Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 23 of 255
Found at i:6175311 original size:73 final size:73
Alignment explanation
Indices: 6175116--6175493 Score: 606
Period size: 73 Copynumber: 5.2 Consensus size: 73
6175106 GAGTTAAGCC
* * *
6175116 TTTT-AATTTTTGTTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCTTCAAGACACG
1 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
6175179 TTGAGGTA
66 TTGAGGTA
*
6175187 ATTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
6175251 TTGAGGTA
66 TTGAGGTA
*
6175259 TTTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
6175324 TTGAGGTA
66 TTGAGGTA
*
6175332 ATTTCAATCTT-TG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTCAAT-TTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
*
6175395 ATTGAGGTA
65 GTTGAGGTA
* *
6175404 TTTTCAATTTCTGCTTTTCAAAACTT-AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCAC
1 TTTTCAATTTCTGCTTTTCAAAA-TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
*
6175468 GCTGAGGTA
65 GTTGAGGTA
6175477 TTTTCAATTTCTGCTTT
1 TTTTCAATTTCTGCTTT
6175494 ACTAATTCTA
Statistics
Matches: 287, Mismatches: 13, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
71 14 0.05
72 133 0.46
73 136 0.47
74 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (73 bp):
TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
TTGAGGTA
Found at i:6175568 original size:87 final size:87
Alignment explanation
Indices: 6175412--6175576 Score: 210
Period size: 87 Copynumber: 1.9 Consensus size: 87
6175402 TATTTTCAAT
* * *
6175412 TTCTGCTTTTCAAAACTTAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCACGCTGAGGTA
1 TTCTACTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGGCACGCTGAGGTA
*
6175477 TTTTCAATTTCTGCTTTACTAA
66 TTTTCAAATTCTGCTTTACTAA
* * *
6175499 TTCTACTTTTC-AAA-TCAACTCATATTGTAAGAGGTGAGTTGAGTCTC-AGGCCACACGCTGAG
1 TTCTACTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGG---CACGCTGAG
*
6175561 GTCTTTTCAAATTCTG
63 GTATTTTCAAATTCTG
6175577 TTTTTAATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
84 3 0.04
85 28 0.42
86 3 0.04
87 33 0.49
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (87 bp):
TTCTACTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGGCACGCTGAGGTA
TTTTCAAATTCTGCTTTACTAA
Found at i:6175594 original size:14 final size:14
Alignment explanation
Indices: 6175572--6175604 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6175562 TCTTTTCAAA
6175572 TTCTG-TTTTTAAT
1 TTCTGTTTTTTAAT
6175585 TTCTGTTTTTTAAT
1 TTCTGTTTTTTAAT
6175599 TTCTGT
1 TTCTGT
6175605 GTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.70
Consensus pattern (14 bp):
TTCTGTTTTTTAAT
Found at i:6175688 original size:14 final size:14
Alignment explanation
Indices: 6175669--6175703 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6175659 CGCTGATGTA
6175669 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
* *
6175683 TTTTCAGTTTCTAT
1 TTTTCAATTTCTAC
6175697 TTTTCAA
1 TTTTCAA
6175704 AAATCAACTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:6175847 original size:53 final size:54
Alignment explanation
Indices: 6175690--6176005 Score: 491
Period size: 54 Copynumber: 5.9 Consensus size: 54
6175680 TACTTTTCAG
*
6175690 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTTTAA
1 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
*
6175744 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
1 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
*
6175798 TTTCTGTTTTTCAAAAATCAAC-CATATTGCGAGAGGTGAGTTGAGCCTTTTAA
1 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
*
6175851 TTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT--
1 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
* *
6175901 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTTTCGCAA
1 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT--TAA
* * *
6175957 ATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
6176006 GGCTCACGTG
Statistics
Matches: 244, Mismatches: 11, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
50 46 0.19
52 3 0.01
53 51 0.21
54 99 0.41
55 41 0.17
56 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (54 bp):
TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
Found at i:6175877 original size:107 final size:105
Alignment explanation
Indices: 6175690--6176005 Score: 485
Period size: 107 Copynumber: 3.0 Consensus size: 105
6175680 TACTTTTCAG
*
6175690 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTTTAATTTCTGTTTTT
1 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT-TTTTT
6175755 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
65 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
*
6175796 AATTTCTGTTTTTCAAAAATCAAC-CATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTT
1 --TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT-TTT
*
6175860 TTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
63 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
* * * *
6175901 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTTTCGCAAATTCTGTTT
1 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT--TAATTTCTTTTT
*
6175966 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
64 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
6176006 GGCTCACGTG
Statistics
Matches: 192, Mismatches: 11, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
103 21 0.11
104 27 0.14
105 41 0.21
106 6 0.03
107 76 0.40
108 21 0.11
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (105 bp):
TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTTTTTTC
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
Found at i:6176310 original size:30 final size:31
Alignment explanation
Indices: 6176276--6176377 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
6176266 TAAAAAATAA
*
6176276 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
6176306 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
6176336 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
6176366 AAATTTCATTTT
1 AAATTTCATTTT
6176378 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:6176969 original size:14 final size:13
Alignment explanation
Indices: 6176947--6176999 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 13
6176937 AGACAAGAAG
6176947 AAGAGAAGAAGAAAA
1 AAGA-AAGAA-AAAA
6176962 AAGAAAGAAAAAA
1 AAGAAAGAAAAAA
6176975 AGAGAAAGAAAAAGA
1 A-AGAAAGAAAAA-A
6176990 AAGAAA-AAAA
1 AAGAAAGAAAA
6177000 GTAATTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.25
14 21 0.58
15 6 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAAA
Found at i:6176972 original size:10 final size:10
Alignment explanation
Indices: 6176950--6176997 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
6176940 CAAGAAGAAG
*
6176950 AGAAGAAGAA
1 AGAAAAAGAA
*
6176960 AAAAGAAAGAA
1 AGAA-AAAGAA
6176971 A-AAAAGAGAA
1 AGAAAA-AGAA
6176981 AGAAAAAGAA
1 AGAAAAAGAA
6176991 AGAAAAA
1 AGAAAAA
6176998 AAGTAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 21 0.64
11 10 0.30
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:6177009 original size:11 final size:11
Alignment explanation
Indices: 6176995--6177021 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6176985 AAAGAAAGAA
6176995 AAAAAGTAATT
1 AAAAAGTAATT
6177006 AAAAAGTAATT
1 AAAAAGTAATT
6177017 AAAAA
1 AAAAA
6177022 AATAAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (11 bp):
AAAAAGTAATT
Found at i:6177010 original size:24 final size:23
Alignment explanation
Indices: 6176953--6177000 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
6176943 GAAGAAGAGA
6176953 AGAAGAAAAAAGAAAGAAAAAAAG
1 AGAA-AAAAAAGAAAGAAAAAAAG
6176977 AGAAAGAAAAAGAAAGAAAAAAAG
1 AGAAA-AAAAAGAAAGAAAAAAAG
6177001 TAATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (23 bp):
AGAAAAAAAAGAAAGAAAAAAAG
Found at i:6177647 original size:17 final size:17
Alignment explanation
Indices: 6177627--6177933 Score: 166
Period size: 18 Copynumber: 17.3 Consensus size: 17
6177617 TCGTGAATAA
*
6177627 AAAAAATTCGTGTTTTC
1 AAAAATTTCGTGTTTTC
6177644 AAAAATTTTCGTGTTTTC
1 AAAAA-TTTCGTGTTTTC
*
6177662 AAAAATCTTTGTGTTTTC
1 AAAAAT-TTCGTGTTTTC
* *
6177680 AAAAATTCTGGCG-TTTC
1 AAAAATT-TCGTGTTTTC
**
6177697 AAAAATTTTCGTGTTTAAAAA
1 AAAAA-TTTCGTGTTT---TC
6177718 AAAAATTTACGTGTTTTC
1 AAAAATTT-CGTGTTTTC
*
6177736 ACAAATTTTCGTG-TTTC
1 A-AAAATTTCGTGTTTTC
*
6177753 ACAAATTCTCGTGTTTTC
1 AAAAATT-TCGTGTTTTC
* *
6177771 AAAAACTCCAGTG-TTTC
1 AAAAATTTC-GTGTTTTC
* *
6177788 TAAAATTTCCCTGTTTT-
1 AAAAATTT-CGTGTTTTC
*
6177805 AAAAATTCCCGTG-TTTC
1 AAAAATT-TCGTGTTTTC
* *
6177822 AGAAAAAAATGTCGTGTTTTA
1 ----AAAAATTTCGTGTTTTC
*
6177843 AGAAAATTTCGTTTTTTC
1 A-AAAATTTCGTGTTTTC
6177861 TAAAAATTTTCGTG-TTTC
1 -AAAAA-TTTCGTGTTTTC
*
6177879 TAAAATTTTCGTG--TT-
