Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 58 of 131
Found at i:11751710 original size:21 final size:19
Alignment explanation
Indices: 11751681--11751720 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
11751671 AAGAGGGATT
11751681 TAATATTTTAGATTAAGGTTG
1 TAATATTTT--ATTAAGGTTG
*
11751702 TAATTTTTTATTAAGGTTG
1 TAATATTTTATTAAGGTTG
11751721 GATTAAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (19 bp):
TAATATTTTATTAAGGTTG
Found at i:11751833 original size:5 final size:5
Alignment explanation
Indices: 11751818--11751847 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
11751808 TTAAATTGGC
11751818 TAAATT TAAAT TAAAT TAAAT TAAAT TAAA
1 TAAA-T TAAAT TAAAT TAAAT TAAAT TAAA
11751848 GTCATGACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:11751872 original size:27 final size:26
Alignment explanation
Indices: 11751838--11751919 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 26
11751828 TTAAATTAAA
11751838 TTAAATTAAAGTCATGACCTTAGTAAT
1 TTAAATTAAAGTC-TGACCTTAGTAAT
* * *
11751865 TTAAATTAAA-TCTAAACCCTAATTTAAT
1 TTAAATTAAAGTCT-GA-CCTTA-GTAAT
*
11751893 CTAAATTAAAGTCCTGACCTTAGTAAT
1 TTAAATTAAAGT-CTGACCTTAGTAAT
11751920 CATATATGGC
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 18 0.42
28 17 0.40
29 2 0.05
30 2 0.05
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (26 bp):
TTAAATTAAAGTCTGACCTTAGTAAT
Found at i:11752506 original size:25 final size:25
Alignment explanation
Indices: 11752478--11752541 Score: 119
Period size: 25 Copynumber: 2.6 Consensus size: 25
11752468 TTTTTTTTTC
*
11752478 TTATTAATTTTCATAATACTAACTT
1 TTATTATTTTTCATAATACTAACTT
11752503 TTATTATTTTTCATAATACTAACTT
1 TTATTATTTTTCATAATACTAACTT
11752528 TTATTATTTTTCAT
1 TTATTATTTTTCAT
11752542 TCCATTGACT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (25 bp):
TTATTATTTTTCATAATACTAACTT
Found at i:11753223 original size:17 final size:18
Alignment explanation
Indices: 11753189--11753224 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
11753179 TACAATGGTT
*
11753189 ATGGATACTATTTTTCAA
1 ATGGATACTATTTGTCAA
11753207 ATGGATAC-ATTTGTCAA
1 ATGGATACTATTTGTCAA
11753224 A
1 A
11753225 ACTTTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (18 bp):
ATGGATACTATTTGTCAA
Found at i:11753460 original size:64 final size:64
Alignment explanation
Indices: 11753359--11753488 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
11753349 TATGCGTAAA
11753359 TACCTTTATTATAAGAGGTTTAGGTTTACCATTGGTTATACAAGTTGGGTCTCACATGAGAAGT
1 TACCTTTATTATAAGAGGTTTAGGTTTACCATTGGTTATACAAGTTGGGTCTCACATGAGAAGT
11753423 TACCTTTATTATAAGAGGTTTAGGTTTACCATTGGTTATACAAGTTGGGTCTCACATGAGAAGT
1 TACCTTTATTATAAGAGGTTTAGGTTTACCATTGGTTATACAAGTTGGGTCTCACATGAGAAGT
11753487 TA
1 TA
11753489 GAAATAGGAC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (64 bp):
TACCTTTATTATAAGAGGTTTAGGTTTACCATTGGTTATACAAGTTGGGTCTCACATGAGAAGT
Found at i:11754272 original size:19 final size:20
Alignment explanation
Indices: 11754229--11754275 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
11754219 ATGTATTTTT
11754229 TGGATGTTTTATGGATGTAA
1 TGGATGTTTTATGGATGTAA
11754249 TGGAT-TTTTATGGATGTTAA
1 TGGATGTTTTATGGATG-TAA
11754269 -GGATGTT
1 TGGATGTT
11754276 ATAGATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (20 bp):
TGGATGTTTTATGGATGTAA
Found at i:11760645 original size:17 final size:17
Alignment explanation
Indices: 11760623--11760657 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11760613 TTTATTGAAA
11760623 TGGGAAGTAGTTTTGTT
1 TGGGAAGTAGTTTTGTT
*
11760640 TGGGAAGTCGTTTTGTT
1 TGGGAAGTAGTTTTGTT
11760657 T
1 T
11760658 TGTAGGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.49
Consensus pattern (17 bp):
TGGGAAGTAGTTTTGTT
Found at i:11762940 original size:9 final size:9
Alignment explanation
Indices: 11762917--11762967 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
11762907 AATCTAATAA
11762917 AAAATAAATG
1 AAAA-AAATG
*
11762927 GAAAAAATG
1 AAAAAAATG
11762936 AAAAAAATG
1 AAAAAAATG
*
11762945 --ATAAATG
1 AAAAAAATG
11762952 ACAAAAAATG
1 A-AAAAAATG
11762962 AAAAAA
1 AAAAAA
11762968 GAAAACTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
7 6 0.18
9 18 0.53
10 10 0.29
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.14
Consensus pattern (9 bp):
AAAAAAATG
Found at i:11762952 original size:16 final size:16
Alignment explanation
Indices: 11762929--11762972 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
11762919 AATAAATGGA
11762929 AAAAATGAAAAAAATG
1 AAAAATGAAAAAAATG
*
11762945 ATAAATGACAAAAAATG
1 AAAAATGA-AAAAAATG
*
11762962 AAAAAAGAAAA
1 AAAAATGAAAA
11762973 CTCATAGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.11
Consensus pattern (16 bp):
AAAAATGAAAAAAATG
Found at i:11767567 original size:7 final size:7
Alignment explanation
Indices: 11767547--11767634 Score: 51
Period size: 7 Copynumber: 12.3 Consensus size: 7
11767537 CCCTTAAAAA
*
11767547 AATAAAA
1 AATAAAT
*
11767554 AAAAAAT
1 AATAAAT
11767561 AATAAAT
1 AATAAAT
11767568 ATATATAATGT
1 A-ATA-AA--T
11767579 AATGAAA-
1 AAT-AAAT
11767586 AAT-AAT
1 AATAAAT
11767592 AATAAGAT
1 AATAA-AT
11767600 -ATAAA-
1 AATAAAT
11767605 AAGT-AAT
1 AA-TAAAT
11767612 AATAAAT
1 AATAAAT
11767619 AATAAAT
1 AATAAAT
*
11767626 AACAAAT
1 AATAAAT
11767633 AA
1 AA
11767635 CAACAAAAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
5 2 0.03
6 8 0.12
7 41 0.63
8 5 0.08
9 2 0.03
10 4 0.06
11 3 0.05
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (7 bp):
AATAAAT
Found at i:11767602 original size:30 final size:30
Alignment explanation
Indices: 11767543--11767623 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
11767533 TTAGCCCTTA
* * *
11767543 AAAAAATAA-AAAAAAAATAATAAATATAT
1 AAAAAGTAATAAAAATAATAATAAAGATAT
* *
11767572 ATAATGTAATGAAAAATAATAAT-AAGATAT
1 AAAAAGTAAT-AAAAATAATAATAAAGATAT
11767602 AAAAAGTAATAATAAATAATAA
1 AAAAAGTAATAA-AAATAATAA
11767624 ATAACAAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
29 8 0.19
30 23 0.55
31 11 0.26
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (30 bp):
AAAAAGTAATAAAAATAATAATAAAGATAT
Found at i:11767623 original size:20 final size:20
Alignment explanation
Indices: 11767544--11767624 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
11767534 TAGCCCTTAA
* * *
11767544 AAAAATAAAAAAAAAATAAT
1 AAAAATAATAATAAGATAAT
*
11767564 AAATAT-AT-ATAATG-TAAT
1 AAAAATAATAATAA-GATAAT
11767582 GAAAAATAATAATAAGAT-AT
1 -AAAAATAATAATAAGATAAT
11767602 AAAAAGTAATAATAA-ATAAT
1 AAAAA-TAATAATAAGATAAT
11767622 AAA
1 AAA
11767625 TAACAAATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
18 7 0.14
19 13 0.27
20 24 0.49
21 5 0.10
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAAATAATAATAAGATAAT
Found at i:11769425 original size:14 final size:15
Alignment explanation
Indices: 11769406--11769436 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
11769396 GAGAATTATT
11769406 AAATAATAAAA-ATA
1 AAATAATAAAAGATA
11769420 AAATAATAAAAGATA
1 AAATAATAAAAGATA
11769435 AA
1 AA
11769437 TAAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAATAATAAAAGATA
Found at i:11769437 original size:14 final size:13
Alignment explanation
Indices: 11769405--11769439 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
11769395 AGAGAATTAT
11769405 TAAATAATAAAAA
1 TAAATAATAAAAA
11769418 TAAAATAATAAAAGA
1 T-AAATAATAAAA-A
11769433 TAAATAA
1 TAAATAA
11769440 ATTTTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 17 0.85
15 2 0.10
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:11769449 original size:14 final size:14
Alignment explanation
Indices: 11769432--11769463 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
11769422 ATAATAAAAG
11769432 ATAAATAAATTTTA
1 ATAAATAAATTTTA
11769446 AT-AATAAATTTTA
1 ATAAATAAATTTTA
11769459 ATAAA
1 ATAAA
11769464 AGGGATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAATAAATTTTA
Found at i:11769625 original size:33 final size:33
Alignment explanation
Indices: 11769588--11769656 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
11769578 TTATGAACTG
* *
11769588 AAACCTTAAAATTGAAACCCTAATC-AAAACCTT
1 AAACCTTAAAA-TGAAACCCTAAACTAAAACCCT
11769621 AAACCTTAAAATGAAACCCTAAACTAAAACCCT
1 AAACCTTAAAATGAAACCCTAAACTAAAACCCT
11769654 AAA
1 AAA
11769657 ATGAAACCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 12 0.36
33 21 0.64
ACGTcount: A:0.52, C:0.25, G:0.03, T:0.20
Consensus pattern (33 bp):
AAACCTTAAAATGAAACCCTAAACTAAAACCCT
Found at i:11769638 original size:46 final size:45
Alignment explanation
Indices: 11769586--11769707 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 45
11769576 ATTTATGAAC
*
11769586 TGAAACCTTAAAATTGAAACCCT-AATCAAAACCTTAAACCTTAAAA
1 TGAAACCTTAAAA-TGAAACCCTAAAT-AAAACCTTAAACCCTAAAA
* * * *
11769632 TGAAACCCTAAACTAAAACCCTAAAATGAAACCTTAAACCCTAAAA
1 TGAAACCTTAAAATGAAACCCT-AAATAAAACCTTAAACCCTAAAA
* *
11769678 TGAAGCCTTAAAATGAAACCTTAAACTAAA
1 TGAAACCTTAAAATGAAACCCTAAA-TAAA
11769708 GCCCTAGAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
45 11 0.18
46 48 0.77
47 3 0.05
ACGTcount: A:0.51, C:0.22, G:0.06, T:0.21
Consensus pattern (45 bp):
TGAAACCTTAAAATGAAACCCTAAATAAAACCTTAAACCCTAAAA
Found at i:11769643 original size:13 final size:13
Alignment explanation
Indices: 11769621--11769722 Score: 74
Period size: 13 Copynumber: 8.3 Consensus size: 13
11769611 TCAAAACCTT
*
11769621 AAACCTTAAAATG
1 AAACCCTAAAATG
* *
11769634 AAACCCTAAACTA
1 AAACCCTAAAATG
11769647 AAACCCTAAAATG
1 AAACCCTAAAATG
11769660 AAA-CCT----T-
1 AAACCCTAAAATG
11769667 AAACCCTAAAATG
1 AAACCCTAAAATG
* *
11769680 AAGCCTTAAAATG
1 AAACCCTAAAATG
* *
11769693 AAACCTTAAACT-
1 AAACCCTAAAATG
*
11769705 AAAGCCCTAGAATG
1 AAA-CCCTAAAATG
11769719 AAAC
1 AAAC
11769723 TCGAGACCCG
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
7 3 0.04
8 4 0.06
12 7 0.10
13 52 0.75
14 3 0.04
ACGTcount: A:0.51, C:0.23, G:0.08, T:0.19
Consensus pattern (13 bp):
AAACCCTAAAATG
Found at i:11769651 original size:26 final size:26
Alignment explanation
Indices: 11769621--11769670 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
11769611 TCAAAACCTT
*
11769621 AAACCTTAAAATGAAACCCTAAACTA
1 AAACCCTAAAATGAAACCCTAAACTA
*
11769647 AAACCCTAAAATGAAACCTTAAAC
1 AAACCCTAAAATGAAACCCTAAAC
11769671 CCTAAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.54, C:0.24, G:0.04, T:0.18
Consensus pattern (26 bp):
AAACCCTAAAATGAAACCCTAAACTA
Found at i:11769671 original size:33 final size:33
Alignment explanation
Indices: 11769634--11769703 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
11769624 CCTTAAAATG
*
11769634 AAACCCTAAACTAAAACCCTAAAATGAAACCTT
1 AAACCCTAAAATAAAACCCTAAAATGAAACCTT
* * *
11769667 AAACCCTAAAATGAAGCCTTAAAATGAAACCTT
1 AAACCCTAAAATAAAACCCTAAAATGAAACCTT
11769700 AAAC
1 AAAC
11769704 TAAAGCCCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.51, C:0.24, G:0.06, T:0.19
Consensus pattern (33 bp):
AAACCCTAAAATAAAACCCTAAAATGAAACCTT
Found at i:11769672 original size:20 final size:20
Alignment explanation
Indices: 11769614--11769689 Score: 80
Period size: 20 Copynumber: 3.5 Consensus size: 20
11769604 ACCCTAATCA
*
11769614 AAACCTTAAACCTTAAAATG
1 AAACCTTAAACCCTAAAATG
11769634 AAACCCTAAACTAAAACCCTAAAATG
1 AAA-CCT----T-AAACCCTAAAATG
11769660 AAACCTTAAACCCTAAAATG
1 AAACCTTAAACCCTAAAATG
*
11769680 AAGCCTTAAA
1 AAACCTTAAA
11769690 ATGAAACCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
20 25 0.52
21 4 0.08
25 4 0.08
26 15 0.31
ACGTcount: A:0.51, C:0.24, G:0.05, T:0.20
Consensus pattern (20 bp):
AAACCTTAAACCCTAAAATG
Found at i:11773026 original size:21 final size:21
Alignment explanation
Indices: 11772971--11773015 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
11772961 GGAAAATAAA
* *
11772971 ATGTTTTATAAAT-TTTTTTT
