Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 261 of 279
Found at i:85138789 original size:12 final size:12
Alignment explanation
Indices: 85138772--85138796 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85138762 ATTTCCTTTA
85138772 AGTGTAACAAAG
1 AGTGTAACAAAG
85138784 AGTGTAACAAAG
1 AGTGTAACAAAG
85138796 A
1 A
85138797 CACGGTGCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.24, T:0.16
Consensus pattern (12 bp):
AGTGTAACAAAG
Found at i:85139758 original size:15 final size:15
Alignment explanation
Indices: 85139738--85139766 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
85139728 TTCTTATACT
85139738 GCATTAAGTTGTTTC
1 GCATTAAGTTGTTTC
85139753 GCATTAAGTTGTTT
1 GCATTAAGTTGTTT
85139767 TGATTGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (15 bp):
GCATTAAGTTGTTTC
Found at i:85140389 original size:19 final size:18
Alignment explanation
Indices: 85140365--85140418 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
85140355 TAAACACGAG
85140365 AATTTTGAAACACAATAA
1 AATTTTGAAACACAATAA
**
85140383 TAATTTTTGAAA-ACACGAA
1 -AA-TTTTGAAACACAATAA
85140402 AATCTTTGAAACACAAT
1 AAT-TTTGAAACACAAT
85140419 TTTTTTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 1 0.04
18 9 0.32
19 10 0.36
20 8 0.29
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (18 bp):
AATTTTGAAACACAATAA
Found at i:85140411 original size:18 final size:18
Alignment explanation
Indices: 85140356--85140676 Score: 174
Period size: 17 Copynumber: 17.4 Consensus size: 18
85140346 TTTTGTTTTT
*
85140356 AAACACGAGAA-TTTTGA
1 AAACACGAAAATTTTTGA
**
85140373 AACACAATAATAATTTTTGA
1 AA-ACACGAA-AATTTTTGA
*
85140393 AAACACGAAAATCTTTG-
1 AAACACGAAAATTTTTGA
**
85140410 AAACAC-AATTTTTTTTGA
1 AAACACGAA-AATTTTTGA
**
85140428 AAACACAGAATTTTTTTGA
1 AAACAC-GAAAATTTTTGA
* *
85140447 AAACACGGAAA-TTTTCA
1 AAACACGAAAATTTTTGA
* * * *
85140464 ATACATGAGAATTTTT-T
1 AAACACGAAAATTTTTGA
** *
85140481 TGACACGAAAAATTTTGA
1 AAACACGAAAATTTTTGA
85140499 AAACACGAAAA-TTTTGA
1 AAACACGAAAATTTTTGA
* **
85140516 AAACATG-AAATTTTTTT
1 AAACACGAAAATTTTTGA
** *
85140533 AAACACGAACTTTTTTTTAA
1 AAACACGAA--AATTTTTGA
*
85140553 AAACACGAGAATTTTTTGA
1 AAACACGA-AAATTTTTGA
85140572 AAACACGAAAACATGAAAATTTTGA
1 AAACACG-AAA-AT-----TTTTGA
85140597 AAACACGAAAATTTTTG-
1 AAACACGAAAATTTTTGA
*
85140614 AAACACGAGAATTTTTTGA
1 AAACACGA-AAATTTTTGA
* *
85140633 AAACACGAAAATTTGT-C
1 AAACACGAAAATTTTTGA
* *
85140650 AAACACGGGAATTTTTTGA
1 AAACAC-GAAAATTTTTGA
85140669 AAACACGA
1 AAACACGA
85140677 TAACATCCAA
Statistics
Matches: 233, Mismatches: 46, Indels: 49
0.71 0.14 0.15
Matches are distributed among these distances:
16 5 0.02
17 72 0.31
18 60 0.26
19 52 0.22
20 25 0.11
21 1 0.00
23 2 0.01
24 3 0.01
25 13 0.06
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (18 bp):
AAACACGAAAATTTTTGA
Found at i:85140432 original size:35 final size:36
Alignment explanation
Indices: 85140356--85140441 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
85140346 TTTTGTTTTT
*
85140356 AAACACGAGAATTTTGAAACACAATAATAATTTTTGA
1 AAACACGAAAATTTTGAAACACAAT-ATAATTTTTGA
*
85140393 AAACACGAAAATCTTTGAAACACAAT-T-TTTTTTGA
1 AAACACGAAAAT-TTTGAAACACAATATAATTTTTGA
*
85140428 AAACAC-AGAATTTT
1 AAACACGAAAATTTT
85140442 TTTGAAAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.07
34 4 0.09
35 13 0.29
36 1 0.02
37 11 0.24
38 13 0.29
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (36 bp):
AAACACGAAAATTTTGAAACACAATATAATTTTTGA
Found at i:85140511 original size:52 final size:52
Alignment explanation
Indices: 85140387--85140541 Score: 154
Period size: 52 Copynumber: 2.9 Consensus size: 52
85140377 CAATAATAAT
* * * ***
85140387 TTTTGAAAACACGAAAATCTTT-GAAACA-CAATTTTTTTTGAAAACACAGAATTT
1 TTTTGAAAACACGAAAAT-TTTCAAAACATGAAATTTTTTT--AAACAC-GAAAAA
* * *
85140441 TTTTGAAAACACGGAAATTTTCAATACATGAGAATTTTTTT-GACACGAAAAA
1 TTTTGAAAACACGAAAATTTTCAAAACATGA-AATTTTTTTAAACACGAAAAA
*
85140493 TTTTGAAAACACGAAAATTTTGAAAACATGAAATTTTTTTAAACACGAA
1 TTTTGAAAACACGAAAATTTTCAAAACATGAAATTTTTTTAAACACGAA
85140542 CTTTTTTTTA
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
51 9 0.11
52 38 0.45
53 7 0.08
54 21 0.25
55 1 0.01
56 8 0.10
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.34
Consensus pattern (52 bp):
TTTTGAAAACACGAAAATTTTCAAAACATGAAATTTTTTTAAACACGAAAAA
Found at i:85140590 original size:81 final size:80
Alignment explanation
Indices: 85140497--85140646 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 80
85140487 GAAAAATTTT
* * * *
85140497 GAAAACACGAAAATTTTGAAAACATGAAATTTTTTTAAACACGA-ACTTTTTTTTAAAAACACGA
1 GAAAACACGAAAATTTTGAAAACACGAAAATTTTTGAAACACGAGA--ATTTTTTAAAAACACGA
*
85140561 GAATTTTTTGAAAACAC
64 AAATTTTTTGAAAACAC
* *
85140578 GAAAACATGAAAATTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTTGAAAACACGAAA
1 GAAAACACGAAAATTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTTAAAAACACGAAA
85140643 ATTT
66 ATTT
85140647 GTCAAACACG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 20 0.33
81 40 0.66
82 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.30
Consensus pattern (80 bp):
GAAAACACGAAAATTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTTAAAAACACGAAA
ATTTTTTGAAAACAC
Found at i:85140637 original size:36 final size:36
Alignment explanation
Indices: 85140591--85140676 Score: 145
Period size: 36 Copynumber: 2.4 Consensus size: 36
85140581 AACATGAAAA
* *
85140591 TTTTGAAAACACGAAAATTTTTGAAACACGAGAATT
1 TTTTGAAAACACGAAAATTTGTCAAACACGAGAATT
*
85140627 TTTTGAAAACACGAAAATTTGTCAAACACGGGAATT
1 TTTTGAAAACACGAAAATTTGTCAAACACGAGAATT
85140663 TTTTGAAAACACGA
1 TTTTGAAAACACGA
85140677 TAACATCCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (36 bp):
TTTTGAAAACACGAAAATTTGTCAAACACGAGAATT
Found at i:85140760 original size:34 final size:35
Alignment explanation
Indices: 85140721--85140807 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 35
85140711 TTGAAAACCC
*
85140721 GAAAACACGAAATTTTTTCAAACACGGGAA-TTTT
1 GAAAACACGAAATTTTTTCAAACACGAGAATTTTT
* * **
85140755 GAAAACACGAATTTTTTTTATTCACGAGAATTTTT
1 GAAAACACGAAATTTTTTCAAACACGAGAATTTTT
*
85140790 G-AAACACGGAAAATTTTT
1 GAAAACAC-GAAATTTTTT
85140808 AAAAAAACAG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
34 31 0.70
35 13 0.30
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (35 bp):
GAAAACACGAAATTTTTTCAAACACGAGAATTTTT
Found at i:85140899 original size:18 final size:17
Alignment explanation
Indices: 85140858--85140903 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
85140848 TATTATTATT
85140858 ATTTTGAAACAGGAGAA
1 ATTTTGAAACAGGAGAA
*
85140875 ATTTTGAAGACATGA-AA
1 ATTTTGAA-ACAGGAGAA
85140892 ATTTTTGAAACA
1 A-TTTTGAAACA
85140904 CGGTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.30
Consensus pattern (17 bp):
ATTTTGAAACAGGAGAA
Found at i:85141052 original size:20 final size:20
Alignment explanation
Indices: 85141023--85141060 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
85141013 AGGATTCGAA
85141023 TAAAACACGAGAATTTTTAT
1 TAAAACACGAGAATTTTTAT
* *
85141043 TAAAATACGAGGATTTTT
1 TAAAACACGAGAATTTTT
85141061 GAATATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (20 bp):
TAAAACACGAGAATTTTTAT
Found at i:85141619 original size:16 final size:17
Alignment explanation
Indices: 85141598--85141633 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
85141588 GCCTGCTGTC
*
85141598 TTTCTTTTT-TTTTCTT
1 TTTCTTTTTCTTCTCTT
85141614 TTTCTTTTTCTTCTCTT
1 TTTCTTTTTCTTCTCTT
85141631 TTT
1 TTT
85141634 TCCTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTCTTTTTCTTCTCTT
Found at i:85141654 original size:29 final size:27
Alignment explanation
Indices: 85141596--85141656 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
85141586 TGGCCTGCTG
* **
85141596 TCTT-TCTTTTTTTTTCTTTTTCTTTT
1 TCTTCTCTTTTTTTTTCTTTCTCTTCC
85141622 TCTTCTCTTTTTTCCTTTCTTTCTCTTCC
1 TCTTCTCTTTTTT--TTTCTTTCTCTTCC
85141651 TCTTCT
1 TCTTCT
85141657 TCGGGCCGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 4 0.14
27 8 0.28
29 17 0.59
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (27 bp):
TCTTCTCTTTTTTTTTCTTTCTCTTCC
Found at i:85141763 original size:14 final size:15
Alignment explanation
Indices: 85141744--85141772 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
85141734 TTCTCTTCCC
85141744 CTCTTC-CTTTTCTT
1 CTCTTCTCTTTTCTT
85141758 CTCTTCTCTTTTCTT
1 CTCTTCTCTTTTCTT
85141773 TATTTGATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (15 bp):
CTCTTCTCTTTTCTT
Found at i:85142258 original size:30 final size:30
Alignment explanation
Indices: 85142217--85142299 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
85142207 AATATGGGCC
*
85142217 AAAATGTAATTTCT-TGAAAGTTTAAGGGTT
1 AAAATGTAATTT-TGAGAAAGTTTAAGGGTT
*
85142247 AAAATGAAATTTTGAGAAAGTTTAAGGGTT
1 AAAATGTAATTTTGAGAAAGTTTAAGGGTT
*
85142277 CAAATGTAATTTT-AGAAAAGTTT
1 AAAATGTAATTTTGAG-AAAGTTT
85142300 GGGGTCAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
29 3 0.06
30 44 0.94
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTGAGAAAGTTTAAGGGTT
Found at i:85142310 original size:29 final size:29
Alignment explanation
Indices: 85142181--85142348 Score: 94
Period size: 30 Copynumber: 5.7 Consensus size: 29
85142171 GCAAAGCTTC
* *
85142181 TGGGG-CAAAAGTGTAATTTTAGCAAAAATA
1 TGGGGTCAAAA-TGTAATTTTAG-AAAAGTT
* *
85142211 T-GGGCCAAAATGTAATTTCTTG-AAAGTT
1 TGGGGTCAAAATGTAATTT-TAGAAAAGTT
* * *
85142239 TAAGGGTTAAAATGAAATTTT-GAGAAAGTT
1 T-GGGGTCAAAATGTAATTTTAGA-AAAGTT
*
85142269 TAAGGGTTC-AAATGTAATTTTAGAAAAGTT
1 T--GGGGTCAAAATGTAATTTTAGAAAAGTT
* * * * *
85142299 TGGGGTCAAAATATAAATTTCGAAGAGTAC
1 TGGGGTCAAAATGTAATTTTAGAAAAGT-T
* *
85142329 AGGGGTCAAAATGTATTTTT
1 TGGGGTCAAAATGTAATTTT
85142349 TTAATTTTTT
Statistics
Matches: 108, Mismatches: 20, Indels: 20
0.73 0.14 0.14
Matches are distributed among these distances:
28 11 0.10
29 28 0.26
30 63 0.58
31 6 0.06
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.33
Consensus pattern (29 bp):
TGGGGTCAAAATGTAATTTTAGAAAAGTT
Found at i:85142672 original size:82 final size:81
Alignment explanation
Indices: 85142522--85142745 Score: 273
Period size: 82 Copynumber: 2.8 Consensus size: 81
85142512 TAGCTCGGCG
* * * * * * * *
85142522 TGCGACCCGAGACTCAACTCACCTTTTGGATTATGAGTTGATCTTCG---AAAAACA-AAA-AT-