1 -AAAAATTTCGTGTTTTC
*
6177894 ACAAATTCTCGTGTTTTC
1 AAAAATT-TCGTGTTTTC
*
6177912 AAAAATTCTCGTATTTT-
1 AAAAATT-TCGTGTTTTC
6177929 AAAAA
1 AAAAA
6177934 AAACTTTCGT
Statistics
Matches: 226, Mismatches: 35, Indels: 58
0.71 0.11 0.18
Matches are distributed among these distances:
14 5 0.02
15 5 0.02
16 9 0.04
17 65 0.29
18 101 0.45
19 13 0.06
20 7 0.03
21 21 0.09
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTC
Found at i:6177752 original size:56 final size:53
Alignment explanation
Indices: 6177633--6177877 Score: 154
Period size: 56 Copynumber: 4.5 Consensus size: 53
6177623 ATAAAAAAAA
** **
6177633 TTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATT
1 TTCGTG-TTTCAAAAATTTTCGTGTTTAAAAAAAAATTTGTGTTTTCAAAAATT
* * * *
6177687 CTGGCGTTTCAAAAATTTTCGTGTTTAAAAAAAAAATTTACGTGTTTTCACAAATT
1 TTCGTGTTTCAAAAATTTTCGTGTTT-AAAAAAAAATTT--GTGTTTTCAAAAATT
* * ** * ** *
6177743 TTCGTGTTTCACAAATTCTCGTGTTT-TCAAAAACTCCAGTG-TTTCTAAAATT
1 TTCGTGTTTCAAAAATTTTCGTGTTTAAAAAAAAAT-TTGTGTTTTCAAAAATT
* * * ** * * *
6177795 TCCCTGTTTTAAAAATTCCCGTGTTTCAGAAAAAAATGTCGTGTTTT-AAGAAAAT
1 TTCGTGTTTCAAAAATTTTCGTGTTT-AAAAAAAAAT-TTGTGTTTTCAA-AAATT
*
6177850 TTCGTTTTTTCTAAAAATTTTCGTGTTT
1 TTCG-TGTTTC-AAAAATTTTCGTGTTT
6177878 CTAAAATTTT
Statistics
Matches: 142, Mismatches: 39, Indels: 17
0.72 0.20 0.09
Matches are distributed among these distances:
52 30 0.21
53 23 0.16
54 27 0.19
55 9 0.06
56 39 0.27
57 14 0.10
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (53 bp):
TTCGTGTTTCAAAAATTTTCGTGTTTAAAAAAAAATTTGTGTTTTCAAAAATT
Found at i:6177785 original size:74 final size:74
Alignment explanation
Indices: 6177644--6177786 Score: 175
Period size: 74 Copynumber: 1.9 Consensus size: 74
6177634 TCGTGTTTTC
* * * *
6177644 AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTGGCGTTTCAAAAATTTTCGT
1 AAAAATTTACGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTCGCGTTTCAAAAATCTCCGT
6177709 GTTTAAAAA
66 GTTTAAAAA
* * *
6177718 AAAAATTTACGTGTTTTCACAAAT-TTTCGTG-TTTCACAAATTCTCGTGTTTTCAAAAA-CTCC
1 AAAAATTTACGTGTTTTCAAAAATCTTT-GTGTTTTCAAAAATTCTCGCG-TTTCAAAAATCTCC
6177780 AGTGTTT
64 -GTGTTT
6177787 CTAAAATTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
73 19 0.32
74 40 0.68
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (74 bp):
AAAAATTTACGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTCGCGTTTCAAAAATCTCCGT
GTTTAAAAA
Found at i:6189254 original size:18 final size:18
Alignment explanation
Indices: 6189231--6189266 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6189221 TAGTAAGCTT
6189231 TTTAGTCATACTTATGCA
1 TTTAGTCATACTTATGCA
* *
6189249 TTTAGTCTTACTTTTGCA
1 TTTAGTCATACTTATGCA
6189267 AGTGACTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (18 bp):
TTTAGTCATACTTATGCA
Found at i:6205031 original size:3 final size:3
Alignment explanation
Indices: 6205025--6205065 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
6205015 ACGAGTGGTA
6205025 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6205066 GTCAATCTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6211470 original size:38 final size:38
Alignment explanation
Indices: 6211392--6211491 Score: 98
Period size: 38 Copynumber: 2.6 Consensus size: 38
6211382 ATATATTTAT
* * *
6211392 ATTAAAATTTATA-ATTTAAAATTTAACTTGCAATTAA
1 ATTAAAAATTATATTTTTAAAATTTAACTTACAATTAA
6211429 ATTAAAAATTATATTTTTAAAATTT-ACTATACAAATT-A
1 ATTAAAAATTATATTTTTAAAATTTAACT-TAC-AATTAA
* *
6211467 ATTAATTAAATTTTATTTTAAAAAT
1 ATTAA--AAATTATATTTTTAAAAT
6211492 ATTATAATGT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
37 15 0.28
38 18 0.34
39 4 0.08
40 16 0.30
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (38 bp):
ATTAAAAATTATATTTTTAAAATTTAACTTACAATTAA
Found at i:6211491 original size:27 final size:27
Alignment explanation
Indices: 6211430--6211491 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
6211420 TGCAATTAAA
*
6211430 TTAAAAATTATATTTTTAAAATTTACT
1 TTAAAAATTATATTATTAAAATTTACT
* * * *
6211457 ATACAAATTA-ATTAATTAAATTTTATT
1 TTAAAAATTATATT-ATTAAAATTTACT
6211484 TTAAAAAT
1 TTAAAAAT
6211492 ATTATAATGT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAAAAATTATATTATTAAAATTTACT
Found at i:6213696 original size:21 final size:21
Alignment explanation
Indices: 6213672--6213711 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6213662 TTTGTTTATA
6213672 ATTTTCTTGCTT-TTTTTTTCT
1 ATTTTCTTG-TTATTTTTTTCT
6213693 ATTTTCTTGTTATTTTTTT
1 ATTTTCTTGTTATTTTTTT
6213712 ACTAATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.07, C:0.10, G:0.05, T:0.78
Consensus pattern (21 bp):
ATTTTCTTGTTATTTTTTTCT
Found at i:6214042 original size:13 final size:13
Alignment explanation
Indices: 6214026--6214052 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6214016 TTTAAAAAAT
6214026 TAAAATAAATAAA
1 TAAAATAAATAAA
6214039 TAAAATAAATAAA
1 TAAAATAAATAAA
6214052 T
1 T
6214053 GAGAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:6219203 original size:2 final size:2
Alignment explanation
Indices: 6219198--6219223 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6219188 TAATATTTCC
6219198 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6219224 GATAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6220210 original size:31 final size:30
Alignment explanation
Indices: 6220137--6220211 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
6220127 ATGAAAAAGC
* * *
6220137 TTAGGTACTAAACTAAACATTGAAGTCAAA
1 TTAGGTACCAAATTAAACATTGAAATCAAA
** *
6220167 TTCAAATTCCAAATTAAACATTGAAATCAAA
1 TT-AGGTACCAAATTAAACATTGAAATCAAA
6220198 TATAGGTACCAAAT
1 T-TAGGTACCAAAT
6220212 AATATATTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
30 2 0.06
31 31 0.91
32 1 0.03
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (30 bp):
TTAGGTACCAAATTAAACATTGAAATCAAA
Found at i:6220420 original size:15 final size:14
Alignment explanation
Indices: 6220390--6220418 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6220380 ATCTGCCCAA
6220390 ATTAATTTTTTTAT
1 ATTAATTTTTTTAT
6220404 ATT-ATTTTTTTAT
1 ATTAATTTTTTTAT
6220417 AT
1 AT
6220419 ATAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.80
14 3 0.20
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTAATTTTTTTAT
Found at i:6220671 original size:11 final size:11
Alignment explanation
Indices: 6220656--6220700 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
6220646 TAGTAAAACG
6220656 GTAAGAAAATA
1 GTAAGAAAATA
*
6220667 ATAAGAAAATA
1 GTAAGAAAATA
*
6220678 GT-AGCAAAACA
1 GTAAG-AAAATA
6220689 GTAAGAAAATA
1 GTAAGAAAATA
6220700 G
1 G
6220701 CAGAATTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 2 0.07
11 24 0.86
12 2 0.07
ACGTcount: A:0.62, C:0.04, G:0.18, T:0.16
Consensus pattern (11 bp):
GTAAGAAAATA
Found at i:6232798 original size:9 final size:9
Alignment explanation
Indices: 6232784--6232813 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6232774 ATATCAATCT
6232784 ATTATTTGA
1 ATTATTTGA
6232793 ATTATTTGA
1 ATTATTTGA
*
6232802 GTTATTTGA
1 ATTATTTGA
6232811 ATT
1 ATT
6232814 GTAACATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (9 bp):
ATTATTTGA
Found at i:6234753 original size:22 final size:22
Alignment explanation
Indices: 6234709--6234753 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6234699 CAATTTGCTT
* * * *
6234709 AATTAACGTGACCAAATTCAAA
1 AATTAAAGTAACCAAAATAAAA
6234731 AATTAAAGTAACCAAAATAAAA
1 AATTAAAGTAACCAAAATAAAA
6234753 A
1 A
6234754 CGATGCTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (22 bp):
AATTAAAGTAACCAAAATAAAA
Found at i:6234929 original size:32 final size:32
Alignment explanation
Indices: 6234888--6234951 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
6234878 TTATGTAAGT
6234888 TGTTTTATATATTTGAATACCAAAGTCCTTGA
1 TGTTTTATATATTTGAATACCAAAGTCCTTGA
*
6234920 TGTTTTATATATTTGAATACCTAAGTCCTTGA
1 TGTTTTATATATTTGAATACCAAAGTCCTTGA
6234952 AATACATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (32 bp):
TGTTTTATATATTTGAATACCAAAGTCCTTGA
Found at i:6237067 original size:17 final size:17
Alignment explanation
Indices: 6237045--6237078 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6237035 CACCAAGATA
6237045 CCATTCTAGCACTAAGG
1 CCATTCTAGCACTAAGG
*
6237062 CCATTCTAGCATTAAGG
1 CCATTCTAGCACTAAGG
6237079 GTGTGCTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (17 bp):
CCATTCTAGCACTAAGG
Found at i:6239663 original size:23 final size:24
Alignment explanation
Indices: 6239636--6239690 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
6239626 TTACAAATAA
*
6239636 ATAATAATTT-AACAAATATTAAT
1 ATAATAATTTAAAAAAATATTAAT
**
6239659 ATAATTCTTTAAAAAAAATATTAAT
1 ATAATAATTT-AAAAAAATATTAAT
6239684 ATAATAA
1 ATAATAA
6239691 GTATTCAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 8 0.32