1 ATGTTTGAAAAATGTTTTTTT
11772991 -TGTTTGAAAAATGTTTTTTT
1 ATGTTTGAAAAATGTTTTTTT
11773011 ATGTT
1 ATGTT
11773016 GATATAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 10 0.48
20 7 0.33
21 4 0.19
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.64
Consensus pattern (21 bp):
ATGTTTGAAAAATGTTTTTTT
Found at i:11776080 original size:20 final size:19
Alignment explanation
Indices: 11776057--11776120 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
11776047 AATGAAAAAC
11776057 AAAAATGAAGGAA-AAATGAA
1 AAAAATGAA-GAACAAA-GAA
*
11776077 AAAAATGAAAGAAGAAAAGAA
1 AAAAATG-AAGAA-CAAAGAA
*
11776098 AGAAA-GAAGAACAAAGAA
1 AAAAATGAAGAACAAAGAA
11776116 AAAAA
1 AAAAA
11776121 AGGAAATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 10 0.26
19 5 0.13
20 11 0.29
21 9 0.24
22 3 0.08
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.05
Consensus pattern (19 bp):
AAAAATGAAGAACAAAGAA
Found at i:11776093 original size:16 final size:16
Alignment explanation
Indices: 11776074--11776108 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11776064 AAGGAAAAAT
11776074 GAAAA-AAATGAAAGAA
1 GAAAAGAAA-GAAAGAA
11776090 GAAAAGAAAGAAAGAA
1 GAAAAGAAAGAAAGAA
11776106 GAA
1 GAA
11776109 CAAAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (16 bp):
GAAAAGAAAGAAAGAA
Found at i:11777174 original size:22 final size:22
Alignment explanation
Indices: 11777149--11777262 Score: 124
Period size: 22 Copynumber: 5.2 Consensus size: 22
11777139 AAAGCCCATA
*
11777149 TTAGCTGGCATATAAGCTCAGG
1 TTAGCTGGCATATAAGCTCAGT
* *
11777171 TTAGTTGGCATATAAGCCCAGT
1 TTAGCTGGCATATAAGCTCAGT
* *
11777193 TTAACTGGCATATAAGCTCAAT
1 TTAGCTGGCATATAAGCTCAGT
*
11777215 TTAGCTGGCACATAAGC-CTAGT
1 TTAGCTGGCATATAAGCTC-AGT
* *
11777237 TTAGCTAGCATGTAAGC-CTAGT
1 TTAGCTGGCATATAAGCTC-AGT
11777259 TTAG
1 TTAG
11777263 TTGAAAAAGT
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
21 1 0.01
22 77 0.99
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (22 bp):
TTAGCTGGCATATAAGCTCAGT
Found at i:11777262 original size:44 final size:44
Alignment explanation
Indices: 11777140--11777262 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
11777130 TTAGTTGACA
* * *
11777140 AAGCCCA-TATTAGCTGGCATATAAGCTCAGGTTAGTTGGCATAT
1 AAGCCCAGT-TTAGCTGGCATATAAGCTCAGTTTAGCTGGCACAT
* *
11777184 AAGCCCAGTTTAACTGGCATATAAGCTCAATTTAGCTGGCACAT
1 AAGCCCAGTTTAGCTGGCATATAAGCTCAGTTTAGCTGGCACAT
* * *
11777228 AAGCCTAGTTTAGCTAGCATGTAAGC-CTAGTTTAG
1 AAGCCCAGTTTAGCTGGCATATAAGCTC-AGTTTAG
11777263 TTGAAAAAGT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.01
44 65 0.97
45 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
AAGCCCAGTTTAGCTGGCATATAAGCTCAGTTTAGCTGGCACAT
Found at i:11777627 original size:67 final size:68
Alignment explanation
Indices: 11777490--11777872 Score: 247
Period size: 68 Copynumber: 5.7 Consensus size: 68
11777480 GCTTGCACTC
* * * *
11777490 ATGAAAAGATTTTAAGCCTAGTTTAGTTGTCACCTAATTAAGATTTAAGTCCAATTTAGTTGGCA
1 ATGAAAAGA-TTTAAGCCTAGTTTAGTTGGCACCTAATGAAGATTTAAGCCCAATTTAGTTAGCA
11777555 CCCA
65 CCCA
** * *
11777559 ATGAAAAGATTTAAGCCTAGTTTAGTTGGC-TTTAATGAAGTTTTAAGCCCAATTTAGTTAGCAT
1 ATGAAAAGATTTAAGCCTAGTTTAGTTGGCACCTAATGAAGATTTAAGCCCAATTTAGTTAGCAC
11777623 CCA
66 CCA
* * * * * * * * ** * * *
11777626 AT--TAAGTTTTAAGCTTAGTTTAGCTGACACTTAATGAAAAAATTTAAACATAGTTTAATTGGC
1 ATGAAAAGATTTAAGCCTAGTTTAGTTGGCACCTAATG--AAGATTTAAGCCCAATTTAGTTAGC
*
11777689 ACCGA
64 ACCCA
* * * *
11777694 ATG-AAA-TTTTAAGCATAGTTTAGCTGGCACC-AATGAAGATTTAAGCCCAGTTTA-TCTAGCA
1 ATGAAAAGATTTAAGCCTAGTTTAGTTGGCACCTAATGAAGATTTAAGCCCAATTTAGT-TAGCA
11777755 CCCA
65 CCCA
* * * * * ** *
11777759 ATG--AAGATTTAAGTCC-ATTTTAGCTAGCACCTCATGAAACGATTTAAGCCCAGTTTAACTGG
1 ATGAAAAGATTTAAG-CCTAGTTTAGTTGGCACCTAATG-AA-GATTTAAGCCCAATTTAGTTAG
11777821 CA-CCA
63 CACCCA
* * * *
11777826 ATG--ATGTTTTAAGCCTAGTTTA-TCTAGCA-CTAATGAAGGTTTAAGCC
1 ATGAAAAGATTTAAGCCTAGTTTAGT-TGGCACCTAATGAAGATTTAAGCC
11777873 TAGTTTATCT
Statistics
Matches: 254, Mismatches: 47, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
64 12 0.05
65 67 0.26
66 17 0.07
67 62 0.24
68 85 0.33
69 11 0.04
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (68 bp):
ATGAAAAGATTTAAGCCTAGTTTAGTTGGCACCTAATGAAGATTTAAGCCCAATTTAGTTAGCAC
CCA
Found at i:11777727 original size:100 final size:100
Alignment explanation
Indices: 11777498--11777763 Score: 252
Period size: 100 Copynumber: 2.7 Consensus size: 100
11777488 TCATGAAAAG
* * *
11777498 ATTTTAAGCCTAGTTTAGTTGTCACCTAATTAAGATTTAAG-TCCAATTTAGTTGGCACCCAATG
1 ATTTTAAGCCTAGTTTAGTTGGCACC-AATTAAGATTTAAGCTCCAATTTAGCTGACACCCAATG
* * * * ***
11777562 AAAAGATTTAAGCCTAGTTTAGTTGGCTTTAATGAA
65 AAAAAATTTAAACATAGTTTAATTGGCCCGAATGAA
* * * * * * * **
11777598 GTTTTAAGCCCAATTTAGTTAGCATCCAATTAAGTTTTAAGCT-TAGTTTAGCTGACACTTAATG
1 ATTTTAAGCCTAGTTTAGTTGGCA-CCAATTAAGATTTAAGCTCCAATTTAGCTGACACCCAATG
11777662 AAAAAATTTAAACATAGTTTAATTGGCACCGAATGAA
65 AAAAAATTTAAACATAGTTTAATTGGC-CCGAATGAA
* * * * *
11777699 ATTTTAAGCATAGTTTAGCTGGCACCAATGAAGATTTAAGC-CCAGTTTATCT-AGCACCCAATG
1 ATTTTAAGCCTAGTTTAGTTGGCACCAATTAAGATTTAAGCTCCAATTTAGCTGA-CACCCAATG
11777762 AA
65 AA
11777764 GATTTAAGTC
Statistics
Matches: 130, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
99 1 0.01
100 102 0.78
101 27 0.21
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (100 bp):
ATTTTAAGCCTAGTTTAGTTGGCACCAATTAAGATTTAAGCTCCAATTTAGCTGACACCCAATGA
AAAAATTTAAACATAGTTTAATTGGCCCGAATGAA
Found at i:11777729 original size:32 final size:32
Alignment explanation
Indices: 11777498--11777937 Score: 210
Period size: 33 Copynumber: 13.3 Consensus size: 32
11777488 TCATGAAAAG
* *
11777498 ATTTTAAGCCTAGTTTAG-TTGTCACCTAATTAA
1 ATTTTAAGCCTAGTTTAGCTAG-CACC-AATGAA
* * *
11777531 GA-TTTAAGTCC-AATTTAGTTGGCACCCAATGAAA
1 -ATTTTAAG-CCTAGTTTAGCTAGCA-CCAATG-AA
* * * ***
11777565 AGATTTAAGCCTAGTTTAGTTGGCTTTAATGAA
1 A-TTTTAAGCCTAGTTTAGCTAGCACCAATGAA
* * * * *
11777598 GTTTTAAGCCCAATTTAGTTAGCATCCAATTAA
1 ATTTTAAGCCTAGTTTAGCTAGCA-CCAATGAA
* * *
11777631 GTTTTAAGCTTAGTTTAGCT-GACACTTAATGAAAA
1 ATTTTAAGCCTAGTTTAGCTAG-CAC-CAATG--AA
* * * ** *
11777666 AATTTAAACATAGTTTAATTGGCACCGAATGAA
1 ATTTTAAGCCTAGTTTAGCTAGCACC-AATGAA
* *
11777699 ATTTTAAGCATAGTTTAGCTGGCACCAATGAA
1 ATTTTAAGCCTAGTTTAGCTAGCACCAATGAA
* *
11777731 GA-TTTAAGCCCAGTTTATCTAGCACCCAATGAA
1 -ATTTTAAGCCTAGTTTAGCTAGCA-CCAATGAA
* *
11777764 GA-TTTAAGTCC-ATTTTAGCTAGCACCTCATGAA
1 -ATTTTAAG-CCTAGTTTAGCTAGCACC-AATGAA
* * * * *
11777797 ACGATTTAAGCCCAGTTTAACTGGCACCAATGAT
1 A--TTTTAAGCCTAGTTTAGCTAGCACCAATGAA
* * *
11777831 GTTTTAAGCCTAGTTTATCTAGCACTAATGAA
1 ATTTTAAGCCTAGTTTAGCTAGCACCAATGAA
** * *
11777863 GGTTTAAGCCTAGTTTATCTAGCACCTAAGGAA
1 ATTTTAAGCCTAGTTTAGCTAGCACC-AATGAA
* * *
11777896 ATTTTAAGCCCAGCTTATCTAGCACCAATGAA
1 ATTTTAAGCCTAGTTTAGCTAGCACCAATGAA
**
11777928 AAATTAAGCC
1 ATTTTAAGCC
11777938 CGAATTATCT
Statistics
Matches: 321, Mismatches: 62, Indels: 48
0.74 0.14 0.11
Matches are distributed among these distances:
32 109 0.34
33 130 0.40
34 23 0.07
35 58 0.18
36 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (32 bp):
ATTTTAAGCCTAGTTTAGCTAGCACCAATGAA
Found at i:11777781 original size:133 final size:132
Alignment explanation
Indices: 11777544--11777930 Score: 370
Period size: 133 Copynumber: 2.9 Consensus size: 132
11777534 TTAAGTCCAA
* * * ** *
11777544 TTTAGTTGGCACCCAATGAAAAGATTTAAGCCTAGTTTAGTTGGCTTTAATGAAGTTTTAAGCCC
1 TTTAATTGGCA-CCAATG-AAA-TTTTAAGCCTAGTTTAGCTGGCACTAATGAAGATTTAAGCCC
* * * * * *
11777609 AATTTAGT-TAGCATCCAATTAAGTTTTAAGCTTAGTTTAGCT-GACACTTAATGAAAAAATTTA
63 AGTTTA-TCTAGCACCCAATGAAGATTTAAGCTCAGTTTAGCTAG-CACCTAATGAAAAAATTTA
*
11777672 AACATAG
126 AACACAG
* *
11777679 TTTAATTGGCACCGAATGAAATTTTAAGCATAGTTTAGCTGGCACCAATGAAGATTTAAGCCCAG
1 TTTAATTGGCACC-AATGAAATTTTAAGCCTAGTTTAGCTGGCACTAATGAAGATTTAAGCCCAG
* * ** *
11777744 TTTATCTAGCACCCAATGAAGATTTAAG-TCCATTTTAGCTAGCACCTCATGAAACGATTTAAGC
65 TTTATCTAGCACCCAATGAAGATTTAAGCT-CAGTTTAGCTAGCACCTAATGAAAAAATTTAAAC
*
11777808 CCAG
129 ACAG
* ** * * * *
11777812 TTTAACTGGCACCAATGATGTTTTAAGCCTAGTTTATCTAGCACTAATGAAGGTTTAAGCCTAGT
1 TTTAATTGGCACCAATGAAATTTTAAGCCTAGTTTAGCTGGCACTAATGAAGATTTAAGCCCAGT
* * * * *
11777877 TTATCTAGCACCTAAGGAA-ATTTTAAGCCCAGCTTATCTAGCACC-AATGAAAAA
66 TTATCTAGCACCCAATGAAGA-TTTAAGCTCAGTTTAGCTAGCACCTAATGAAAAA
11777931 TTAAGCCCGA
Statistics
Matches: 207, Mismatches: 39, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
131 7 0.03
132 82 0.40
133 98 0.47
134 6 0.03
135 14 0.07
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (132 bp):
TTTAATTGGCACCAATGAAATTTTAAGCCTAGTTTAGCTGGCACTAATGAAGATTTAAGCCCAGT
TTATCTAGCACCCAATGAAGATTTAAGCTCAGTTTAGCTAGCACCTAATGAAAAAATTTAAACAC
AG
Found at i:11777805 original size:100 final size:99
Alignment explanation
Indices: 11777701--11777975 Score: 274
Period size: 97 Copynumber: 2.8 Consensus size: 99
11777691 CGAATGAAAT
* *
11777701 TTTAAGCATAGTTTAGCTGGCACCAATGAAGATTTAAGCCCAGTTTATCTAGCACCCAATGAAGA
1 TTTAAGCACAGTTTAACTGGCACCAATGAAGATTTAAGCCCAGTTTATCTAGCA-CCAATGAAGA
*
11777766 TTTAAGTCC-ATTTTAGCTAGCACCTCATGAAACGA
65 TTTAAG-CCTAGTTTAGCTAGCACCTCATGAAACGA
* * * * * *
11777801 TTTAAGCCCAGTTTAACTGGCACCAATGATGTTTTAAGCCTAGTTTATCTAGCACTAATGAAGGT
1 TTTAAGCACAGTTTAACTGGCACCAATGAAGATTTAAGCCCAGTTTATCTAGCACCAATGAAGAT
* * * *
11777866 TTAAGCCTAGTTTATCTAGCACCTAAGGAAA--T
66 TTAAGCCTAGTTTAGCTAGCACCTCATGAAACGA
* * * * * * * * *
11777898 TTTAAGCCCAGCTTATCTAGCACCAATGAAAAATTAAGCCC-GAATTATCTAGTACTAATGAA-A
1 TTTAAGCACAGTTTAACTGGCACCAATGAAGATTTAAGCCCAG-TTTATCTAGCACCAATGAAGA
11777961 TTTAAG-CTCAGTTTA
65 TTTAAGCCT-AGTTTA
11777976 ATTGGCTCCC
Statistics
Matches: 148, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
95 2 0.01
96 13 0.09
97 50 0.34
98 2 0.01
99 33 0.22
100 48 0.32
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (99 bp):
TTTAAGCACAGTTTAACTGGCACCAATGAAGATTTAAGCCCAGTTTATCTAGCACCAATGAAGAT
TTAAGCCTAGTTTAGCTAGCACCTCATGAAACGA
Found at i:11777902 original size:132 final size:133
Alignment explanation
Indices: 11777677--11777921 Score: 332
Period size: 132 Copynumber: 1.8 Consensus size: 133
11777667 ATTTAAACAT
* *
11777677 AGTTTAATTGGCACCGAATGAAATTTTAAGCATAGTTTAGCTGGCACCAATGAAGATTTAAGCCC
1 AGTTTAACTGGCACCGAATGAAATTTTAAGCATAGTTTAGCTAGCACCAATGAAGATTTAAGCCC
* * **
11777742 AGTTTATCTAGCACCCAATGAAGATTTAAGTCCATTTTAGCTAGCACCTCATGAAACGATTTAAG
66 AGTTTATCTAGCACCCAAGGAAGATTTAAGCCCAGCTTAGCTAGCACCTCATGAAACGATTTAAG
11777807 CCC
131 CCC
** * * * * *
11777810 AGTTTAACTGGCACC-AATGATGTTTTAAGCCTAGTTTATCTAGCACTAATGAAGGTTTAAGCCT
1 AGTTTAACTGGCACCGAATGAAATTTTAAGCATAGTTTAGCTAGCACCAATGAAGATTTAAGCCC
* *
11777874 AGTTTATCTAGCACCTAAGGAA-ATTTTAAGCCCAGCTTATCTAGCACC
66 AGTTTATCTAGCACCCAAGGAAGA-TTTAAGCCCAGCTTAGCTAGCACC
11777922 AATGAAAAAT
Statistics
Matches: 96, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
131 1 0.01
132 81 0.84
133 14 0.15
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (133 bp):
AGTTTAACTGGCACCGAATGAAATTTTAAGCATAGTTTAGCTAGCACCAATGAAGATTTAAGCCC
AGTTTATCTAGCACCCAAGGAAGATTTAAGCCCAGCTTAGCTAGCACCTCATGAAACGATTTAAG
CCC
Found at i:11777914 original size:33 final size:32
Alignment explanation
Indices: 11777687--11777975 Score: 230
Period size: 32 Copynumber: 8.9 Consensus size: 32
11777677 AGTTTAATTG
* ** * *
11777687 GCACCGAATGAAATTTTAAGCATAGTTTAGCTG
1 GCACCTAATGAAA-TTTAAGCCCAGTTTATCTA
11777720 GCACC-AATGAAGATTTAAGCCCAGTTTATCTA
1 GCACCTAATGAA-ATTTAAGCCCAGTTTATCTA
* * * *
11777752 GCACCCAATGAAGATTTAAGTCCATTTTAGCTA
1 GCACCTAATGAA-ATTTAAGCCCAGTTTATCTA
* * *
11777785 GCACCTCATGAAACGATTTAAGCCCAGTTTAACTG
1 GCACCTAATG-AA--ATTTAAGCCCAGTTTATCTA
** *
11777820 GCACC-AATGATGTTTTAAGCCTAGTTTATCTA
1 GCACCTAATGA-AATTTAAGCCCAGTTTATCTA
* *
11777852 GCA-CTAATGAAGGTTTAAGCCTAGTTTATCTA