1 TGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAACAGAAATTTA
85142581 AAAAAATACCTC-GACA
66 AAAAAATACCTCAG-CA
* *
85142597 TGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAAACAGAAATTT
1 TGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAAAAACAGAAATTT
85142662 AAAAAAATACCTCAGCA
65 AAAAAAATACCTCAGCA
* *
85142679 TGCGACGCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAGAAAAACAGAAATTTA
1 TGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAACAGAAATTTA
85142744 AA
66 AA
85142746 GCACTGAATT
Statistics
Matches: 127, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
75 38 0.30
79 7 0.06
80 3 0.02
81 20 0.16
82 58 0.46
83 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (81 bp):
TGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAACAGAAATTTA
AAAAAATACCTCAGCA
Found at i:85142969 original size:82 final size:82
Alignment explanation
Indices: 85142805--85144084 Score: 1823
Period size: 82 Copynumber: 15.9 Consensus size: 82
85142795 AGAAATCGAG
* * * * * * * * *
85142805 AATAGCTCGGCGTGCGACCCGAGACTCAACTCACCTTTTGGATTATGAGTTGATCTTCG---AAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
*
85142867 AACA-AAA---ATAAAA
66 AACAGAAATTTAAAAAA
* * *
85142880 AATACCTC-GACATGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AATACCTCAG-CGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
85142944 AAACAGAAATTTAAAAAA
65 AAACAGAAATTTAAAAAA
* *
85142962 AATACCTCAGCGTGCGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG--AAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
* *
85143025 AATAGAAATTTTAAAAA
66 AACAGAAATTTAAAAAA
*
85143042 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTT-AAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
*
85143104 AGACCGAAA-TT--AAAA
66 A-ACAGAAATTTAAAAAA
85143119 AATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
*
85143182 AACATAAATTTAAAAAA
66 AACAGAAATTTAAAAAA
* ** *
85143199 AATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
85143264 AACAGAAATTTAAAAAA
66 AACAGAAATTTAAAAAA
* *
85143281 AATACCTCAGCGTGCGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG--AAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
* *
85143344 AATAGAAATTTTAAAAA
66 AACAGAAATTTAAAAAA
* *
85143361 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGCTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
*
85143426 AACAGAAATTTTAAAAA
66 AACAGAAATTTAAAAAA
*
85143443 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
85143508 AACAGAAATTTAAAAAA
66 AACAGAAATTTAAAAAA
* * *
85143525 AATACCTCAGCGTGCGACCCAAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAA
85143590 AAACAGAAATTTAAAAAAA
65 AAACAGAAATTT-AAAAAA
85143609 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAAA
*
85143674 AAAACAGAAATTTTAAAAA
64 AAAACAGAAATTTAAAAAA
* *
85143693 AATACCTCAGCAT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTG-AAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
85143755 AACAGAAATTT--AAAA
66 AACAGAAATTTAAAAAA
* **
85143770 AATACCTCGGTATGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAA
85143835 AAACAGAAATTTAAAAAA
65 AAACAGAAATTTAAAAAA
85143853 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAA
85143918 AAACAGAAATTTAAAAAA
65 AAACAGAAATTTAAAAAA
* *
85143936 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTAAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
*
85143999 AGACCGAAA-TT--AAAA
66 A-ACAGAAATTTAAAAAA
* * * *
85144014 AATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTGGTATTATGAGTTGATATTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
85144077 AACAGAAA
66 AACAGAAA
85144085 GTGAAAAATA
Statistics
Matches: 1106, Mismatches: 65, Indels: 66
0.89 0.05 0.05
Matches are distributed among these distances:
74 1 0.00
75 83 0.08
76 34 0.03
77 46 0.04
78 46 0.04
79 69 0.06
80 175 0.16
81 25 0.02
82 376 0.34
83 154 0.14
84 79 0.07
85 18 0.02
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.25
Consensus pattern (82 bp):
AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
AACAGAAATTTAAAAAA
Found at i:85142988 original size:295 final size:293
Alignment explanation
Indices: 85142448--85143354 Score: 1176
Period size: 295 Copynumber: 3.0 Consensus size: 293
85142438 CAAAGACTTA
85142448 AAAGCACTGAATTTTGTTCGACTGTCCAAAATTTTCTTTTTATTTGAAAAACAGAAATCGAGAAT
1 AAAGCACTGAATTTTGTTCGACTGTCCAAAATTTTCTTTTTATTTGAAAAACAGAAATCGAGAAT
85142513 AGCTCGGCGTGCGACCCGAGACTCAACTCACCTTTTGGATTATGAGTTGATCTTCGAAAAACAAA
66 AGCTCGGCGTGCGACCCGAGACTCAACTCACCTTTTGGATTATGAGTTGATCTTCGAAAAACAAA
85142578 AATAAAAAATACCTCGACATGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
131 AATAAAAAATACCTCGACATGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
85142643 GAAAAAAAAACAGAAATTT-AAAAAAATACCTCAGCATGCGACGC-GAGGCTCAACTCACCTCTC
196 G-AAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGTGCGAC-CTGAGGCTCAACTCACTTCTC
*
85142706 GCAATATGAGTTGATTTTTGAAGAAAAACAGAAATTT
259 GCAATATGAGTTGATTTTTG-A-AAAAATAGAAATTT
85142743 AAAGCACTGAATTTTGTTCGACTGTCCAAAATTTTCTTTTTATTTGAAAAACAGAAATCGAGAAT
1 AAAGCACTGAATTTTGTTCGACTGTCCAAAATTTTCTTTTTATTTGAAAAACAGAAATCGAGAAT
85142808 AGCTCGGCGTGCGACCCGAGACTCAACTCACCTTTTGGATTATGAGTTGATCTTCGAAAAACAAA
66 AGCTCGGCGTGCGACCCGAGACTCAACTCACCTTTTGGATTATGAGTTGATCTTCGAAAAACAAA
85142873 AATAAAAAATACCTCGACATGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
131 AATAAAAAATACCTCGACATGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
85142938 GAAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACTTCTCGC
196 GAAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACTTCTCGC
85143003 AATATGAGTTGATTTTTGAAAAAATAGAAATTTT
261 AATATGAGTTGATTTTTGAAAAAATAGAAA-TTT
** * * *** * * * * * * *
85143037 AAAAAAAT-ACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTAAA
1 AAAGCACTGA-AT-TTTGTTCGA--C-TGTC-CAA---AATT-T-TC--T-T---TTTATTT--G
* ** * * * * * * * *
85143101 AAAAGACCGAAATTAAAAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTCGCAATATG
47 AAAA-ACAGAAA-TCGAGAATAGCTCGGCGTGCGACCCGAGACTCAACTCACCTTTTGGATTATG
* * * ** *
85143164 AGTTGATTTTTGAAAAAAAACATAAATTTAAAAAAAATACCTCGGTATGTGACCCGAGGCTCAAC
110 AGTTGATCTTCG---AAAAACA-AAA---ATAAAAAATACCTCGACATGTGCCCCGAGGCTCAAC
85143229 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGT
168 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGT
85143294 GCGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAATAGAAATTT
233 GCGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAATAGAAATTT
85143355 TAAAAAAATA
Statistics
Matches: 547, Mismatches: 34, Indels: 39
0.88 0.05 0.06
Matches are distributed among these distances:
293 11 0.02
294 28 0.05
295 261 0.48
297 1 0.00
298 2 0.00
299 3 0.01
302 3 0.01
303 1 0.00
304 1 0.00
306 1 0.00
307 1 0.00
310 6 0.01
312 41 0.07
313 6 0.01
314 13 0.02
315 7 0.01
316 3 0.01
318 3 0.01
319 155 0.28
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (293 bp):
AAAGCACTGAATTTTGTTCGACTGTCCAAAATTTTCTTTTTATTTGAAAAACAGAAATCGAGAAT
AGCTCGGCGTGCGACCCGAGACTCAACTCACCTTTTGGATTATGAGTTGATCTTCGAAAAACAAA
AATAAAAAATACCTCGACATGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
GAAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACTTCTCGC
AATATGAGTTGATTTTTGAAAAAATAGAAATTT
Found at i:85143084 original size:162 final size:163
Alignment explanation
Indices: 85142805--85144084 Score: 1808
Period size: 162 Copynumber: 7.9 Consensus size: 163
85142795 AGAAATCGAG
* * * * * * * *
85142805 AATAGCTCGGCGTGCGACCCGAGACTCAACTCACCTT-TTGGATTATGAGTTGATCTTCG--AAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCA-CTTCTCGCAATATGAGTTGATTTTTGAAAAA
* * * *
85142867 AACA-AAA--AT-AAAAAATACCTC-GACATGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
65 AACAGAAATTTTAAAAAAATACCTCAG-CGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATG
85142927 AGTTGATTTTTGAAAAAAAACAGAAATTTAAAAAA
129 AGTTGATTTTTGAAAAAAAACAGAAATTTAAAAAA
*
85142962 AATACCTCAGCGTGCGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAA
* *
85143026 ATAGAAATTTTAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAG
66 ACAGAAATTTTAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
85143091 TTGA--TTT-AAAAAAAGACCGAAA-TT--AAAA
131 TTGATTTTTGAAAAAAA-ACAGAAATTTAAAAAA
*
85143119 AATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAAA
* * * ** *
85143182 AACATAAATTTAAAAAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
65 AACAGAAATTTTAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGA
85143247 GTTGATTTTTGAAAAAAAACAGAAATTTAAAAAA
130 GTTGATTTTTGAAAAAAAACAGAAATTTAAAAAA
*
85143281 AATACCTCAGCGTGCGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAA
* *
85143345 ATAGAAATTTTAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAG
66 ACAGAAATTTTAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
* *
85143410 CTGATTTTTGAAAAAAAACAGAAATTTTAAAAA
131 TTGATTTTTGAAAAAAAACAGAAATTTAAAAAA
85143443 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAAA
* * * *
85143508 AACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACTTCTTGCAATATGA
65 AACAGAAATTTTAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGA
85143573 GTTGATTTTTGAAAAAAAAACAGAAATTTAAAAAAA
130 GTTGATTTTTG-AAAAAAAACAGAAATTT-AAAAAA
*
85143609 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG---AAA
*
85143674 AAAACAGAAATTTTAAAAAAATACCTCAGCAT--GACCCGAGGCTCAACTCACCTCTCGCAATAT
63 AAAACAGAAATTTTAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
85143737 GAGTTGACTTTTG-AAAAAAACAGAAATTT--AAAA
128 GAGTTGATTTTTGAAAAAAAACAGAAATTTAAAAAA
* ** *
85143770 AATACCTCGGTATGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG--AAAA
*
85143835 AAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATG
64 AAACAGAAATTTTAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATG
85143900 AGTTGATTTTTGAAAAAAAAACAGAAATTTAAAAAA
129 AGTTGATTTTTG-AAAAAAAACAGAAATTTAAAAAA
**
85143936 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTAAAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAA
* * * *
85144000 GACCGAAA--TT-AAAAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTGGTATTATGA
66 -ACAGAAATTTTAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGA
*
85144060 GTTGATATTTGAAAAAAAACAGAAA
130 GTTGATTTTTGAAAAAAAACAGAAA
85144085 GTGAAAAATA
Statistics
Matches: 1021, Mismatches: 71, Indels: 61
0.89 0.06 0.05