25 17 0.68
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAATAATTTAAAAAAATATTAAT
Found at i:6241404 original size:17 final size:18
Alignment explanation
Indices: 6241374--6241419 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
6241364 ATTTAAATTG
6241374 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
6241392 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
6241408 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
6241420 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:6247076 original size:108 final size:108
Alignment explanation
Indices: 6246887--6247082 Score: 329
Period size: 108 Copynumber: 1.8 Consensus size: 108
6246877 GAAAAATGCT
*
6246887 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
6246952 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
66 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
* * * **
6246995 TGAAAAAGATTATCACAATGGATAAGATGAAAATTTGTTGAGAGCAAAGCTCTAAATGAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
*
6247060 TAATCAAGATAGCAAATTTTGCT
66 CAATCAAGATAGCAAATTTTGCT
6247083 AGAATACAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 81 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
Found at i:6247903 original size:11 final size:10
Alignment explanation
Indices: 6247872--6247924 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 10
6247862 CCTGGTAGAG
6247872 TTTTTTTTGT
1 TTTTTTTTGT
6247882 TTTTGCTTTTGT
1 TTTT--TTTTGT
6247894 TTTTTATTTGGT
1 TTTTT-TTT-GT
*
6247906 TTTTATTTGT
1 TTTTTTTTGT
6247916 TCTTTTTTT
1 T-TTTTTTT
6247925 TTGGCCTCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 8 0.22
11 12 0.33
12 16 0.44
ACGTcount: A:0.04, C:0.04, G:0.11, T:0.81
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:6249264 original size:62 final size:62
Alignment explanation
Indices: 6249160--6249343 Score: 323
Period size: 62 Copynumber: 3.0 Consensus size: 62
6249150 CTAAACTCGA
* * *
6249160 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
6249222 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATAAAATGTAATGTTAATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
6249284 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGAATGAA
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAA
6249344 GAGATACGTG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 116 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
Found at i:6251306 original size:53 final size:53
Alignment explanation
Indices: 6251225--6251368 Score: 209
Period size: 53 Copynumber: 2.7 Consensus size: 53
6251215 CTTACACGGT
* *
6251225 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
6251280 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
6251333 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCT
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCT
6251369 CAAACGGGCG
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 75 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:6267111 original size:18 final size:18
Alignment explanation
Indices: 6267090--6267126 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6267080 AATAATAACT
6267090 ATAACAAAAATCTATTTA
1 ATAACAAAAATCTATTTA
* *
6267108 ATAACAAATATTTATTTA
1 ATAACAAAAATCTATTTA
6267126 A
1 A
6267127 CACTTGTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAACAAAAATCTATTTA
Found at i:6267368 original size:24 final size:24
Alignment explanation
Indices: 6267312--6267368 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
6267302 ACTTTAAAAC
6267312 TAAAC-TTTCACATTATATTCAAT
1 TAAACTTTTCACATTATATTCAAT
*
6267335 TTAA-TCTTTCACATTATATTCAAT
1 TAAACT-TTTCACATTATATTCAAT
6267359 TAAACTTTTC
1 TAAACTTTTC
6267369 TAATACACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 3 0.10
24 25 0.86
25 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (24 bp):
TAAACTTTTCACATTATATTCAAT
Found at i:6267380 original size:13 final size:13
Alignment explanation
Indices: 6267362--6267386 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6267352 ATTCAATTAA
6267362 ACTTTTCTAATAC
1 ACTTTTCTAATAC
6267375 ACTTTTCTAATA
1 ACTTTTCTAATA
6267387 ACCTTAAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (13 bp):
ACTTTTCTAATAC
Found at i:6268330 original size:17 final size:17
Alignment explanation
Indices: 6268319--6268352 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6268309 AATTTGAAGA
6268319 GACAAAAAATTTAAATG
1 GACAAAAAATTTAAATG
*
6268336 GACAAAAAATATAAATG
1 GACAAAAAATTTAAATG
6268353 AATGATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (17 bp):
GACAAAAAATTTAAATG
Found at i:6270562 original size:18 final size:18
Alignment explanation
Indices: 6270525--6270564 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6270515 TTACTCTTCG
*
6270525 TTTCTTCTCTGCTATTCA
1 TTTCTTCTCTGCTATCCA
*
6270543 TTTCTTCTCTGCTCTCCA
1 TTTCTTCTCTGCTATCCA
6270561 TTTC
1 TTTC
6270565 ATCTGGAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.33, G:0.05, T:0.55
Consensus pattern (18 bp):
TTTCTTCTCTGCTATCCA
Found at i:6273177 original size:60 final size:60
Alignment explanation
Indices: 6273111--6273255 Score: 161
Period size: 59 Copynumber: 2.4 Consensus size: 60
6273101 TCTTTTGGAT
* *
6273111 TTTTTTAGAATTAGAATTAAATTAACAAATTTTGTAAATATTG-AGAGATAAATTTATTAAA
1 TTTTTTAGAATTAGAATAAAATTAA-AAATTTTGTAAACATTGAAG-GATAAATTTATTAAA
* * * * *
6273172 -TTTTTA-AATCAGAACTAAAATGAAAACTTTTGTAAACATTTAAGGCTAAATTTATTAAA
1 TTTTTTAGAATTAGAA-TAAAATTAAAAATTTTGTAAACATTGAAGGATAAATTTATTAAA
* *
6273231 TTTTTTAGATTTAGAATCAAATTAA
1 TTTTTTAGAATTAGAATAAAATTAA
6273256 TATTGTAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
59 35 0.51
60 28 0.41
61 6 0.09
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (60 bp):
TTTTTTAGAATTAGAATAAAATTAAAAATTTTGTAAACATTGAAGGATAAATTTATTAAA
Found at i:6274747 original size:63 final size:63
Alignment explanation
Indices: 6274654--6274813 Score: 173
Period size: 63 Copynumber: 2.5 Consensus size: 63
6274644 TTAAAATTAT
* * * *
6274654 AGTTTTAACTTGTAT-AGAGT-AGTAATTAAAGCATTGGTTATTCAAGGATTAAATATAAACGGG
1 AGTTTTGACTTGTATGA-AGTGA-TAGTTAAAGCATTGGTTATTCAAGAATTAAATATAAACGAG
* * *
6274717 AGTTTTGACTTGTATGAAGTGATAGTTAAAGTATTGGTTATTTAAGAATTAAATATAAGCGAG
1 AGTTTTGACTTGTATGAAGTGATAGTTAAAGCATTGGTTATTCAAGAATTAAATATAAACGAG
* * *
6274780 AGTTTCCGACTTATATGGAA-TGATTGTTAAAGCA
1 AGTTT-TGACTTGTAT-GAAGTGATAGTTAAAGCA
6274814 CTTACTAAAC
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
63 57 0.70
64 22 0.27
65 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (63 bp):
AGTTTTGACTTGTATGAAGTGATAGTTAAAGCATTGGTTATTCAAGAATTAAATATAAACGAG
Found at i:6278241 original size:24 final size:24
Alignment explanation
Indices: 6278196--6278242 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6278186 ATAAAAATTA
*
6278196 AACCCTAAAAACTTGAAAACAAAT
1 AACCCTAAAAACGTGAAAACAAAT
*
6278220 AACCCTCAAAACGT-AAACACAAA
1 AACCCTAAAAACGTGAAA-ACAAA
6278243 ATTTTCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.57, C:0.26, G:0.04, T:0.13
Consensus pattern (24 bp):
AACCCTAAAAACGTGAAAACAAAT
Found at i:6278512 original size:13 final size:13
Alignment explanation
Indices: 6278490--6278519 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6278480 ATTTTTCACT
6278490 AAATTATCTTATG
1 AAATTATCTTATG
*
6278503 AAATTCTCTTATG
1 AAATTATCTTATG
6278516 AAAT
1 AAAT
6278520 CACTCTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (13 bp):
AAATTATCTTATG
Found at i:6281621 original size:30 final size:30
Alignment explanation
Indices: 6281587--6281646 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
6281577 CCTTAATACG
6281587 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
6281617 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
6281647 GGCTCAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:6304254 original size:15 final size:15
Alignment explanation
Indices: 6304234--6304271 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
6304224 ATTTTGTTGG
6304234 GACGAAACCAAACTC
1 GACGAAACCAAACTC
6304249 GACGAAACCAAACTC
1 GACGAAACCAAACTC
*
6304264 GATGAAAC
1 GACGAAAC
6304272 AACGCATGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.08
Consensus pattern (15 bp):
GACGAAACCAAACTC
Found at i:6306776 original size:13 final size:13
Alignment explanation
Indices: 6306754--6306797 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
6306744 GAAATATTTT
6306754 ATTATTTATATAA
1 ATTATTTATATAA
*
6306767 ATTTTTTATATATGA
1 ATTATTTATATA--A
6306782 ATTATTTATATTAA
1 ATTATTTATA-TAA
6306796 AT
1 AT
6306798 AAATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 11 0.42
14 3 0.12
15 10 0.38
16 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
ATTATTTATATAA
Found at i:6306784 original size:15 final size:15
Alignment explanation
