Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 103 of 147
Found at i:18928473 original size:10 final size:10
Alignment explanation
Indices: 18928458--18928491 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
18928448 TGGGTTCTGG
18928458 TTTTTCTTTC
1 TTTTTCTTTC
*
18928468 TTTTTCTTAC
1 TTTTTCTTTC
18928478 TTTTTCTTT-
1 TTTTTCTTTC
18928487 TTTTT
1 TTTTT
18928492 GGCTGCTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:18929699 original size:27 final size:27
Alignment explanation
Indices: 18929636--18929759 Score: 110
Period size: 28 Copynumber: 4.6 Consensus size: 27
18929626 TAAGTTTAGA
* * *
18929636 TTTAAGGTTTCAACCTTAGGGGTTCTAA-
1 TTTAGGGTTTCAA-TTTA-GGGTTTTAAC
*
18929664 TTTAGGGTTTCAATTT-GGGGTTTATAC
1 TTTAGGGTTTCAATTTAGGGTTTTA-AC
* * *
18929691 CTTAGGGTTT-TATTTAGGGTTTTGAC
1 TTTAGGGTTTCAATTTAGGGTTTTAAC
* *
18929717 TTTAGGGATTTCAATTTAAGGTTTTAAT
1 TTTAGGG-TTTCAATTTAGGGTTTTAAC
18929745 TTTAGGGTTTCAATT
1 TTTAGGGTTTCAATT
18929760 CAATTAAGGA
Statistics
Matches: 78, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
25 6 0.08
26 13 0.17
27 28 0.36
28 31 0.40
ACGTcount: A:0.22, C:0.08, G:0.23, T:0.48
Consensus pattern (27 bp):
TTTAGGGTTTCAATTTAGGGTTTTAAC
Found at i:18929759 original size:14 final size:13
Alignment explanation
Indices: 18929635--18929759 Score: 83
Period size: 14 Copynumber: 9.2 Consensus size: 13
18929625 GTAAGTTTAG
*
18929635 ATTTAAGGTTTCA
1 ATTTAGGGTTTCA
* *
18929648 ACCTTAGGGGTTCTA
1 A-TTTAGGGTTTC-A
18929663 ATTTAGGGTTTCA
1 ATTTAGGGTTTCA
*
18929676 ATTTGGGGTTT-A
1 ATTTAGGGTTTCA
* *
18929688 TACCTTAGGGTTT-T
1 -A-TTTAGGGTTTCA
*
18929702 ATTTAGGGTTTTGA
1 ATTTAGGG-TTTCA
*
18929716 CTTTAGGGATTTCA
1 ATTTAGGG-TTTCA
* *
18929730 ATTTAAGGTTTTA
1 ATTTAGGGTTTCA
18929743 ATTTTAGGGTTTCA
1 A-TTTAGGGTTTCA
18929757 ATT
1 ATT
18929760 CAATTAAGGA
Statistics
Matches: 86, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
12 7 0.08
13 24 0.28
14 53 0.62
15 2 0.02
ACGTcount: A:0.22, C:0.08, G:0.22, T:0.47
Consensus pattern (13 bp):
ATTTAGGGTTTCA
Found at i:18929853 original size:14 final size:13
Alignment explanation
Indices: 18929832--18929897 Score: 96
Period size: 13 Copynumber: 4.9 Consensus size: 13
18929822 AATCAAACAC
18929832 AATTTAGGGTTTT
1 AATTTAGGGTTTT
*
18929845 AATTTTAGGGTTTC
1 AA-TTTAGGGTTTT
18929859 AATTTAGGGTTTT
1 AATTTAGGGTTTT
*
18929872 AATTTAGGATTTT
1 AATTTAGGGTTTT
18929885 AATCTTAGGGTTT
1 AAT-TTAGGGTTT
18929898 CGGTTTAGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
13 27 0.57
14 20 0.43
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.52
Consensus pattern (13 bp):
AATTTAGGGTTTT
Found at i:18929862 original size:27 final size:26
Alignment explanation
Indices: 18929831--18929897 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 26
18929821 AAATCAAACA
*
18929831 CAATTTAGGGTTTTAATTTTAGGGTTT
1 CAATTTAGGGTTTTAA-TTTAGGATTT
18929858 CAATTTAGGGTTTTAATTTAGGATTT
1 CAATTTAGGGTTTTAATTTAGGATTT
*
18929884 TAATCTTAGGGTTT
1 CAAT-TTAGGGTTT
18929898 CGGTTTAGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 12 0.32
27 25 0.68
ACGTcount: A:0.24, C:0.04, G:0.21, T:0.51
Consensus pattern (26 bp):
CAATTTAGGGTTTTAATTTAGGATTT
Found at i:18929864 original size:13 final size:13
Alignment explanation
Indices: 18929831--18929910 Score: 88
Period size: 13 Copynumber: 6.0 Consensus size: 13
18929821 AAATCAAACA
18929831 CAATTTAGGGTTT
1 CAATTTAGGGTTT
*
18929844 TAATTTTAGGGTTT
1 CAA-TTTAGGGTTT
18929858 CAATTTAGGGTTT
1 CAATTTAGGGTTT
* *
18929871 TAATTTAGGATTT
1 CAATTTAGGGTTT
*
18929884 TAATCTTAGGGTTT
1 CAAT-TTAGGGTTT
**
18929898 CGGTTTAGGGTTT
1 CAATTTAGGGTTT
18929911 GTTAGCTTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
13 36 0.63
14 21 0.37
ACGTcount: A:0.21, C:0.05, G:0.24, T:0.50
Consensus pattern (13 bp):
CAATTTAGGGTTT
Found at i:18929876 original size:40 final size:40
Alignment explanation
Indices: 18929832--18929910 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
18929822 AATCAAACAC
* *
18929832 AATTTAGGGTTTTAATTTTAGGGTTTCAATTTAGGGTTTT
1 AATTTAGGATTTTAATCTTAGGGTTTCAATTTAGGGTTTT
**
18929872 AATTTAGGATTTTAATCTTAGGGTTTCGGTTTAGGGTTT
1 AATTTAGGATTTTAATCTTAGGGTTTCAATTTAGGGTTT
18929911 GTTAGCTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.22, C:0.04, G:0.24, T:0.51