1 GCACCTAATGAA-ATTTAAGCCCAGTTTATCTA
* *
11777884 GCACCTAAGGAAATTTTAAGCCCAGCTTATCTA
1 GCACCTAATGAAA-TTTAAGCCCAGTTTATCTA
* *
11777917 GCACC-AATGAAAAATTAAGCCC-GAATTATCTA
1 GCACCTAATG-AAATTTAAGCCCAG-TTTATCTA
* *
11777949 GTA-CTAATGAAATTTAAGCTCAGTTTA
1 GCACCTAATGAAATTTAAGCCCAGTTTA
11777976 ATTGGCTCCC
Statistics
Matches: 211, Mismatches: 32, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
31 16 0.08
32 97 0.46
33 71 0.34
34 5 0.02
35 22 0.10
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (32 bp):
GCACCTAATGAAATTTAAGCCCAGTTTATCTA
Found at i:11778057 original size:61 final size:62
Alignment explanation
Indices: 11777931--11778170 Score: 170
Period size: 61 Copynumber: 3.9 Consensus size: 62
11777921 CAATGAAAAA
* * * * * * ** *
11777931 TTAAGCCCGAATTATCTAGTA-CTAATG-AAATTTAAGCTCAGTTTAATTGGCTCCC-AGATT
1 TTAAGCCCAAATTAACTAGCATCCAATGAAAATTTAAGCCCAATTTAGCTGGCACCCAAGA-T
* * ** * * *
11777991 TTAAGCCTAATTTAGGTAGCATTC-ATGAAAGATTTAAGTCCACTTTAGCTGGCACCCAA-AT
1 TTAAGCCCAAATTAACTAGCATCCAATGAAA-ATTTAAGCCCAATTTAGCTGGCACCCAAGAT
* *
11778052 TTAAGCCCAAATTAACTAGTATCCAATGAAAATTTAAGCCCAATTTAGCTGGCACCCAAGTT
1 TTAAGCCCAAATTAACTAGCATCCAATGAAAATTTAAGCCCAATTTAGCTGGCACCCAAGAT
** * * * *
11778114 TTAAGCTTAGATTATCTGGCA-CTC-ATGAAAATATTTAAGCCCAACTTAGCTGGCACC
1 TTAAGCCCAAATTAACTAGCATC-CAATG-AAA-ATTTAAGCCCAATTTAGCTGGCACC
11778171 AATGAAGGTT
Statistics
Matches: 141, Mismatches: 30, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
60 18 0.13
61 51 0.36
62 47 0.33
63 25 0.18
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (62 bp):
TTAAGCCCAAATTAACTAGCATCCAATGAAAATTTAAGCCCAATTTAGCTGGCACCCAAGAT
Found at i:11778140 original size:123 final size:122
Alignment explanation
Indices: 11777931--11778170 Score: 272
Period size: 123 Copynumber: 2.0 Consensus size: 122
11777921 CAATGAAAAA
* * * * * * *
11777931 TTAAGCCCGAATTATCTAGTACTAATGAAATTTAAGCTCAGTTTAATTGGCTCCCAGATTTTAAG
1 TTAAGCCCAAATTAACTAGTACCAATGAAATTTAAGCCCAATTTAACTGGCACCCAGATTTTAAG
* * *
11777996 CCTAATTTAGGTAGCATTCATG-AAAGATTTAAGTCC-ACTTTAGCTGGCACCCAAAT
66 CCTAATTTAGCTAGCACTCATGAAAAGATTTAAGCCCAAC-TTAGCTGGCACCCAAAT
*
11778052 TTAAGCCCAAATTAACTAGTATCCAATGAAAATTTAAGCCCAATTTAGCTGGCACCCA-AGTTTT
1 TTAAGCCCAAATTAACTAGTA-CCAATG-AAATTTAAGCCCAATTTAACTGGCACCCAGA-TTTT
* * * *
11778116 AAGCTTAGA-TTATCTGGCACTCATGAAAATATTTAAGCCCAACTTAGCTGGCACC
63 AAGCCTA-ATTTAGCTAGCACTCATGAAAAGATTTAAGCCCAACTTAGCTGGCACC
11778171 AATGAAGGTT
Statistics
Matches: 98, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
121 19 0.19
122 6 0.06
123 46 0.47
124 25 0.26
125 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (122 bp):
TTAAGCCCAAATTAACTAGTACCAATGAAATTTAAGCCCAATTTAACTGGCACCCAGATTTTAAG
CCTAATTTAGCTAGCACTCATGAAAAGATTTAAGCCCAACTTAGCTGGCACCCAAAT
Found at i:11778185 original size:95 final size:95
Alignment explanation
Indices: 11778050--11778378 Score: 358
Period size: 95 Copynumber: 3.4 Consensus size: 95
11778040 TGGCACCCAA
* * * *
11778050 ATTTAAGCCCAAATTAACTAGTATCCAATGAAAATTTAAGCCCAATTTAGCTGGCACCCAAGTTT
1 ATTTAAGCCCAATTTAACTAGCA-CCAATGAAGATTTAAGCCCAATTTATCTGGCACCCAAGTTT
** *
11778115 TAAGCTTAGATTATCTGGCACTCATGAAAAT
65 TAAGCCCAGATTATCTGGCACTCATGAAAAG
* * * * ** *
11778146 ATTTAAGCCCAACTTAGCTGGCACCAATGAAGGTTTAAGCTTAATTTATCTGGCACCCAAATTTT
1 ATTTAAGCCCAATTTAACTAGCACCAATGAAGATTTAAGCCCAATTTATCTGGCACCCAAGTTTT
* *
11778211 ATGCCCAGATTGTCTGGCACTCATGAAAAG
66 AAGCCCAGATTATCTGGCACTCATGAAAAG
* * * * *
11778241 ATTTAA-TCCAGTTTAATTGGCACCAGTGAAGATTTAAGCCCAATTTATCTGGCACCCAATGTAA
1 ATTTAAGCCCAATTTAACTAGCACCAATGAAGATTTAAGCCCAATTTATCTGGCACCCAA-GT--
*
11778305 TTTAAGCCCA-ATTTATTTGGCACTCATGAAAAG
63 TTTAAGCCCAGA-TTATCTGGCACTCATGAAAAG
* * *
11778338 ATTTAAGTCCAATTTAGCTAGTACCTAATGAA-ATTTAAGCC
1 ATTTAAGCCCAATTTAACTAGCACC-AATGAAGATTTAAGCC
11778379 TAGTATTAAT
Statistics
Matches: 193, Mismatches: 34, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
94 44 0.23
95 68 0.35
96 20 0.10
97 34 0.18
98 22 0.11
99 5 0.03
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (95 bp):
ATTTAAGCCCAATTTAACTAGCACCAATGAAGATTTAAGCCCAATTTATCTGGCACCCAAGTTTT
AAGCCCAGATTATCTGGCACTCATGAAAAG
Found at i:11778308 original size:32 final size:32
Alignment explanation
Indices: 11777685--11778378 Score: 226
Period size: 32 Copynumber: 21.7 Consensus size: 32
11777675 ATAGTTTAAT
* ** * *
11777685 TGGCACCGAATGAAATTTTAAGCATAGTTTAGC
1 TGGCACCCAATGAAA-TTTAAGCCCAATTTATC
*
11777718 TGGCA-CCAATGAAGATTTAAGCCCAGTTTATC
1 TGGCACCCAATGAA-ATTTAAGCCCAATTTATC
* * * *
11777750 TAGCACCCAATGAAGATTTAAGTCCATTTTAGC
1 TGGCACCCAATGAA-ATTTAAGCCCAATTTATC
* * *
11777783 TAGCACCTC-ATGAAACGATTTAAGCCCAGTTTAAC
1 TGGCACC-CAATG-AA--ATTTAAGCCCAATTTATC
** * *
11777818 TGGCA-CCAATGATGTTTTAAGCCTAGTTTATC
1 TGGCACCCAATGA-AATTTAAGCCCAATTTATC
* * * * *
11777850 TAGCA-CTAATGAAGGTTTAAGCCTAGTTTATC
1 TGGCACCCAATGAA-ATTTAAGCCCAATTTATC
* * * **
11777882 TAGCACCTAAGGAAATTTTAAGCCCAGCTTATC
1 TGGCACCCAATGAAA-TTTAAGCCCAATTTATC
* *
11777915 TAGCA-CCAATGAAAAATTAAGCCCGAA-TTATC
1 TGGCACCCAATG-AAATTTAAGCCC-AATTTATC
* * * * *
11777947 TAGTA-CTAATGAAATTTAAGCTCAGTTTAAT-
1 TGGCACCCAATGAAATTTAAGCCCAATTT-ATC
* * * **
11777978 TGGCTCCC-A-G-ATTTTAAGCCTAATTTAGG
1 TGGCACCCAATGAAATTTAAGCCCAATTTATC
* ** * * *
11778007 TAGCATTC-ATGAAAGATTTAAGTCCACTTTAGC
1 TGGCACCCAATG-AA-ATTTAAGCCCAATTTATC
* *
11778040 TGGCACCC----AAATTTAAGCCCAAATTAAC
1 TGGCACCCAATGAAATTTAAGCCCAATTTATC
* * * *
11778068 TAGTATCCAATGAAAATTTAAGCCCAATTTAGC
1 TGGCACCCAATG-AAATTTAAGCCCAATTTATC
* **
11778101 TGGCACCCAA-G--TTTTAAGCTTAGA-TTATC
1 TGGCACCCAATGAAATTTAAGCCCA-ATTTATC
* * *
11778130 TGGCACTC-ATGAAAATATTTAAGCCCAACTTAGC
1 TGGCACCCAATG--AA-ATTTAAGCCCAATTTATC
* **
11778164 TGGCA-CCAATGAAGGTTTAAGCTTAATTTATC
1 TGGCACCCAATGAA-ATTTAAGCCCAATTTATC
* * *
11778196 TGGCACCC-A--AATTTTATGCCCAGA-TTGTC
1 TGGCACCCAATGAAATTTAAGCCCA-ATTTATC
* * *
11778225 TGGCACTC-ATGAAAAGATTTAA-TCCAGTTTAAT-
1 TGGCACCCAATG--AA-ATTTAAGCCCAATTT-ATC
*
11778258 TGGCA-CCAGTGAAGATTTAAGCCCAATTTATC
1 TGGCACCCAATGAA-ATTTAAGCCCAATTTATC
* *
11778290 TGGCACCCAATGTAATTTAAGCCCAATTTATT
1 TGGCACCCAATGAAATTTAAGCCCAATTTATC
* * *
11778322 TGGCACTC-ATGAAAAGATTTAAGTCCAATTTAGC
1 TGGCACCCAATG--AA-ATTTAAGCCCAATTTATC
* * *
11778356 TAGTACCTAATGAAATTTAAGCC
1 TGGCACCCAATGAAATTTAAGCC
11778379 TAGTATTAAT
Statistics
Matches: 500, Mismatches: 110, Indels: 103
0.70 0.15 0.14
Matches are distributed among these distances:
28 21 0.04
29 58 0.12
30 7 0.01
31 29 0.06
32 168 0.34
33 143 0.29
34 51 0.10
35 23 0.05
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (32 bp):
TGGCACCCAATGAAATTTAAGCCCAATTTATC
Found at i:11778404 original size:66 final size:65
Alignment explanation
Indices: 11778083--11778459 Score: 245
Period size: 66 Copynumber: 5.8 Consensus size: 65
11778073 TCCAATGAAA
* * *
11778083 ATTTAAGCCCAATTTAGCTGGCACCCAA-G--TTTTAAGCTTAGATT-ATCTGGCACTCATGAAA
1 ATTTAAGCCCAATTTAGCTGGCA-CCAATGAAATTTAAGCCTAGTTTAAT-TGGCACTCATGAAA
*
11778144 AT
64 AG
* * * * *
11778146 ATTTAAGCCCAACTTAGCTGGCACCAATGAAGGTTTAAGCTTAATTT-ATCTGGCAC-C---CAA
1 ATTTAAGCCCAATTTAGCTGGCACCAATGAA-ATTTAAGCCTAGTTTAAT-TGGCACTCATGAAA
11778206 A-
64 AG
* * *
11778207 TTTTATGCCCAGA-TT-GTCTGGCACTC-ATGAAAAGATTTAATCC-AGTTTAATTGGCAC-CAG
1 ATTTAAGCCCA-ATTTAG-CTGGCAC-CAATG--AA-ATTTAAGCCTAGTTTAATTGGCACTCA-
11778267 TG--AAG
59 TGAAAAG
* * * * *
11778272 ATTTAAGCCCAATTTATCTGGCACCCAATGTAATTTAAGCCCAATTTATTTGGCACTCATGAAAA
1 ATTTAAGCCCAATTTAGCTGGCA-CCAATGAAATTTAAGCCTAGTTTAATTGGCACTCATGAAAA
11778337 G
65 G
* * * *
11778338 ATTTAAGTCCAATTTAGCTAGTACCTAATGAAATTTAAGCCTAGTATTAATTGGTA-TCAATG-A
1 ATTTAAGCCCAATTTAGCTGGCACC-AATGAAATTTAAGCCTAGT-TTAATTGGCACTC-ATGAA
11778401 AAG
63 AAG
* * *
11778404 ATGTAAGCCCAATTTAGTTGGCACCAATAAGAATTTAAGCCTAGTTTAGA-TGGCAC
1 ATTTAAGCCCAATTTAGCTGGCACCAATGA-AATTTAAGCCTAGTTTA-ATTGGCAC
11778460 CCAGGTTTTA
Statistics
Matches: 251, Mismatches: 34, Indels: 55
0.74 0.10 0.16
Matches are distributed among these distances:
60 1 0.00
61 21 0.08
62 20 0.08
63 42 0.17
64 18 0.07
65 34 0.14
66 104 0.41
67 11 0.04
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (65 bp):
ATTTAAGCCCAATTTAGCTGGCACCAATGAAATTTAAGCCTAGTTTAATTGGCACTCATGAAAAG
Found at i:11778444 original size:32 final size:33
Alignment explanation
Indices: 11777495--11778460 Score: 156
Period size: 33 Copynumber: 29.9 Consensus size: 33
11777485 CACTCATGAA
* * * * *
11777495 AAGATTTTAAGCCTAGTTTAGTTGTCACCTAATT
1 AAGAATTTAAGCCCAATTTAGTTGGCACC-AATG
*
11777529 AAG-ATTTAAGTCCAATTTAGTTGGCACCCAATG
1 AAGAATTTAAGCCCAATTTAGTTGGCA-CCAATG
* * * ***
11777562 AAAAGATTTAAGCCTAGTTTAGTTGGCTTTAATG
1 AAGA-ATTTAAGCCCAATTTAGTTGGCACCAATG
* * *
11777596 AAG-TTTTAAGCCCAATTTAGTTAGCATCCAATT
1 AAGAATTTAAGCCCAATTTAGTTGGCA-CCAATG
* ** * * * *
11777629 AAG-TTTTAAGCTTAGTTTAGCTGACACTTAATG
1 AAGAATTTAAGCCCAATTTAGTTGGCAC-CAATG
* * ** * *
11777662 AAAAAATTTAAACATAGTTTAATTGGCACCGAATG
1 -AAGAATTTAAGCCCAATTTAGTTGGCACC-AATG
* ** * *
11777697 AA-ATTTTAAGCATAGTTTAGCTGGCACCAATG
1 AAGAATTTAAGCCCAATTTAGTTGGCACCAATG
* *
11777729 AAG-ATTTAAGCCCAGTTTA-TCTAGCACCCAATG
1 AAGAATTTAAGCCCAATTTAGT-TGGCA-CCAATG
* * * * *
11777762 AAG-ATTTAAGTCCATTTTAGCTAGCACCTCATG
1 AAGAATTTAAGCCCAATTTAGTTGGCACC-AATG
* **
11777795 AA-ACGATTTAAGCCCAGTTTAACTGGCACCAATG
1 AAGA--ATTTAAGCCCAATTTAGTTGGCACCAATG
* * * * * *
11777829 ATG-TTTTAAGCCTAGTTTA-TCTAGCACTAATG
1 AAGAATTTAAGCCCAATTTAGT-TGGCACCAATG
* * * * *
11777861 AAG-GTTTAAGCCTAGTTTA-TCTAGCACCTAAGG
1 AAGAATTTAAGCCCAATTTAGT-TGGCACC-AATG
* ** *
11777894 AA-ATTTTAAGCCCAGCTTA-TCTAGCACCAATG
1 AAGAATTTAAGCCCAATTTAGT-TGGCACCAATG
* * * *
11777926 AA-AAATTAAGCCCGAA-TTA-TCTAGTACTAATG
1 AAGAATTTAAGCCC-AATTTAGT-TGGCACCAATG
* * * *
11777958 -A-AATTTAAGCTCAGTTTAATTGGCTCC----
1 AAGAATTTAAGCCCAATTTAGTTGGCACCAATG
* * * * * *
11777985 CAGATTTTAAGCCTAATTTAGGTAGCATTC-ATG
1 AAGAATTTAAGCCCAATTTAGTTGGCA-CCAATG
* * *
11778018 AA-AGATTTAAGTCCACTTTAGCTGGCACC----
1 AAGA-ATTTAAGCCCAATTTAGTTGGCACCAATG
* * ** * *
11778047 CA-AATTTAAGCCCAAATTAACTAGTATCCAATG
1 AAGAATTTAAGCCCAATTTAGTTGGCA-CCAATG
* *
11778080 AA-AATTTAAGCCCAATTTAGCTGGCACC---C
1 AAGAATTTAAGCCCAATTTAGTTGGCACCAATG
* **
11778109 AAG-TTTTAAGCTTAGA-TTA-TCTGGCACTC-ATG
1 AAGAATTTAAGCCCA-ATTTAGT-TGGCAC-CAATG
* * *
11778141 AAAATATTTAAGCCCAACTTAGCTGGCACCAATG
1 AAGA-ATTTAAGCCCAATTTAGTTGGCACCAATG
* ** *
11778175 AAG-GTTTAAGCTTAATTTA-TCTGGCACC---C
1 AAGAATTTAAGCCCAATTTAGT-TGGCACCAATG
* *
11778204 AA-ATTTTATGCCCAGA-TT-GTCTGGCACTC-ATG
1 AAGAATTTAAGCCCA-ATTTAGT-TGGCAC-CAATG
* * * * *
11778236 AAAAGATTTAA-TCCAGTTTAATTGGCACCAGTG
1 AAGA-ATTTAAGCCCAATTTAGTTGGCACCAATG
11778269 AAG-ATTTAAGCCCAATTTA-TCTGGCACCCAATG
1 AAGAATTTAAGCCCAATTTAGT-TGGCA-CCAATG
* *
11778302 --TAATTTAAGCCCAATTTATTTGGCACTC-ATG
1 AAGAATTTAAGCCCAATTTAGTTGGCAC-CAATG
* * * * *
11778333 AAAAGATTTAAGTCCAATTTAGCTAGTACCTAATG
1 AAGA-ATTTAAGCCCAATTTAGTTGGCACC-AATG
* * * * *
11778368 -A-AATTTAAGCCTAGTATTAATTGGTATCAATG
1 AAGAATTTAAGCCCAAT-TTAGTTGGCACCAATG
*
11778400 AA-AGATGTAAGCCCAATTTAGTTGGCACCAAT-
1 AAGA-ATTTAAGCCCAATTTAGTTGGCACCAATG
* * *
11778432 AAGAATTTAAGCCTAGTTTAGATGGCACC
1 AAGAATTTAAGCCCAATTTAGTTGGCACC
11778461 CAGGTTTTAG
Statistics
Matches: 691, Mismatches: 168, Indels: 148
0.69 0.17 0.15
Matches are distributed among these distances:
28 18 0.03
29 58 0.08
30 6 0.01
31 27 0.04
32 220 0.32
33 221 0.32
34 76 0.11
35 65 0.09
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (33 bp):
AAGAATTTAAGCCCAATTTAGTTGGCACCAATG
Found at i:11780249 original size:17 final size:17
Alignment explanation
Indices: 11780229--11780280 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
11780219 AACTAGAAAG
11780229 AAAACAGCAGGAGAAGA
1 AAAACAGCAGGAGAAGA
11780246 AAAACAGCAGGAGAAGA
1 AAAACAGCAGGAGAAGA
* *
11780263 AAACCAGCAGGGGAAGA
1 AAAACAGCAGGAGAAGA
11780280 A
1 A