Indices: 6306760--6306797 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
6306750 TTTTATTATT
*
6306760 TATATAAATTTTTTA
1 TATATAAATTATTTA
*
6306775 TATATGAATTATTTA
1 TATATAAATTATTTA
6306790 TAT-TAAAT
1 TATATAAAT
6306798 AAATTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TATATAAATTATTTA
Found at i:6311158 original size:31 final size:32
Alignment explanation
Indices: 6311117--6311177 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
6311107 TATAATTTTA
6311117 AATATAATAATAAAT-AATATTTAA-ATAATCT
1 AATATAATAATAAATCAA-ATTTAATATAATCT
* *
6311148 AATATGATAATACATCAAATTTAATATAAT
1 AATATAATAATAAATCAAATTTAATATAAT
6311178 GATACATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (32 bp):
AATATAATAATAAATCAAATTTAATATAATCT
Found at i:6311174 original size:22 final size:22
Alignment explanation
Indices: 6311147--6311189 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6311137 TTAAATAATC
* *
6311147 TAATATGATAATACATCAAATT
1 TAATATAATAATACATAAAATT
*
6311169 TAATATAATGATACATAAAAT
1 TAATATAATAATACATAAAAT
6311190 ATAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (22 bp):
TAATATAATAATACATAAAATT
Found at i:6311199 original size:22 final size:22
Alignment explanation
Indices: 6311148--6311199 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
6311138 TAAATAATCT
* * * *
6311148 AATATGATAATACATCAAATTT
1 AATATAATGATACATAAAATTA
6311170 AATATAATGATACATAAAATATA
1 AATATAATGATACATAAAAT-TA
6311193 AAT-TAAT
1 AATATAAT
6311200 CTAATTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (22 bp):
AATATAATGATACATAAAATTA
Found at i:6317907 original size:69 final size:69
Alignment explanation
Indices: 6317796--6317935 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
6317786 AGATACTATA
* *
6317796 AATAGAAAACCAAGAATTAGAAAATATAAATATGACATCCATCTTTTGATTGAGGGCATTCATAA
1 AATAGAAAACCAAGAATTAGAAAATATAAATATGACATCCATCTTTTGAATGAGAGCATTCATAA
6317861 AACT
66 AACT
*
6317865 AATAGAAAACCAAGAATTAGAAAATATAAATATGGCATCCATCTTTTGAATGAGAGCATTCATAA
1 AATAGAAAACCAAGAATTAGAAAATATAAATATGACATCCATCTTTTGAATGAGAGCATTCATAA
6317930 AACT
66 AACT
6317934 AA
1 AA
6317936 CATATGATAT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (69 bp):
AATAGAAAACCAAGAATTAGAAAATATAAATATGACATCCATCTTTTGAATGAGAGCATTCATAA
AACT
Found at i:6318376 original size:17 final size:17
Alignment explanation
Indices: 6318350--6318392 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
6318340 AAAATAGAAC
6318350 AAAAAAAAAACAAA-GG
1 AAAAAAAAAACAAATGG
*
6318366 AAAAAAGAAAAGAAATGG
1 AAAAAA-AAAACAAATGG
6318384 AAAAGAAAA
1 AAAA-AAAA
6318393 CACGAAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.26
17 7 0.30
18 8 0.35
19 2 0.09
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAACAAATGG
Found at i:6321233 original size:19 final size:19
Alignment explanation
Indices: 6321209--6321248 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
6321199 GTTACATATG
*
6321209 TTAGCTAAATATGAATTGA
1 TTAGCTAAATACGAATTGA
6321228 TTAGCTAAATACGAATTGA
1 TTAGCTAAATACGAATTGA
6321247 TT
1 TT
6321249 GTTTTTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (19 bp):
TTAGCTAAATACGAATTGA
Found at i:6328041 original size:28 final size:30
Alignment explanation
Indices: 6327994--6328049 Score: 89
Period size: 28 Copynumber: 1.9 Consensus size: 30
6327984 AGAATTATAA
6327994 ATAAATATAAACACATATAATATTATTTAT
1 ATAAATATAAACACATATAATATTATTTAT
*
6328024 ATAAATATAAATA-A-ATAATATTATTT
1 ATAAATATAAACACATATAATATTATTT
6328050 TTGTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 12 0.48
29 1 0.04
30 12 0.48
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAAATATAAACACATATAATATTATTTAT
Found at i:6330864 original size:20 final size:19
Alignment explanation
Indices: 6330836--6330899 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
6330826 AATTACATAT
*
6330836 AAAAATTAAAATAATTTTC
1 AAAATTTAAAATAATTTTC
*
6330855 AAATATTTAAAATAATTTTT
1 AAA-ATTTAAAATAATTTTC
*
6330875 AAAATTCAAAAT-ATTTAT-
1 AAAATTTAAAATAATTT-TC
6330893 AAAATTT
1 AAAATTT
6330900 TCAAAATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
18 10 0.26
19 12 0.31
20 17 0.44
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTTAAAATAATTTTC
Found at i:6330882 original size:27 final size:27
Alignment explanation
Indices: 6330855--6330907 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
6330845 AATAATTTTC
*
6330855 AAATATTTAAAATAATTTTTAAAATTCA
1 AAATATTTAAAA-AATTTTCAAAATTCA
*
6330883 AAATATTTATAAAATTTTCAAAATT
1 AAATATTTAAAAAATTTTCAAAATT
6330908 TACTTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (27 bp):
AAATATTTAAAAAATTTTCAAAATTCA
Found at i:6330887 original size:19 final size:18
Alignment explanation
Indices: 6330837--6330898 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
6330827 ATTACATATA
*
6330837 AAAATTAAAATAATTTTC
1 AAAATTAAAATAATTTTT
6330855 AAATATTTAAAATAATTTTT
1 AAA-A-TTAAAATAATTTTT
*
6330875 AAAATTCAAAAT-ATTTAT
1 AAAATT-AAAATAATTTTT
6330893 AAAATT
1 AAAATT
6330899 TTCAAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 16 0.41
19 7 0.18
20 16 0.41
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATTAAAATAATTTTT
Found at i:6332738 original size:18 final size:18
Alignment explanation
Indices: 6332715--6332997 Score: 151
Period size: 18 Copynumber: 15.3 Consensus size: 18
6332705 GAATAATTAT
6332715 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
6332733 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
6332751 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
6332769 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* * *
6332795 TTATCCAGTAATAGTCAA
1 TTATTCAGTAACAGTCAG
* *
6332813 TTATTTAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
6332830 GTATTCAGTAACAACTAAG
1 TTATTCAGTAAC-AGTCAG
6332849 TTATTCAGTAACAGTCA-
1 TTATTCAGTAACAGTCAG
* *
6332866 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
6332885 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
6332903 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
6332921 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
6332939 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * * *
6332957 TTATCCGGTAACAGTTAA
1 TTATTCAGTAACAGTCAG
* *
6332975 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
6332993 TTATT
1 TTATT
6332998 TTATACCTTT
Statistics
Matches: 199, Mismatches: 50, Indels: 32
0.71 0.18 0.11
Matches are distributed among these distances:
17 16 0.08
18 149 0.75
19 19 0.10
21 2 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:6332757 original size:36 final size:36
Alignment explanation
Indices: 6332715--6332997 Score: 185
Period size: 36 Copynumber: 7.6 Consensus size: 36
6332705 GAATAATTAT
* *
6332715 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
6332751 TTATTCAATAATAACCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
6332787 TTGATCGGTTATCCAGTAATAGTCAATTATTTAGTAA-AATCAG
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
6332830 GTATTCAGTAACAACTAAGTTATTCAGTAACAGTC-A
1 TTATTCAGTAACAA-TCAGTTATTCAGTAACAATCAA
* **
6332866 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
6332903 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * * * *
6332940 -TATCCAGTAACAGTCAATTATCCGGTAACAGTTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
*
6332975 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
6332998 TTATACCTTT
Statistics
Matches: 186, Mismatches: 47, Indels: 28
0.71 0.18 0.11
Matches are distributed among these distances:
35 9 0.05
36 130 0.70
37 21 0.11
42 2 0.01
43 6 0.03
44 18 0.10
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:6333111 original size:6 final size:6
Alignment explanation
Indices: 6333102--6333132 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
6333092 CCGAAGCCGG
*
6333102 AACAGT AACAGT AACAGT AACAGT AGCAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
6333133 CGGTACACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:6333397 original size:20 final size:22
Alignment explanation
Indices: 6333353--6333427 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 22
6333343 AATAGGGTAT
*
6333353 TTAATTCAT-TTTTCAGTTTTCAA
1 TTAATTCATATTTTCA--ATTCAA
6333376 TTAATTCATATTTT-AA-TCAA
1 TTAATTCATATTTTCAATTCAA
6333396 TTAACTAT-ATATTTTCAATTCAA
1 TTAA-T-TCATATTTTCAATTCAA
6333419 TATAATTCA
1 T-TAATTCA
6333428 ATTCACTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
20 8 0.18
21 8 0.18
22 4 0.09
23 17 0.39
24 7 0.16
ACGTcount: A:0.36, C:0.12, G:0.01, T:0.51
Consensus pattern (22 bp):
TTAATTCATATTTTCAATTCAA
Found at i:6334864 original size:22 final size:22
Alignment explanation
Indices: 6334839--6334889 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
6334829 TTTCATTCTG
*
6334839 TTTCTTTTCTATCTCTTTTTTT
1 TTTCTTTTCTATCTCTTTTGTT