Matches are distributed among these distances:
155 42 0.04
156 3 0.00
157 129 0.13
158 20 0.02
159 61 0.06
160 53 0.05
161 78 0.08
162 263 0.26
163 7 0.01
164 155 0.15
165 20 0.02
166 156 0.15
168 34 0.03
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.25
Consensus pattern (163 bp):
AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAA
ACAGAAATTTTAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAAAAAAACAGAAATTTAAAAAA
Found at i:85143464 original size:244 final size:243
Alignment explanation
Indices: 85142805--85144076 Score: 1802
Period size: 244 Copynumber: 5.3 Consensus size: 243
85142795 AGAAATCGAG
* * * * * * * *
85142805 AATAGCTCGGCGTGCGACCCGAGACTCAACTCACCTT-TTGGATTATGAGTTGATCTTCG-AAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCA-CTTCTCGCAATATGAGTTGATTTTTGAAAAA
* * * *
85142868 ACA-AAA---ATAAAAAATACCTC-GACATGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
65 ACAGAAATTTAAAAAAAATACCTCAG-CGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGA
*
85142928 GTTGATTTTTGAAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCTGAGGCTCAACT
129 GTTGATTTTTGAAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACT
*
85142993 CACTTCTCGCAATATGAGTTGATTTTTG--AAAAAATAGAAATTTTAAAAA
194 CACTTCTCGCAATATGAGTTGATTTTTGAAAAAAAACAGAAA-TTTAAAAA
**
85143042 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTAAAAAAAG
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAA-
*
85143106 ACCGAAA-TT--AAAAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAG
65 ACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
* * ** *
85143166 TTGATTTTTGAAAAAAAACATAAATTTAAAAAAAATACCTCGGTATGTGACCCGAGGCTCAACTC
130 TTGATTTTTGAAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTC
*
85143231 ACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAACAGAAATTTAAAAAA
195 ACTTCTCGCAATATGAGTTGATTTTTGAAAAAAAACAGAAATTT-AAAAA
*
85143281 AATACCTCAGCGTGCGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAA
* * * *
85143346 TAGAAATTTTAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGC
66 CAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
85143411 TGATTTTTGAAAAAAAACAGAAATTTTAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCA
131 TGATTTTTGAAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCA
85143476 CTTCTCGCAATATGAGTTGATTTTTGAAAAAAAACAGAAATTTAAAAAA
196 CTTCTCGCAATATGAGTTGATTTTTGAAAAAAAACAGAAATTT-AAAAA
* *
85143525 AATACCTCAGCGTGCGACCCAAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG---AAA
85143590 AAACAGAAATTTAAAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATAT
63 AAACAGAAATTT-AAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATAT
* *
85143655 GAGTTGATTTTTGAAAAAAAAAACAGAAATTTTAAAAAAATACCTCAGCAT--GACCCGAGGCTC
127 GAGTTGATTTTTG--AAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCGAGGCTC
* *
85143718 AACTCACCTCTCGCAATATGAGTTGACTTTTG-AAAAAAACAGAAATTT-AAAA
190 AACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAAAACAGAAATTTAAAAA
* ** *
85143770 AATACCTCGGTATGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG---AAA
85143835 AAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATG
63 AAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATG
85143900 AGTTGATTTTTGAAAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAA
128 AGTTGATTTTTG-AAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAA
* *
85143965 CTCACTTCTCGCAATATGAGTTGA--TTTAAAAAAAAGACCGAAA-TT-AAAA
192 CTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAAA-ACAGAAATTTAAAAA
* * * * *
85144014 AATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTGGTATTATGAGTTGATATTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAA
85144077 AACAGAAAGT
Statistics
Matches: 947, Mismatches: 62, Indels: 50
0.89 0.06 0.05
Matches are distributed among these distances:
236 5 0.01
237 165 0.17
238 5 0.01
239 96 0.10
240 11 0.01
242 57 0.06
243 38 0.04
244 283 0.30
245 118 0.12
247 30 0.03
248 104 0.11
250 35 0.04
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (243 bp):
AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAA
CAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAAAAAACAGAAATTTAAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCA
CTTCTCGCAATATGAGTTGATTTTTGAAAAAAAACAGAAATTTAAAAA
Found at i:85144971 original size:5 final size:5
Alignment explanation
Indices: 85144963--85145019 Score: 84
Period size: 5 Copynumber: 11.8 Consensus size: 5
85144953 CTTTTTCTTT
85144963 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG -TTT- TTTTG TTTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG -TTTTG
85145012 TTTT- TTTT
1 TTTTG TTTT
85145020 AGGCATAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
4 10 0.20
5 34 0.69
6 5 0.10
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (5 bp):
TTTTG
Found at i:85144981 original size:15 final size:14
Alignment explanation
Indices: 85144949--85145019 Score: 83
Period size: 15 Copynumber: 4.9 Consensus size: 14
85144939 ATCTTGATTT
*
85144949 TTTTCTTTTTCTTT-
1 TTTTGTTTTT-TTTG
85144963 TTTTGTTTTGTTTTG
1 TTTTGTTTT-TTTTG
85144978 TTTTGTTTTGTTTTG
1 TTTTGTTTT-TTTTG
85144993 TTTTG-TTTTTTTG
1 TTTTGTTTTTTTTG
85145006 TTTTTGTTTTTTTT
1 -TTTTGTTTTTTTT
85145020 AGGCATAATA
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
13 5 0.10
14 19 0.37
15 28 0.54
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.85
Consensus pattern (14 bp):
TTTTGTTTTTTTTG
Found at i:85150402 original size:19 final size:18
Alignment explanation
Indices: 85150378--85150430 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
85150368 TAAACACGAG
*
85150378 AATTTTGAAACACAATAA
1 AATTTTGAAACACAAGAA
*
85150396 TAATTTTTGAAA-ACACGAA
1 -AA-TTTTGAAACACAAGAA
85150415 AATCTTTGAAACACAA
1 AAT-TTTGAAACACAA
85150431 AATTTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.04
18 9 0.32
19 10 0.36
20 8 0.29
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (18 bp):
AATTTTGAAACACAAGAA
Found at i:85150411 original size:21 final size:20
Alignment explanation
Indices: 85150380--85150675 Score: 73
Period size: 17 Copynumber: 16.1 Consensus size: 20
85150370 AACACGAGAA
*
85150380 TTTTG-AAACACAATAATAAT
1 TTTTGAAAACAC-AGAATAAT
85150400 TTTTGAAAACAC-GAA-AAT
1 TTTTGAAAACACAGAATAAT
* * **
85150418 CTTTG-AAACACAAAATTTTT
1 TTTTGAAAACACAGAA-TAAT
*
85150438 TTTTGAAAACACAGAAT-TT
1 TTTTGAAAACACAGAATAAT
*
85150457 TTTTGAAAACAC-GGA-AA-
1 TTTTGAAAACACAGAATAAT
* * * *
85150474 TTTTCAATACATGAGAAT-TT
1 TTTTGAAAACA-CAGAATAAT
*
85150494 TTTTG---ACAC-GAA-AAA
1 TTTTGAAAACACAGAATAAT
85150509 TTTTGAAAACAC-GAA-AA-
1 TTTTGAAAACACAGAATAAT
*
85150526 TTTTGAAAACA-TG-A-AAT
1 TTTTGAAAACACAGAATAAT
** **
85150543 TTTTTTAAACAC-GAATTTTT
1 TTTTGAAAACACAGAA-TAAT
*
85150563 TTTTAAAAACACGAGAAT--T
1 TTTTGAAAACAC-AGAATAAT
85150582 TTTTGAAAACAC-GAA-AA-
1 TTTTGAAAACACAGAATAAT
* *
85150599 TTTTGAAAACA-TGAAT-TT
1 TTTTGAAAACACAGAATAAT
** **
85150617 TTTTTTAAACAC-GAACTTTT
1 TTTTGAAAACACAGAA-TAAT
*
85150637 TTTTAAAAACACGAGAAT--T
1 TTTTGAAAACAC-AGAATAAT
85150656 TTTTGAAAACAC-GAA-AAT
1 TTTTGAAAACACAGAATAAT
85150674 TT
1 TT
85150676 GTCAAACACG
Statistics
Matches: 211, Mismatches: 31, Indels: 70
0.68 0.10 0.22
Matches are distributed among these distances:
15 8 0.04
16 3 0.01
17 60 0.28
18 36 0.17
19 43 0.20
20 38 0.18
21 17 0.08
22 6 0.03
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.36
Consensus pattern (20 bp):
TTTTGAAAACACAGAATAAT
Found at i:85150412 original size:37 final size:37
Alignment explanation
Indices: 85150369--85150457 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 37
85150359 TTTTGTTTTT
85150369 AAACACGAGAATTTTGAAACACAATAA-TAATTTTTGA
1 AAACACGAGAATTTTGAAACACAA-AATTAATTTTTGA
* **
85150406 AAACACGAAAATCTTTGAAACACAAAATTTTTTTTTGA
1 AAACACGAGAAT-TTTGAAACACAAAATTAATTTTTGA
85150444 AAACAC-AGAATTTT
1 AAACACGAGAATTTT
85150458 TTTGAAAACA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
36 3 0.07
37 17 0.37
38 26 0.57
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (37 bp):
AAACACGAGAATTTTGAAACACAAAATTAATTTTTGA
Found at i:85150459 original size:19 final size:18
Alignment explanation
Indices: 85150399--85150705 Score: 143
Period size: 19 Copynumber: 16.8 Consensus size: 18
85150389 ACAATAATAA
**
85150399 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAATT
* *
85150417 TCTTTG-AAACACAAAATTTT
1 TTTTTGAAAACAC-GAA--TT
85150437 TTTTTGAAAACACAGAATT
1 TTTTTGAAAACAC-GAATT
85150456 TTTTTGAAAACACGGAA--
1 TTTTTGAAAACAC-GAATT
* * * *
85150473 ATTTTCAATACATGAGAATT
1 TTTTTGAAAACA--CGAATT
**
85150493 TTTTTG---ACACGAAAA
1 TTTTTGAAAACACGAATT
* *
85150508 ATTTTGAAAACACGAA-A
1 TTTTTGAAAACACGAATT
* *
85150525 ATTTTGAAAACATGAAATT
1 TTTTTGAAAACACG-AATT
85150544 TTTTT--AAACACGAATTTT
1 TTTTTGAAAACACGAA--TT
* *
85150562 TTTTTAAAAACACGAGAAT
1 TTTTTGAAAACACGA-ATT
*
85150581 TTTTTGAAAACACGAA-A
1 TTTTTGAAAACACGAATT
* *
85150598 ATTTTGAAAACATGAATT
1 TTTTTGAAAACACGAATT
**
85150616 TTTTTTTAAACACGAACTTT
1 TTTTTGAAAACACGAA--TT
* *
85150636 TTTTTAAAAACACGAGAAT
1 TTTTTGAAAACACGA-ATT
**
85150655 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAATT
* *
85150673 TTTGT-CAAACACGGGAA-T
1 TTTTTGAAAACAC--GAATT
85150691 TTTTTGAAAACACGA
1 TTTTTGAAAACACGA
85150706 TAACATCCAA
Statistics
Matches: 223, Mismatches: 41, Indels: 51
0.71 0.13 0.16
Matches are distributed among these distances:
15 8 0.04
16 2 0.01
17 60 0.27
18 49 0.22
19 61 0.27
20 32 0.14
21 11 0.05
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (18 bp):
TTTTTGAAAACACGAATT
Found at i:85150527 original size:52 final size:52
Alignment explanation
Indices: 85150400--85150557 Score: 151
Period size: 52 Copynumber: 2.9 Consensus size: 52
85150390 CAATAATAAT
* ***
85150400 TTTTGAAAACACGAAAATCTTTGAAACACA--AAATTTTTTTTTGAAAACACAGAATTT
1 TTTTGAAAACACGAAAAT-TTTCAAA-ACATGAAA--TTTTTTT--AAACAC-GAAAAA
* * *
85150457 TTTTGAAAACACGGAAATTTTCAATACATGAGAATTTTTTT-GACACGAAAAA
1 TTTTGAAAACACGAAAATTTTCAAAACATGA-AATTTTTTTAAACACGAAAAA
*
85150509 TTTTGAAAACACGAAAATTTTGAAAACATGAAATTTTTTTAAACACGAA
1 TTTTGAAAACACGAAAATTTTCAAAACATGAAATTTTTTTAAACACGAA
85150558 TTTTTTTTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
51 9 0.10
52 38 0.44
53 4 0.05
55 3 0.03
56 12 0.14
57 18 0.21
58 2 0.02
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (52 bp):