11780281 GGTTCGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.56, C:0.13, G:0.31, T:0.00
Consensus pattern (17 bp):
AAAACAGCAGGAGAAGA
Found at i:11780997 original size:14 final size:14
Alignment explanation
Indices: 11780978--11781021 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
11780968 AAGAATTATT
11780978 AAATAATAAAAATA
1 AAATAATAAAAATA
11780992 AAATAATAAAAGAT-
1 AAATAATAAAA-ATA
*
11781006 AAATAATAATAATA
1 AAATAATAAAAATA
11781020 AA
1 AA
11781022 TTTTAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 2 0.07
14 23 0.85
15 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (14 bp):
AAATAATAAAAATA
Found at i:11781266 original size:13 final size:13
Alignment explanation
Indices: 11781232--11781266 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
11781222 ATGAAACCTT
11781232 AAACCTTAAAATG
1 AAACCTTAAAATG
*
11781245 -AACCCTAAAATG
1 AAACCTTAAAATG
11781257 AAACCTTAAA
1 AAACCTTAAA
11781267 CTAAAATCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.54, C:0.20, G:0.06, T:0.20
Consensus pattern (13 bp):
AAACCTTAAAATG
Found at i:11781305 original size:46 final size:45
Alignment explanation
Indices: 11781246--11781333 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 45
11781236 CTTAAAATGA
11781246 ACCCTAAAATGAAA-CCTTAAACTAAAATCCTAGAATGAAACTCGAG
1 ACCCTAAAATGAAACCCTTAAA-TAAAATCCTAG-ATGAAACTCGAG
** * *
11781292 ACCCTAACGTGAAACCCTTAAATAAAATCTTAGGTGAAACTC
1 ACCCTAAAATGAAACCCTTAAATAAAATCCTAGATGAAACTC
11781334 TAAATTCTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 8 0.22
46 22 0.59
47 7 0.19
ACGTcount: A:0.44, C:0.23, G:0.11, T:0.22
Consensus pattern (45 bp):
ACCCTAAAATGAAACCCTTAAATAAAATCCTAGATGAAACTCGAG
Found at i:11781551 original size:14 final size:14
Alignment explanation
Indices: 11781519--11781567 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
11781509 TTCTGTAACT
*
11781519 TAAAATAATAA-AA
1 TAAAATAAAAATAA
*
11781532 TTAAATAAAGAATAA
1 TAAAATAAA-AATAA
11781547 -AAAATAAAAATAA
1 TAAAATAAAAATAA
11781560 TAAAATAA
1 TAAAATAA
11781568 GATTTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 12 0.40
14 16 0.53
15 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (14 bp):
TAAAATAAAAATAA
Found at i:11783656 original size:13 final size:14
Alignment explanation
Indices: 11783628--11783660 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11783618 TTGAAATTGA
11783628 TTATTTTTATCGTT
1 TTATTTTTATCGTT
*
11783642 TTATTTTTAT-TTT
1 TTATTTTTATCGTT
11783655 TTATTT
1 TTATTT
11783661 GCATCATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (14 bp):
TTATTTTTATCGTT
Found at i:11789749 original size:6 final size:6
Alignment explanation
Indices: 11789740--11789769 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
11789730 TTTTTCTTTC
11789740 CAATTT CAATTT CAATTT CAATTT CAATTT
1 CAATTT CAATTT CAATTT CAATTT CAATTT
11789770 TTATTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (6 bp):
CAATTT
Found at i:11789775 original size:18 final size:19
Alignment explanation
Indices: 11789729--11789775 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
11789719 TTTTGCTTTT
*
11789729 ATTTTTCTTTCCAATTTCA
1 ATTTTTATTTCCAATTTCA
**
11789748 ATTTCAATTT-CAATTTCA
1 ATTTTTATTTCCAATTTCA
11789766 ATTTTTATTT
1 ATTTTTATTT
11789776 TATATTCTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTTATTTCCAATTTCA
Found at i:11789800 original size:10 final size:9
Alignment explanation
Indices: 11789767--11789819 Score: 54
Period size: 9 Copynumber: 5.6 Consensus size: 9
11789757 TCAATTTCAA
11789767 TTTTTATTT
1 TTTTTATTT
11789776 TATATTCTATTT
1 T-T-TT-TATTT
*
11789788 TTTTCA-TT
1 TTTTTATTT
11789796 TTTTTATTT
1 TTTTTATTT
11789805 TTTTTATTT
1 TTTTTATTT
11789814 TGTTTT
1 T-TTTT
11789820 TTTCCTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 7 0.19
9 14 0.38
10 7 0.19
11 3 0.08
12 6 0.16
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (9 bp):
TTTTTATTT
Found at i:11789814 original size:16 final size:17
Alignment explanation
Indices: 11789768--11789837 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 17
11789758 CAATTTCAAT
*
11789768 TTTTATTTTATATTC-TA
1 TTTT-TTTTATTTTCTTA
* *
11789785 TTTTTTTCATTTTTTTA
1 TTTTTTTTATTTTCTTA
*
11789802 TTTTTTTTATTTTGTT-
1 TTTTTTTTATTTTCTTA
**
11789818 TTTTTCCTATTTTCTTA
1 TTTTTTTTATTTTCTTA
11789835 TTT
1 TTT
11789838 AATTGTGATT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
16 20 0.47
17 23 0.53
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.79
Consensus pattern (17 bp):
TTTTTTTTATTTTCTTA
Found at i:11790033 original size:24 final size:20
Alignment explanation
Indices: 11789958--11790026 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
11789948 CAAAATTTAA
* *
11789958 TTGCATGATTGTTTAT-TAT
1 TTGCATGATTATTAATATAT
* *
11789977 TTGCATGACTAATAATATAT
1 TTGCATGATTATTAATATAT
11789997 TTGCATGATTATTAATATAT
1 TTGCATGATTATTAATATAT
11790017 TTGCATGATT
1 TTGCATGATT
11790027 TGTTATTTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 12 0.28
20 31 0.72
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.49
Consensus pattern (20 bp):
TTGCATGATTATTAATATAT
Found at i:11794160 original size:29 final size:29
Alignment explanation
Indices: 11794128--11794209 Score: 74
Period size: 31 Copynumber: 2.7 Consensus size: 29
11794118 GAAAACTTAG
**
11794128 AGAGAAAAGAAAAAAAAAAAGCAAAACAA
1 AGAGAAAAGAAAAAAAAAAAAAAAAACAA
*
11794157 AGAGCAAAAAGAAACAAAAAAGAAAAAAAAGAA
1 AGAG--AAAAGAAA-AAAAAA-AAAAAAAACAA
* *
11794190 AGAGATATAGGAAAAAAAAA
1 AGAGA-AAAGAAAAAAAAAA
11794210 GGAAAACTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
29 4 0.09
30 1 0.02
31 15 0.35
32 11 0.26
33 12 0.28
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (29 bp):
AGAGAAAAGAAAAAAAAAAAAAAAAACAA
Found at i:11795287 original size:45 final size:45
Alignment explanation
Indices: 11795237--11795446 Score: 208
Period size: 45 Copynumber: 4.6 Consensus size: 45
11795227 TTTAAAAATG
* *
11795237 AACTTTTCAAATATGAATCTTTGAATTTTAGATGTGAATTTCTAA
1 AACTTTTCAAATGTGAATCTTTGAATTTTAGATGAGAATTTCTAA
* * * *
11795282 AACTTTTCAATTGTGAAACTTTAAATTTTAGATGAGAATCTCTAA
1 AACTTTTCAAATGTGAATCTTTGAATTTTAGATGAGAATTTCTAA
* * * *
11795327 AACTTTTCAAATGTGATTTTTTGAATTTTGGAAGAGAATATT-TAA
1 AACTTTTCAAATGTGAATCTTTGAATTTTAGATGAGAAT-TTCTAA
** * * * * *
11795372 AAAGTTTAAAATGAGAATCTTTGAATTTTGGATGTGAA-TCCTTAA
1 AACTTTTCAAATGTGAATCTTTGAATTTTAGATGAGAATTTC-TAA
**
11795417 AAAATTTCAAATGTGAATCTTTGATATTTT
1 AACTTTTCAAATGTGAATCTTTGA-ATTTT
11795447 TTATCTTTAA
Statistics
Matches: 135, Mismatches: 26, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
43 1 0.01
45 128 0.95
46 6 0.04
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (45 bp):
AACTTTTCAAATGTGAATCTTTGAATTTTAGATGAGAATTTCTAA
Found at i:11795663 original size:23 final size:23
Alignment explanation
Indices: 11795583--11795664 Score: 64
Period size: 23 Copynumber: 3.7 Consensus size: 23
11795573 CTTGGATGCA
11795583 AATCTTTAAAATTTTCAAATCA-G
1 AATCTTTAAAATTTTCAAAT-ATG
* **
11795606 AAT-TTT-GAATCTTT-GGATATG
1 AATCTTTAAAAT-TTTCAAATATG
* * *
11795627 AATCTCTAAGATTTTCAAATTTG
1 AATCTTTAAAATTTTCAAATATG
11795650 AATCTTTAAAATTTT
1 AATCTTTAAAATTTT
11795665 GGATGAGAAT
Statistics
Matches: 43, Mismatches: 11, Indels: 10
0.67 0.17 0.16
Matches are distributed among these distances:
20 1 0.02
21 9 0.21
22 11 0.26
23 22 0.51
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.45
Consensus pattern (23 bp):
AATCTTTAAAATTTTCAAATATG
Found at i:11795675 original size:45 final size:44
Alignment explanation
Indices: 11795570--11795683 Score: 110
Period size: 44 Copynumber: 2.6 Consensus size: 44
11795560 TTAAAATGTG
* *
11795570 AATC-TTGGATGCA-AATCTTTAAAATTTTCAAATCAGAATTTTG
1 AATCTTTGGATG-AGAATCTCTAAAATTTTCAAATCAGAATTTTA
* **
11795613 AATCTTTGGAT-ATGAATCTCTAAGATTTTCAAATTTGAATCTTTAA
1 AATCTTTGGATGA-GAATCTCTAAAATTTTCAAATCAGAAT-TTT-A
*
11795659 AAT-TTTGGATGAGAATCTCAAAAAT
1 AATCTTTGGATGAGAATCTCTAAAAT
11795684 AAAAAAATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
42 1 0.02
43 4 0.07
44 28 0.48
45 21 0.36
46 4 0.07
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (44 bp):
AATCTTTGGATGAGAATCTCTAAAATTTTCAAATCAGAATTTTA
Found at i:11795830 original size:18 final size:17
Alignment explanation
Indices: 11795772--11796038 Score: 124
Period size: 18 Copynumber: 15.2 Consensus size: 17
11795762 ATCTAGGATT
* *
11795772 CTTTGCGAGTCTTGGAGC
1 CTTTGCGAATCTT-GAAC
* *
11795790 CTTTGAGAATCTTTGAAT
1 CTTTGCGAATC-TTGAAC
* *
11795808 TTTTGCAAATCTTAGAAC
1 CTTTGCGAATCTT-GAAC
* *
11795826 CTTTGTGAGTCTTGAAAC
1 CTTTGCGAATCTTG-AAC
*
11795844 CTTTGCGAATCTTGGAAT
1 CTTTGCGAATCTT-GAAC
* * *
11795862 CTTTGTGAACCTTGAAAT
1 CTTTGCGAATCTTG-AAC
*
11795880 ATTTGCGAATCTTGCAAC
1 CTTTGCGAATCTTG-AAC
* * *
11795898 ATTTGCAAATTTTGAA-
1 CTTTGCGAATCTTGAAC
*
11795914 CTCTGCGAATCTTGGAAC
1 CTTTGCGAATCTT-GAAC
* ** *
11795932 TTTTTTGAATCTTAAAC
1 CTTTGCGAATCTTGAAC
* * *
11795949 CTTGGTGAACCTTGAAC
1 CTTTGCGAATCTTGAAC
* *
11795966 CTTAGC-AAGTCTTGAAT
1 CTTTGCGAA-TCTTGAAC
* *
11795983 ATTTGCGAAACTTGAATC
1 CTTTGCGAATCTTGAA-C
* * * *
11796001 TTTTGTGAATTTTGAAT
1 CTTTGCGAATCTTGAAC
* *
11796018 CTTTGAGAAACTTGAAC
1 CTTTGCGAATCTTGAAC
11796035 CTTT
1 CTTT
11796039 TGCAACTTTT
Statistics
Matches: 183, Mismatches: 56, Indels: 21
0.70 0.22 0.08
Matches are distributed among these distances:
16 11 0.06
17 60 0.33
18 109 0.60
19 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (17 bp):
CTTTGCGAATCTTGAAC
Found at i:11795996 original size:17 final size:17
Alignment explanation
Indices: 11795976--11796033 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
11795966 CTTAGCAAGT
*
11795976 CTTGAATATTTGCGAAA
1 CTTGAATATTTGAGAAA
* * *
11795993 CTTGAATCTTTTGTGAAT
1 CTTGAAT-ATTTGAGAAA
* *
11796011 TTTGAATCTTTGAGAAA
1 CTTGAATATTTGAGAAA
11796028 CTTGAA
1 CTTGAA
11796034 CCTTTTGCAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 19 0.59
18 13 0.41
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (17 bp):
CTTGAATATTTGAGAAA
Found at i:11796049 original size:35 final size:34
Alignment explanation
Indices: 11795959--11796049 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 34
11795949 CTTGGTGAAC
* * *
11795959 CTTGAACC-TTAGCAAGTCTTGAATATTTGCGAAA
1 CTTGAACCTTTTGCAA-TTTTGAATATTTGAGAAA
* * *
11795993 CTTGAATCTTTTGTGAATTTTGAATCTTTGAGAAA
1 CTTGAACCTTTTG-CAATTTTGAATATTTGAGAAA
11796028 CTTGAACCTTTTGCAACTTTTG
1 CTTGAACCTTTTGCAA-TTTTG
11796050 TGAATTTCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
34 9 0.20
35 35 0.76
36 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.41
Consensus pattern (34 bp):
CTTGAACCTTTTGCAATTTTGAATATTTGAGAAA
Found at i:11796093 original size:44 final size:44
Alignment explanation
Indices: 11796001--11796093 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
11795991 AACTTGAATC
** * * * *
11796001 TTTTGTGAATTTTGAATCTTTGAGAAACTTGAACCTTTTGCAAC
1 TTTTGTGAATTTCAAATCTTTGAGAAACTTAAACCTTATACAAA
*
11796045 TTTTGTGAATTTCAAATCTTT-ACGAAACTTAAATCTTATACAAA
1 TTTTGTGAATTTCAAATCTTTGA-GAAACTTAAACCTTATACAAA
11796089 TTTTG
1 TTTTG
11796094 AGTTTTTGCG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (44 bp):
TTTTGTGAATTTCAAATCTTTGAGAAACTTAAACCTTATACAAA
Found at i:11796106 original size:35 final size:36
Alignment explanation
Indices: 11796059--11796170 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 36
11796049 GTGAATTTCA
*
11796059 AATCTTTACGAAACTTAAATCTTATACAAA-TTTTG
1 AATCTTTGCGAAACTTAAATCTTATACAAATTTTTG
* * ** * * *
11796094 AGTTTTTGCGAAACTTGTATATTTTGCAAATTTTTG
1 AATCTTTGCGAAACTTAAATCTTATACAAATTTTTG
* * * *
11796130 AATCTTTGCGAATCTTAAATCTTTTATAAGTTTTTG
1 AATCTTTGCGAAACTTAAATCTTATACAAATTTTTG
11796166 AATCT
1 AATCT
11796171 AGGAATCTTG
Statistics