Consensus pattern (40 bp):
AATTTAGGATTTTAATCTTAGGGTTTCAATTTAGGGTTTT
Found at i:18931885 original size:3 final size:3
Alignment explanation
Indices: 18931868--18931909 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
18931858 AAACAAATTT
18931868 TTA TT- TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18931910 GTAAAACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18932680 original size:18 final size:18
Alignment explanation
Indices: 18932637--18932682 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
18932627 CGTAAGCTTC
**
18932637 TTTCTTTTCTTTTCTCTT
1 TTTCTTTTCTTTTCTCAG
* *
18932655 TTTTTTTTTTTTTCTCAG
1 TTTCTTTTCTTTTCTCAG
18932673 TTTCTTTTCT
1 TTTCTTTTCT
18932683 GCTAAGTGCC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTCTTTTCTTTTCTCAG
Found at i:18938388 original size:13 final size:13
Alignment explanation
Indices: 18938376--18938432 Score: 71
Period size: 13 Copynumber: 4.5 Consensus size: 13
18938366 TAGGGTTTAG
* *
18938376 GGTTTAAGATTAG
1 GGTTTAAGCTTAC
18938389 GGTTTAAGCTTAC
1 GGTTTAAGCTTAC
* *
18938402 GGTTTAGGTTTA-
1 GGTTTAAGCTTAC
18938414 GGTTTAAGCTTAC
1 GGTTTAAGCTTAC
18938427 GGTTTA
1 GGTTTA
18938433 GGGTTTAGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
12 10 0.27
13 27 0.73
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (13 bp):
GGTTTAAGCTTAC
Found at i:18938413 original size:6 final size:6
Alignment explanation
Indices: 18938344--18938440 Score: 50
Period size: 6 Copynumber: 15.2 Consensus size: 6
18938334 GTTTAGAATT
* * ** * *
18938344 GGTTTA GGGTTA GGGTTA GAATTA GGGTTTA GGGTTTA AGATTA GGGTTTA
1 GGTTTA GGTTTA GGTTTA GGTTTA -GGTTTA -GGTTTA GGTTTA -GGTTTA
* * * *
18938395 AGCTTA CGGTTTA GGTTTA GGTTTA AGCTTA CGGTTTA GGGTTTA G
1 GGTTTA -GGTTTA GGTTTA GGTTTA GGTTTA -GGTTTA -GGTTTA G
18938441 AGTTAGGCTT
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
6 40 0.58
7 29 0.42
ACGTcount: A:0.22, C:0.04, G:0.34, T:0.40
Consensus pattern (6 bp):
GGTTTA
Found at i:18938423 original size:25 final size:26
Alignment explanation
Indices: 18938389--18938440 Score: 97
Period size: 25 Copynumber: 2.0 Consensus size: 26
18938379 TTAAGATTAG
18938389 GGTTTAAGCTTACGGTTTA-GGTTTA
1 GGTTTAAGCTTACGGTTTAGGGTTTA
18938414 GGTTTAAGCTTACGGTTTAGGGTTTA
1 GGTTTAAGCTTACGGTTTAGGGTTTA
18938440 G
1 G
18938441 AGTTAGGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (26 bp):
GGTTTAAGCTTACGGTTTAGGGTTTA
Found at i:18938467 original size:21 final size:21
Alignment explanation
Indices: 18938443--18938482 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18938433 GGGTTTAGAG
18938443 TTAGGCTTTAAAATTTGGGTT
1 TTAGGCTTTAAAATTTGGGTT
* * *
18938464 TTAGGGTTTCAAGTTTGGG
1 TTAGGCTTTAAAATTTGGG
18938483 ATTTCAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (21 bp):
TTAGGCTTTAAAATTTGGGTT
Found at i:18939172 original size:23 final size:22
Alignment explanation
Indices: 18939129--18939172 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
18939119 TCATTTATCA
*
18939129 ATCATGAACCAAACAAGAGATG
1 ATCATGAACCAAACAAAAGATG
* *
18939151 ATCATCGAGCCAAGCAAAAGAT
1 ATCAT-GAACCAAACAAAAGAT
18939173 TCGGCTAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.14
Consensus pattern (22 bp):
ATCATGAACCAAACAAAAGATG
Found at i:18954209 original size:46 final size:45
Alignment explanation
Indices: 18954154--18954290 Score: 127
Period size: 46 Copynumber: 3.0 Consensus size: 45
18954144 GGGCTTCTAT
18954154 GACATCAAACTTTAAAAATATTTCTAGAAAAGGCTCCTATAAAATA
1 GACATCAAACTTTAAAAATATTT-TAGAAAAGGCTCCTATAAAATA
* *
18954200 -AGCATCAAACTTTAAAAA-ATCTGTTTG-AAAGAGCTCCTACAAAATA
1 GA-CATCAAACTTTAAAAATAT-T-TTAGAAAAG-GCTCCTATAAAATA
* * * * * *
18954246 GACATCAAATTTTACAAATCTATATGGAAATGGCTCCTATAAAAT
1 GACATCAAACTTTAAAAATAT-TTTAGAAAAGGCTCCTATAAAAT
18954291 TGATAAGGGA
Statistics
Matches: 74, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
45 7 0.09
46 60 0.81
47 7 0.09
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.28
Consensus pattern (45 bp):
GACATCAAACTTTAAAAATATTTTAGAAAAGGCTCCTATAAAATA
Found at i:18955372 original size:10 final size:10
Alignment explanation
Indices: 18955359--18955392 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