TTTTGAAAACACGAAAATTTTCAAAACATGAAATTTTTTTAAACACGAAAAA
Found at i:85150544 original size:16 final size:17
Alignment explanation
Indices: 85150369--85150609 Score: 117
Period size: 17 Copynumber: 13.3 Consensus size: 17
85150359 TTTTGTTTTT
*
85150369 AAACACGAGAATTTTGA
1 AAACACGAAAATTTTGA
**
85150386 AACACAATAATAATTTTTGA
1 AA-ACACGAA-AA-TTTTGA
85150406 AAACACGAAAATCTTTG-
1 AAACACGAAAAT-TTTGA
85150423 AAACAC-AAAATTTTTTTTTGA
1 AAACACGAAAA-----TTTTGA
**
85150444 AAACACAGAATTTTTTTGA
1 AAACAC-GAA-AATTTTGA
* *
85150463 AAACACGGAAATTTTCA
1 AAACACGAAAATTTTGA
* * * **
85150480 ATACATGAGAATTTTTT
1 AAACACGAAAATTTTGA
**
85150497 TGACACGAAAAATTTTGA
1 AAACACG-AAAATTTTGA
85150515 AAACACGAAAATTTTGA
1 AAACACGAAAATTTTGA
* * **
85150532 AAACATGAAATTTTTTT
1 AAACACGAAAATTTTGA
** *
85150549 AAACACGAATTTTTTTTTAA
1 AAACACGAA---AATTTTGA
*
85150569 AAACACGAGAATTTTTTGA
1 AAACACGA-AA-ATTTTGA
85150588 AAACACGAAAATTTTGA
1 AAACACGAAAATTTTGA
85150605 AAACA
1 AAACA
85150610 TGAATTTTTT
Statistics
Matches: 169, Mismatches: 36, Indels: 38
0.70 0.15 0.16
Matches are distributed among these distances:
16 4 0.02
17 71 0.42
18 26 0.15
19 33 0.20
20 25 0.15
21 8 0.05
23 2 0.01
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (17 bp):
AAACACGAAAATTTTGA
Found at i:85150599 original size:73 final size:74
Alignment explanation
Indices: 85150509--85150675 Score: 309
Period size: 74 Copynumber: 2.3 Consensus size: 74
85150499 ACACGAAAAA
*
85150509 TTTTGAAAACACGAAAATTTTGAAAACATGAA-ATTTTTTTAAACACGAATTTTTTTTTAAAAAC
1 TTTTGAAAACACGAAAATTTTGAAAACATGAATATTTTTTTAAACACGAACTTTTTTTTAAAAAC
85150573 ACGAGAATT
66 ACGAGAATT
*
85150582 TTTTGAAAACACGAAAATTTTGAAAACATGAATTTTTTTTTAAACACGAACTTTTTTTTAAAAAC
1 TTTTGAAAACACGAAAATTTTGAAAACATGAATATTTTTTTAAACACGAACTTTTTTTTAAAAAC
85150647 ACGAGAATT
66 ACGAGAATT
85150656 TTTTGAAAACACGAAAATTT
1 TTTTGAAAACACGAAAATTT
85150676 GTCAAACACG
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
73 32 0.35
74 59 0.65
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (74 bp):
TTTTGAAAACACGAAAATTTTGAAAACATGAATATTTTTTTAAACACGAACTTTTTTTTAAAAAC
ACGAGAATT
Found at i:85150619 original size:17 final size:17
Alignment explanation
Indices: 85150436--85150705 Score: 120
Period size: 17 Copynumber: 14.9 Consensus size: 17
85150426 CACAAAATTT
85150436 TTTTTTGAAAACACAGAA
1 TTTTTTGAAAACAC-GAA
85150454 TTTTTTTGAAAACACGGAA
1 -TTTTTTGAAAACAC-GAA
* * * *
85150473 -ATTTTCAATACATGAGAA
1 TTTTTTGAAAACA--CGAA
85150491 TTTTTTTG---ACACGAAA
1 -TTTTTTGAAAACACG-AA
**
85150507 AATTTTGAAAACACGAA
1 TTTTTTGAAAACACGAA
** *
85150524 AATTTTGAAAACATGAAA
1 TTTTTTGAAAACACG-AA
*
85150542 TTTTTT-TAAACACGAA
1 TTTTTTGAAAACACGAA
*
85150558 TTTTTTTTTAAAAACACGAGAA
1 ---TTTTTTGAAAACAC--GAA
85150580 TTTTTTGAAAACACGAA
1 TTTTTTGAAAACACGAA
** *
85150597 AATTTTGAAAACATGAA
1 TTTTTTGAAAACACGAA
**
85150614 TTTTTTTTTAAACACGAA
1 -TTTTTTGAAAACACGAA
*
85150632 CTTTTTTTTAAAAACACGAGAA
1 ---TTTTTTGAAAACAC--GAA
85150654 TTTTTTGAAAACACGAA
1 TTTTTTGAAAACACGAA
** *
85150671 -AATTTGTCAAACACGGGAA
1 TTTTTTG-AAAACAC--GAA
85150690 TTTTTTGAAAACACGA
1 TTTTTTGAAAACACGA
85150706 TAACATCCAA
Statistics
Matches: 193, Mismatches: 34, Indels: 50
0.70 0.12 0.18
Matches are distributed among these distances:
15 6 0.03
16 8 0.04
17 62 0.32
18 26 0.13
19 58 0.30
20 27 0.14
22 6 0.03
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (17 bp):
TTTTTTGAAAACACGAA
Found at i:85150694 original size:74 final size:72
Alignment explanation
Indices: 85150509--85150705 Score: 286
Period size: 74 Copynumber: 2.7 Consensus size: 72
85150499 ACACGAAAAA
* *
85150509 TTTTGAAAACACGAAAATTTTGAAAACATGAAATTTTTTTAAACACGAATTTTTTTTTAAAAACA
1 TTTTGAAAACACGAAAATTTTGAAAACA-GGAATTTTTTTAAACACGAACTTTTTTTTAAAAACA
85150574 CGAGAATT
65 CGAGAATT
*
85150582 TTTTGAAAACACGAAAATTTTGAAAACATGAATTTTTTTTTAAACACGAACTTTTTTTTAAAAAC
1 TTTTGAAAACACGAAAATTTTGAAAACAGGAA--TTTTTTTAAACACGAACTTTTTTTTAAAAAC
85150647 ACGAGAATT
64 ACGAGAATT
* * *
85150656 TTTTGAAAACACGAAAATTTGTCAAACACGGGAATTTTTTGAAAACACGA
1 TTTTGAAAACACGAAAATTT-TGAAA-ACAGGAATTTTTT-TAAACACGA
85150706 TAACATCCAA
Statistics
Matches: 112, Mismatches: 7, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
72 2 0.02
73 28 0.25
74 65 0.58
75 12 0.11
76 5 0.04
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (72 bp):
TTTTGAAAACACGAAAATTTTGAAAACAGGAATTTTTTTAAACACGAACTTTTTTTTAAAAACAC
GAGAATT
Found at i:85150816 original size:34 final size:35
Alignment explanation
Indices: 85150751--85150827 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 35
85150741 TTGAAAACCC
*
85150751 GAAAACACGAAATTTTTTCAAACACGGGAA-TTTT
1 GAAAACACGAAATTTTTTCAAACACGAGAATTTTT
* * **
85150785 GAAAACACGAATTTTTTTTATTCACGAGAATTTTT
1 GAAAACACGAAATTTTTTCAAACACGAGAATTTTT
85150820 G-AAACACG
1 GAAAACACG
85150828 GAAAATTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 32 0.86
35 5 0.14
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (35 bp):
GAAAACACGAAATTTTTTCAAACACGAGAATTTTT
Found at i:85150929 original size:18 final size:17
Alignment explanation
Indices: 85150888--85150933 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
85150878 TATTATTATT
85150888 ATTTTGAAACAGGAGAA
1 ATTTTGAAACAGGAGAA
*
85150905 ATTTTGAAGACATGA-AA
1 ATTTTGAA-ACAGGAGAA
85150922 ATTTTTGAAACA
1 A-TTTTGAAACA
85150934 CGGTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.30
Consensus pattern (17 bp):
ATTTTGAAACAGGAGAA
Found at i:85151082 original size:20 final size:20
Alignment explanation
Indices: 85151053--85151090 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
85151043 GGGATTCTAA
85151053 TAAAACACGAGAATTTTTAT
1 TAAAACACGAGAATTTTTAT
* *
85151073 TAAAATACGAGGATTTTT
1 TAAAACACGAGAATTTTT
85151091 GAATATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (20 bp):
TAAAACACGAGAATTTTTAT
Found at i:85151654 original size:12 final size:12
Alignment explanation
Indices: 85151637--85151678 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
85151627 CTTATTTTTT
85151637 TCTTTTTCTTTC
1 TCTTTTTCTTTC
*
85151649 TCTTTTTATTCTC
1 TCTTTTTCTT-TC
85151662 TCTTTTTTCTTT-
1 TC-TTTTTCTTTC
85151674 TCTTT
1 TCTTT
85151679 CTTTTCCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 3 0.12
12 11 0.42
13 5 0.19
14 7 0.27
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTTTCTTTC
Found at i:85151798 original size:14 final size:15
Alignment explanation
Indices: 85151779--85151807 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
85151769 TTCTCTTCCC
85151779 CTCTTC-CTTTTCTT
1 CTCTTCTCTTTTCTT
85151793 CTCTTCTCTTTTCTT
1 CTCTTCTCTTTTCTT
85151808 TATTTGATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (15 bp):
CTCTTCTCTTTTCTT
Found at i:85152326 original size:29 final size:30
Alignment explanation
Indices: 85152262--85152370 Score: 98
Period size: 30 Copynumber: 3.7 Consensus size: 30
85152252 TTTAAATTTG
*
85152262 AAGGGTTAAAATGAAATTTTGAGAAAGTTT
1 AAGGGTTAAAATGTAATTTTGAGAAAGTTT
*
85152292 AAGGGTTGAAATGTAATTTT-AGAAAAGTTT
1 AAGGGTTAAAATGTAATTTTGAG-AAAGTTT
* * * *
85152322 -GGGGTCAAAATGTAAATTTTGA-AGAGTAT
1 AAGGGTTAAAATGT-AATTTTGAGAAAGTTT
* * *
85152351 AGGGGTCAAAATGCAATTTT
1 AAGGGTTAAAATGTAATTTT
85152371 TTTTAATTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
29 23 0.34
30 43 0.64
31 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (30 bp):
AAGGGTTAAAATGTAATTTTGAGAAAGTTT
Found at i:85153053 original size:14 final size:14
Alignment explanation
Indices: 85153034--85153060 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85153024 TATAAGGTTT
85153034 TTTAGTTAATCATC
1 TTTAGTTAATCATC
85153048 TTTAGTTAATCAT
1 TTTAGTTAATCAT
85153061 GTTGCTGTTC
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:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:85153914 original size:13 final size:13
Alignment explanation
Indices: 85153898--85153994 Score: 85
Period size: 13 Copynumber: 7.5 Consensus size: 13
85153888 TTACTAAAAT
* *
85153898 TTACTTGAATATA
1 TTACTTAAATAAA
85153911 TTACTTAAATAAA
1 TTACTTAAATAAA
*
85153924 TTACTTAAATACA
1 TTACTTAAATAAA
*
85153937 TTACTT--ACAAA
1 TTACTTAAATAAA
*
85153948 TTAACTTATATAAA
1 TT-ACTTAAATAAA
*
85153962 TT--TTAAATACA
1 TTACTTAAATAAA
85153973 TTACTTAAATATATA
1 TTACTTAAATA-A-A
85153988 TTACTTA
1 TTACTTA
85153995 CTAAAATTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
11 14 0.21
12 4 0.06
13 36 0.53
14 6 0.09
15 8 0.12
ACGTcount: A:0.45, C:0.10, G:0.01, T:0.43
Consensus pattern (13 bp):
TTACTTAAATAAA
Found at i:85154304 original size:38 final size:38
Alignment explanation
Indices: 85154221--85154323 Score: 145
Period size: 38 Copynumber: 2.7 Consensus size: 38
85154211 CTTACATGTT
* * *
85154221 AACTTACATAATACATGACTTATATAAAATTTTTATATA
1 AACTTACATAATACATTACTTACATAAAA-TCTTATATA
*
85154260 AACTTACATAATACATTACTTACATATTAA-CTTATATA
1 AACTTACATAATACATTACTTACATA-AAATCTTATATA
85154298 AACTTACATAATACATTACTTACATA
1 AACTTACATAATACATTACTTACATA
85154324 GCATACATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
38 33 0.56
39 24 0.41
40 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.39
Consensus pattern (38 bp):
AACTTACATAATACATTACTTACATAAAATCTTATATA
Found at i:85154331 original size:25 final size:24
Alignment explanation
Indices: 85154314--85154495 Score: 84
Period size: 25 Copynumber: 7.8 Consensus size: 24
85154304 CATAATACAT
85154314 TACTTACATAGCATACATAACTTACA
1 TACTTACATA--ATACATAACTTACA
* *
85154340 CGACTTACATAATACAAAACTTACA
1 -TACTTACATAATACATAACTTACA
85154365 TAACTTACATAACCTACATAA--TACA
1 T-ACTTACATAA--TACATAACTTACA
* *
85154390 TAATAAC-T--TAC--AACTTACA
1 TACTTACATAATACATAACTTACA
* **
85154409 TA---AC---ATACATTACTTTGA
1 TACTTACATAATACATAACTTACA
* *
85154427 TAACTTACATAATACACAACTTAAA
1 T-ACTTACATAATACATAACTTACA
*
85154452 TAGCTTACTTAATACATAACTTACA
1 TA-CTTACATAATACATAACTTACA
* *
85154477 TAATTTACTTAATACATAA
1 T-ACTTACATAATACATAA
85154496 ATATATATCA
Statistics
Matches: 121, Mismatches: 17, Indels: 36
0.70 0.10 0.21
Matches are distributed among these distances:
16 5 0.04
17 2 0.02
18 6 0.05
19 10 0.08
22 2 0.02
23 1 0.01
24 5 0.04
25 74 0.61
26 1 0.01
27 15 0.12
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (24 bp):
TACTTACATAATACATAACTTACA
Found at i:85154339 original size:9 final size:9
Alignment explanation
Indices: 85154260--85154484 Score: 134