Matches: 59, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
35 22 0.37
36 37 0.63
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (36 bp):
AATCTTTGCGAAACTTAAATCTTATACAAATTTTTG
Found at i:11797574 original size:12 final size:12
Alignment explanation
Indices: 11797548--11797598 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
11797538 TTCTTTTTCC
**
11797548 TTTCAATTTCAA
1 TTTCAATTTTTA
11797560 TTTCAATTTTTA
1 TTTCAATTTTTA
11797572 TTT-AATTTTCTA
1 TTTCAATTTT-TA
*
11797584 TTTTCTATTTTTA
1 -TTTCAATTTTTA
11797597 TT
1 TT
11797599 CTATTTTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.18
12 17 0.52
13 5 0.15
14 5 0.15
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTCAATTTTTA
Found at i:11797588 original size:25 final size:26
Alignment explanation
Indices: 11797560--11797612 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
11797550 TCAATTTCAA
11797560 TTTCAATTTTTATT-TAATTTT-CTAT
1 TTTCAATTTTTATTCT-ATTTTCCTAT
*
11797585 TTTCTATTTTTATTCTATTTTCCTAT
1 TTTCAATTTTTATTCTATTTTCCTAT
11797611 TT
1 TT
11797613 AATTGTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTCAATTTTTATTCTATTTTCCTAT
Found at i:11797756 original size:19 final size:19
Alignment explanation
Indices: 11797732--11797769 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11797722 TGTGCATAAT
11797732 TTAATTACATGATTATTTA
1 TTAATTACATGATTATTTA
*
11797751 TTAATTGCATGATTATTTA
1 TTAATTACATGATTATTTA
11797770 ATATTTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (19 bp):
TTAATTACATGATTATTTA
Found at i:11797777 original size:19 final size:19
Alignment explanation
Indices: 11797739--11797842 Score: 93
Period size: 19 Copynumber: 5.4 Consensus size: 19
11797729 AATTTAATTA
* *
11797739 CATGATTATTTATTAATTG
1 CATGATTATTTAATATTTG
11797758 CATGATTATTTAATATTTG
1 CATGATTATTTAATATTTG
* * *
11797777 CATGACTAATAATATATTTG
1 CATGATTATTTA-ATATTTG
*
11797797 CATGATTATTAATATATTTG
1 CATGATTATTTA-ATATTTG
* * *
11797817 CATAATTCA-TTATTATTTA
1 CATGATT-ATTTAATATTTG
11797836 CATGATT
1 CATGATT
11797843 TGTTATTTGT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
19 37 0.52
20 33 0.46
21 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.49
Consensus pattern (19 bp):
CATGATTATTTAATATTTG
Found at i:11797795 original size:20 final size:20
Alignment explanation
Indices: 11797770--11797819 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
11797760 TGATTATTTA
11797770 ATATTTGCATGACTAATAAT
1 ATATTTGCATGACTAATAAT
* *
11797790 ATATTTGCATGATTATTAAT
1 ATATTTGCATGACTAATAAT
11797810 ATATTTGCAT
1 ATATTTGCAT
11797820 AATTCATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (20 bp):
ATATTTGCATGACTAATAAT
Found at i:11797834 original size:39 final size:38
Alignment explanation
Indices: 11797748--11797842 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 38
11797738 ACATGATTAT
* * *
11797748 TTATTAATTGCATGATTATTTAATATTTGCATGACTAA
1 TTATTATTTGCATGATTATTAAATATTTGCATAACTAA
* * *
11797786 TAATATATTTGCATGATTATTAATATATTTGCATAATTCA
1 TTAT-TATTTGCATGATTATTAA-ATATTTGCATAACTAA
*
11797826 TTATTATTTACATGATT
1 TTATTATTTGCATGATT
11797843 TGTTATTTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 3 0.06
39 28 0.60
40 16 0.34
ACGTcount: A:0.35, C:0.07, G:0.08, T:0.49
Consensus pattern (38 bp):
TTATTATTTGCATGATTATTAAATATTTGCATAACTAA
Found at i:11798786 original size:20 final size:20
Alignment explanation
Indices: 11798763--11798804 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11798753 GCATCATGAA
* *
11798763 AAAGTCACTTGCATTTGCAT
1 AAAGGCACTTGCATTCGCAT
*
11798783 AAAGGCATTTGCATTCGCAT
1 AAAGGCACTTGCATTCGCAT
11798803 AA
1 AA
11798805 TTTGTTGACA
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:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (20 bp):
AAAGGCACTTGCATTCGCAT
Found at i:11799229 original size:29 final size:30
Alignment explanation
Indices: 11799165--11799258 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 30
11799155 GTTGGCATTG
* *
11799165 ATGAGATTTTAAGCCCATTTTAGCTGGCACCA
1 ATGAGA-TTTAAGACCAATTTAGCT-GCACCA
11799197 ATGAGATTTAAG-CCAATTTAGTCT-CACCA
1 ATGAGATTTAAGACCAATTTAG-CTGCACCA
*
11799226 ATGAGATTTAAGACCAGTTTAGCTAGCATCCA
1 ATGAGATTTAAGACCAATTTAGCT-GCA-CCA
11799258 A
1 A
11799259 ATTTAAAGTC
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
29 19 0.35
30 16 0.29
31 10 0.18
32 10 0.18
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (30 bp):
ATGAGATTTAAGACCAATTTAGCTGCACCA
Found at i:11802333 original size:18 final size:18
Alignment explanation
Indices: 11802295--11802336 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11802285 AAAAAAGCTA
*
11802295 ATTTT-TAAATTTTTTTC
1 ATTTTATAAATTTTTGTC
11802312 ATTTTATAAATTTATTGT-
1 ATTTTATAAATTT-TTGTC
11802330 ATTTTAT
1 ATTTTAT
11802337 TTCTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 14 0.64
19 3 0.14
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTTATAAATTTTTGTC
Found at i:11802917 original size:31 final size:30
Alignment explanation
Indices: 11802881--11802944 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
11802871 TTATTAAAAG
*
11802881 AAAATTTCAAAAC-AAATTATAAAAAATTTT
1 AAAAATTCAAAACAAAATT-TAAAAAATTTT
*
11802911 AAAAATTCAAAACAAAAATTTTAAAAATTTT
1 AAAAATTCAAAAC-AAAATTTAAAAAATTTT
11802942 AAA
1 AAA
11802945 TTTTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 12 0.40
31 13 0.43
32 5 0.17
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (30 bp):
AAAAATTCAAAACAAAATTTAAAAAATTTT
Found at i:11802936 original size:9 final size:9
Alignment explanation
Indices: 11802924--11803101 Score: 90
Period size: 9 Copynumber: 18.8 Consensus size: 9
11802914 AATTCAAAAC
11802924 AAAAATTTT
1 AAAAATTTT
11802933 AAAAATTTT
1 AAAAATTTT
**
11802942 AAATTTTTT
1 AAAAATTTT
** *
11802951 TTAAATTCT
1 AAAAATTTT
11802960 AAAAATTTT
1 AAAAATTTT
**
11802969 TCAAATTTT
1 AAAAATTTT
*
11802978 CCAAAAATTCT
1 --AAAAATTTT
11802989 AAATAATTTTT
1 AAA-AA-TTTT
11803000 AAAAAATTTT
1 -AAAAATTTT
* *
11803010 AGAAATTTC
1 AAAAATTTT
11803019 AAAAATTTT
1 AAAAATTTT
*
11803028 AGAACA--TT
1 A-AAAATTTT
* **
11803036 AACATATCCT
1 AA-AAATTTT
*
11803046 AAAAGTTTT
1 AAAAATTTT
11803055 AAAAATATTT
1 AAAAAT-TTT
11803065 AAAAATTTTT
1 AAAAA-TTTT
* *
11803075 AAATATTCT
1 AAAAATTTT
11803084 AAAAGATTTTT
1 AAAA-A-TTTT
11803095 AAAAATT
1 AAAAATT
11803102 CAAAAACAAT
Statistics
Matches: 124, Mismatches: 32, Indels: 26
0.68 0.18 0.14
Matches are distributed among these distances:
7 1 0.01
8 5 0.04
9 67 0.54
10 29 0.23
11 19 0.15
12 3 0.02
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (9 bp):
AAAAATTTT
Found at i:11802985 original size:29 final size:28
Alignment explanation
Indices: 11802923--11803002 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
11802913 AAATTCAAAA
* *
11802923 CAAAAATTTTAAAAA-TTTTAAATTTTT
1 CAAAAATTCTAAAAATTTTTAAATTTTC
***
11802950 TTTAAATTCTAAAAATTTTTCAAATTTTC
1 CAAAAATTCTAAAAATTTTT-AAATTTTC
11802979 CAAAAATTCTAAATAATTTTTAAA
1 CAAAAATTCTAAA-AATTTTTAAA
11803003 AAATTTTAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
27 11 0.26
28 4 0.10
29 20 0.48
30 7 0.17
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (28 bp):
CAAAAATTCTAAAAATTTTTAAATTTTC
Found at i:11803069 original size:20 final size:20
Alignment explanation
Indices: 11803039--11803100 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
11803029 GAACATTAAC
* *
11803039 ATATCCTAAAAGTTTTAAAA
1 ATATTCTAAAAATTTTAAAA
*
11803059 ATATT-TAAAAATTTT-TAA
1 ATATTCTAAAAATTTTAAAA
11803077 ATATTCTAAAAGATTTTTAAAA
1 ATATTCTAAAA-A-TTTTAAAA
11803099 AT
1 AT
11803101 TCAAAAACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.21
19 14 0.41
20 5 0.15
21 4 0.12
22 4 0.12
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
ATATTCTAAAAATTTTAAAA
Found at i:11803102 original size:20 final size:19
Alignment explanation
Indices: 11803046--11803107 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
11803036 AACATATCCT
* *
11803046 AAAAGTTTTAAAAATATTTA
1 AAAATTTTTAAAAAT-TCTA
*
11803066 AAAATTTTTAAATATTCTA
1 AAAATTTTTAAAAATTCTA
11803085 AAAGATTTTTAAAAATTC-A
1 AAA-ATTTTTAAAAATTCTA
11803104 AAAA
1 AAAA
11803108 CAATTAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 1 0.03
19 10 0.27
20 26 0.70
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATTTTTAAAAATTCTA
Found at i:11803107 original size:38 final size:39
Alignment explanation
Indices: 11803034--11803107 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
11803024 TTTTAGAACA
*
11803034 TTAACATATCCTAAAAGTTTTAAAAATATTTAAAAATTT
1 TTAACATATCCTAAAAGTTTTAAAAATATTCAAAAATTT
* *
11803073 TTAA-ATATTCTAAAAGATTTTTAAAA-ATTCAAAAA
1 TTAACATATCCTAAAAG-TTTTAAAAATATTCAAAAA
11803108 CAATTAAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 19 0.61
39 12 0.39
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (39 bp):
TTAACATATCCTAAAAGTTTTAAAAATATTCAAAAATTT
Found at i:11803115 original size:38 final size:38
Alignment explanation
Indices: 11803033--11803115 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 38
11803023 ATTTTAGAAC
* **
11803033 ATTAACATATCCTAAAAGTTTTAAAAATATTTAAAAATT
1 ATTAA-ATATCCTAAAAGTTTTAAAAATATTCAAAAACA
* * *
11803072 TTTAAATATTCTAAAAGATTTTTAAAA-ATTCAAAAACA
1 ATTAAATATCCTAAAAG-TTTTAAAAATATTCAAAAACA
11803110 ATTAAA
1 ATTAAA
11803116 GAACCTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
38 24 0.67
39 12 0.33
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (38 bp):
ATTAAATATCCTAAAAGTTTTAAAAATATTCAAAAACA
Found at i:11803672 original size:11 final size:10
Alignment explanation
Indices: 11803652--11803766 Score: 70
Period size: 10 Copynumber: 11.1 Consensus size: 10
11803642 TTTGAAAAAG
11803652 TTTTAAAATT
1 TTTTAAAATT
*
11803662 TGTTTAGAATT
1 T-TTTAAAATT
*
11803673 TTTTAAAAAT
1 TTTTAAAATT
* *
11803683 TTTAAAAACT
1 TTTTAAAATT
* *
11803693 TTTTACAATA
1 TTTTAAAATT
*
11803703 TTTT-AGATT
1 TTTTAAAATT
*
11803712 TTTTAATATTT
1 TTTTAA-AATT
11803723 TTTTAAAATGT
1 TTTTAAAAT-T
**
11803734 TTTTATTATT
1 TTTTAAAATT
*
11803744 TTATGAGAAATT
1 TT-TTA-AAATT
*
11803756 TTTGAAAATT
1 TTTTAAAATT
11803766 T
1 T
11803767 AAAAATTTCT
Statistics
Matches: 79, Mismatches: 20, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
9 6 0.08
10 38 0.48
11 30 0.38
12 5 0.06
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.57
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:11803674 original size:40 final size:39
Alignment explanation
Indices: 11803621--11803717 Score: 106
Period size: 40 Copynumber: 2.5 Consensus size: 39
11803611 AAAACATTTC
** *
11803621 ATATTTTTTATTTTTTATAAATTTGAAAAA-GTTTTAAA
1 ATATTTTAGATTTTTTAAAAATTTGAAAAACGTTTTAAA
* * * *
11803659 ATTTGTTTAGAATTTTTTAAAAATTTTAAAAACTTTTTACA
1 ATAT-TTTAG-ATTTTTTAAAAATTTGAAAAACGTTTTAAA
11803700 ATATTTTAGATTTTTTAA
1 ATATTTTAGATTTTTTAA
11803718 TATTTTTTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.06
39 12 0.25
40 24 0.50
41 9 0.19
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (39 bp):
ATATTTTAGATTTTTTAAAAATTTGAAAAACGTTTTAAA
Found at i:11803707 original size:30 final size:30
Alignment explanation
Indices: 11803632--11803707 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
11803622 TATTTTTTAT
* * *
11803632 TTTTTATAA-ATTTGAAAAAGTTTTAAAAT
1 TTTTTACAATATTTTAAAAAGTTTTAAAAC
* *
11803661 TTGTTTAGAATTTTTTAAAAA-TTTTAAAAAC
1 TT-TTTACAATATTTTAAAAAGTTTT-AAAAC
11803692 TTTTTACAATATTTTA
1 TTTTTACAATATTTTA
11803708 GATTTTTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 2 0.05
30 22 0.58
31 14 0.37
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (30 bp):
TTTTTACAATATTTTAAAAAGTTTTAAAAC
Found at i:11803758 original size:22 final size:21
Alignment explanation
Indices: 11803709--11803758 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
11803699 AATATTTTAG
* *