18955349 AAGAAATTTA
18955359 AAGAAAACCT
1 AAGAAAACCT
*
18955369 AAGAAACAACT
1 AAGAAA-ACCT
18955380 AAGAAAACCT
1 AAGAAAACCT
18955390 AAG
1 AAG
18955393 CCTATGACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.62, C:0.18, G:0.12, T:0.09
Consensus pattern (10 bp):
AAGAAAACCT
Found at i:18956409 original size:18 final size:18
Alignment explanation
Indices: 18956352--18956445 Score: 61
Period size: 18 Copynumber: 5.0 Consensus size: 18
18956342 TGAATTACTA
*
18956352 AATAAAATAAA-AAAAACC
1 AATAAAATAAATAAAAA-T
*
18956370 AGTAAAATAAA-ACAAAAT
1 AATAAAATAAATA-AAAAT
*
18956388 AATAATAAAAAAATTAAAAAT
1 AAT-A-AAATAAA-TAAAAAT
18956409 -ATGAAAATAAATAAAAATT
1 AAT-AAAATAAATAAAAA-T
18956428 AA-AAAATAAAATAAAAAT
1 AATAAAAT-AAATAAAAAT
18956446 GAAAAAGGGA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
18 25 0.40
19 21 0.34
20 10 0.16
21 5 0.08
22 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (18 bp):
AATAAAATAAATAAAAAT
Found at i:18956417 original size:26 final size:23
Alignment explanation
Indices: 18956388--18956444 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 23
18956378 AAAACAAAAT
18956388 AATAATAAAAAAATTAAAAATATGAA
1 AATAA-AAAAAAATTAAAAA-AT-AA
*
18956414 AATAAATAAAAATTAAAAAATAA
1 AATAAAAAAAAATTAAAAAATAA
18956437 AATAAAAA
1 AATAAAAA
18956445 TGAAAAAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 9 0.31
24 2 0.07
25 13 0.45
26 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (23 bp):
AATAAAAAAAAATTAAAAAATAA
Found at i:18956425 original size:19 final size:18
Alignment explanation
Indices: 18956373--18956444 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 18
18956363 AAAAACCAGT
*
18956373 AAAATAAAACAAAATAATAA
1 AAAAT-AAATAAAA-AATAA
* *
18956393 TAAAA-AAATTAAAAATATG
1 -AAAATAAATAAAAAATA-A
*
18956412 AAAATAAATAAAAATTAA
1 AAAATAAATAAAAAATAA
18956430 AAAATAAAATAAAAA
1 AAAAT-AAATAAAAA
18956445 TGAAAAAGGG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 13 0.31
19 25 0.60
21 4 0.10
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.19
Consensus pattern (18 bp):
AAAATAAATAAAAAATAA
Found at i:18956445 original size:19 final size:19
Alignment explanation
Indices: 18956373--18956451 Score: 65
Period size: 18 Copynumber: 4.2 Consensus size: 19
18956363 AAAAACCAGT
* *
18956373 AAAATAAAACAAAATAATAA
1 AAAATAAAATAAAA-ATTAA
* *
18956393 TAAAA-AAATTAAAAA-TATG
1 -AAAATAAAATAAAAATTA-A
18956412 AAAAT-AAATAAAAATTAA
1 AAAATAAAATAAAAATTAA
*
18956430 AAAATAAAATAAAAATGAA
1 AAAATAAAATAAAAATTAA
18956449 AAA
1 AAA
18956452 GGGAAACCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
18 19 0.40
19 18 0.38
20 7 0.15
21 4 0.08
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (19 bp):
AAAATAAAATAAAAATTAA
Found at i:18956450 original size:18 final size:18
Alignment explanation
Indices: 18956412--18956451 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
18956402 TAAAAATATG
18956412 AAAATAAATAAAAATTAA
1 AAAATAAATAAAAATTAA
*
18956430 AAAATAAAATAAAAATGAA
1 AAAAT-AAATAAAAATTAA
18956449 AAA
1 AAA
18956452 GGGAAACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAATAAATAAAAATTAA
Found at i:18957309 original size:3 final size:3
Alignment explanation
Indices: 18957301--18957438 Score: 113
Period size: 3 Copynumber: 45.7 Consensus size: 3
18957291 AAGAAAATTG
18957301 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AACT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
* * * *
18957345 AAT AAT ATAT AAT ACT -AT ACT -AT AAT ACT AAGCT ATAT TAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA--T A-AT AAT AAT AAT
* * * * * *
18957392 AAT AAC AAC AAC AAC AAT AAT AAT AAT AAT AAT GAT AAT AAT GAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18957439 GCATATTATA
Statistics
Matches: 112, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
2 5 0.04
3 100 0.89
4 4 0.04
5 2 0.02
6 1 0.01
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18958515 original size:120 final size:119
Alignment explanation
Indices: 18958071--18958686 Score: 404
Period size: 120 Copynumber: 5.2 Consensus size: 119
18958061 AGTCAAGAGG
* * * * * * ** * ***
18958071 TGATCTAAATTGAGCCAAAATCAAGTGATCAGGATGAAACCACGAGTCAAAATGAAACAACCAAG
1 TGATCCAAACTGAGCCAAGATCGAGTGACCAAGACAAAACCATGAGTCAAAATGAAGTGACCAAG