* * *
6334861 TTTCATTTCTTTTTCTTTTGTT
1 TTTCTTTTCTATCTCTTTTGTT
*
6334883 TTACTTT
1 TTTCTTT
6334890 ATATATATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTCTTTTCTATCTCTTTTGTT
Found at i:6334871 original size:16 final size:16
Alignment explanation
Indices: 6334829--6334879 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
6334819 CTCTGTTTCG
* *
6334829 TTTCA-TTCTGTTTCT
1 TTTCATTTCTTTTTTT
*
6334844 TTTCTATCTCTTTTTTT
1 TTTC-ATTTCTTTTTTT
6334861 TTTCATTTCTTTTTCTT
1 TTTCATTTCTTTTT-TT
6334878 TT
1 TT
6334880 GTTTTACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.14
16 10 0.34
17 15 0.52
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTCATTTCTTTTTTT
Found at i:6335037 original size:31 final size:32
Alignment explanation
Indices: 6334981--6335043 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
6334971 CACACTTGTC
*
6334981 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
6335013 ATAATATAAT-TATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
6335044 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:6337242 original size:21 final size:20
Alignment explanation
Indices: 6337212--6337251 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
6337202 AAGCAAACGA
6337212 AAGAAAAAGAGAA-AAGAAAG
1 AAGAAAAAGA-AAGAAGAAAG
6337232 AAGAGAAAAGAAAGAAGAAA
1 AAGA-AAAAGAAAGAAGAAA
6337252 AGGGAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAAAGAAGAAAG
Found at i:6337258 original size:14 final size:14
Alignment explanation
Indices: 6337211--6337249 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
6337201 AAAGCAAACG
6337211 AAAGAAA-AAGAGA
1 AAAGAAAGAAGAGA
6337224 AAAGAAAGAAGAGA
1 AAAGAAAGAAGAGA
6337238 AAAGAAAGAAGA
1 AAAGAAAGAAGA
6337250 AAAGGGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAGAGA
Found at i:6344825 original size:31 final size:32
Alignment explanation
Indices: 6344755--6344826 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
6344745 TAAAAACCTT
* * * *
6344755 TAAGTTCAAACTCTAATATGAAAACAATTGTC
1 TAAGTTCATACCCAAATATGAAAACAATTGAC
6344787 TAA-TTCATACCCAAATATGAAAACAATT-AC
1 TAAGTTCATACCCAAATATGAAAACAATTGAC
6344817 TAAGTTCATA
1 TAAGTTCATA
6344827 AATTAATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.11
31 28 0.80
32 3 0.09
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.31
Consensus pattern (32 bp):
TAAGTTCATACCCAAATATGAAAACAATTGAC
Found at i:6353542 original size:27 final size:27
Alignment explanation
Indices: 6353501--6353554 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
6353491 ACCAAGGTTG
6353501 TGGTTCTTAAAAAATAGATCGTAGACT
1 TGGTTCTTAAAAAATAGATCGTAGACT
**
6353528 TGGTTCTTACGAAATAGATCGTAGACT
1 TGGTTCTTAAAAAATAGATCGTAGACT
6353555 ATCATCTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (27 bp):
TGGTTCTTAAAAAATAGATCGTAGACT
Found at i:6358168 original size:15 final size:15
Alignment explanation
Indices: 6358139--6358172 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6358129 GTGAATATCA
6358139 AAATTCATTTAATAT
1 AAATTCATTTAATAT
6358154 AAATT-ATTTATATAT
1 AAATTCATTTA-ATAT
6358169 AAAT
1 AAAT
6358173 ATAAAATACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTCATTTAATAT
Found at i:6362775 original size:27 final size:27
Alignment explanation
Indices: 6362745--6362811 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
6362735 AGTCCGCTAA
*
6362745 GACAGTAGACACGTGGTAATCTGTTC-G
1 GACAGTAAACACGTGGTAATCTG-TCAG
* *
6362772 GACAGTAAACATGTGGTAATTTGTCAG
1 GACAGTAAACACGTGGTAATCTGTCAG
6362799 GACAGTAAACACG
1 GACAGTAAACACG
6362812 GAATAGTCCG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (27 bp):
GACAGTAAACACGTGGTAATCTGTCAG
Found at i:6362884 original size:27 final size:26
Alignment explanation
Indices: 6362745--6362889 Score: 80
Period size: 27 Copynumber: 5.4 Consensus size: 26
6362735 AGTCCGCTAA
* * *
6362745 GACAGTAGACACGTGGTAATCTGTTCG
1 GACAGTAAACACGAGGTAGTCTG-TCG
* * * *
6362772 GACAGTAAACATGTGGTAATTTGTCAG
1 GACAGTAAACACGAGGTAGTCTGTC-G
* *
6362799 GACAGTAAACACG-GAATAGTCCGTCG
1 GACAGTAAACACGAG-GTAGTCTGTCG
* *
6362825 AGACAGTAAACAC-AGGGTAGCCCT-CCG
1 -GACAGTAAACACGA-GGTAG-TCTGTCG
* *
6362852 CAACAGTAAACACGAGGTAGTTTGTCAG
1 -GACAGTAAACACGAGGTAGTCTGTC-G
6362880 GACAGTAAAC
1 GACAGTAAAC
6362890 TCGGAGTAGT
Statistics
Matches: 91, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
26 5 0.05
27 82 0.90
28 4 0.04
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (26 bp):
GACAGTAAACACGAGGTAGTCTGTCG
Found at i:6365383 original size:45 final size:46
Alignment explanation
Indices: 6365153--6365382 Score: 302
Period size: 46 Copynumber: 4.9 Consensus size: 46
6365143 TTTGACATGA
* * *
6365153 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCACGT
1 TGCCATAGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCACGT
* *
6365203 TGCCATAGTATCTTTCAACCATGGTCATACACATTTCATATCATGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
* *
6365249 TGCCATAGTGTCTTTCAACTATGGTCTTACACATTTCATATCACGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
* *
6365295 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCA-GT
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
* *
6365340 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCA
6365383 GAGAGCACAC
Statistics
Matches: 164, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
45 47 0.29
46 89 0.54
48 2 0.01
50 26 0.16
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (46 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
Found at i:6367440 original size:16 final size:16
Alignment explanation
Indices: 6367401--6367440 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
6367391 AATCCCAATT
*
6367401 TTTCTCTTTTTCCTTC
1 TTTCTTTTTTTCCTTC
6367417 TTTCCTTTTTTTCCTTC
1 TTT-CTTTTTTTCCTTC
6367434 TTTCTTT
1 TTTCTTT
6367441 CCCCTGCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTCTTTTTTTCCTTC
Found at i:6367488 original size:15 final size:15
Alignment explanation
Indices: 6367467--6367504 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
6367457 CGTTTCATCC
6367467 TTTCTTTCTTTTTCTA
1 TTTCTTT-TTTTTCTA
*
6367483 -TTCTTTTTTTTTTA
1 TTTCTTTTTTTTCTA
6367497 TTTCTTTT
1 TTTCTTTT
6367505 ACTTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTCTTTTTTTTCTA
Found at i:6367637 original size:18 final size:20
Alignment explanation
Indices: 6367603--6367642 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
6367593 TCTTTCTTTA
6367603 ATCTATTTATTATATAA-AT
1 ATCTATTTATTATATAATAT
6367622 ATCT-TTTATT-TAATAATAT
1 ATCTATTTATTAT-ATAATAT
6367641 AT
1 AT
6367643 AATTTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.05
18 10 0.53
19 8 0.42
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
ATCTATTTATTATATAATAT
Found at i:6370000 original size:26 final size:27
Alignment explanation
Indices: 6369967--6370031 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 27
6369957 GTGAATATTG
* *
6369967 TATA-TATTTATATATAATATTATTTT
1 TATATTATTTATATATAACATTATTAT
*
6369993 TA-ATTATTGTAT-TTTAACATTATTAT
1 TATATTATT-TATATATAACATTATTAT
*
6370019 TATATTATATATA
1 TATATTATTTATA
6370032 CTTCTTCGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
25 1 0.03
26 22 0.71
27 8 0.26
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TATATTATTTATATATAACATTATTAT
Found at i:6382630 original size:71 final size:72
Alignment explanation
Indices: 6382422--6383020 Score: 605
Period size: 70 Copynumber: 8.5 Consensus size: 72
6382412 TAAGCCTTTT
*
6382422 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTTGAG
1 AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC-TGAG
6382487 GTAATTTC
65 GTAATTTC
* * **
6382495 AATTTCTG-TTGTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGA
1 AATTTTTGTTTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
6382559 GGTAATTTC
64 GGTAATTTC
*
6382568 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGA-GTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
6382632 TAATTTC
66 TAATTTC
* * **
6382639 AA-TTTCG-TTGT-AAAATCAACTCAT-TTGCGAGA-AAGAGTTG-G--TC-GGACACGCTGA-G
1 AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
6382694 TAATTTC
66 TAATTTC
6382701 AATTTTT-TTTTTC-AAATCAACTCATATT--GAGA-GTGAGTT-AG-CTCA-GACACGCTGA-G
1 AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
6382757 T-ATTTC
66 TAATTTC
* * *
6382763 AA-TTCTG-TTGTCAAAA-AATACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACCGCTGA
1 AATTTTTGTTTTTCAAAATCA-ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA-CGCTGA
** *
6382824 AATTATTTC
64 GGTAATTTC
*
6382833 AATTTCTGTTGGATTTCAAAATTAAAAAATCAACTCATATTGCGAGAGGTGAGTT-AGCCTCAGG
1 AA-TT-T-TT-G-TTT-----TT-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
6382897 ACACGCTGAGGTAATTTC
55 ACACGCTGAGGTAATTTC
* ***