11803709 ATTTTTTAATATTTTTTTAAA
1 ATTTTTTAATATTTTATGAAA
*
11803730 ATGTTTTTATTATTTTATGAGAA
1 AT-TTTTTAATATTTTATGA-AA
11803753 ATTTTT
1 ATTTTT
11803759 GAAAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 18 0.75
23 4 0.17
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (21 bp):
ATTTTTTAATATTTTATGAAA
Found at i:11803839 original size:20 final size:19
Alignment explanation
Indices: 11803816--11803901 Score: 77
Period size: 20 Copynumber: 4.4 Consensus size: 19
11803806 TGTTTAGAGC
11803816 TGTTAAACATTTTTTAGAAT
1 TGTTAAA-ATTTTTTAGAAT
* *
11803836 TGTTTTAAATTTTTTTGAAGT
1 TG-TTAAAATTTTTTAGAA-T
* *
11803857 TATGAAAATTTTTTAGGAAT
1 TGTTAAAATTTTTTA-GAAT
*
11803877 TTTTAAAA-TTTTTAGAAT
1 TGTTAAAATTTTTTAGAAT
11803895 T-TTAAAA
1 TGTTAAAA
11803902 AAATTCAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
17 6 0.11
18 5 0.09
19 6 0.11
20 29 0.53
21 9 0.16
ACGTcount: A:0.36, C:0.01, G:0.10, T:0.52
Consensus pattern (19 bp):
TGTTAAAATTTTTTAGAAT
Found at i:11803888 original size:18 final size:17
Alignment explanation
Indices: 11803838--11803901 Score: 56
Period size: 19 Copynumber: 3.5 Consensus size: 17
11803828 TTTAGAATTG
* *
11803838 TTTTAAATTTTTTTGAA
1 TTTTAAAATTTTTAGAA
*
11803855 GTTATGAAAATTTTTTAGGAA
1 -TT-TTAAAA-TTTTTA-GAA
11803876 TTTTTAAAATTTTTAGAA
1 -TTTTAAAATTTTTAGAA
11803894 TTTTAAAA
1 TTTTAAAA
11803902 AAATTCAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 8 0.21
18 5 0.13
19 10 0.26
20 10 0.26
21 5 0.13
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (17 bp):
TTTTAAAATTTTTAGAA
Found at i:11803903 original size:19 final size:19
Alignment explanation
Indices: 11803861--11803902 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
11803851 TGAAGTTATG
*
11803861 AAAATTTTTTAGGAATTTT
1 AAAAATTTTTAGGAATTTT
*
11803880 TAAAATTTTTA-GAATTTT
1 AAAAATTTTTAGGAATTTT
11803898 AAAAA
1 AAAAA
11803903 AATTCAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (19 bp):
AAAAATTTTTAGGAATTTT
Found at i:11803967 original size:16 final size:16
Alignment explanation
Indices: 11803918--11803967 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
11803908 AAATGGCTTT
*
11803918 TTTATTATTTAAAAAA
1 TTTATTATTTTAAAAA
* **
11803934 ATTATT-TTTTAATTA
1 TTTATTATTTTAAAAA
11803949 TTTATTATTTTAAAAA
1 TTTATTATTTTAAAAA
11803965 TTT
1 TTT
11803968 TTTAAATCTT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTATTATTTTAAAAA
Found at i:11804130 original size:22 final size:22
Alignment explanation
Indices: 11804105--11804146 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11804095 AGTTGTAAGT
*
11804105 ATTAATATAATAATAAAATAAA
1 ATTAAAATAATAATAAAATAAA
*
11804127 ATTAAAATATTAATAAAATA
1 ATTAAAATAATAATAAAATA
11804147 CCTATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
ATTAAAATAATAATAAAATAAA
Found at i:11807976 original size:3 final size:3
Alignment explanation
Indices: 11807970--11808010 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
11807960 CTAATAATTA
11807970 ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11808011 GAGGATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11808122 original size:3 final size:3
Alignment explanation
Indices: 11808114--11808141 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11808104 CAATGATAAA
11808114 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
11808142 CAAAATTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:11816145 original size:13 final size:13
Alignment explanation
Indices: 11816129--11816171 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
11816119 TTAAAATAGA
*
11816129 AAAATAGAAAAAC
1 AAAATAGAAAAAG
11816142 AAAA-A-AACAAAG
1 AAAATAGAA-AAAG
11816154 AAAATAGAAAAAG
1 AAAATAGAAAAAG
11816167 AAAAT
1 AAAAT
11816172 CATGCGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 2 0.08
12 8 0.31
13 14 0.54
14 2 0.08
ACGTcount: A:0.79, C:0.05, G:0.09, T:0.07
Consensus pattern (13 bp):
AAAATAGAAAAAG
Found at i:11816326 original size:14 final size:14
Alignment explanation
Indices: 11816309--11816335 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11816299 TTTTTTTTCG
11816309 ATTTTGTCTTTCTT
1 ATTTTGTCTTTCTT
11816323 ATTTTGTCTTTCT
1 ATTTTGTCTTTCT
11816336 AGTCAATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.07, T:0.70
Consensus pattern (14 bp):
ATTTTGTCTTTCTT
Found at i:11816959 original size:8 final size:8
Alignment explanation
Indices: 11816946--11816984 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
11816936 TCCTAAACTT
11816946 TTTTTTTA
1 TTTTTTTA
11816954 TTTTTTTA
1 TTTTTTTA
*
11816962 TTTTTCTA
1 TTTTTTTA
* *
11816970 TTTTCTAA
1 TTTTTTTA
11816978 TTTTTTT
1 TTTTTTT
11816985 CCTTTTTAGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:11823654 original size:3 final size:3
Alignment explanation
Indices: 11823648--11823732 Score: 161
Period size: 3 Copynumber: 28.3 Consensus size: 3
11823638 TCAATAAGCC
*
11823648 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11823696 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11823733 CCTTTATTTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11828855 original size:12 final size:11
Alignment explanation
Indices: 11828836--11828869 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
11828826 TTCAAAAGTG
11828836 TTTTTATTTAT
1 TTTTTATTTAT
11828847 TTATTTATTTAT
1 TT-TTTATTTAT
11828859 TTTGTTATTTA
1 TTT-TTATTTA
11828870 GTCAAAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:11829990 original size:19 final size:19
Alignment explanation
Indices: 11829943--11829995 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
11829933 TTTTTTTGAT
* *
11829943 TAATTGTTTTTTTAATTTT
1 TAATTATTTTTTTAATTTA
*
11829962 TAGTTATTTTTTTAATTTA
1 TAATTATTTTTTTAATTTA
11829981 TAATGT-TTTTTTTAA
1 TAAT-TATTTTTTTAA
11829996 ATAATAGTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 28 0.97
20 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.70
Consensus pattern (19 bp):
TAATTATTTTTTTAATTTA
Found at i:11831426 original size:163 final size:165
Alignment explanation
Indices: 11831239--11831555 Score: 584
Period size: 163 Copynumber: 1.9 Consensus size: 165
11831229 TGTTTGACTT
*
11831239 AATAGTTAGTAGGTTAATCATATTCTAAAGGGTAAAGGTTTAAGTCTTATTACTTACAAGTTATA
1 AATAGTTAGTAGGTTAATCATATTCTAAAGGGTAAAGGTTTAAGTCTTATTACTTACAAGTTACA
*
11831304 ATATATTTTT-A-AATAATAAATAATAATTTAAATGATAAAAATGGTTCAAATTTGATTAAACCT
66 ATATATTTTTAATAATAATAAATAATAATTTAAATGATAAAAATGGTTCAAATCTGATTAAACCT
11831367 GATTCAATCAAAAGCTTGACTGAATCAGGATTTTA
131 GATTCAATCAAAAGCTTGACTGAATCAGGATTTTA
11831402 AATAGTTAGTAGGTTAATCATATTCTAAAGGGTAAAGGTTTAAGTCTTATTACTTACAAGTTACA
1 AATAGTTAGTAGGTTAATCATATTCTAAAGGGTAAAGGTTTAAGTCTTATTACTTACAAGTTACA
11831467 ATATATTTTTAAATAATAATAAATAATAATTTAAATGATAAAAATGGTTCAAATCTGATTAAACC
66 ATATATTTTT-AATAATAATAAATAATAATTTAAATGATAAAAATGGTTCAAATCTGATTAAACC
*
11831532 TGATTTAATCAAAAGCTTGACTGA
130 TGATTCAATCAAAAGCTTGACTGA
11831556 TTTTTGACCT
Statistics
Matches: 148, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
163 74 0.50
165 1 0.01
166 73 0.49
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (165 bp):
AATAGTTAGTAGGTTAATCATATTCTAAAGGGTAAAGGTTTAAGTCTTATTACTTACAAGTTACA
ATATATTTTTAATAATAATAAATAATAATTTAAATGATAAAAATGGTTCAAATCTGATTAAACCT
GATTCAATCAAAAGCTTGACTGAATCAGGATTTTA
Found at i:11833246 original size:33 final size:33
Alignment explanation
Indices: 11833204--11833275 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
11833194 AGATTGTTCA
*
11833204 CCGATTTGATTATTTATCAATTCT-AGGTTCAAT
1 CCGAATTGATTATTTATCAATTCTCA-GTTCAAT
*
11833237 CTGAATTGATTATTTATCAATTCTCAGTTCAAT
1 CCGAATTGATTATTTATCAATTCTCAGTTCAAT
11833270 CCGAAT
1 CCGAAT
11833276 CAATCAGTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 34 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (33 bp):
CCGAATTGATTATTTATCAATTCTCAGTTCAAT
Found at i:11833994 original size:24 final size:26
Alignment explanation
Indices: 11833935--11833998 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
11833925 AAAAATATTA
* * *
11833935 TTTAATTTATCATTAATTTATTATTT
1 TTTAATATATTATTAATTTATTAATT
*
11833961 TTTAACATATTATT-ATTT-TTAATT
1 TTTAATATATTATTAATTTATTAATT
11833985 TTTAATATATTATT
1 TTTAATATATTATT
11833999 TAATATGGCC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 18 0.55
25 4 0.12
26 11 0.33
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTAATATATTATTAATTTATTAATT
Found at i:11836857 original size:134 final size:134
Alignment explanation
Indices: 11836610--11836861 Score: 292
Period size: 134 Copynumber: 1.9 Consensus size: 134
11836600 TGAGGTGCTA
* * * *
11836610 CTACTTTAGAGACATTTGAATATGAAAATAGCTCAATATTAGAGGCCTTTTTATCTTTTAATCGT
1 CTACTTTAGAGACATTTAAATATGAAAATAGCTCAATATTAGAGGCCTTTGTATCTTGTAAGCGT
* * * * *
11836675 TGCTAATTCAGTGACATTTTTATGAGAAAAACGTCATTACATTGATGGTGTTTGTAACAAAAAAC
66 CGCTAATTCAATGACATTGTTATGAGAAAAACGTCATCACATTAATGGTGTTTGTAACAAAAAAC
11836740 ATCG
131 ATCG
* * ** *
11836744 CTACTTTAGAGGA-ATTTAAATTTGAAAAT-GCCTCAATATTAGCGGTGTTTGTATCTTGTAGGC
1 CTACTTTAGA-GACATTTAAATATGAAAATAG-CTCAATATTAGAGGCCTTTGTATCTTGTAAGC
*** * * *
11836807 GTCGCTAATTCAATGGTGTTGTTATGAGAAAAATGTCGTCACTTTAATGGTGTTT
64 GTCGCTAATTCAATGACATTGTTATGAGAAAAACGTCATCACATTAATGGTGTTT
11836862 CTATAAAAAA
Statistics
Matches: 96, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
133 1 0.01
134 93 0.97
135 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.38
Consensus pattern (134 bp):
CTACTTTAGAGACATTTAAATATGAAAATAGCTCAATATTAGAGGCCTTTGTATCTTGTAAGCGT
CGCTAATTCAATGACATTGTTATGAGAAAAACGTCATCACATTAATGGTGTTTGTAACAAAAAAC
ATCG
Found at i:11844958 original size:357 final size:355
Alignment explanation
Indices: 11844302--11845551 Score: 1732
Period size: 356 Copynumber: 3.5 Consensus size: 355
11844292 AACATATCGC
* * *
11844302 CACACAAATTTTAATACGGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTAT
1 CACACAAATTTTAACACGATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTCCTAT
* ** * * *** * * * *
11844367 CACAATTTGTAGATAATTAGTGAAGGCATTTTC-TATGTTAATGGCTTCAATAATTTGCTTAACA
66 CACAGTTTGTAGATAATTAGTGAAGGCGGTTGCAGATAACAACGCCTTTAATAATTTTCTTAA-A
* * * * * *
11844431 AAAGTTTTTTAGATTATTAAAGGCATGTTTTATTATGAAATACCTTCAATATATCATGATAGTTA
130 AAATTTTTTTAGATTATTAAAGGCATCTTTTATTATGAAACACCTTCAATATACCACGATGGTTA
* * * *
11844496 TGGAAGGCGTTTATTCGAAAAGGCATCTTCAATATACCTTTAAACTTAGTAATCTATTACTGAAG
195 TGGAAGGCGTTTATTCAAAAATGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAG
* * * *
11844561 GTATTTGTTAATAACAGACGCCTTTAAAATTTTTCCACTAAAAATTTTAAAAATCATTAAAGGCA
260 GTGTTTGTTAATAACAGACGCCTTTAAAATTTTCCCACTAAAAATTTTAAGAATCATTAAAGGCG
11844626 TCTTCTACTGTAAAATGCATTCTATATACCG
325 TCTTCTACTGTAAAATGCATTCTATATACCG
* * *
11844657 TCACACAAATTTTAACACGGTTATTGAAGGCATATATCCAAGAAAGATGCTTTTAATAATTCCTA
1 -CACACAAATTTTAACACGATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTCCTA
* * *
11844722 TCACAGTTTGTAGATAATTAGTGAAGGCGGTTGCAGATAACAATGCCTTTAATAATTTTTTTTAA
65 TCACAGTTTGTAGATAATTAGTGAAGGCGGTTGCAGATAACAACGCCTTTAATAATTTTCTTAAA
** * * ** *
11844787 ATTTTTTTTTCAAATTATTAAAGGTATCTTTTATTATGAAATGCCTTCAATATACCACAATGGTT
130 AAATTTTTTT-AGATTATTAAAGGCATCTTTTATTATGAAACACCTTCAATATACCACGATGGTT
* *
11844852 ATGGAAGGCGTATATTCAAAAATGCACCTTCAATATACCTTTAAACTTAGTAATCCATTATTGAA
194 ATGGAAGGCGTTTATTCAAAAATGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAA
* * *
11844917 GGTGTTTGTTAATAACAAACGCCTTCAAAATTTTCCCACTAAAAATTTTAGGAATCATTAAAGGC
259 GGTGTTTGTTAATAACAGACGCCTTTAAAATTTTCCCACTAAAAATTTTAAGAATCATTAAAGGC
* * *
11844982 GTTTTCTACTGTAAAATGCATTCTTTATACTG
324 GTCTTCTACTGTAAAATGCATTCTATATACCG
* *
11845014 CTACACAAATTTTAACACGATTATTGAAGGCGTATATCCAAGAAAAATGCCTTTAATAATTTCTA
1 C-ACACAAATTTTAACACGATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTCCTA
* *