* ** * * * * * * * * *
18958136 ACCGAGTCAAGGTCGAAGATAAACGACCAAAATGAAACCATAAATCATATGAAA
66 ACCAAGTCAAGGTAAAAAATAAATGATCGAGATAAAACCATGAGTCATAAGAAA
* * * * ** * * *
18958190 TAATCTAGATTGAGCCAAGATTAAGTGACCGAGACAAAACCATGAATCAAAATGAAGTGACCAAA
1 TGATCCAAACTGAGCCAAGATCGAGTGACCAAGACAAAACCATGAGTCAAAATGAAGTGACCAAG
* * * * *
18958255 ACTAAGTCGAGGTAAAAAATAAATGATCGAGATGAAACCATAAGTCATAAAAAAA
66 ACCAAGTCAAGGTAAAAAATAAATGATCGAGATAAAACCATGAGTCAT-AAGAAA
* * * * * * * * * **
18958310 TGATCTAAACTAAGCTAAGATCGAGTGACTAGGACGAAACTATAAGTCAAAAAATAAAGCAACCA
1 TGATCCAAACTGAGCCAAGATCGAGTGACCAAGACAAAACCATGAGTC--AAAATGAAGTGACCA
* * ** * *
18958375 GGATCGTGTCAAGGTCAAAAATAAATGATCGAGACAAAACCATGAGTCATAA-AAA
64 AGACCAAGTCAAGGTAAAAAATAAATGATCGAGATAAAACCATGAGTCATAAGAAA
* * *
18958430 TGATCCAGACTGAGCCAAGATCGAGTGACTAAGATAAAACCATGAGTCAAAAAATGAAGTGACCA
1 TGATCCAAACTGAGCCAAGATCGAGTGACCAAGACAAAACCATGAGTC--AAAATGAAGTGACCA
* * *
18958495 AGACCAAGTCGAGGTAAAAAATAAATGAT-TAGGAT--GA--A--A-TCATAAGAAA
64 AGACCAAGTCAAGGTAAAAAATAAATGATCGA-GATAAAACCATGAGTCATAAGAAA
* * * ** ** *
18958544 TGATCCAAATTGAGCCAAGATCTAGTAACCGGGATGAAACCATGAGTCAAAATGAAGTGACTAAG
1 TGATCCAAACTGAGCCAAGATCGAGTGACCAAGACAAAACCATGAGTCAAAATGAAGTGACCAAG
* * * * * *
18958609 ATCGAGTCAAGGTCAAAAATAAATGACCGAGATGAAACCATGAGTTATAAGAAA
66 ACCAAGTCAAGGTAAAAAATAAATGATCGAGATAAAACCATGAGTCATAAGAAA
* ***
18958663 TAATCTGGACTGAGCCAAGATCGA
1 TGATCCAAACTGAGCCAAGATCGA
18958687 AATGAGTGAT
Statistics
Matches: 384, Mismatches: 100, Indels: 26
0.75 0.20 0.05
Matches are distributed among these distances:
112 41 0.11
113 7 0.02
114 45 0.12
116 2 0.01
118 2 0.01
119 115 0.30
120 119 0.31
121 2 0.01
122 51 0.13
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (119 bp):
TGATCCAAACTGAGCCAAGATCGAGTGACCAAGACAAAACCATGAGTCAAAATGAAGTGACCAAG
ACCAAGTCAAGGTAAAAAATAAATGATCGAGATAAAACCATGAGTCATAAGAAA
Found at i:18958584 original size:114 final size:111
Alignment explanation
Indices: 18958421--18958634 Score: 284
Period size: 114 Copynumber: 1.9 Consensus size: 111
18958411 AAACCATGAG
* * *
18958421 TCATAAAAATGATCCAGACTGAGCCAAGATCGAGTGACTAAGATAAAACCATGAGTCAAAAAATG
1 TCATAAAAATGATCCAAACTGAGCCAAGATCGAGTAACCAAGATAAAACCATGAGTC--AAAATG
*
18958486 AAGTGACCAAGACCAAGTCGAGGTAAAAAATAAATGATTAGGATGAAA
64 AAGTGACCAAGACCAAGTCAAGGTAAAAAATAAATGATTAGGATGAAA
* * ** *
18958534 TCATAAGAAATGATCCAAATTGAGCCAAGATCTAGTAACCGGGATGAAACCATGAGTCAAAATGA
1 TCATAA-AAATGATCCAAACTGAGCCAAGATCGAGTAACCAAGATAAAACCATGAGTCAAAATGA
* * * *
18958599 AGTGACTAAGATCGAGTCAAGGTCAAAAATAAATGA
65 AGTGACCAAGACCAAGTCAAGGTAAAAAATAAATGA
18958635 CCGAGATGAA
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
112 38 0.44
113 6 0.07
114 43 0.49
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (111 bp):
TCATAAAAATGATCCAAACTGAGCCAAGATCGAGTAACCAAGATAAAACCATGAGTCAAAATGAA
GTGACCAAGACCAAGTCAAGGTAAAAAATAAATGATTAGGATGAAA
Found at i:18963630 original size:16 final size:17
Alignment explanation
Indices: 18963599--18963673 Score: 56
Period size: 16 Copynumber: 4.7 Consensus size: 17
18963589 AAACCAGAAC
18963599 AATAATAATGAATTAAA
1 AATAATAATGAATTAAA
*
18963616 AATAA-AATGAGTTAAA
1 AATAATAATGAATTAAA
18963632 AA-AAGTAA--AA-TAAA
1 AATAA-TAATGAATTAAA
*
18963646 AAAAATAA--AATTAGAA
1 AATAATAATGAATTA-AA
*
18963662 AATAAAAATGAA
1 AATAATAATGAA
18963674 ATGGAAAAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
14 11 0.23
15 7 0.15
16 20 0.43
17 7 0.15
18 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (17 bp):
AATAATAATGAATTAAA
Found at i:18964573 original size:3 final size:3
Alignment explanation
Indices: 18964565--18964733 Score: 138
Period size: 3 Copynumber: 57.7 Consensus size: 3
18964555 AAGAAAAGAA
* *
18964565 AAT AAT AAT AA- CAT AAT AAT AAT AAT AA- CAT AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
18964610 AAG AAT AAT AAT AAT -AT GAT AAT AAC AAT AAT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
18964656 AAT AAT AAT AAT -AT AAT AAT AGT -AT ACCAT AAT ATT ATAT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT A-AT AAT AAT
* * * *
18964702 ATAT ACT -AT AAT AAT AAC AAA AAT ACT AAT AA
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18964734 CAAAAGGAAT
Statistics
Matches: 132, Mismatches: 22, Indels: 24