Period size: 9 Copynumber: 25.8 Consensus size: 9
85154250 TTTTTATATA
85154260 AACTTACAT
1 AACTTACAT
85154269 AA--TACAT
1 AACTTACAT
*
85154276 TACTTACATATT
1 AACTTAC--A-T
*
85154288 AACTTATAT
1 AACTTACAT
85154297 AAACTTACAT
1 -AACTTACAT
85154307 AA--TACAT
1 AACTTACAT
*
85154314 TACTTACAT
1 AACTTACAT
* *
85154323 AGCATACAT
1 AACTTACAT
*
85154332 AACTTACAC
1 AACTTACAT
*
85154341 GACTTACAT
1 AACTTACAT
*
85154350 AA--TACAA
1 AACTTACAT
85154357 AACTTACAT
1 AACTTACAT
85154366 AACTTACAT
1 AACTTACAT
*
85154375 AACCTACAT
1 AACTTACAT
*
85154384 AATACATA-AT
1 -A-ACTTACAT
85154394 AACTTAC--
1 AACTTACAT
85154401 AACTTACAT
1 AACTTACAT
*
85154410 AACATACAT
1 AACTTACAT
* **
85154419 TACTTTGAT
1 AACTTACAT
85154428 AACTTACAT
1 AACTTACAT
*
85154437 AA--TACAC
1 AACTTACAT
*
85154444 AACTTAAAT
1 AACTTACAT
* *
85154453 AGCTTACTT
1 AACTTACAT
85154462 AA--TACAT
1 AACTTACAT
85154469 AACTTACAT
1 AACTTACAT
*
85154478 AATTTAC
1 AACTTAC
85154485 TTAATACATA
Statistics
Matches: 161, Mismatches: 36, Indels: 38
0.69 0.15 0.16
Matches are distributed among these distances:
7 37 0.23
8 4 0.02
9 97 0.60
10 12 0.07
11 5 0.03
12 6 0.04
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:85154352 original size:43 final size:43
Alignment explanation
Indices: 85154299--85154418 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 43
85154289 ACTTATATAA
** * *
85154299 ACTTACATAATACATTACTTACATAGCATACATAACTTACACG
1 ACTTACATAATACAAAACTTACATAACATACATAACCTACACG
* *
85154342 ACTTACATAATACAAAACTTACATAACTTACATAACCTACA-T
1 ACTTACATAATACAAAACTTACATAACATACATAACCTACACG
* *
85154384 A-ATACATAATAACTTACAACTTACATAACATACAT
1 ACTTACATAAT-AC--AAAACTTACATAACATACAT
85154419 TACTTTGATA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
41 8 0.12
42 3 0.05
43 36 0.55
44 18 0.28
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.29
Consensus pattern (43 bp):
ACTTACATAATACAAAACTTACATAACATACATAACCTACACG
Found at i:85154435 original size:87 final size:86
Alignment explanation
Indices: 85154315--85154480 Score: 208
Period size: 87 Copynumber: 1.9 Consensus size: 86
85154305 ATAATACATT
* * *
85154315 ACTTACATAGCATACATAACTTACACGACTTACATAATACAAAACTTACATAACTTACATAACCT
1 ACTTACATAACATACATAACTTACACAACTTACATAATACAAAACTTAAATAACTTACATAA--T
85154380 ACATAA-TACATAATAACTTACA
64 ACATAACTACATAATAACTTACA
* ** * * * *
85154402 ACTTACATAACATACATTACTTTGATAACTTACATAATACACAACTTAAATAGCTTACTTAATAC
1 ACTTACATAACATACATAACTTACACAACTTACATAATACAAAACTTAAATAACTTACATAATAC
85154467 ATAACTTACATAAT
66 ATAAC-TACATAAT
85154481 TTACTTAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 7 0.10
87 60 0.90
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (86 bp):
ACTTACATAACATACATAACTTACACAACTTACATAATACAAAACTTAAATAACTTACATAATAC
ATAACTACATAATAACTTACA
Found at i:85154480 original size:16 final size:16
Alignment explanation
Indices: 85154193--85154392 Score: 80
Period size: 16 Copynumber: 12.1 Consensus size: 16
85154183 ACAGTTATTA
85154193 AACTTACATAATACAT
1 AACTTACATAATACAT
*
85154209 AACTTACAT-GT---T
1 AACTTACATAATACAT
85154221 AACTTACATAATACAT
1 AACTTACATAATACAT
* * *
85154237 GACTTATATAAAATTTTTATAT
1 AACTTACAT--AA----TACAT
85154259 AAACTTACATAATACAT
1 -AACTTACATAATACAT
* *
85154276 TACTTACATATTAACTTATAT
1 AACTTAC--A-TAA--TACAT
85154297 AAACTTACATAATACAT
1 -AACTTACATAATACAT
*
85154314 TACTTACATAGCATACAT
1 AACTTACATA--ATACAT
85154332 AACTTAC-----AC--
1 AACTTACATAATACAT
* *
85154341 GACTTACATAATACAA
1 AACTTACATAATACAT
85154357 AACTTACATAACTTACAT
1 AACTTACATAA--TACAT
*
85154375 AACCTACATAATACAT
1 AACTTACATAATACAT
85154391 AA
1 AA
85154393 TAACTTACAA
Statistics
Matches: 138, Mismatches: 18, Indels: 56
0.65 0.08 0.26
Matches are distributed among these distances:
9 6 0.04
11 2 0.01
12 10 0.07
13 1 0.01
14 2 0.01
15 1 0.01
16 49 0.36
17 8 0.06
18 29 0.21
19 6 0.04
20 1 0.01
21 6 0.04
22 10 0.07
23 7 0.05
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:85159450 original size:21 final size:21
Alignment explanation
Indices: 85159425--85159493 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
85159415 CAACAACTTA
* * *
85159425 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
**
85159446 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
85159467 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
85159488 AAGCAG
1 AAGCAG
85159494 CGATAGAAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.36, C:0.20, G:0.42, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:85159989 original size:43 final size:42
Alignment explanation
Indices: 85159942--85160107 Score: 194
Period size: 42 Copynumber: 3.9 Consensus size: 42
85159932 TTTGTGAAAT
*
85159942 AAGCGCCACTAAAGAAC-TCTA-CTTTTAGCGGCGTTTTCTTCCA
1 AAGCGCCGCTAAAGAACAT-TATC-TTTAGCGGCGTTTT-TTCCA
* * * *
85159985 AAGCGACGCTAAAGAACATGATCTTTAGCGGCGTTTTTCCCC
1 AAGCGCCGCTAAAGAACATTATCTTTAGCGGCGTTTTTTCCA
* * *
85160027 AAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATTATCTTTAGCGGCGTTTTTTCCA
*
85160069 AAGCGCCGCTAAAGATCATGT-TCTTTAGCGGCGTTTTTT
1 AAGCGCCGCTAAAGAACAT-TATCTTTAGCGGCGTTTTTT
85160108 TCTGTAAGTG
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
42 76 0.70
43 30 0.28
44 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATTATCTTTAGCGGCGTTTTTTCCA
Found at i:85160109 original size:43 final size:42
Alignment explanation
Indices: 85159965--85160107 Score: 207
Period size: 42 Copynumber: 3.4 Consensus size: 42
85159955 GAACTCTACT
* *
85159965 TTTAGCGGCGTTTTCTTCCAAAGCGACGCTAAAGAACATGATC
1 TTTAGCGGCGTTTT-TTCCAAAGCGCCGCTAAAGATCATGATC
* *
85160008 TTTAGCGGCGTTTTTCCCCAAGCGCCGCTAAAGAAT-ATGATC
1 TTTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAG-ATCATGATC
* *
85160050 TTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGATCATGATC
85160092 TTTAGCGGCGTTTTTT
1 TTTAGCGGCGTTTTTT
85160108 TCTGTAAGTG
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.02
42 74 0.81
43 15 0.16
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGATCATGATC
Found at i:85162667 original size:36 final size:37
Alignment explanation
Indices: 85162590--85162673 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 37
85162580 TACTCAAAAT
* *
85162590 AATAGTAACTAACAATAATAATTAGGGTTTTACTAAA
1 AATAATAACTAACAATAATAACTAGGGTTTTACTAAA
* ** * *
85162627 AATAATAACTAATAATAAT-ACTAGTTTTTTACTGAC
1 AATAATAACTAACAATAATAACTAGGGTTTTACTAAA
85162663 AATAAT-ACTAA
1 AATAATAACTAA
85162674 GTAACATCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 5 0.12
36 18 0.45
37 17 0.43
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.35
Consensus pattern (37 bp):
AATAATAACTAACAATAATAACTAGGGTTTTACTAAA
Found at i:85165169 original size:21 final size:21
Alignment explanation
Indices: 85165143--85165211 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 21
85165133 CTATAGTTTC
85165143 GATACCTTGCTACGAGGTATT
1 GATACCTTGCTACGAGGTATT
**
85165164 GATACCTTAGGGA-G-GGTATT
1 GATACCTT-GCTACGAGGTATT
* *
85165184 GATA-CTTACTACGAGGTATC
1 GATACCTTGCTACGAGGTATT
85165204 GATACCTT
1 GATACCTT
85165212 ATGCATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
18 1 0.03
19 4 0.11
20 19 0.50
21 12 0.32
22 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (21 bp):
GATACCTTGCTACGAGGTATT
Found at i:85170962 original size:16 final size:15
Alignment explanation
Indices: 85170933--85170975 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
85170923 CATATTATTT
*
85170933 TTAATTTTTTTAAAA
1 TTAATATTTTTAAAA
* *
85170948 TTCATATTATTTAAAT
1 TTAATATT-TTTAAAA
85170964 TTAATATTTTTA
1 TTAATATTTTTA
85170976 TTTATTGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATATTTTTAAAA
Found at i:85175273 original size:15 final size:15
Alignment explanation
Indices: 85175263--85175308 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
85175253 TTTAAATACT
85175263 TTTTTTATAAATATA
1 TTTTTTATAAATATA
**
85175278 TTTTTTAT--ATCGA
1 TTTTTTATAAATATA
*
85175291 ATTTTTATAAATATA
1 TTTTTTATAAATATA
85175306 TTT
1 TTT
85175309 ATAAAAATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
13 10 0.43
15 13 0.57
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (15 bp):
TTTTTTATAAATATA
Found at i:85175308 original size:14 final size:14
Alignment explanation
Indices: 85175264--85175322 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
85175254 TTAAATACTT
85175264 TTTTTATAAATATA
1 TTTTTATAAATATA
*
85175278 TTTTT-TATATCGA-A
1 TTTTTATAAAT--ATA
85175292 TTTTTATAAATATA
1 TTTTTATAAATATA
* * *
85175306 TTTATAAAAATTTA
1 TTTTTATAAATATA
85175320 TTT
1 TTT
85175323 GTTTTAAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
13 5 0.14
14 26 0.72
15 5 0.14
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (14 bp):
TTTTTATAAATATA
Found at i:85178059 original size:21 final size:21
Alignment explanation
Indices: 85178033--85178073 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
85178023 ATCTGCTCAA
* *
85178033 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
85178054 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
85178074 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:85182840 original size:21 final size:21
Alignment explanation
Indices: 85182814--85182854 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
85182804 ATCTGCTCAA
* *
85182814 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
85182835 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
85182855 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:85188827 original size:30 final size:31
Alignment explanation
Indices: 85188745--85188828 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 31
85188735 ATCCTAAACA
*
85188745 TAAAAAATTCAATAAATTTAGCCTTCAATTTT
1 TAAAAAATTCAATAAATTTAG-CTTCAAATTT
* * *
85188777 TACAAAAATT-TATCATTTTAG-TTCAAATTT
1 TA-AAAAATTCAATAAATTTAGCTTCAAATTT
85188807 TAAAAAATTCAATAAATTTAGC
1 TAAAAAATTCAATAAATTTAGC
85188829 ACTCAACTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
29 7 0.17
30 18 0.43
32 10 0.24
33 7 0.17
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (31 bp):
TAAAAAATTCAATAAATTTAGCTTCAAATTT
Found at i:85190329 original size:21 final size:23
Alignment explanation
Indices: 85190288--85190330 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
85190278 ATTATTAATA
*
85190288 TAATAAATATAATTTATTATTTT
1 TAATAAATATAATTTAATATTTT
