation
Indices: 10452262--10452337 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
10452252 ATTAGTACAC
*
10452262 ATAAAAAATCAA-AATCTACAAA
1 ATAAAAAAT-AATAAGCTACAAA
* *
10452284 ATAAACAAATAAATTAG-TAC-AC
1 ATAAA-AAAT-AATAAGCTACAAA
*
10452306 ATAAAAAATTATAAGCTACAAA
1 ATAAAAAATAATAAGCTACAAA
*
10452328 ATAAACAATA
1 ATAAAAAATA
10452338 GGTTAGTGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
20 4 0.10
21 7 0.17
22 20 0.49
23 9 0.22
24 1 0.02
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.21
Consensus pattern (22 bp):
ATAAAAAATAATAAGCTACAAA
Found at i:10452351 original size:43 final size:44
Alignment explanation
Indices: 10452238--10452356 Score: 161
Period size: 44 Copynumber: 2.7 Consensus size: 44
10452228 ATACCAATCC
* *
10452238 AAATAATCAAATAAATTAGTACACATAAAAAATCAAAATCTACA
1 AAATAAACAAATAAATTAGTACACATAAAAAATCAAAAGCTACA
* *
10452282 AAATAAACAAATAAATTAGTACACATAAAAAATTATAAGCTACA
1 AAATAAACAAATAAATTAGTACACATAAAAAATCAAAAGCTACA
**
10452326 AAATAAAC-AATAGGTTAGTGA-ACATAAAAAA
1 AAATAAACAAATAAATTAGT-ACACATAAAAAA
10452357 ATCATAAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
43 19 0.28
44 49 0.72
ACGTcount: A:0.61, C:0.11, G:0.06, T:0.22
Consensus pattern (44 bp):
AAATAAACAAATAAATTAGTACACATAAAAAATCAAAAGCTACA
Found at i:10452980 original size:13 final size:13
Alignment explanation
Indices: 10452932--10452998 Score: 59
Period size: 13 Copynumber: 5.2 Consensus size: 13
10452922 TTTATTTATT
10452932 TACAAAATATAGTCA
1 TACAAAA-ATA-TCA
*
10452947 TACAAAAAT-GC-
1 TACAAAAATATCA
10452958 TATC-AAAATATCA
1 TA-CAAAAATATCA
*
10452971 TAGAAAAATATCA
1 TACAAAAATATCA
*
10452984 TACAATAATATCA
1 TACAAAAATATCA
10452997 TA
1 TA
10452999 ATTAAAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
11 7 0.16
12 3 0.07
13 24 0.56
14 2 0.05
15 7 0.16
ACGTcount: A:0.55, C:0.13, G:0.04, T:0.27
Consensus pattern (13 bp):
TACAAAAATATCA
Found at i:10453156 original size:27 final size:25
Alignment explanation
Indices: 10453063--10453167 Score: 110
Period size: 24 Copynumber: 4.2 Consensus size: 25
10453053 AAAAAATTTC
10453063 ATAATAAATCATGCAAATAAAT-ATA
1 ATAA-AAATCATGCAAATAAATCATA
*
10453088 ATAAAAATCATGCAAGT-AATCATGA
1 ATAAAAATCATGCAAATAAATCAT-A
*
10453113 A-AAAATATCATGTAAATAAATGTCATA
1 ATAAAA-ATCATGCAAATAAA--TCATA
*
10453140 ATAAAAATCATACAAATAAAT-ATA
1 ATAAAAATCATGCAAATAAATCATA
10453164 ATAA
1 ATAA
10453168 TAAAAATCCT
Statistics
Matches: 68, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
23 3 0.04
24 25 0.37
25 16 0.24
26 2 0.03
27 14 0.21
28 8 0.12
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.27
Consensus pattern (25 bp):
ATAAAAATCATGCAAATAAATCATA
Found at i:10453168 original size:27 final size:25
Alignment explanation
Indices: 10453063--10453175 Score: 97
Period size: 27 Copynumber: 4.4 Consensus size: 25
10453053 AAAAAATTTC
10453063 ATAATAAATCATGCAAATAA-ATATA
1 ATAA-AAATCATGCAAATAATATATA
*
10453088 ATAAAAATCATGCAAGTAATCATGA-A
1 ATAAAAATCATGCAAATAAT-AT-ATA
* * *
10453114 A-AAATATCATGTAAATAAATGTCATA
1 ATAAAAATCATGCAAAT-AATAT-ATA
*
10453140 ATAAAAATCATACAAATAAATATAATA
1 ATAAAAATCATGCAAAT-AATAT-ATA
10453167 ATAAAAATC
1 ATAAAAATC
10453176 CTACCAAAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
24 14 0.20
25 18 0.25
26 9 0.13
27 30 0.42
ACGTcount: A:0.59, C:0.09, G:0.05, T:0.27
Consensus pattern (25 bp):
ATAAAAATCATGCAAATAATATATA
Found at i:10454238 original size:109 final size:109
Alignment explanation
Indices: 10454054--10454265 Score: 415
Period size: 109 Copynumber: 1.9 Consensus size: 109
10454044 AAATCTACCG
10454054 GGTGGCTTACATAACATCCATGGTCATTCCTTCCTGAAGTAGTTCTGACATGTGCAGGATCTATT