0.74 0.12 0.13
Matches are distributed among these distances:
2 12 0.09
3 113 0.86
4 4 0.03
5 3 0.02
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18964584 original size:14 final size:13
Alignment explanation
Indices: 18964565--18964676 Score: 115
Period size: 14 Copynumber: 8.5 Consensus size: 13
18964555 AAGAAAAGAA
18964565 AATAATAATAACAT
1 AATAATAATAA-AT
18964579 AATAATAAT-AAT
1 AATAATAATAAAT
*
18964591 AA-CATAATAATAT
1 AATAATAATAA-AT
*
18964604 AATAATAA-GAAT
1 AATAATAATAAAT
*
18964616 AATAATAATATGAT
1 AATAATAATA-AAT
*
18964630 AATAACAAT-AAT
1 AATAATAATAAAT
18964642 AATAATAATAATAT
1 AATAATAATAA-AT
18964656 AATAATAATAATAT
1 AATAATAATAA-AT
18964670 AATAATA
1 AATAATA
18964677 GTATACCATA
Statistics
Matches: 83, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
11 5 0.06
12 25 0.30
13 7 0.08
14 46 0.55
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:18964587 original size:17 final size:16
Alignment explanation
Indices: 18964565--18964676 Score: 126
Period size: 17 Copynumber: 7.1 Consensus size: 16
18964555 AAGAAAAGAA
18964565 AATAATAATAACATAAT
1 AATAATAATAA-ATAAT
18964582 AATAATAATAACATAAT
1 AATAATAATAA-ATAAT
*
18964599 AAT-ATAAT-AATAAG
1 AATAATAATAAATAAT
18964613 AATAATAAT-AAT-AT
1 AATAATAATAAATAAT
* *
18964627 GATAATAA-CAATAAT
1 AATAATAATAAATAAT
18964642 AATAATAATAATATAAT
1 AATAATAATAA-ATAAT
18964659 AATAATAATATAATAAT
1 AATAATAATA-AATAAT
18964676 A
1 A
18964677 GTATACCATA
Statistics
Matches: 84, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
14 18 0.21
15 18 0.21
16 6 0.07
17 41 0.49
18 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:18964689 original size:13 final size:12
Alignment explanation
Indices: 18964671--18964714 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
18964661 TAATAATATA
*
18964671 ATAATAGTATACC
1 ATAATA-TATACT
*
18964684 ATAATATTATATT
1 ATAATA-TATACT
18964697 ATAATATATACT
1 ATAATATATACT
18964709 ATAATA
1 ATAATA
18964715 ATAACAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (12 bp):
ATAATATATACT
Found at i:18968386 original size:35 final size:36
Alignment explanation
Indices: 18968339--18968426 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 36
18968329 CTTACATCCG
* * * * *
18968339 ACCATCATCATTACCCTTTCTACCAATC-TTACCCTT
1 ACCACCATCATTACCCTCTCCACC-AGCATTAACCTT
18968375 ACCA-CATCATTACCCTCTCCACCAGCATTAACCTT
1 ACCACCATCATTACCCTCTCCACCAGCATTAACCTT
18968410 ACCACCAT-ATTACCCTC
1 ACCACCATCATTACCCTC
18968427 ATCATCAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
34 2 0.04
35 37 0.80
36 7 0.15
ACGTcount: A:0.27, C:0.42, G:0.01, T:0.30
Consensus pattern (36 bp):
ACCACCATCATTACCCTCTCCACCAGCATTAACCTT
Found at i:18968414 original size:18 final size:18
Alignment explanation
Indices: 18968371--18968416 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
18968361 CCAATCTTAC
* *
18968371 CCTTACCA-CATCATTAC
1 CCTTACCACCAGCATTAA
18968388 CCTCT-CCACCAGCATTAA
1 CCT-TACCACCAGCATTAA
18968406 CCTTACCACCA
1 CCTTACCACCA
18968417 TATTACCCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.28, C:0.46, G:0.02, T:0.24
Consensus pattern (18 bp):
CCTTACCACCAGCATTAA
Found at i:18970877 original size:19 final size:19
Alignment explanation
Indices: 18970824--18970877 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
18970814 CAACCTGATA
*
18970824 TTTATATAAATATTAATTTT
1 TTTATATATAT-TTAATTTT
* * *
18970844 TTAATTATTTGTTTAATTTT
1 TTTA-TATATATTTAATTTT
18970864 TTTATATATATTTA
1 TTTATATATATTTA
18970878 TATAATTATA
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
19 8 0.31
20 14 0.54
21 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTATATATATTTAATTTT
Found at i:18970881 original size:8 final size:8
Alignment explanation
Indices: 18970868--18970904 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
18970858 AATTTTTTTA
18970868 TATATATT
1 TATATATT
*
18970876 TATATAAT
1 TATATATT
18970884 TATATATT
1 TATATATT
*
18970892 TAAATATT
1 TATATATT
18970900 TATAT
1 TATAT
18970905 TTAAAACATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATATATT
Found at i:18970883 original size:23 final size:21
Alignment explanation
Indices: 18970840--18970904 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 21
18970830 TAAATATTAA