6382915 AATTTACT-TCCCTC-AAATCAACTCATATTGC-AGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTT-TTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
6382977 GTAATTTC
65 GTAATTTC
*
6382985 AATTTCTG-TTTTCAAAAAATCAACT-ATATTGCGAGA
1 AATTTTTGTTTTTC--AAAATCAACTCATATTGCGAGA
6383021 AACTCATTAG
Statistics
Matches: 446, Mismatches: 38, Indels: 85
0.78 0.07 0.15
Matches are distributed among these distances:
61 8 0.02
62 39 0.09
63 43 0.10
64 8 0.02
65 7 0.02
66 3 0.01
67 21 0.05
68 19 0.04
69 19 0.04
70 60 0.13
71 43 0.10
72 39 0.09
73 27 0.06
74 48 0.11
75 1 0.00
77 3 0.01
80 2 0.00
81 2 0.00
82 22 0.05
83 31 0.07
84 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (72 bp):
AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:6382714 original size:146 final size:144
Alignment explanation
Indices: 6382418--6383016 Score: 615
Period size: 152 Copynumber: 4.3 Consensus size: 144
6382408 GAGTTAAGCC
6382418 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
6382482 TTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
66 TTGAGGTAATTTCAATTTCTGTTGT--AAAAATCAACTCATATTGCGAGAAATGAGTTGAG-CTC
6382547 AGGACACGCTGAGGTAA
128 AGGACACGCTGAGGTAA
6382564 -TTTCAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGA-GTGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
6382627 -TGAGGTAATTTCAATTTC-GTTGT-AAAATCAACTCAT-TTGCGAGAAA-GAGTTG-G-TC-GG
66 TTGAGGTAATTTCAATTTCTGTTGTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCTCAGG
6382684 ACACGCTGA-GTAA
131 ACACGCTGAGGTAA
6382697 -TTTCAATTTTT-TTTTTC-AAATCAACTCATATTG--AGA-GTGAGTT-AG-CTCA-GACACGC
1 TTTTCAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
**
6382753 -TGA-GT-ATTTCAA-TTCTGTTGTCAAAAA--ATACTCATATTGCGAGAGGTGAGTTGAGCCTC
66 TTGAGGTAATTTCAATTTCTGTTGT-AAAAATCA-ACTCATATTGCGAGAAATGAGTTGAG-CTC
** *
6382812 A-GACACCGCTGAAATTA
128 AGGACA-CGCTGAGGTAA
* *
6382829 -TTTCAATTTCTGTTGGATTTCAAAATTAAAAAATCAACTCATATTGCGAGAGGTGAGTT-AGCC
1 TTTTCAA-TT-T-TT-G-TTT-----TT-CAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCC
** * **
6382892 TCAGGACACGC-TGAGGTAATTTCAATTTACT-TCCCT-CAAATCAACTCATATTGC-AGAGGTG
55 TCAGGACACGCTTGAGGTAATTTCAATTT-CTGT-TGTAAAAATCAACTCATATTGCGAGAAATG
6382953 AGTTGAGCCTCAGGACACGCTGAGGTAA
118 AGTTGAG-CTCAGGACACGCTGAGGTAA
*
6382981 -TTTCAATTTCTG-TTTTCAAAAAATCAACT-ATATTGC
1 TTTTCAATTTTTGTTTTTC--AAAATCAACTCATATTGC
6383017 GAGAAACTCA
Statistics
Matches: 399, Mismatches: 13, Indels: 87
0.80 0.03 0.17
Matches are distributed among these distances:
123 3 0.01
124 13 0.03
125 8 0.02
126 22 0.06
127 10 0.03
128 3 0.01
129 10 0.03
130 6 0.02
131 22 0.06
132 14 0.04
133 17 0.04
134 12 0.03
135 4 0.01
137 1 0.00
138 9 0.02
139 10 0.03
140 13 0.03
141 9 0.02
142 10 0.03
143 7 0.02
144 18 0.05
145 42 0.11
146 38 0.10
147 3 0.01
148 10 0.03
149 5 0.01
150 11 0.03
151 4 0.01
152 43 0.11
153 18 0.05
154 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (144 bp):
TTTTCAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
TTGAGGTAATTTCAATTTCTGTTGTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCTCAGG
ACACGCTGAGGTAA
Found at i:6393641 original size:45 final size:45
Alignment explanation
Indices: 6393574--6393700 Score: 121
Period size: 45 Copynumber: 2.8 Consensus size: 45
6393564 TCCACTTCCT
* * *
6393574 ACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTACTATCTTCGATCTACTTCGCC
* * * **
6393619 ACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTACTTC-AT
1 ACCAATATAGGAAGACAAGATCTACTATCTTCGATCTACTTCGCC
* * * * * *
6393663 GCCAATACATGAAGACAAGATCTGCTTTCTTCAATCTA
1 ACCAATATAGGAAGACAAGATCTACTATCTTCGATCTA
6393701 TTCCACTGCC
Statistics
Matches: 65, Mismatches: 17, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
44 29 0.45
45 36 0.55
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (45 bp):
ACCAATATAGGAAGACAAGATCTACTATCTTCGATCTACTTCGCC
Found at i:6393700 original size:44 final size:46
Alignment explanation
Indices: 6393629--6393717 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 46
6393619 ACCAGTATGG
**
6393629 GAAGACAAGATCTACTATCTTTGATCTACTT-CA-TGCC-AATACAT
1 GAAGACAAGATCTACTATCTTCAATCTA-TTCCACTGCCAAATACAT
* *
6393673 GAAGACAAGATCTGCTTTCTTCAATCTATTCCACTGCCAAATACA
1 GAAGACAAGATCTACTATCTTCAATCTATTCCACTGCCAAATACA
6393718 GGGAGATAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 2 0.05
44 26 0.68
45 4 0.11
46 6 0.16
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (46 bp):
GAAGACAAGATCTACTATCTTCAATCTATTCCACTGCCAAATACAT
Found at i:6393861 original size:44 final size:44
Alignment explanation
Indices: 6393800--6394075 Score: 263
Period size: 44 Copynumber: 6.3 Consensus size: 44
6393790 TTCGCTGCCA
* * * *
6393800 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTACTTCACGCC
1 AATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
* * * * *
6393844 AATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTCGCCACC
1 AATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACC
**
6393889 AATATGGGAAGACAAGATCTGC-ATCTTCGATCTACTTC-CTACC
1 AATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACC
* * * * *
6393932 AATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCC
1 AATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
* * * * *
6393976 AATACATGAAGACAAGATCTGCTTTCTGCTATCTACTTCGCCACC
1 AATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACC
** *
6394021 AATATGGGAAGACAAGATCTGC-ATCGTCGATCTACTTC-CTACC
1 AATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACC
*
6394064 AATATAGGAAGA
1 AATACAGGAAGA
6394076 TAGGATCTAT
Statistics
Matches: 188, Mismatches: 38, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
42 2 0.01
43 36 0.19
44 106 0.56
45 44 0.23
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (44 bp):
AATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
Found at i:6393966 original size:132 final size:132
Alignment explanation
Indices: 6393770--6394083 Score: 484
Period size: 132 Copynumber: 2.4 Consensus size: 132
6393760 GGGAGGTAAA
* * * * ** * *
6393770 ATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTA
1 ATCTG-CATCTTCGATCTACTTC-CTACC-AATATAGGAAGATAGGATCTGCAACCTTCAATCTA
*
6393835 CTTCACGCCAATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAG
63 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAG
6393900 ACAAG
128 ACAAG
* *
6393905 ATCTGCATCTTCGATCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTT
1 ATCTGCATCTTCGATCTACTTCCTACCAATATAGGAAGATAGGATCTGCAACCTTCAATCTACTT
*
6393970 CACGCCAATACATGAAGACAAGATCTGCTTTCTGCTATCTACTTCGCCACCAATATGGGAAGACA
66 CACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACA
6394035 AG
131 AG
*
6394037 ATCTGCATCGTCGATCTACTTCCTACCAATATAGGAAGATAGGATCT
1 ATCTGCATCTTCGATCTACTTCCTACCAATATAGGAAGATAGGATCT
6394084 ATTTTCGCCT
Statistics
Matches: 166, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
132 142 0.86
133 4 0.02
134 15 0.09
135 5 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
ATCTGCATCTTCGATCTACTTCCTACCAATATAGGAAGATAGGATCTGCAACCTTCAATCTACTT
CACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACA
AG
Found at i:6405497 original size:106 final size:106
Alignment explanation
Indices: 6405327--6405527 Score: 366
Period size: 106 Copynumber: 1.9 Consensus size: 106
6405317 AAGCTTTAAG
* *
6405327 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
6405392 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
* *
6405433 AGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
6405498 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
6405528 GAAAAATTTT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 91 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:6406128 original size:3 final size:3
Alignment explanation
Indices: 6406120--6406146 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6406110 AAGCATAAAC
6406120 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
6406147 CATTGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6406908 original size:12 final size:12
Alignment explanation
Indices: 6406887--6406920 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
6406877 TGAGGTAAAA
6406887 TTTTTTTTATT-
1 TTTTTTTTATTC
6406898 TTTTTTGTTATTC
1 TTTTTT-TTATTC
6406911 TTTTTTTTAT
1 TTTTTTTTAT
6406921 AAATTTATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 9 0.43
13 6 0.29
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTTTTTATTC
Found at i:6409152 original size:32 final size:32
Alignment explanation
Indices: 6409116--6409178 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
6409106 TAAATTAATA
*
6409116 AAATGTGCAAATTGTGAATACTTGGAATACTC
1 AAATGTGCAAATTGTGAATACTTGAAATACTC
6409148 AAATGTGCAAATTGTGAATACTTGAAATACT
1 AAATGTGCAAATTGTGAATACTTGAAATACT
6409179 TACTAAGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (32 bp):
AAATGTGCAAATTGTGAATACTTGAAATACTC