11845079 TCACAGTTTGTAGATAATTAGTTAAGGCGGTTGCAGATAACAACACCTTTAATAA-TTTCTTTAA
65 TCACAGTTTGTAGATAATTAGTGAAGGCGGTTGCAGATAACAACGCCTTTAATAATTTTC-TTAA
* * *
11845143 AAAATTTTTTTGGATTATTAAAGGCGTCTTTTATTATGAAACGCCTTCAATATACCACGATGGTT
129 AAAATTTTTTTAGATTATTAAAGGCATCTTTTATTATGAAACACCTTCAATATACCACGATGGTT
* * * **
11845208 ATGCAAGTCATTTATTCAAAAATGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAA
194 ATGGAAGGCGTTTATTCAAAAATGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAA
* * * *
11845273 GGCGTTTGTTAATAACAGACGCCTTTAAAATTTTCCTACTAAAAATTTTGAGAATTATTAAAGGC
259 GGTGTTTGTTAATAACAGACGCCTTTAAAATTTTCCCACTAAAAATTTTAAGAATCATTAAAGGC
* *
11845338 GTCTTTTACTGTAAAATGCCTTCTATATACCG
324 GTCTTCTACTGTAAAATGCATTCTATATACCG
*
11845370 CCACACAAATTCTAACACGATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTCCTA
1 -CACACAAATTTTAACACGATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTCCTA
* * *
11845435 TAATAGTTTGTAGATAATTAGTGAAGGCGGTTGCAGATAACAACGCCTTTAATAATTTTC-CAAA
65 TCACAGTTTGTAGATAATTAGTGAAGGCGGTTGCAGATAACAACGCCTTTAATAATTTTCTTAAA
* * *
11845499 AAATTTTTTTTTGGATTATTAAAGGCGTCTTTTATTATAAAACACCTTCAATA
130 AAA--TTTTTTTAGATTATTAAAGGCATCTTTTATTATGAAACACCTTCAATA
11845552 ATTTGTTATA
Statistics
Matches: 795, Mismatches: 91, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
355 6 0.01
356 404 0.51
357 385 0.48
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (355 bp):
CACACAAATTTTAACACGATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTCCTAT
CACAGTTTGTAGATAATTAGTGAAGGCGGTTGCAGATAACAACGCCTTTAATAATTTTCTTAAAA
AATTTTTTTAGATTATTAAAGGCATCTTTTATTATGAAACACCTTCAATATACCACGATGGTTAT
GGAAGGCGTTTATTCAAAAATGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGG
TGTTTGTTAATAACAGACGCCTTTAAAATTTTCCCACTAAAAATTTTAAGAATCATTAAAGGCGT
CTTCTACTGTAAAATGCATTCTATATACCG
Found at i:11847848 original size:21 final size:21
Alignment explanation
Indices: 11847824--11847864 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11847814 GAGCAACAAC
11847824 AGCAACAAATTAATGACCAAG
1 AGCAACAAATTAATGACCAAG
***
11847845 AGCAACGCCTTAATGACCAA
1 AGCAACAAATTAATGACCAA
11847865 CAACAAAGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.24, G:0.15, T:0.15
Consensus pattern (21 bp):
AGCAACAAATTAATGACCAAG
Found at i:11855440 original size:16 final size:15
Alignment explanation
Indices: 11855385--11855440 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
11855375 CATTTTTTGG
*
11855385 TTATTATTCTACTTTA
1 TTATTATT-TATTTTA
*
11855401 TCATTATTTTATTTTA
1 TTATTA-TTTATTTTA
11855417 TT-TT-TTTATTATTA
1 TTATTATTTATT-TTA
11855431 TTATTATTTA
1 TTATTATTTA
11855441 AAGAAGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 6 0.18
14 5 0.15
15 4 0.12
16 16 0.48
17 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTATTTATTTTA
Found at i:11857373 original size:35 final size:35
Alignment explanation
Indices: 11857333--11857494 Score: 145
Period size: 35 Copynumber: 4.6 Consensus size: 35
11857323 TAAGTTGCGA
*
11857333 AATAAAAATGATCAGGATTAAATCGTAAGTCAAAG
1 AATAAAAATGATCAGGATTAAATCATAAGTCAAAG
* * * *
11857368 CATAAAGATGACCAGGATTAAGCTACA-AA-TCACAAG
1 AATAAAAATGATCAGGATTAA-AT-CATAAGTCA-AAG
* * *
11857404 -ATAAAAATGATC-GAGATTAAATCACAGGTCAAAA
1 AATAAAAATGATCAG-GATTAAATCATAAGTCAAAG
* * *
11857438 AATGAAAATGACCAGGATTGAATCATAAGTC-AAG
1 AATAAAAATGATCAGGATTAAATCATAAGTCAAAG
11857472 AATTAAAAATGATCAGGATTAAA
1 AA-TAAAAATGATCAGGATTAAA
11857495 CTACAAGTTG
Statistics
Matches: 99, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
33 2 0.02
34 9 0.09
35 80 0.81
36 7 0.07
37 1 0.01
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.21
Consensus pattern (35 bp):
AATAAAAATGATCAGGATTAAATCATAAGTCAAAG
Found at i:11857412 original size:70 final size:69
Alignment explanation
Indices: 11857333--11857502 Score: 170
Period size: 70 Copynumber: 2.4 Consensus size: 69
11857323 TAAGTTGCGA
** **
11857333 AATAAAAATGATCAGGATTAAATCGTAAGTCAAAGCAT-AAAGATGACCAGGATT-AAGCTACAA
1 AATAAAAATGATCAGGATTAAATCACAAGTCAAAAAATGAAA-ATGACCAGGATTGAAGC-ACAA
11857396 ATCACA-
64 ATCA-AG
* * *
11857402 AGATAAAAATGATC-GAGATTAAATCACAGGTCAAAAAATGAAAATGACCAGGATTGAATCATAA
1 A-ATAAAAATGATCAG-GATTAAATCACAAGTCAAAAAATGAAAATGACCAGGATTGAAGCACAA
*
11857466 GTCAAG
64 ATCAAG
11857472 AATTAAAAATGATCAGGATTAAA-CTACAAGT
1 AA-TAAAAATGATCAGGATTAAATC-ACAAGT
11857503 TGAAGAATAA
Statistics
Matches: 84, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
69 5 0.06
70 72 0.86
71 7 0.08
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.21
Consensus pattern (69 bp):
AATAAAAATGATCAGGATTAAATCACAAGTCAAAAAATGAAAATGACCAGGATTGAAGCACAAAT
CAAG
Found at i:11857669 original size:35 final size:36
Alignment explanation
Indices: 11857619--11857688 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
11857609 GTTAGGAAAT
* * *
11857619 GAAAATGACCGAGATTGAACTATGAGTC-AAGAATC
1 GAAAATGAACAAGATTAAACTATGAGTCAAAGAATC
*
11857654 GAAAATGAACAAGATTAAACTGTGAGTCAAAGAAT
1 GAAAATGAACAAGATTAAACTATGAGTCAAAGAAT
11857689 AAATATAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 24 0.80
36 6 0.20
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.20
Consensus pattern (36 bp):
GAAAATGAACAAGATTAAACTATGAGTCAAAGAATC
Found at i:11857709 original size:178 final size:175
Alignment explanation
Indices: 11857404--11857801 Score: 460
Period size: 178 Copynumber: 2.3 Consensus size: 175
11857394 AAATCACAAG
* * * * * * *
11857404 ATAAAAATGATCGAGATTAAATCACAGGTCAAAAAATGAAAATGACCAGGATTGAATCATAAGTC
1 ATAAATATGATCGGGATTAAACCATAAGTTAAGAAATGAAAATGACCAGGATTGAATCATAAGTC
* * * ** *
11857469 AAGAATTAAAAATGATCAGGATTAAACTACAAGTTGAAGAATAAATATGACCAGAACTAAGTCAC
66 AAGAATCAAAAATGAACAAGATTAAACTACAAGTCAAAGAATAAATATAACCAGAACTAAGTCAC
* * *
11857534 AAGTCCAGGAATAAGTGTGATTATGAGGACTGTGCCGTAAGTCAAAGA
131 AAGTCCAGGAATAAGTGTG-GT-T-AGGACTGAGCCGCAAGTCAAAGA
** * *
11857582 ATAAATATGATCGGGATTAAACTGTAAGTTAGGAAATGAAAATGACC-GAGATTGAA-CTATGAG
1 ATAAATATGATCGGGATTAAACCATAAGTTAAGAAATGAAAATGACCAG-GATTGAATC-ATAAG
* ***
11857645 TCAAGAATCGAAAATGAACAAGATTAAACTGTGAGTCAAAGAATAAATATAACC-GAGACTAAGT
64 TCAAGAATCAAAAATGAACAAGATTAAACTACAAGTCAAAGAATAAATATAACCAGA-ACTAAGT
* ** *
11857709 CATAAGTTGAGGAATCAGTGTGGTTAGGACTGAGCCGCAAGTCAAAGA
128 CACAAGTCCAGGAATAAGTGTGGTTAGGACTGAGCCGCAAGTCAAAGA
*
11857757 ATAAATATGATTGGGATTAAACCATAAGTTAAGAAATGAAAATGA
1 ATAAATATGATCGGGATTAAACCATAAGTTAAGAAATGAAAATGA
11857802 TTGGGATTTA
Statistics
Matches: 185, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
175 62 0.34
176 1 0.01
177 5 0.03
178 117 0.63
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (175 bp):
ATAAATATGATCGGGATTAAACCATAAGTTAAGAAATGAAAATGACCAGGATTGAATCATAAGTC
AAGAATCAAAAATGAACAAGATTAAACTACAAGTCAAAGAATAAATATAACCAGAACTAAGTCAC
AAGTCCAGGAATAAGTGTGGTTAGGACTGAGCCGCAAGTCAAAGA
Found at i:11859070 original size:10 final size:10
Alignment explanation
Indices: 11859057--11859081 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11859047 TTTTTTCACC
11859057 TTTTTTATTT
1 TTTTTTATTT
11859067 TTTTTTATTT
1 TTTTTTATTT
11859077 TTTTT
1 TTTTT
11859082 GTTTAAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:11860535 original size:49 final size:49
Alignment explanation
Indices: 11860442--11860550 Score: 121
Period size: 49 Copynumber: 2.2 Consensus size: 49
11860432 GACTTACATG
* * *
11860442 TTTTAATTTTTCTGACCTATACAAACGGTTAACACCTATTAGTATAGAC
1 TTTTAATTTTTCTGACCTATACAAACGCTTAACACCTATCAGTATAAAC
* * * *
11860491 TTTTAATTTTTCTTACCTATATC-GACGCTTAGCATCTATCAGTATAAAC
1 TTTTAATTTTTCTGACCTATA-CAAACGCTTAACACCTATCAGTATAAAC
* *
11860540 TTGTATTTTTT
1 TTTTAATTTTT
11860551 AATTTTCTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 49 0.98
50 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.45
Consensus pattern (49 bp):
TTTTAATTTTTCTGACCTATACAAACGCTTAACACCTATCAGTATAAAC
Found at i:11861578 original size:68 final size:68
Alignment explanation
Indices: 11861487--11861613 Score: 164
Period size: 68 Copynumber: 1.9 Consensus size: 68
11861477 ACAGAAGGTA
* * * * * * *
11861487 AGAAAGTAATCATCCATTCATATACCGATAGAATTAATTTTATAAATATCTTATTCATTTATATA
1 AGAAAGTAATCATCCATTCATATACCAACAAAAATAATATTATAAACATCCTATTCATTTATATA
11861552 TAT
66 TAT
* * *
11861555 AGAAGGTAATCATTCATTTATATACCAACAAAAATAATATTATAAACATCCTATTCATT
1 AGAAAGTAATCATCCATTCATATACCAACAAAAATAATATTATAAACATCCTATTCATT
11861614 AGTGTAATGC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 49 1.00
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (68 bp):
AGAAAGTAATCATCCATTCATATACCAACAAAAATAATATTATAAACATCCTATTCATTTATATA
TAT
Found at i:11865237 original size:63 final size:62
Alignment explanation
Indices: 11865121--11865239 Score: 143
Period size: 62 Copynumber: 1.9 Consensus size: 62
11865111 CCCTTTAGAT
* * * *
11865121 TTTTTATGAGTGGATTATTGAAGGCATTTTTGGCCAAAAAAGCCTTTAATAATCCTTCTTCA
1 TTTTTATGAGTGAATTATTAAAGGCATTTTTAGCCAAAAAAGCCTTAAATAATCCTTCTTCA
* *
11865183 TTTTTATGA-TGAAATTATTAAAGGCATTTTTAGCTTGAAAACA-CCTTAAATAATCCT
1 TTTTTATGAGTG-AATTATTAAAGGCATTTTTAGC--CAAAAAAGCCTTAAATAATCCT
11865240 CTACAAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
61 2 0.04
62 28 0.58
63 13 0.27
64 5 0.10
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (62 bp):
TTTTTATGAGTGAATTATTAAAGGCATTTTTAGCCAAAAAAGCCTTAAATAATCCTTCTTCA
Found at i:11865385 original size:38 final size:38
Alignment explanation
Indices: 11865329--11865402 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
11865319 ATAATTCATG
* *
11865329 AATTATTCATTCATTGGGGATTATTGAAGGCATTTTTT
1 AATTATTCATTCACTGGGGATTATTAAAGGCATTTTTT
11865367 AATTATTCATTCACTGGGGATTATTAAAGGCATTTT
1 AATTATTCATTCACTGGGGATTATTAAAGGCATTTT
11865403 CTGTCAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (38 bp):
AATTATTCATTCACTGGGGATTATTAAAGGCATTTTTT
Found at i:11865979 original size:235 final size:231
Alignment explanation
Indices: 11865545--11866254 Score: 855
Period size: 235 Copynumber: 3.1 Consensus size: 231
11865535 TAAAACATGT
* * * * *
11865545 CTTGAATAATCCATTACAAAATATTGAATGAGGTTATTAAAGGCGTTTCTAACTAAAAATGCATT
1 CTTGAATAATCCATTACAAAATATTGAATGGGGTTATTAAAAGCGTTTTTAGCTAAAAATGCCTT
* * *
11865610 GAATAATTCATGGATTATTCAAG-GTATTTTTGGCTAAAAATACCTTT-TATAACCCATGAATTA
66 GAATAATTCGTGGATTATTAAAGCAT-TTTTTGGCTAAAAATACCTTTGTATAACCCATGAATTA
* * * *
11865673 TTCATTAATTGGGGATTATTGAAGGCATTTTCTATAAAAAAAAAATGCCTTCAATAATCCCAATA
130 TTCATTCATTGGGGATTATTGAAGGCATTTTCTAT--CAAAAACAT--CTTTAATAATCCCAAT-
* * *
11865738 TTTTTTTTTTGAATATTTAAGGTGTTTTTACCCAAAAAATAC
190 TTTTTTTTTTGAATATTCAAGGTATTTTTACCCAGAAAATAC
** * *
11865780 CTTGAATAATCTTTTACAAAATATTGAATGGGGTTATTAAAAGCGTTTTTGGCTAAAAAAGCCTT
1 CTTGAATAATCCATTACAAAATATTGAATGGGGTTATTAAAAGCGTTTTTAGCTAAAAATGCCTT
*
11865845 GAATAATTCGTGGATTATATAAAGCATTTTTTTTGGCTAAAAATA-CTTTGTATAACCCATGTAT
66 GAATAATTCGTGGATTAT-TAAAGCA--TTTTTTGGCTAAAAATACCTTTGTATAACCCATGAAT
* * * *
11865909 TATACATTCATTAGAGATTATTGAAGGCGTTTTCTATCAAAAACATCTTTAATAATCCCAGCATT
128 TATTCATTCATTGGGGATTATTGAAGGCATTTTCTATCAAAAACATCTTTAATAATCCCA--ATT
* * * *
11865974 TTTTTTTTGGAATATTCAAGGCATTTATACCCAGAAAATGC
191 TTTTTTTTTGAATATTCAAGGTATTTTTACCCAGAAAATAC
* *
11866015 CTTGAATAATCCCTTACAAAATATTGAAT-GGGTTATT-AAAG-GTTTTTCTAGCTAAAAATGTC
1 CTTGAATAATCCATTACAAAATATTGAATGGGGTTATTAAAAGCG-TTTT-TAGCTAAAAATGCC
* *
11866077 TTGAATAATTCGTGGATTATTCAAGGCA-TTTTTGGCTAAAAACACCTTCTGT-T-ACCCATGAA
64 TTGAATAATTCGTGGATTATT-AAAGCATTTTTTGGCTAAAAATACCTT-TGTATAACCCATGAA
* * * * *
11866139 TTATTCATTCATTGGGGATTATTAAAGGTATTTTCTGTCAAAAACACCTTTAATAATCCCAA-AT
127 TTATTCATTCATTGGGGATTATTGAAGGCATTTTCTATCAAAAACATCTTTAATAATCCCAATTT
* *
11866203 TTTTTTTTGAATATTCAAGGTATTTTTGCCTAGAAAATAC
192 TTTTTTTTGAATATTCAAGGTATTTTTACCCAGAAAATAC
*
11866243 CTTCAATAATCC
1 CTTGAATAATCC
11866255 CTTTCAATTT
Statistics
Matches: 411, Mismatches: 52, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