85190311 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
85190331 AAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TAATAAATATAATTTAATATTTT
Found at i:85190378 original size:16 final size:17
Alignment explanation
Indices: 85190342--85190378 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
85190332 AATTTTATTT
*
85190342 TAATAGTAAGTTTTAAA
1 TAATAATAAGTTTTAAA
85190359 -AATAATAA-TTTTAAA
1 TAATAATAAGTTTTAAA
85190374 TAATA
1 TAATA
85190379 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TAATAATAAGTTTTAAA
Found at i:85193129 original size:4 final size:4
Alignment explanation
Indices: 85193120--85193153 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
85193110 GCCTGCACTG
*
85193120 ATAC ATAC ATAC ATGC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
85193154 CCTCTCCCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:85199753 original size:25 final size:26
Alignment explanation
Indices: 85199700--85199756 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
85199690 GTGAAAATTT
* *
85199700 ATTTT-TTAAAATAAATTATTTCATC
1 ATTTTATTAAAATAAAATATTTCATA
85199725 ATTTTATTAAAATTAAAATA-TTCA-A
1 ATTTTATTAAAA-TAAAATATTTCATA
85199750 ATTTTAT
1 ATTTTAT
85199757 CTTTTGATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 12 0.43
26 10 0.36
27 6 0.21
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTTTATTAAAATAAAATATTTCATA
Found at i:85217885 original size:15 final size:15
Alignment explanation
Indices: 85217865--85217895 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
85217855 AGTTAGGAAA
85217865 AATCAAATATGCACT
1 AATCAAATATGCACT
85217880 AATCAAATATGCACT
1 AATCAAATATGCACT
85217895 A
1 A
85217896 CATTTGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.26
Consensus pattern (15 bp):
AATCAAATATGCACT
Found at i:85218456 original size:31 final size:30
Alignment explanation
Indices: 85218421--85218492 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
85218411 TAAAAAATGG
85218421 GCAAATTAGTCCTTATACATTAAATCAAAGA
1 GCAAATTAGTCCTT-TACATTAAATCAAAGA
* *** *
85218452 GCAAATTGGTCCTTTTTGTTAAATCAAATA
1 GCAAATTAGTCCTTTACATTAAATCAAAGA
85218482 GCAAATTAGTC
1 GCAAATTAGTC
85218493 AAATTTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 22 0.63
31 13 0.37
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (30 bp):
GCAAATTAGTCCTTTACATTAAATCAAAGA
Found at i:85226733 original size:49 final size:47
Alignment explanation
Indices: 85226630--85226743 Score: 122
Period size: 48 Copynumber: 2.3 Consensus size: 47
85226620 TTCATATAGA
* * * * *
85226630 ACTACACTTCTTTTATTTTATTTTATTTTAGAATAATGTTTCAACTTT
1 ACTACAC-TCATTTATTTAATATTATATTAGAATAATGTTTCAACATT
*
85226678 ATTACACTCCATTTATTTAATATTA-ATTAGAATAAGGTGTTTCAACATT
1 ACTACACT-CATTTATTTAATATTATATTAGAATAA--TGTTTCAACATT
85226727 ACTACACTCATTGTATT
1 ACTACACTCATT-TATT
85226744 AGAATATGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
47 10 0.18
48 23 0.42
49 22 0.40
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.48
Consensus pattern (47 bp):
ACTACACTCATTTATTTAATATTATATTAGAATAATGTTTCAACATT
Found at i:85228327 original size:17 final size:17
Alignment explanation
Indices: 85228305--85228338 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
85228295 TTTTAGCTGT
85228305 TTGTGTTGA-ATATTCCA
1 TTGTGTT-ATATATTCCA
85228322 TTGTGTTATATATTCCA
1 TTGTGTTATATATTCCA
85228339 ACTATACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.50
Consensus pattern (17 bp):
TTGTGTTATATATTCCA
Found at i:85241253 original size:19 final size:20
Alignment explanation
Indices: 85241229--85241273 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
85241219 CTTTTATAAG
*
85241229 TATTTTTAA-ATTTAAAAAT
1 TATTTTGAATATTTAAAAAT
*
85241248 TATTTTGAATTTTTAAAAAT
1 TATTTTGAATATTTAAAAAT
85241268 TATTTT
1 TATTTT
85241274 ATTTTTGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTTTGAATATTTAAAAAT
Found at i:85242465 original size:19 final size:19
Alignment explanation
Indices: 85242433--85242471 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
85242423 ATATAAAAGC
85242433 ATATTAAAAATCATGGAAA
1 ATATTAAAAATCATGGAAA
* * *
85242452 ATATTTAAAGTCATTGAAA
1 ATATTAAAAATCATGGAAA
85242471 A
1 A
85242472 CCTTTAGTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (19 bp):
ATATTAAAAATCATGGAAA
Found at i:85243740 original size:61 final size:60
Alignment explanation
Indices: 85243645--85243760 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 60
85243635 GTTGTTTGTG
* * ** * * *
85243645 AATGGTCCCTTCATTTTTGGTGGCCTCAAATTTCTCATTCTTTAGATTTCAATGAGTTGCC
1 AATGGTCCCTTAATATTTGGTAACCTCAAATTTCTC-TTATTGAGATCTCAATGAGTTGCC
85243706 AATGGTCCCTTAATATTTGGTAACCTCAAATTTCTCTTATTGAGATCTCAATGAG
1 AATGGTCCCTTAATATTTGGTAACCTCAAATTTCTCTTATTGAGATCTCAATGAG
85243761 AGATCCCAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 16 0.33
61 32 0.67
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.41
Consensus pattern (60 bp):
AATGGTCCCTTAATATTTGGTAACCTCAAATTTCTCTTATTGAGATCTCAATGAGTTGCC
Found at i:85248643 original size:21 final size:21
Alignment explanation
Indices: 85248617--85248657 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
85248607 AGACGAGCAA
* *
85248617 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
85248638 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
85248658 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:85251588 original size:82 final size:82
Alignment explanation
Indices: 85251419--85251600 Score: 240
Period size: 82 Copynumber: 2.2 Consensus size: 82
85251409 GTAAGAATGC
* * * *
85251419 AATTTTACTATTTTAATAGACAATATCTTTATAAATTTTAAAGGATTATATCAATTTTTTATCAT
1 AATTTTACCATTTTAATAGACAATATCTTTATAAATTTTAAAGAATTAAATCAAATTTTTATCAT
85251484 TTTGGGAGGCCAAAGTG
66 TTTGGGAGGCCAAAGTG
* * * * *
85251501 CATTTTGCCATTTTAATAGCCTATATCTTTATAAATTTTAAAGAATTAAATTAAATTTTTATCAT
1 AATTTTACCATTTTAATAGACAATATCTTTATAAATTTTAAAGAATTAAATCAAATTTTTATCAT
*
85251566 TTTGGG-GGTCAAAGTG
66 TTTGGGAGGCCAAAGTG
*
85251582 TAATTTTACTATTATTAAT
1 -AATTTTACCATT-TTAAT
85251601 TTAAAATTAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 9 0.11
82 71 0.84
83 5 0.06
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (82 bp):
AATTTTACCATTTTAATAGACAATATCTTTATAAATTTTAAAGAATTAAATCAAATTTTTATCAT
TTTGGGAGGCCAAAGTG
Found at i:85253523 original size:22 final size:24
Alignment explanation
Indices: 85253493--85253542 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
85253483 TCAACAGCAG
* *
85253493 ATAAGAAGGAAGAA-AAATAA-GA
1 ATAAAAAGGAAGAAGAAAGAATGA
85253515 ATAAAAAGGAAGAAGAAAGAATGA
1 ATAAAAAGGAAGAAGAAAGAATGA
85253539 ATAA
1 ATAA
85253543 GAGAATAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 13 0.54
23 5 0.21
24 6 0.25
ACGTcount: A:0.68, C:0.00, G:0.22, T:0.10
Consensus pattern (24 bp):
ATAAAAAGGAAGAAGAAAGAATGA
Found at i:85256357 original size:3 final size:3
Alignment explanation
Indices: 85256349--85256377 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
85256339 AACACACAAT
85256349 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
85256378 TTCTAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:85257030 original size:23 final size:22
Alignment explanation
Indices: 85257000--85257047 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
85256990 TTTTAAAATT
*
85257000 AAAAAAATTAAAAAAGTATTTTA
1 AAAAAAATTAAAAAA-TAGTTTA
*
85257023 AAAAAAATTTAAAAATAGTTTA
1 AAAAAAATTAAAAAATAGTTTA
85257045 AAA
1 AAA
85257048 TTAAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (22 bp):
AAAAAAATTAAAAAATAGTTTA
Found at i:85257076 original size:7 final size:7
Alignment explanation
Indices: 85257064--85257088 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
85257054 AATTTATTTT
85257064 AAAAATA
1 AAAAATA
85257071 AAAAATA
1 AAAAATA
85257078 AAAAATA
1 AAAAATA
85257085 AAAA
1 AAAA
85257089 TATTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:85257089 original size:41 final size:40
Alignment explanation
Indices: 85256963--85257089 Score: 107
Period size: 39 Copynumber: 3.1 Consensus size: 40
85256953 AAATTAAAAC
* *** * *
85256963 AAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTA-A
1 AAAAATTAAAAAAGTATTTTAAAAAAAAAATAAAAATAGT
**
85257002 AAAAATTAAAAAAGTATTTTAAAAAAAATTTAAAAATAGTT
1 AAAAATTAAAAAAGTATTTTAAAAAAAAAATAAAAATAG-T
* *
85257043 TAAAATTAAAAAATTTATTTTAAAAATAAAAAATAAAAA-A-T
1 AAAAATTAAAAAA-GTATTTT-AAAA-AAAAAATAAAAATAGT
85257084 AAAAAT
1 AAAAAT
85257090 ATTTATTATT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
39 35 0.47
41 18 0.24
42 6 0.08
43 5 0.07
44 10 0.14
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.32
Consensus pattern (40 bp):
AAAAATTAAAAAAGTATTTTAAAAAAAAAATAAAAATAGT
Found at i:85259741 original size:3 final size:3
Alignment explanation
Indices: 85259733--85259768 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
85259723 AACACACAAT
*
85259733 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
85259769 TCTAAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:85260521 original size:12 final size:12
Alignment explanation
Indices: 85260504--85260528 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85260494 CAAAAGATCT
85260504 ATTCAAGGGTCG
1 ATTCAAGGGTCG
85260516 ATTCAAGGGTCG
1 ATTCAAGGGTCG
85260528 A
1 A
85260529 GTTATCAGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (12 bp):
ATTCAAGGGTCG
Found at i:85260859 original size:27 final size:27
Alignment explanation
Indices: 85260818--85260875 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
85260808 AATAAACACC
* *
85260818 AAAAAATTATTTTAAAA-ATAAAAAATA
1 AAAAAAGTATATTAAAATA-AAAAAATA
*
85260845 AAAAAAGTATATTAACATAAAAAAATA
1 AAAAAAGTATATTAAAATAAAAAAATA
85260872 AAAA
1 AAAA
85260876 TAAAATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (27 bp):
AAAAAAGTATATTAAAATAAAAAAATA
Found at i:85262515 original size:31 final size:31
Alignment explanation
Indices: 85262478--85262539 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
85262468 TTTTTTTGGT
* *
85262478 CTAATTTGGTACCTAAACTTTACAATTTTTC
1 CTAATTTAGTACCTAAACTTGACAATTTTTC
*
85262509 CTAATTTAGTACCTAAACTTGACACTTTTTC
1 CTAATTTAGTACCTAAACTTGACAATTTTTC
85262540 TTAAGTTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (31 bp):
CTAATTTAGTACCTAAACTTGACAATTTTTC
Found at i:85271351 original size:18 final size:18