* *
18970840 TTTTTTAATTATTTGTTTAAT
1 TTTTTTAATTATTTATATAAT
18970861 TTTTTTATATATATTTATATAAT
1 TTTTTTA-AT-TATTTATATAAT
*
18970884 TATATATTTAAATATTTATAT
1 T-T-T-TTTAATTATTTATAT
18970905 TTAAAACATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
21 7 0.19
22 2 0.06
23 11 0.31
24 10 0.28
25 2 0.06
26 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTTAATTATTTATATAAT
Found at i:18970908 original size:14 final size:16
Alignment explanation
Indices: 18970868--18970909 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
18970858 AATTTTTTTA
*
18970868 TATATATTTATATAAT
1 TATATATTTAAATAAT
18970884 TATATATTTAAAT-AT
1 TATATATTTAAATAAT
18970899 T-TATATTTAAA
1 TATATATTTAAA
18970910 ACATAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 12 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:18970924 original size:21 final size:22
Alignment explanation
Indices: 18970894--18970945 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
18970884 TATATATTTA
*
18970894 AATA-TTTATA-TTTAAAACAT
1 AATATTTTATATTTTAAAAAAT
18970914 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
18970936 AATATTTTAT
1 AATATTTTAT
18970946 TAATTTTGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 19 0.66
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:18972611 original size:26 final size:26
Alignment explanation
Indices: 18972572--18972623 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18972562 ATAAATTAAT
*
18972572 AATTACAAAATTCTTATTAATTATTA
1 AATTACAAAATTCTTATTAATAATTA
* * *
18972598 AATTTCAAATTTCTTGTTAATAATTA
1 AATTACAAAATTCTTATTAATAATTA
18972624 TAAAAGTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (26 bp):
AATTACAAAATTCTTATTAATAATTA
Found at i:18973499 original size:21 final size:22
Alignment explanation
Indices: 18973466--18973510 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
18973456 TATTATAAAA
*
18973466 TTATTTTTATAATGAA-TTATT
1 TTATTTTTATAATAAATTTATT
18973487 TTATTGTTT-TAATAAATTTATT
1 TTATT-TTTATAATAAATTTATT
18973509 TT
1 TT
18973511 GTAACTCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (22 bp):
TTATTTTTATAATAAATTTATT
Found at i:18974477 original size:26 final size:26
Alignment explanation
Indices: 18974420--18974478 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
18974410 TAATGAAGAC
* *
18974420 CTAAAATAGAAGTCAACAATAAAAAT
1 CTAAAATAAAAGTCAACAATAAAAAG
* *
18974446 CTAAAATAAAAGTTAACAAT-GAAAG
1 CTAAAATAAAAGTCAACAATAAAAAG
18974471 CTGAAAAT
1 CT-AAAAT
18974479 TTTATTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (26 bp):
CTAAAATAAAAGTCAACAATAAAAAG
Found at i:18982544 original size:32 final size:32
Alignment explanation
Indices: 18982477--18982592 Score: 126
Period size: 32 Copynumber: 3.6 Consensus size: 32
18982467 TAGCCCTCTG
* *
18982477 TTTAGAAGAGTCATTCAAACTTTATGGTCTTTA
1 TTTAGAAGAATCATTCAAACTTCATGG-CTTTA
*
18982510 TTTAGAAGAGTCATTC-AACTTCATGGCTTCTA
1 TTTAGAAGAATCATTCAAACTTCATGGCTT-TA
* * * * *
18982542 TTTAGAGGAATCGTTCAAATTTCATGCCTTTG
1 TTTAGAAGAATCATTCAAACTTCATGGCTTTA
*
18982574 TTTAGAGGAATCATTCAAA
1 TTTAGAAGAATCATTCAAA
18982593 TTTTACAACT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
31 3 0.04
32 43 0.59
33 27 0.37
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (32 bp):
TTTAGAAGAATCATTCAAACTTCATGGCTTTA
Found at i:18982593 original size:32 final size:32
Alignment explanation
Indices: 18982475--18982634 Score: 126
Period size: 33 Copynumber: 4.9 Consensus size: 32
18982465 AATAGCCCTC
* * *
18982475 TGTTTAGAAGAGTCATTCAAACTTT-ATGGTCTT
1 TGTTTAGAGGAATCATTCAAA-TTTCAT-GACTT
* * * * *
18982508 TATTTAGAAGAGTCATTC-AACTTCATGGCTT
1 TGTTTAGAGGAATCATTCAAATTTCATGACTT
* * *
18982539 CTATTTAGAGGAATCGTTCAAATTTCATGCCTT
1 -TGTTTAGAGGAATCATTCAAATTTCATGACTT
* **
18982572 TGTTTAGAGGAATCATTCAAATTTTACAACTGT
1 TGTTTAGAGGAATCATTCAAATTTCATGACT-T
* *
18982605 TGTTTAGAGAAATCATTCAACTTTCATGAC
1 TGTTTAGAGGAATCATTCAAATTTCATGAC
18982635 CTCTACTTAA
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
31 6 0.06
32 44 0.42
33 54 0.52
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTTTAGAGGAATCATTCAAATTTCATGACTT
Found at i:18982613 original size:33 final size:32
Alignment explanation
Indices: 18982542--18982630 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