Found at i:6414824 original size:18 final size:20
Alignment explanation
Indices: 6414801--6414837 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
6414791 ATGTAATAAT
6414801 ATTTTAT-ATTTTT-TTATG
1 ATTTTATAATTTTTGTTATG
6414819 ATTTTATAATTTTTGTTAT
1 ATTTTATAATTTTTGTTAT
6414838 TCATGCTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 6 0.35
20 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
ATTTTATAATTTTTGTTATG
Found at i:6416245 original size:19 final size:19
Alignment explanation
Indices: 6416199--6416245 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
6416189 TCGCATTTAG
*
6416199 TTTACTAAATATATATATAT
1 TTTA-TAAATATATATATAA
*
6416219 TTTTTAAATATA-ATGATAA
1 TTTATAAATATATAT-ATAA
6416238 TTTATAAA
1 TTTATAAA
6416246 ATTACCCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 2 0.09
19 18 0.78
20 3 0.13
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTATAAATATATATATAA
Found at i:6422386 original size:14 final size:14
Alignment explanation
Indices: 6422364--6422400 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6422354 GGGAGTAGGA
6422364 TTCTGATTTTTTAT
1 TTCTGATTTTTTAT
*
6422378 TTTTGATTTTTTAT
1 TTCTGATTTTTTAT
6422392 TTCTGATTT
1 TTCTGATTT
6422401 CTGATTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.05, G:0.08, T:0.73
Consensus pattern (14 bp):
TTCTGATTTTTTAT
Found at i:6427165 original size:21 final size:21
Alignment explanation
Indices: 6427118--6427158 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
6427108 GCAGGGGAAG
6427118 GAAAGAAAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
*
6427139 GAAAGAAA-AAAAAGGGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
6427159 TCGAAGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAAGAGAAAA
Found at i:6429088 original size:46 final size:46
Alignment explanation
Indices: 6429036--6429263 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
6429026 AGTGTGCTCT
*
6429036 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
6429082 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
6429128 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ***
6429174 GTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
6429220 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGATACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
6429264 TCTTGTCAAA
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 165 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:6432736 original size:43 final size:42
Alignment explanation
Indices: 6432624--6432736 Score: 118
Period size: 43 Copynumber: 2.7 Consensus size: 42
6432614 TTTATGTAGA
* * *
6432624 ATAGAACATGACGTTTAGAGGCACTTATCCAAAAACGCCGTC
1 ATAGAACATGACCTTTAGAGGCACTTTTCCAAAAACGCCATC
* * * * * *
6432666 AAAGAACATGACTTTTAGCGACACTTTTACTAAAAACGCCATT
1 ATAGAACATGACCTTTAGAGGCACTTTT-CCAAAAACGCCATC
* *
6432709 ATAGAACATGACCTTTAGTGGCGCTTTT
1 ATAGAACATGACCTTTAGAGGCACTTTT
6432737 TTTCCAAAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 23 0.40
43 34 0.60
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (42 bp):
ATAGAACATGACCTTTAGAGGCACTTTTCCAAAAACGCCATC
Found at i:6432909 original size:2 final size:2
Alignment explanation
Indices: 6432897--6432926 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6432887 TTGGTTTAAA
6432897 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6432927 ACATGCCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6433170 original size:22 final size:21
Alignment explanation
Indices: 6433133--6433175 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
6433123 TTTACCTACA
6433133 TAAAAAATAAAAAAATAATAT
1 TAAAAAATAAAAAAATAATAT
*
6433154 TAAAATAATCAAAAAATAATAT
1 TAAAA-AATAAAAAAATAATAT
6433176 GCCAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAAAAATAAAAAAATAATAT
Found at i:6433268 original size:27 final size:27
Alignment explanation
Indices: 6433210--6433271 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
6433200 TATACTAAGT
* *
6433210 GTGCCGCCTATCAAATAGGTACCACCA
1 GTGCCGCCTATCAAATAGGCACAACCA
* **
6433237 ATGCCGCCTATCAAATAGGCACAACTG
1 GTGCCGCCTATCAAATAGGCACAACCA
6433264 GTGCCGCC
1 GTGCCGCC
6433272 CATCTGACAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.34, G:0.21, T:0.18
Consensus pattern (27 bp):
GTGCCGCCTATCAAATAGGCACAACCA
Found at i:6436695 original size:18 final size:19
Alignment explanation
Indices: 6436664--6436701 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
6436654 GACAATTGAG
* *
6436664 TGGTGGATATGTGGG-GGT
1 TGGTGGAAAAGTGGGAGGT
6436682 TGGTGGAAAAGTGGGAGGT
1 TGGTGGAAAAGTGGGAGGT
6436701 T
1 T
6436702 ATCAGAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.18, C:0.00, G:0.53, T:0.29
Consensus pattern (19 bp):
TGGTGGAAAAGTGGGAGGT
Found at i:6437809 original size:13 final size:12
Alignment explanation
Indices: 6437791--6437829 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
6437781 TTTAATAATA
6437791 AAATAAAGAAATG
1 AAATAAAGAAA-G
6437804 AAATAAAGAAAG
1 AAATAAAGAAAG
*
6437816 AAATGAA-AAAG
1 AAATAAAGAAAG
6437827 AAA
1 AAA
6437830 AACAAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 7 0.28
12 7 0.28
13 11 0.44
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (12 bp):
AAATAAAGAAAG
Found at i:6438867 original size:6 final size:6
Alignment explanation
Indices: 6438843--6438883 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
6438833 TTTGTGTACC
* *
6438843 GTTACT GTGACT ATTACT GTTACT GTTACT GTTACT GTTAC
1 GTTACT GTTACT GTTACT GTTACT GTTACT GTTACT GTTAC
6438884 CGTTGCGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (6 bp):
GTTACT
Found at i:6440575 original size:22 final size:22
Alignment explanation
Indices: 6440550--6440592 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6440540 GTCACACGAG
*
6440550 CGTGTGGAATTCTGGATCAGGC
1 CGTGTGGAATTCTGGACCAGGC
6440572 CGTGTGGAATTCTGGACCAGG
1 CGTGTGGAATTCTGGACCAGG
6440593 TCATGTGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.37, T:0.26
Consensus pattern (22 bp):
CGTGTGGAATTCTGGACCAGGC
Found at i:6440599 original size:22 final size:22
Alignment explanation
Indices: 6440552--6440599 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
6440542 CACACGAGCG
* *
6440552 TGTGGAATTCTGGATCAGGCCG
1 TGTGGAATTCTGGACCAGGCCA
*
6440574 TGTGGAATTCTGGACCAGGTCA
1 TGTGGAATTCTGGACCAGGCCA
6440596 TGTG
1 TGTG
6440600 ATCCACACGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (22 bp):
TGTGGAATTCTGGACCAGGCCA
Found at i:6445014 original size:37 final size:35
Alignment explanation
Indices: 6444965--6445034 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 35
6444955 TTATTTATTT
*
6444965 ATTTATAAATAAATTCT-TACAATATATGTAAAAACA
1 ATTTAAAAATAAATT-TAT-CAATATATGTAAAAACA
*
6445001 ATTTAAAATATAAATTTATTAATATATGTAAAAA
1 ATTTAAAA-ATAAATTTATCAATATATGTAAAAA
6445035 TAGATTTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 22 0.73
37 8 0.27
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (35 bp):
ATTTAAAAATAAATTTATCAATATATGTAAAAACA
Found at i:6445149 original size:20 final size:20
Alignment explanation
Indices: 6445108--6445174 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
6445098 CATCCAAACA
6445108 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
6445127 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
6445147 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
6445167 CCAGAAAA
1 CCAGAAAA
6445175 CATTTTACTG
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
19 16 0.34
20 31 0.66
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.25
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:6452858 original size:10 final size:10
Alignment explanation
Indices: 6452845--6452882 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
6452835 AAAATTAAAA
6452845 AAAATATTTT
1 AAAATATTTT
6452855 -AAA-ATTTT
1 AAAATATTTT
*
6452863 AAAATATATT
1 AAAATATTTT
6452873 AAAATATTTT
1 AAAATATTTT
6452883 TTATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 5 0.21
9 6 0.25
10 13 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
AAAATATTTT
Found at i:6455141 original size:21 final size:22
Alignment explanation
Indices: 6455104--6455147 Score: 56
Period size: 20 Copynumber: 2.0 Consensus size: 22
6455094 GTAATTCCAC
*
6455104 AACCGAATAATTCCAC-ACCTA
1 AACCGAATAATTACACAACCTA
6455125 AACC-AATAATTAACACAACCTA
1 AACCGAATAATT-ACACAACCTA
6455147 A
1 A
6455148 CTCAGTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 7 0.35
22 6 0.30
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.18
Consensus pattern (22 bp):
AACCGAATAATTACACAACCTA
Found at i:6460060 original size:13 final size:13
Alignment explanation
Indices: 6460042--6460072 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6460032 TTCATATTTT
*
6460042 TAAAATATTTATA