228 46 0.11
229 1 0.00
231 76 0.18
232 5 0.01
233 12 0.03
234 57 0.14
235 135 0.33
236 13 0.03
237 4 0.01
238 61 0.15
239 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (231 bp):
CTTGAATAATCCATTACAAAATATTGAATGGGGTTATTAAAAGCGTTTTTAGCTAAAAATGCCTT
GAATAATTCGTGGATTATTAAAGCATTTTTTGGCTAAAAATACCTTTGTATAACCCATGAATTAT
TCATTCATTGGGGATTATTGAAGGCATTTTCTATCAAAAACATCTTTAATAATCCCAATTTTTTT
TTTTGAATATTCAAGGTATTTTTACCCAGAAAATAC
Found at i:11866343 original size:63 final size:63
Alignment explanation
Indices: 11866214--11866362 Score: 167
Period size: 63 Copynumber: 2.4 Consensus size: 63
11866204 TTTTTTTGAA
* * * * ** * ** *
11866214 TATTCAAGGTATTTTTGCCTAGAAAATACCTTCAATAATCCCTTTCAATTTTTATGATGGGAT
1 TATTGAAGGTGTTTTTGCCTAAAAAATACCTTCAATAATCCCTTACAAAATATATGAAAGCAT
11866277 TATTGAAGGTGTTTTTAGCC-AAAAAATACCTTCAATAATCCCTTACAAAATAT-TGAAAGCAGT
1 TATTGAAGGTGTTTTT-GCCTAAAAAATACCTTCAATAATCCCTTACAAAATATATGAAAGCA-T
*
11866340 TATTGAAGGTGTTTTTGGCTAAA
1 TATTGAAGGTGTTTTTGCCTAAA
11866363 TATGCCTTGA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
62 7 0.10
63 62 0.86
64 3 0.04
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.38
Consensus pattern (63 bp):
TATTGAAGGTGTTTTTGCCTAAAAAATACCTTCAATAATCCCTTACAAAATATATGAAAGCAT
Found at i:11866491 original size:151 final size:151
Alignment explanation
Indices: 11866317--11866620 Score: 599
Period size: 151 Copynumber: 2.0 Consensus size: 151
11866307 TTCAATAATC
11866317 CCTTACAAAATATTGAAAGCAGTTATTGAAGGTGTTTTTGGCTAAATATGCCTTGAATAATTCAT
1 CCTTACAAAATATTGAAAGCAGTTATTGAAGGTGTTTTTGGCTAAATATGCCTTGAATAATTCAT
11866382 GGATTATTCATGGTGTTTATTGCCAAAAACACTTTCAATAACCCATGAATTATTCATTTAGAGGA
66 GGATTATTCATGGTGTTTATTGCCAAAAACACTTTCAATAACCCATGAATTATTCATTTAGAGGA
11866447 GATTATTCAAGGCATTTATGG
131 GATTATTCAAGGCATTTATGG
11866468 CCTTACAAAATATTGAAAGCAGTTATTGAAGGTGTTTTTGGCTAAATATGCCTTGAATAATTCAT
1 CCTTACAAAATATTGAAAGCAGTTATTGAAGGTGTTTTTGGCTAAATATGCCTTGAATAATTCAT
*
11866533 GGATTATTCATGGTGTTTATTGCCAAAAACACTTTCAATAACCCATGAATTATTCATTTAGAGGG
66 GGATTATTCATGGTGTTTATTGCCAAAAACACTTTCAATAACCCATGAATTATTCATTTAGAGGA
11866598 GATTATTCAAGGCATTTATGG
131 GATTATTCAAGGCATTTATGG
11866619 CC
1 CC
11866621 AAAAATGCCT
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 152 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (151 bp):
CCTTACAAAATATTGAAAGCAGTTATTGAAGGTGTTTTTGGCTAAATATGCCTTGAATAATTCAT
GGATTATTCATGGTGTTTATTGCCAAAAACACTTTCAATAACCCATGAATTATTCATTTAGAGGA
GATTATTCAAGGCATTTATGG
Found at i:11868855 original size:21 final size:21
Alignment explanation
Indices: 11868806--11868863 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
11868796 CATTGAACAA
* *
11868806 CAACAGTAAAGACTTGATGAC
1 CAACAGCAATGACTTGATGAC
* *
11868827 CAAGAGCAATG-CTTGAATGAG
1 CAACAGCAATGACTTG-ATGAC
11868848 CAACAGCAATGACTTG
1 CAACAGCAATGACTTG
11868864 CAGCTTTGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.13
21 22 0.73
22 4 0.13
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (21 bp):
CAACAGCAATGACTTGATGAC
Found at i:11871138 original size:64 final size:61
Alignment explanation
Indices: 11870903--11871350 Score: 429
Period size: 63 Copynumber: 7.0 Consensus size: 61
11870893 CTTGAATATT
* *
11870903 TATGGATTATTCAAGGCATTTTTGGCAAAAAATGCCTTCAATAATTCCTTTAACAAAATTTTTTG
1 TATGGATTATTGAAGGCATTTTTGGC-AAAAATGCCTTCAATAA-TCCCTT--CAAAATTTTTTG
* * *
11870968 TATGGATTATTGAAGGCATTTATGGACAAAAATGCCTTTAATAATCCCATCTAAAATTTTTTG
1 TATGGATTATTGAAGGCATTTTTGG-CAAAAATGCCTTCAATAATCCCTTC-AAAATTTTTTG
** ** * *
11871031 TATGGATTATAT-AAGGTGTTTTTGGCTGAAAT-CATCTTCAATAATCTCTTCCATAAATTGTTA
1 TATGGATTAT-TGAAGGCATTTTTGGCAAAAATGC--CTTCAATAATCCCTT-CA-AAATT-TTT
11871094 TG
60 TG
* * *
11871096 -AGGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTTAATAATCCCCTCAAAAATTTTTTTTT
1 TATGGATTATTGAAGGCATTTTTGG-CAAAAATGCCTTCAATAATCCCTTC-AAAA---TTTTTT
11871160 G
61 G
* ** *
11871161 CATGGATTATTGAAGGCATTTTTGGACAAAAGCGCTTTCAATAATCCCTTTCAAAATTTTTTG
1 TATGGATTATTGAAGGCATTTTTGG-CAAAAATGCCTTCAATAATCCC-TTCAAAATTTTTTG
* * * *
11871224 TATGGATTATTGAAGGCATTTTTAGTCAAAAACGCCTTCAACAATCCCTCTTCAAAAATTTTTG
1 TATGGATTATTGAAGGCATTTTT-GGCAAAAATGCCTTCAATAAT-CC-CTTCAAAATTTTTTG
* *
11871288 AATGGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATCCCATTC--AATTTTTTG
1 TATGGATTATTGAAGGCATTTTTGG-CAAAAATGCCTTCAATAATCCC-TTCAAAATTTTTTG
11871349 TA
1 TA
11871351 AGCCAATAAT
Statistics
Matches: 320, Mismatches: 41, Indels: 48
0.78 0.10 0.12
Matches are distributed among these distances:
61 10 0.03
62 7 0.02
63 100 0.31
64 99 0.31
65 53 0.17
66 49 0.15
67 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (61 bp):
TATGGATTATTGAAGGCATTTTTGGCAAAAATGCCTTCAATAATCCCTTCAAAATTTTTTG
Found at i:11871297 original size:193 final size:191
Alignment explanation
Indices: 11870904--11871335 Score: 504
Period size: 193 Copynumber: 2.2 Consensus size: 191
11870894 TTGAATATTT
* * * * *
11870904 ATGGATTATTCAAGGCATTTTTGGCAAAAAATGCCTTCAATAATTCCTTTAACAAAATTTTTTGT
1 ATGGATTATTGAAGGCATTTTTGGC-AAAAATGCCTTCAATAATCCCCTCAACAAAATTTTTTGC
11870969 ATGGATTATTGAAGGCATTTATGGACAAAAATGCCTTTAATAATCCCATCTAAAATTTTTTGTAT
65 ATGGATTATTGAAGGCATTTATGGACAAAAATGCCTTTAATAATCCCATCTAAAATTTTTTGTAT
** * * * * *
11871034 GGATTATATAAGGTGTTTTTGGCTGAAATCATCTTCAATAATCTCTTCCATAAATTGTTATG
130 GGATTATATAAGGCATTTTTGGCTAAAAACACCTTCAACAATCTCTTCCAAAAATTGTTATG
* * *
11871096 AGGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTTAATAATCCCCTCAA-AAATTTTTTTTT
1 ATGGATTATTGAAGGCATTTTTGG-CAAAAATGCCTTCAATAATCCCCTCAACAAA--ATTTTTT
* *
11871160 GCATGGATTATTGAAGGCATTTTTGGAC-AAAA-GCGCTTTCAATAATCCC-TTTCAAAATTTTT
63 GCATGGATTATTGAAGGCATTTATGGACAAAAATGC-CTTT-AATAATCCCATCT-AAAATTTTT
* *
11871222 TGTATGGATTAT-TGAAGGCATTTTTAG-TCAAAAACGCCTTCAACAATCCCTCTT-CAAAAATT
125 TGTATGGATTATAT-AAGGCATTTTTGGCT-AAAAACACCTTCAACAAT--CTCTTCCAAAAATT
11871284 -TT-TG
186 GTTATG
*
11871288 AATGGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATCCC
1 -ATGGATTATTGAAGGCATTTTTGG-CAAAAATGCCTTCAATAATCCC
11871336 ATTCAATTTT
Statistics
Matches: 206, Mismatches: 23, Indels: 21
0.82 0.09 0.08
Matches are distributed among these distances:
191 5 0.02
192 58 0.28
193 131 0.64
194 7 0.03
195 5 0.02
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (191 bp):
ATGGATTATTGAAGGCATTTTTGGCAAAAATGCCTTCAATAATCCCCTCAACAAAATTTTTTGCA
TGGATTATTGAAGGCATTTATGGACAAAAATGCCTTTAATAATCCCATCTAAAATTTTTTGTATG
GATTATATAAGGCATTTTTGGCTAAAAACACCTTCAACAATCTCTTCCAAAAATTGTTATG
Found at i:11871341 original size:127 final size:127
Alignment explanation
Indices: 11870904--11871350 Score: 489
Period size: 127 Copynumber: 3.5 Consensus size: 127
11870894 TTGAATATTT
* * * *
11870904 ATGGATTATTCAAGGCATTTTTGGCAAAAAATGCCTTCAATAATTCCTTTAACAAAATTTTTTGT
1 ATGGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATCCCTTT-ACAAAATTTTTTGT
* * * *
11870969 ATGGATTATTGAAGGCATTTATGGACAAAAATGCCTTTAATAATCCCATCT-AAAATTTTTTGT
65 ATGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTTAATAATCCC-TCTCAAAAATTTTTGA
** ** * ** * * *
11871032 ATGGATTATAT-AAGGTGTTTTTGGCTGAAATCATCTTCAATAATCTC-TTCCATAAATTGTTAT
1 ATGGATTAT-TGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATCCCTTTACA-AAATT-TTTT
*
11871095 G-AGGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTTAATAATCCC-CTCAAAAATTTTTTT
63 GTATGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTTAATAATCCCTCTCAAAAA----TTT
*
11871158 TTGC
124 TTGA
* * *
11871162 ATGGATTATTGAAGGCATTTTTGGACAAAAGCGCTTTCAATAATCCCTTT-CAAAATTTTTTGTA
1 ATGGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATCCCTTTACAAAATTTTTTGTA
* * * *
11871226 TGGATTATTGAAGGCATTTTTAGTCAAAAACGCCTTCAACAATCCCTCTTCAAAAATTTTTGA
66 TGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTTAATAATCCCTC-TCAAAAATTTTTGA
*
11871289 ATGGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATCCCATT-C--AATTTTTTGTA
1 ATGGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATCCCTTTACAAAATTTTTTGTA
11871351 AGCCAATAAT
Statistics
Matches: 268, Mismatches: 38, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
125 13 0.05
126 6 0.02
127 104 0.39
128 43 0.16
129 49 0.18
130 44 0.16
131 9 0.03
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (127 bp):
ATGGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATCCCTTTACAAAATTTTTTGTA
TGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTTAATAATCCCTCTCAAAAATTTTTGA
Found at i:11875618 original size:140 final size:140
Alignment explanation
Indices: 11875366--11875646 Score: 490
Period size: 140 Copynumber: 2.0 Consensus size: 140
11875356 TTGGTAAGGG
* *
11875366 AATGGATTGGGGACATAAATAGTCATTGATGTTCTAGGAAAGCAAATAGCTTTCTCAACTGCAAG
1 AATGGACTGGGGACATAAATAGTCATTGATGTTCTAGGAAAGAAAATAGCTTTCTCAACTGCAAG
11875431 CTTCGATTTCTTATCATAGTATATCATAAGAGGTTTGGGGACAAAAGACTTACCAGGATGTTCAT
66 CTTCGATTTCTTATCATAGTATATCATAAGAGGTTTGGGGACAAAAGACTTACCAGGATGTTCAT
11875496 CACCTACCAT
131 CACCTACCAT
* * *
11875506 AATGGACTGGGGACATAAATAGTCATTGGTGTTCTAGGAAAGAAAATAGCTTTCTCAGCTGTAAG
1 AATGGACTGGGGACATAAATAGTCATTGATGTTCTAGGAAAGAAAATAGCTTTCTCAACTGCAAG
* * *
11875571 CTTCGATTTCTTATCATAGTATATCATGAGAGGTTTGGGGATAAAAGACTTACTAGGATGTTCAT
66 CTTCGATTTCTTATCATAGTATATCATAAGAGGTTTGGGGACAAAAGACTTACCAGGATGTTCAT
11875636 CACCTACCAT
131 CACCTACCAT
11875646 A
1 A
11875647 TTCACACCAC
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
140 133 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (140 bp):
AATGGACTGGGGACATAAATAGTCATTGATGTTCTAGGAAAGAAAATAGCTTTCTCAACTGCAAG
CTTCGATTTCTTATCATAGTATATCATAAGAGGTTTGGGGACAAAAGACTTACCAGGATGTTCAT
CACCTACCAT
Found at i:11877284 original size:65 final size:63
Alignment explanation
Indices: 11877152--11877321 Score: 166
Period size: 65 Copynumber: 2.7 Consensus size: 63
11877142 TTTTTTTTTT
* * * * *
11877152 GGATTATTTAAGGCA-TTTTTGGCTAGAAAACACCTTGAATAACCCTATTTAATATTTTGCAAG
1 GGATTATTCAAGGCACTTTCTAGCCA-AAAACACCTTGAATAACCCTATTTAATATTTTACAAG
* * * *
11877215 GGATTATT-GAGGCACTTT-TAGCCAAAAACACCTTGAATAGCCCCTCTCATTTAATTTTTTATA
1 GGATTATTCAAGGCACTTTCTAGCCAAAAACACCTTGAATA--ACC-CT-ATTTAATATTTTACA
11877278 AG
62 AG
* **
11877280 GGATTATTCAAGGCATTTTCTAGCCAAAAATGCCTTGAATAA
1 GGATTATTCAAGGCACTTTCTAGCCAAAAACACCTTGAATAA
11877322 TCAAAATTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
61 15 0.17
62 9 0.10
63 13 0.15
64 2 0.02
65 22 0.25
66 8 0.09
67 19 0.22
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (63 bp):
GGATTATTCAAGGCACTTTCTAGCCAAAAACACCTTGAATAACCCTATTTAATATTTTACAAG
Found at i:11883864 original size:15 final size:15
Alignment explanation
Indices: 11883844--11883918 Score: 55
Period size: 15 Copynumber: 4.9 Consensus size: 15
11883834 TTGTATATCA
11883844 ATTTTAAGGTTTTGG
1 ATTTTAAGGTTTTGG
* *
11883859 ATTTTAGGGTTTCAAGG
1 ATTTTAAGGTTT--TGG
**
11883876 ATTTT-AGGTTTTAA
1 ATTTTAAGGTTTTGG
* *
11883890 AGTTTAAGGTTATAGG
1 ATTTTAAGGTT-TTGG
11883906 -TTTTAAGGTTTTG
1 ATTTTAAGGTTTTG
11883919 AGTTTTGGGC
Statistics
Matches: 44, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
14 6 0.14
15 25 0.57
16 6 0.14
17 7 0.16
ACGTcount: A:0.24, C:0.01, G:0.25, T:0.49
Consensus pattern (15 bp):
ATTTTAAGGTTTTGG
Found at i:11883916 original size:8 final size:8
Alignment explanation
Indices: 11883845--11883917 Score: 57
Period size: 8 Copynumber: 9.5 Consensus size: 8
11883835 TGTATATCAA
11883845 TTTTAAGG
1 TTTTAAGG
11883853 TTTT--GG
1 TTTTAAGG
*
11883859 ATTTTAGGG
1 -TTTTAAGG
*
11883868 TTTCAAGG
1 TTTTAAGG
11883876 ATTTT-AGG
1 -TTTTAAGG
*
11883884 TTTTAAAG
1 TTTTAAGG
11883892 -TTTAAGG
1 TTTTAAGG
*
11883899 TTAT-AGG
1 TTTTAAGG
11883906 TTTTAAGG
1 TTTTAAGG
11883914 TTTT
1 TTTT
11883918 GAGTTTTGGG
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
6 2 0.04
7 20 0.39
8 24 0.47
9 5 0.10
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (8 bp):
TTTTAAGG
Done.