1 GGTGGCTTACATAACATCCATGGTCATTCCTTCCTGAAGTAGTTCTGACATGTGCAGGATCTATT
10454119 TAAGATAACAACATGGAATTGTAAAATATACAACCATTCTACTT
66 TAAGATAACAACATGGAATTGTAAAATATACAACCATTCTACTT
*
10454163 GGTGGCTTACATAACATCCATGGTCATTCCTTCCTGAAGTTGTTCTGACATGTGCAGGATCTATT
1 GGTGGCTTACATAACATCCATGGTCATTCCTTCCTGAAGTAGTTCTGACATGTGCAGGATCTATT
10454228 TAAGATAACAACATGGAATTGTAAAATATACAACCATT
66 TAAGATAACAACATGGAATTGTAAAATATACAACCATT
10454266 TGAAATGTCA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 102 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (109 bp):
GGTGGCTTACATAACATCCATGGTCATTCCTTCCTGAAGTAGTTCTGACATGTGCAGGATCTATT
TAAGATAACAACATGGAATTGTAAAATATACAACCATTCTACTT
Found at i:10455301 original size:29 final size:28
Alignment explanation
Indices: 10455243--10455304 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
10455233 TAATTAACTC
* * * *
10455243 TTAATAAATTTATAATTCAATTACCTTA
1 TTAAAAAATTTAAAATTCAAGTACCATA
*
10455271 TTAAAAAATGTTAAAATTCAAGTATCATA
1 TTAAAAAAT-TTAAAATTCAAGTACCATA
10455300 TTAAA
1 TTAAA
10455305 TATTTTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.40
Consensus pattern (28 bp):
TTAAAAAATTTAAAATTCAAGTACCATA
Found at i:10455507 original size:5 final size:5
Alignment explanation
Indices: 10455499--10455547 Score: 55
Period size: 5 Copynumber: 9.4 Consensus size: 5
10455489 TACTATTATA
*
10455499 TTCTT TTC-T TTCTT GCTTTTT TTCTTT TTCTT TTCTT TTCTT TTCTT
1 TTCTT TTCTT TTCTT --TTCTT TTC-TT TTCTT TTCTT TTCTT TTCTT
10455546 TT
1 TT
10455548 TCTTCTTCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 4 0.11
5 25 0.66
6 5 0.13
7 4 0.11
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (5 bp):
TTCTT
Found at i:10455528 original size:6 final size:6
Alignment explanation
Indices: 10455517--10455564 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
10455507 TTTCTTGCTT
*
10455517 TTTTTC TTTTTC -TTTTC -TTTTC -TTTTC TTTTTC TTCTTCC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC
10455563 TT
1 TT
10455565 CCTCTTTCCC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 15 0.39
6 18 0.47
7 5 0.13
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:10455529 original size:27 final size:30
Alignment explanation
Indices: 10455499--10455554 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 30
10455489 TACTATTATA
10455499 TTCTTTTC-TTTC-TTGCTTTTT-TTCTTT
1 TTCTTTTCTTTTCTTTGCTTTTTCTTCTTT
*
10455526 TTCTTTTCTTTTCTTTTCTTTTTCTTCTT
1 TTCTTTTCTTTTCTTTGCTTTTTCTTCTT
10455555 CCTTTTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 8 0.32
28 4 0.16
29 8 0.32
30 5 0.20
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (30 bp):
TTCTTTTCTTTTCTTTGCTTTTTCTTCTTT
Found at i:10455537 original size:16 final size:16
Alignment explanation
Indices: 10455499--10455564 Score: 66
Period size: 16 Copynumber: 4.0 Consensus size: 16
10455489 TACTATTATA
10455499 TTCTTTTCTTTCTTGC-T
1 TTCTTTTCTTT-TT-CTT
10455516 TT-TTTTCTTTTTCTT
1 TTCTTTTCTTTTTCTT
10455531 TTCTTTTC-TTTTCTTT
1 TTCTTTTCTTTTTC-TT
10455547 TTCTTCTTCCTTTTTCTT
1 TTCTT-TT-CTTTTTCTT
10455565 CCTCTTTCCC
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.02
15 10 0.23
16 20 0.47
17 4 0.09
18 3 0.07
19 5 0.12
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (16 bp):
TTCTTTTCTTTTTCTT
Found at i:10455983 original size:11 final size:11
Alignment explanation
Indices: 10455967--10456005 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
10455957 AAAAGCATCA
*
10455967 TTTTGATAATT
1 TTTTGAAAATT
* *
10455978 TTTTGACATTT
1 TTTTGAAAATT
10455989 TTTTGAAAATT
1 TTTTGAAAATT
10456000 TTTTGA
1 TTTTGA
10456006 GTCTTCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.62
Consensus pattern (11 bp):
TTTTGAAAATT
Done.