1 TAAAATATTTAAA
6460055 TAAAATATTTAAA
1 TAAAATATTTAAA
6460068 TAAAA
1 TAAAA
6460073 CAATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAAATATTTAAA
Found at i:6462066 original size:24 final size:23
Alignment explanation
Indices: 6462039--6462083 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
6462029 AATTTTTGCA
6462039 CTTTAATTTGATATAAT-TTAGTGT
1 CTTT-ATTT-ATATAATGTTAGTGT
*
6462063 CTTTATTTCTATAATGTTAGT
1 CTTTATTTATATAATGTTAGT
6462084 ATTATGTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.56
Consensus pattern (23 bp):
CTTTATTTATATAATGTTAGTGT
Found at i:6462491 original size:29 final size:30
Alignment explanation
Indices: 6462427--6462493 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
6462417 TTGAATTTAT
*
6462427 ACATGAACTTTGTTTTAATGTACAATTTGAT
1 ACATGAACTTTGTTTTAATG-ACAATTTGAA
*
6462458 ACATGAACTTTGTTTTGATG-CAATTAT-AA
1 ACATGAACTTTGTTTTAATGACAATT-TGAA
6462487 ACATGAA
1 ACATGAA
6462494 GCTTGAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 13 0.39
30 1 0.03
31 19 0.58
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (30 bp):
ACATGAACTTTGTTTTAATGACAATTTGAA
Found at i:6462785 original size:17 final size:17
Alignment explanation
Indices: 6462752--6462786 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6462742 TGGCAATCTT
*
6462752 TAAGGTTTGGTGAACTC
1 TAAGGTTTGGCGAACTC
*
6462769 TAAGGTTTGGCGGACTC
1 TAAGGTTTGGCGAACTC
6462786 T
1 T
6462787 TCTATGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.14, G:0.31, T:0.34
Consensus pattern (17 bp):
TAAGGTTTGGCGAACTC
Found at i:6468743 original size:20 final size:20
Alignment explanation
Indices: 6468701--6468737 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6468691 ATTTGTTTTT
*
6468701 TTAGTTATTTTATCATTAAA
1 TTAGTTATTTAATCATTAAA
6468721 TTAGTTATTTAAT-ATTA
1 TTAGTTATTTAATCATTA
6468738 TTATTACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
TTAGTTATTTAATCATTAAA
Found at i:6468750 original size:12 final size:12
Alignment explanation
Indices: 6468733--6468766 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6468723 AGTTATTTAA
6468733 TATTATTATTAC
1 TATTATTATTAC
*
6468745 TATTATTACTAC
1 TATTATTATTAC
*
6468757 AATTATTATT
1 TATTATTATT
6468767 GTTATCTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:6479863 original size:1 final size:1
Alignment explanation
Indices: 6479857--6479890 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
6479847 GTACTTGCCT
6479857 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6479891 GGGGAGAGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6481133 original size:44 final size:44
Alignment explanation
Indices: 6480970--6481273 Score: 212
Period size: 44 Copynumber: 7.0 Consensus size: 44
6480960 TCTTATTTTG
* * * *
6480970 TGAAGTAGATCGAA-ATATCAGATCCTATCTTCCTATATTGGTA
1 TGAAGTAGATCGAAGATAGCAGATCTTATCTTCATATATTGGCA
* * * * *
6481013 GGAAGTGGACCGAAGAT-GCAGATCTTGTCTTCCCATATTTGTGGC-
1 TGAAGTAGATCGAAGATAGCAGATCTTATCTT--CATATAT-TGGCA
* * * * *
6481058 -GAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCA
1 TGAAGTAGATCGAAGATAGCAGATCTTATCTTCATATATTGGCA
* * * *
6481101 TGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTA
1 TGAAGTAGATCGAAGATAGCAGATCTTATCTTCATATATTGGCA
* * * * *
6481145 GGAAGTGGACCGAAGAT-GCAGATCTTGTTTTCCCATAT-TGGTGGCA
1 TGAAGTAGATCGAAGATAGCAGATCTTATCTT--CATATAT--TGGCA
* * * *
6481191 --AAGCAGATCGCAGAAAGCAGATCTTATCTTCATGTATTGGCA
1 TGAAGTAGATCGAAGATAGCAGATCTTATCTTCATATATTGGCA
* * *
6481233 TGAAGTAGATCGAAGATA-TAGATCCTATCTTCCTATATTGG
1 TGAAGTAGATCGAAGATAGCAGATCTTATCTTCATATATTGG
6481274 TGGGTTGAGN
Statistics
Matches: 197, Mismatches: 49, Indels: 30
0.71 0.18 0.11
Matches are distributed among these distances:
42 9 0.05
43 60 0.30
44 86 0.44
45 35 0.18
46 7 0.04
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
TGAAGTAGATCGAAGATAGCAGATCTTATCTTCATATATTGGCA
Found at i:6481137 original size:132 final size:132
Alignment explanation
Indices: 6480949--6481274 Score: 560
Period size: 132 Copynumber: 2.5 Consensus size: 132
6480939 TTGGACGAAG
6480949 AGCAGATCTTGTCTT-AT-T-TT-G--TGAAGTAGATCGAA-ATATCAGATCCTATCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATA
* *
6481007 TTGGTAGGAAGTGGACCGAAGATGCAGATCTTGTCTTCCCATATTTGTGGCGAAGCAGATCGCAG
66 TTGGTAGGAAGTGGACCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGCAGATCGCAG
6481072 AA
131 AA
6481074 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATA
*
6481139 TTGGTAGGAAGTGGACCGAAGATGCAGATCTTGTTTTCCCATATTGGTGGCAAAGCAGATCGCAG
66 TTGGTAGGAAGTGGACCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGCAGATCGCAG
6481204 AA
131 AA
*
6481206 AGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAT-AGATCCTATCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATA
6481270 TTGGT
66 TTGGT
6481275 GGGTTGAGNN
Statistics
Matches: 190, Mismatches: 4, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
125 15 0.08
126 2 0.01
127 1 0.01
128 2 0.01
129 1 0.01
131 37 0.19
132 132 0.69
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (132 bp):
AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATA
TTGGTAGGAAGTGGACCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGCAGATCGCAG
AA
Found at i:6499296 original size:27 final size:27
Alignment explanation
Indices: 6499263--6499341 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
6499253 CTATCTAGGT
* *
6499263 AGACTACCCCGTATTTATTGTCCCAAT
1 AGACTACCCCGTGTTTATTGTCCCAAC
* * * * *
6499290 AGGCTACACTGTGTTTACTGTCCCGAC
1 AGACTACCCCGTGTTTATTGTCCCAAC
*
6499317 AGACTACCTCCTTGTTTATTGTCCC
1 AGACTACC-CCGTGTTTATTGTCCC
6499342 TGCGGACTAC
Statistics
Matches: 39, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
27 26 0.67
28 13 0.33
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.34
Consensus pattern (27 bp):
AGACTACCCCGTGTTTATTGTCCCAAC
Found at i:6504281 original size:43 final size:43
Alignment explanation
Indices: 6504220--6504306 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
6504210 AAGAAAGAGA
6504220 AAGATTTTTGTTTGGTATTCTTCATGTCTGTTATACAGTTTAT
1 AAGATTTTTGTTTGGTATTCTTCATGTCTGTTATACAGTTTAT
6504263 AAGATTTTTGTTTGGTATTCTTCATGTCTGTTATACAGTTTAT
1 AAGATTTTTGTTTGGTATTCTTCATGTCTGTTATACAGTTTAT
6504306 A
1 A
6504307 TTCGAAGGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (43 bp):
AAGATTTTTGTTTGGTATTCTTCATGTCTGTTATACAGTTTAT
Found at i:6509146 original size:3 final size:3
Alignment explanation
Indices: 6509138--6509164 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6509128 GGGTTTTTTA
6509138 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
6509165 TTGGAGGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6516198 original size:16 final size:17
Alignment explanation
Indices: 6516136--6516196 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 17
6516126 TTTTAATAAG
6516136 ATTTAATATTTAATATTTA
1 ATTTAATATTT-ATA-TTA
* *
6516155 ATTTAATATTTATTTTG
1 ATTTAATATTTATATTA
*
6516172 A-TAAATA-TTATATTA
1 ATTTAATATTTATATTA
6516187 ATTTAATATT
1 ATTTAATATT
6516197 ATTGTGATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
15 7 0.21
16 10 0.29
17 4 0.12
18 2 0.06
19 11 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTAATATTTATATTA
Found at i:6517073 original size:35 final size:35
Alignment explanation
Indices: 6517024--6517092 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
6517014 TCGTAAGAGG
**
6517024 CCACCGCTTTTACTAGTTGACTGCCTACAAACGTA
1 CCACCGCTCGTACTAGTTGACTGCCTACAAACGTA
6517059 CCACCGCTCGTACTAGTTGACTGCCTACAAACGT
1 CCACCGCTCGTACTAGTTGACTGCCTACAAACGT
6517093 TCTAACACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (35 bp):
CCACCGCTCGTACTAGTTGACTGCCTACAAACGTA
Found at i:6521144 original size:15 final size:15
Alignment explanation
Indices: 6521103--6521146 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
6521093 TTAAAATATA
6521103 ATAAAAAATATATTT
1 ATAAAAAATATATTT
6521118 ATAAGAATAATA-ATTAT
1 ATAA-AA-AATATATT-T
6521135 ATAAAAAATATA
1 ATAAAAAATATA
6521147 AAATATATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAAAAAATATATTT
Found at i:6521672 original size:17 final size:18
Alignment explanation
Indices: 6521619--6521725 Score: 128
Period size: 17 Copynumber: 5.9 Consensus size: 18
6521609 AATCATATCT
*
6521619 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
* *
6521638 TCTAATATTGCAATCATA
1 TCTAAGATTGCTATCATA
6521656 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
6521673 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
* *
6521691 TTTAAGATTG-TATCGTA
1 TCTAAGATTGCTATCATA
6521708 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
6521726 TGAAGATTAT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
17 30 0.41
18 30 0.41
19 14 0.19
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Done.