18982532 ATGGCTTCTA
* ***
18982542 TTTAGAGGAATCGTTCAAATTTCATGCCTTTG
1 TTTAGAGGAATCATTCAAATTTCACAACTTTG
*
18982574 TTTAGAGGAATCATTCAAATTTTACAACTGTTG
1 TTTAGAGGAATCATTCAAATTTCACAACT-TTG
* *
18982607 TTTAGAGAAATCATTCAACTTTCA
1 TTTAGAGGAATCATTCAAATTTCA
18982631 TGACCTCTAC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 24 0.50
33 24 0.50
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (32 bp):
TTTAGAGGAATCATTCAAATTTCACAACTTTG
Found at i:18982786 original size:36 final size:35
Alignment explanation
Indices: 18982687--18982826 Score: 131
Period size: 36 Copynumber: 4.0 Consensus size: 35
18982677 TTTTAATTTC
*
18982687 AAAGTTTCATAGCCTCTAGTTAGATAAGC-TATTT
1 AAAGTTTCATAGCCTCTAGTTAGATAAGCTTTTTT
* *
18982721 AAAGTTTCATTGCCTCTAGTTA-AAAGAGCTTTCTTT
1 AAAGTTTCATAGCCTCTAGTTAGATA-AGCTTT-TTT
* * * * *
18982757 AAAGTGTCATAGCCTTTGGTTAGATGAGCTATTTTC
1 AAAGTTTCATAGCCTCTAGTTAGATAAGCT-TTTTT
* * * *
18982793 AAAGTTTCATAGCTTTTGGTTCGATAAGCTTTTT
1 AAAGTTTCATAGCCTCTAGTTAGATAAGCTTTTT
18982827 AATTTTAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
33 2 0.02
34 24 0.28
35 5 0.06
36 53 0.61
37 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (35 bp):
AAAGTTTCATAGCCTCTAGTTAGATAAGCTTTTTT
Found at i:18982996 original size:36 final size:36
Alignment explanation
Indices: 18982949--18983057 Score: 168
Period size: 36 Copynumber: 3.1 Consensus size: 36
18982939 TTGGTTATAT
* * *
18982949 GAGCTTTCTTTAAAGTTTCATAGCCTTTAGTTAGAG
1 GAGCTTTCTTTAAAGTGTCATAGCCTCTAGTTAGAA
*
18982985 GAGCTTTCTTTAAAGTGTCATAGCCTCTGGTTAGAA
1 GAGCTTTCTTTAAAGTGTCATAGCCTCTAGTTAGAA
18983021 GAG-TTT-TTTAAAGTGTCATAGCCTCTAGTTAGAA
1 GAGCTTTCTTTAAAGTGTCATAGCCTCTAGTTAGAA
18983055 GAG
1 GAG
18983058 TTTTTTTTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
34 30 0.44
35 3 0.04
36 35 0.51
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (36 bp):
GAGCTTTCTTTAAAGTGTCATAGCCTCTAGTTAGAA
Found at i:18983036 original size:34 final size:34
Alignment explanation
Indices: 18982957--18983063 Score: 160
Period size: 34 Copynumber: 3.1 Consensus size: 34
18982947 ATGAGCTTTC
* * *
18982957 TTTAAAGTTTCATAGCCTTTAGTTAGAGGAGCTTT
1 TTTAAAGTGTCATAGCCTCTAGTTAGAAGAG-TTT
*
18982992 CTTTAAAGTGTCATAGCCTCTGGTTAGAAGAGTTT
1 -TTTAAAGTGTCATAGCCTCTAGTTAGAAGAGTTT
18983027 TTTAAAGTGTCATAGCCTCTAGTTAGAAGAGTTT
1 TTTAAAGTGTCATAGCCTCTAGTTAGAAGAGTTT
18983061 TTT
1 TTT
18983064 TTTTTTTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
34 36 0.55
35 3 0.05
36 27 0.41
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (34 bp):
TTTAAAGTGTCATAGCCTCTAGTTAGAAGAGTTT
Found at i:18983477 original size:12 final size:11
Alignment explanation
Indices: 18983460--18983518 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
18983450 TTTATTTGAC
*
18983460 TTTATTTTTAGT
1 TTTA-TTTTATT
18983472 TTTATTATTATT
1 TTTATT-TTATT
*
18983484 TTT-TTTCTCTT
1 TTTATTT-TATT
18983495 TTTA-TTTATT
1 TTTATTTTATT
*
18983505 TTTATTTTCTT
1 TTTATTTTATT
18983516 TTT
1 TTT
18983519 TGTTGTCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
10 8 0.21
11 20 0.51
12 11 0.28
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:18983503 original size:21 final size:21
Alignment explanation
Indices: 18983479--18983518 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
18983469 AGTTTTATTA
18983479 TTATTTTT-TTTCTCTTTTTAT
1 TTATTTTTATTT-TCTTTTTAT
18983500 TTATTTTTATTTTCTTTTT
1 TTATTTTTATTTTCTTTTT
18983519 TGTTGTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.82
Consensus pattern (21 bp):
TTATTTTTATTTTCTTTTTAT
Found at i:18983510 original size:33 final size:33
Alignment explanation
Indices: 18983466--18983528 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
18983456 TGACTTTATT
18983466 TTTAGTTTTATTATTATTTTTT-TTCTCTTTTTA
1 TTTAGTTTTATT-TTATTTTTTGTTCTCTTTTTA
* * *
18983499 TTTATTTTTATTTTCTTTTTTGTTGTCTTT
1 TTTAGTTTTATTTTATTTTTTGTTCTCTTT
18983529 CCTTTTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 8 0.31
33 18 0.69
ACGTcount: A:0.11, C:0.06, G:0.05, T:0.78
Consensus pattern (33 bp):
TTTAGTTTTATTTTATTTTTTGTTCTCTTTTTA
Found at i:18983512 original size:23 final size:22
Alignment explanation
Indices: 18983471--18983519 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