Alignment explanation
Indices: 85271328--85271420 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
85271318 CCCAACTACT
*
85271328 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
85271346 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
85271364 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
85271382 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
85271400 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
85271418 GTA
1 GTA
85271421 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:85271380 original size:36 final size:36
Alignment explanation
Indices: 85271328--85271420 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
85271318 CCCAACTACT
*
85271328 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
85271364 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
85271400 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
85271421 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:85275869 original size:27 final size:27
Alignment explanation
Indices: 85275815--85275873 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
85275805 GTCGCAATTA
** *
85275815 ATCAAAAGTTATATCTTTTGGTTATTG
1 ATCAAAAGTTATATCACTTGATTATTG
* *
85275842 ATCAAGAGTTATATCACTTGATTTTTG
1 ATCAAAAGTTATATCACTTGATTATTG
85275869 A-CAAA
1 ATCAAA
85275874 GATTTACAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (27 bp):
ATCAAAAGTTATATCACTTGATTATTG
Found at i:85276464 original size:28 final size:27
Alignment explanation
Indices: 85276419--85276495 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 27
85276409 ATTTTTTAAA
85276419 ATTA-AAAAATTAAAAAATATAAAAACT
1 ATTATAAAAATT-AAAAATATAAAAACT
* * *
85276446 ATTTTTAAAAATTAAAAATCATTAAAATT
1 A-TTATAAAAATTAAAAAT-ATAAAAACT
*
85276475 ATTATAAAATTTATAAAATAT
1 ATTATAAAAATTA-AAAATAT
85276496 TTTTTATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
27 1 0.02
28 20 0.49
29 20 0.49
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (27 bp):
ATTATAAAAATTAAAAATATAAAAACT
Found at i:85283468 original size:33 final size:33
Alignment explanation
Indices: 85283431--85283497 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
85283421 TTATACATGG
85283431 ATCATGAAGGGACATTTGGATAATTATTTCCTT
1 ATCATGAAGGGACATTTGGATAATTATTTCCTT
*
85283464 ATCATGAAGGGGCATTTGGATAATTATTTCCTT
1 ATCATGAAGGGACATTTGGATAATTATTTCCTT
85283497 A
1 A
85283498 GTCCCAACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (33 bp):
ATCATGAAGGGACATTTGGATAATTATTTCCTT
Found at i:85284245 original size:32 final size:32
Alignment explanation
Indices: 85284180--85284243 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
85284170 AAAAGCTAAG
* *
85284180 TAAAAAACTATCATAAAAATTCAAGTAAAAAA
1 TAAAAAAATATCATAAAAATTCAAATAAAAAA
* *
85284212 TAAAAAAATATCATAATAAATTTAAATCAAAA
1 TAAAAAAATATCATAA-AAATTCAAATAAAAA
85284244 TATATAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.25
Consensus pattern (32 bp):
TAAAAAAATATCATAAAAATTCAAATAAAAAA
Found at i:85284683 original size:27 final size:27
Alignment explanation
Indices: 85284645--85284706 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
85284635 GAATGCCACG
**
85284645 GGCGGCACCAAAGGTGCCTGTGGCAGA
1 GGCGGCACCAAAGGTGCCTGTACCAGA
*
85284672 GGCGGCACCAAAGGTGCCTTTACCAGA
1 GGCGGCACCAAAGGTGCCTGTACCAGA
85284699 GGCGGCAC
1 GGCGGCAC
85284707 AGGACTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.23, C:0.29, G:0.37, T:0.11
Consensus pattern (27 bp):
GGCGGCACCAAAGGTGCCTGTACCAGA
Found at i:85285123 original size:9 final size:9
Alignment explanation
Indices: 85285106--85285135 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
85285096 AAATGTTATG
*
85285106 TTTAGTAAA
1 TTTACTAAA
85285115 TTTACTAAA
1 TTTACTAAA
85285124 TTTACTAAA
1 TTTACTAAA
85285133 TTT
1 TTT
85285136 TATGTTCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (9 bp):
TTTACTAAA
Found at i:85287841 original size:26 final size:28
Alignment explanation
Indices: 85287772--85287846 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 28
85287762 GATGAAGCAT
* *
85287772 AAATATATTGTATATATTTATATATACA
1 AAATATATTGTATTTATATATATATACA
* *
85287800 TAAATATATTTATATTTATATA-ATTTAC-
1 -AAATATA-TTGTATTTATATATATATACA
85287828 AAATATATTGTATTTATAT
1 AAATATATTGTATTTATAT
85287847 TTTTTCGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 11 0.28
27 7 0.17
29 12 0.30
30 10 0.25
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (28 bp):
AAATATATTGTATTTATATATATATACA
Found at i:85288010 original size:13 final size:14
Alignment explanation
Indices: 85287994--85288022 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
85287984 CAAAATTCAC
85287994 TTATATAT-CATAT
1 TTATATATACATAT
85288007 TTATATATACATAT
1 TTATATATACATAT
85288021 TT
1 TT
85288023 TGTAAACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
TTATATATACATAT
Found at i:85289131 original size:4 final size:4
Alignment explanation
Indices: 85289117--85289154 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
85289107 AAAAAAGGGT
*
85289117 AATA CATA AATA AATA AATA AATA AATGA AAT- AATA AA
1 AATA AATA AATA AATA AATA AATA AAT-A AATA AATA AA
85289155 GATAATAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 3 0.10
4 23 0.77
5 4 0.13
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:85289195 original size:23 final size:22
Alignment explanation
Indices: 85289124--85289199 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
85289114 GGTAATACAT
* *
85289124 AAATAAATAAATAAATAAATG--
1 AAATAAAAAAATAAA-AAAGGCA
* *
85289145 AAATAATAAAGATAATAAAGGCA
1 AAATAA-AAAAATAAAAAAGGCA
85289168 AAATAAAAAAATAAAAAAGCGCA
1 AAATAAAAAAATAAAAAAG-GCA
*
85289191 CAATAAAAA
1 AAATAAAAA
85289200 GGAAATACAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 10 0.23
22 17 0.39
23 17 0.39
ACGTcount: A:0.71, C:0.05, G:0.08, T:0.16
Consensus pattern (22 bp):
AAATAAAAAAATAAAAAAGGCA
Found at i:85289263 original size:20 final size:20
Alignment explanation
Indices: 85289240--85289279 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
85289230 TTTAAAAAAG
*
85289240 TAAAGGAAATAATAAATAAA
1 TAAAGAAAATAATAAATAAA
* *
85289260 TAAATAAAATAATACATAAA
1 TAAAGAAAATAATAAATAAA
85289280 AATAATATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (20 bp):
TAAAGAAAATAATAAATAAA
Found at i:85290617 original size:14 final size:15
Alignment explanation
Indices: 85290582--85290622 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
85290572 ATGGACTGAA
85290582 TTGTTTATTAGACTT
1 TTGTTTATTAGACTT
* *
85290597 TTATTTATTAG-GTT
1 TTGTTTATTAGACTT
85290611 TTGTTTATTAGA
1 TTGTTTATTAGA
85290623 ATGAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.22, C:0.02, G:0.15, T:0.61
Consensus pattern (15 bp):
TTGTTTATTAGACTT
Found at i:85295665 original size:21 final size:21
Alignment explanation
Indices: 85295625--85295665 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
85295615 ATCTCCTCAA
* *
85295625 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
*
85295646 ACTCCACCTGCTGTGTAGTA
1 ACTCCACCTGCTGTGGAGTA
85295666 TTGCTCGTCT
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:0.20, C:0.29, G:0.20, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:85299148 original size:82 final size:83
Alignment explanation
Indices: 85299006--85299162 Score: 262
Period size: 82 Copynumber: 1.9 Consensus size: 83
85298996 TATGATAGTA
* * * *
85299006 AAAATATAATTTTACTATTTTAATAGACTATATCTTTATAAATTTTATAGAATTATATCAAA-TT
1 AAAATATAATTTTACCACTTTAATAGACTATATCTTTATAAATTTTAAAGAATTAAATCAAATTT
85299070 TTATCATTTTGGGAGGCC
66 TTATCATTTTGGGAGGCC
*
85299088 AAAATATAATTTTACCACTTTAATAGCCTATATCTTTATAAATTTTAAAGAATTAAATCAAATTT
1 AAAATATAATTTTACCACTTTAATAGACTATATCTTTATAAATTTTAAAGAATTAAATCAAATTT
85299153 TTATCATTTT
66 TTATCATTTT
85299163 TTGCGGGGTC
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 57 0.83
83 12 0.17
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (83 bp):
AAAATATAATTTTACCACTTTAATAGACTATATCTTTATAAATTTTAAAGAATTAAATCAAATTT
TTATCATTTTGGGAGGCC
Found at i:85301946 original size:22 final size:20
Alignment explanation
Indices: 85301921--85301970 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
85301911 AACAGTAGAG
85301921 AAAAAGGAAGAAAAATAAGAAT
1 AAAAAGGAAG-AAAA-AAGAAT
* *
85301943 AAAACGGAAGAAGAAAGAAT
1 AAAAAGGAAGAAAAAAGAAT
85301963 AAACAAGG
1 AAA-AAGG
85301971 GAATAGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.38
21 6 0.25
22 9 0.38
ACGTcount: A:0.68, C:0.04, G:0.22, T:0.06
Consensus pattern (20 bp):
AAAAAGGAAGAAAAAAGAAT
Found at i:85305292 original size:14 final size:15
Alignment explanation
Indices: 85305257--85305295 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
85305247 ATGAACTGAA
85305257 TTGTTTATTAGACTT
1 TTGTTTATTAGACTT
* *
85305272 TTATTTATTAG-GTT
1 TTGTTTATTAGACTT
85305286 TTGTTTATTA
1 TTGTTTATTA
85305296 TATTATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.21, C:0.03, G:0.13, T:0.64
Consensus pattern (15 bp):
TTGTTTATTAGACTT
Found at i:85310065 original size:13 final size:13
Alignment explanation
Indices: 85310033--85310070 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
85310023 CAGTTAATTG
85310033 AATTAT-TTAATTT
1 AATTATATT-ATTT
85310046 AATTTATATTATTT
1 AA-TTATATTATTT
85310060 AATTATATTAT
1 AATTATATTAT
85310071 ACATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.48
14 10 0.43
15 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTATATTATTT
Found at i:85311877 original size:17 final size:18
Alignment explanation
Indices: 85311843--85311888 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
85311833 CCGTTATGTC
85311843 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
85311858 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
85311875 CGCGACCGCGACCG
1 CGCGACCGCGACCG
85311889 CAATTTAAAT
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
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:85313933 original size:13 final size:13
Alignment explanation
Indices: 85313917--85313955 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
85313907 TAAATTTGTT
85313917 TTAAAAATAAATA
1 TTAAAAATAAATA
** *
85313930 TTAATTATAATTA
1 TTAAAAATAAATA
85313943 TTAAAAATAAATA
1 TTAAAAATAAATA
85313956 AATGAAAAAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAAATAAATA
Found at i:85313998 original size:21 final size:21
Alignment explanation
Indices: 85313974--85314020 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
85313964 AAAAAACATC
*
85313974 AAATCTAAAACTCC-AAACTCA
1 AAAT-TAAAAATCCGAAACTCA
85313995 AAA-TAAAAATCCTGAAACTCA
1 AAATTAAAAATCC-GAAACTCA
85314016 AAATT
1 AAATT
85314021 TAGAACCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 8 0.36
21 13 0.59
22 1 0.05
ACGTcount: A:0.55, C:0.21, G:0.02, T:0.21
Consensus pattern (21 bp):
AAATTAAAAATCCGAAACTCA
Found at i:85315452 original size:24 final size:24
Alignment explanation
Indices: 85315389--85315440 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
85315379 TTTCTAGAAG
* * *
85315389 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGAATTTATTAGAATAATAT
85315413 ATTTAGAATTTATTAGAATAATAT
1 ATTTAGAATTTATTAGAATAATAT
85315437 ATTT
1 ATTT
85315441 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGAATTTATTAGAATAATAT
Found at i:85318230 original size:29 final size:30
Alignment explanation
Indices: 85318180--85318241 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
85318170 CTTGTTGTGT
* *
85318180 CATGTGAAATTGAATGACAAATTATTGTTA
1 CATGTGAAATTGAATGACAAATTACTATTA
**
85318210 CATGTG-AATTGAATGTTAAATTACTATTA
1 CATGTGAAATTGAATGACAAATTACTATTA
85318239 CAT
1 CAT
85318242 TGGTTGTACC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (30 bp):
CATGTGAAATTGAATGACAAATTACTATTA
Found at i:85318548 original size:49 final size:49
Alignment explanation
Indices: 85318474--85318845 Score: 519
Period size: 49 Copynumber: 7.5 Consensus size: 49
85318464 TGAGGTCACG
*
85318474 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCA
* * ** * *
85318523 TTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT-GGTCGCA
*
85318573 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCA
* * ** * *
85318622 TTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT-GGTCGCA
*
85318672 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCA
* * ** * *
85318721 TTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT-GGTCGCA
*
85318771 TGTGTAGTACTAAGTGCAGGCTACCACGTGTATCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCA
85318820 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
85318846 TGCGTACTAG
Statistics
Matches: 277, Mismatches: 43, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
49 151 0.55
50 126 0.45
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCA
Found at i:85318637 original size:99 final size:99
Alignment explanation
Indices: 85318466--85318845 Score: 733
Period size: 99 Copynumber: 3.8 Consensus size: 99
85318456 ATCTATTATG
85318466 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATTTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATTTGTAGT
85318531 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
85318565 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATTTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATTTGTAGT
85318630 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
85318664 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATTTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATTTGTAGT
85318729 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
* * *
85318763 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTATCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATTTGTAGT
85318828 ACTAAGTGCAGGCTACTA
66 ACTAAGTGCAGGCTACTA
85318846 TGCGTACTAG
Statistics
Matches: 278, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 278 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (99 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATTTGTAGT
ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
Found at i:85323320 original size:24 final size:24
Alignment explanation
Indices: 85323257--85323308 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
85323247 TTTCTAGAAG
* * *
85323257 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
85323281 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
85323305 ATTT
1 ATTT
85323309 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:85329936 original size:27 final size:26
Alignment explanation
Indices: 85329892--85329943 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
85329882 CTTGCTGCAA
*
85329892 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
85329919 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
85329944 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:85330011 original size:26 final size:27
Alignment explanation
Indices: 85329982--85330041 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
85329972 CCACATATAT
*
85329982 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
85330008 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
85330035 ATATCTG
1 ATATCTG
85330042 GCAGTTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:85333643 original size:13 final size:13
Alignment explanation
Indices: 85333625--85333653 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
85333615 GGTTGTTTAT
85333625 TAAACTAATTAAC
1 TAAACTAATTAAC
85333638 TAAACTAATTAAC
1 TAAACTAATTAAC
85333651 TAA
1 TAA
85333654 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:85334789 original size:21 final size:22
Alignment explanation
Indices: 85334765--85334805 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
85334755 CTGGATTAAG
*
85334765 AGTACTAAA-ATCCACAAATCT
1 AGTAATAAACATCCACAAATCT
*
85334786 AGTAATAAACATCCATAAAT
1 AGTAATAAACATCCACAAAT
85334806 ATGCTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.51, C:0.20, G:0.05, T:0.24
Consensus pattern (22 bp):
AGTAATAAACATCCACAAATCT
Found at i:85336290 original size:44 final size:44
Alignment explanation
Indices: 85336227--85336310 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
85336217 TGCCCTCAAT
85336227 GTACAAAGATAGAATATTCAAAATAAAGAAAATCATAAGAGGGA
1 GTACAAAGATAGAATATTCAAAATAAAGAAAATCATAAGAGGGA
*
85336271 GTACAAAGATAGAATATTCAATATAAAGAAAATCATAAGA
1 GTACAAAGATAGAATATTCAAAATAAAGAAAATCATAAGA
85336311 AGATAAGAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.20
Consensus pattern (44 bp):
GTACAAAGATAGAATATTCAAAATAAAGAAAATCATAAGAGGGA
Found at i:85336651 original size:6 final size:6
Alignment explanation
Indices: 85336642--85336674 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
85336632 AATTAAATTG
85336642 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
85336675 GATAGGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:85342134 original size:13 final size:13
Alignment explanation
Indices: 85342116--85342144 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
85342106 GGTTGTTTAT
85342116 TAAACTAATTAAC
1 TAAACTAATTAAC
85342129 TAAACTAATTAAC
1 TAAACTAATTAAC
85342142 TAA
1 TAA
85342145 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:85348120 original size:47 final size:46
Alignment explanation
Indices: 85348049--85348178 Score: 161
Period size: 47 Copynumber: 2.8 Consensus size: 46
85348039 GTGTGAATAA
* *
85348049 TACCTTGATTTGGCTACGGTCCATGGTATAGGTATTCAGAGAGGAGT
1 TACCTTGATTTGGCTACGG-CCATGGTATAGGTACTCAGAGAGAAGT
* * * *
85348096 TACCTTGATTTGACTACAGGCCATGGTATAAGTACTCCGAGATAAGT
1 TACCTTGATTTGGCTAC-GGCCATGGTATAGGTACTCAGAGAGAAGT
**
85348143 TACCTTGATTTGGCTACGGGTGATGGTATAGGTACT
1 TACCTTGATTTGGCTAC-GGCCATGGTATAGGTACT
85348179 TATCGATTGT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 69 0.97
48 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (46 bp):
TACCTTGATTTGGCTACGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:85355351 original size:16 final size:16
Alignment explanation
Indices: 85355330--85355360 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
85355320 TCACATTAAA
85355330 GTGTTTTTCGAAAACC
1 GTGTTTTTCGAAAACC
85355346 GTGTTTTTCGAAAAC
1 GTGTTTTTCGAAAAC
85355361 TATGTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (16 bp):
GTGTTTTTCGAAAACC
Found at i:85355369 original size:15 final size:16
Alignment explanation
Indices: 85355331--85355368 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
85355321 CACATTAAAG
*
85355331 TGTTTTTCGAAAACCG
1 TGTTTTTCGAAAACCA
*
85355347 TGTTTTTCGAAAACTA
1 TGTTTTTCGAAAACCA
85355363 TGTTTT
1 TGTTTT
85355369 CATTGAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (16 bp):
TGTTTTTCGAAAACCA
Found at i:85356115 original size:60 final size:60
Alignment explanation
Indices: 85356042--85356176 Score: 166
Period size: 60 Copynumber: 2.2 Consensus size: 60
85356032 AGAGTTAACT
* * *
85356042 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATCAGAGTATATTG
1 GGCC-TAGCCCATATCAATATCAATCTAGGCCATAGCCCTATTACAAGT-TCAGA-TATATTG
* * *
85356103 GGCCTAGCCCATATCAGTATCAATCTAGGCCGTAGCCCTATTACAAGTTGAGATATATTG
1 GGCCTAGCCCATATCAATATCAATCTAGGCCATAGCCCTATTACAAGTTCAGATATATTG
*
85356163 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
85356177 TAACACAGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
60 50 0.77
61 12 0.18
62 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATATCAATCTAGGCCATAGCCCTATTACAAGTTCAGATATATTG
Found at i:85356194 original size:20 final size:20
Alignment explanation
Indices: 85356169--85356214 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
85356159 ATTGGGCCTT
85356169 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
85356189 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
85356208 GCCCATA
1 GCCCATA
85356215 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:85356223 original size:19 final size:20
Alignment explanation
Indices: 85356181--85356224 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
85356171 CCATATTAAC
** *
85356181 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
85356201 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
85356220 ACAGT
1 ACAGT
85356225 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:85360049 original size:34 final size:34
Alignment explanation
Indices: 85360006--85360073 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
85359996 AGGTGATAAG
85360006 GCATTCCTGAAGGTTCCTCTATGGAAAAAGATCT
1 GCATTCCTGAAGGTTCCTCTATGGAAAAAGATCT
85360040 GCATTCCTGAAGGTTCCTCTATGGAAAAAGATCT
1 GCATTCCTGAAGGTTCCTCTATGGAAAAAGATCT
85360074 AGTGCTTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (34 bp):
GCATTCCTGAAGGTTCCTCTATGGAAAAAGATCT
Done.