18983461 TTATTTTTAG
*
18983471 TTTTATTATTATTTTTTTTCTCT
1 TTTTATTATTATTTATTTTCT-T
18983494 TTTTATTTATT-TTTATTTTCTT
1 TTTTA-TTATTATTTATTTTCTT
18983516 TTTT
1 TTTT
18983520 GTTGTCTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 14 0.58
24 5 0.21
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTATTATTATTTATTTTCTT
Found at i:18985226 original size:3 final size:3
Alignment explanation
Indices: 18985218--18985272 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
18985208 AGAATACGAA
18985218 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18985266 AAT AAT A
1 AAT AAT A
18985273 TCTCAATAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18987634 original size:57 final size:58
Alignment explanation
Indices: 18987501--18987732 Score: 239
Period size: 56 Copynumber: 4.1 Consensus size: 58
18987491 TAGCAATTTA
* ** ** *
18987501 AAAAAATATATTTTG-AAAAATGTTTTGATTAAAAATTG-AAGT-TCAATTTTCCTCAA-
1 AAAAAA-ATA-TTTGAAAAAATATTTTGAGAAAAAATTGAAAGTATCAATTTTTTTAAAT
* *
18987557 AAAGAAATATTTCAAAAAATATTTTGAGAAAAAATTGAAA-TATCAATTTTTTTAAAT
1 AAAAAAATATTTGAAAAAATATTTTGAGAAAAAATTGAAAGTATCAATTTTTTTAAAT
* *
18987614 AAAAAAATATTTGAAAAAATATTTT-AGAAAAAGTT-AAAGTATCAATTTTCTTAAAAT
1 AAAAAAATATTTGAAAAAATATTTTGAGAAAAAATTGAAAGTATCAATTTT-TTTAAAT
* *
18987671 AAAAAAATATTT-CAAAAATA-TTTGCGAAAAATATTGAAAGTATCAATTTTTCCTTAAAT
1 AAAAAAATATTTGAAAAAATATTTTGAGAAAAA-ATTGAAAGTATCAATTTTT--TTAAAT
18987730 AAA
1 AAA
18987733 GCATTAATTT
Statistics
Matches: 149, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
54 3 0.02
55 30 0.20
56 50 0.34
57 44 0.30
58 14 0.09
59 8 0.05
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (58 bp):
AAAAAAATATTTGAAAAAATATTTTGAGAAAAAATTGAAAGTATCAATTTTTTTAAAT
Found at i:18987689 original size:11 final size:13
Alignment explanation
Indices: 18987673--18987705 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
18987663 CTTAAAATAA
18987673 AAAAATATTT-C-
1 AAAAATATTTGCG
18987684 AAAAATATTTGCG
1 AAAAATATTTGCG
18987697 AAAAATATT
1 AAAAATATT
18987706 GAAAGTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 1 0.05
13 9 0.45
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (13 bp):
AAAAATATTTGCG
Found at i:18987733 original size:23 final size:23
Alignment explanation
Indices: 18987707--18987755 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
18987697 AAAAATATTG
*
18987707 AAAGTATCAATTTTTCCTTAAA-T
1 AAAGCATCAATTTTTCC-TAAAGT
*
18987730 AAAGCATTAATTTTTCCTAAAGT
1 AAAGCATCAATTTTTCCTAAAGT
18987753 AAA
1 AAA
18987756 ATTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (23 bp):
AAAGCATCAATTTTTCCTAAAGT
Found at i:18990595 original size:144 final size:144
Alignment explanation
Indices: 18990304--18990844 Score: 608
Period size: 144 Copynumber: 3.8 Consensus size: 144
18990294 CACAATTACT
**
18990304 AAAATACCATTTAGGGGTA-TTTCGTAATTTGGCCTTCCCAAGCTTGAATTTTCATGAAACTTTT
1 AAAATACCCCTTAGGGGTATTTTCGTAATTTGGCCTTCCCAAGCTTGAATTTTCATGAAACTTTT
* *
18990368 TAGATATTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAACAATACCCTAAGA
66 CAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAACAATACCCTAAGA
* *
18990433 GGTGTGAAATTTTT
131 GGTGTGAAATTATC
* ** ** * *
18990447 AAAATGCCCCTTAGGGGTATTTTTATAATTTGGCCTTTTCGAGTTTGAATTTTCATGAAACTTTT
1 AAAATACCCCTTAGGGGTATTTTCGTAATTTGGCCTTCCCAAGCTTGAATTTTCATGAAACTTTT
* * * * *
18990512 CAGATCTTAATTTCATAGTATTTCACT-ATTTTTGGTGCATTTGAAATCACAATAGTA-TCTCAA
66 CAGATCTTAATTTCATAATATTTCA-TGATTTTTGGTGCATTTGAAATCATAACAATACCCT-AA
* * *
18990575 GAGATATGAAATTACC
129 GAGGTGTGAAATTATC
* * * * * * *
18990591 AAAATACCCCTTAGGGAT-TTTTTGTAATTTAGCCTTCTCGAGC-TCATATTTTCAGGAAACTTT
1 AAAATACCCCTTAGGGGTATTTTCGTAATTTGGCCTTCCCAAGCTTGA-ATTTTCATGAAACTTT
* * * * * * *
18990654 TCAGATTTTAATTTTATAAAATTTTAGGATTTTTGGTGCATTTGAAATCATAACAATACGCTGAG
65 TCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAACAATACCCTAAG
*
18990719 AGGTGTGAAGTTATC
130 AGGTGTGAAATTATC
* * * * * *
18990734 AAAATACTCCTTAGGGGTATTTTCGTAATTTGACCTTTCCAAGCTTAAATTTTTATGAAATTTTT
1 AAAATACCCCTTAGGGGTATTTTCGTAATTTGGCCTTCCCAAGCTTGAATTTTCATGAAACTTTT
* * *
18990799 TAGATCTTAATTTTATAATATTTCATGATTGTTGGTGC-TTTGAAAT
66 CAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAAT
18990845 GCTCAAAATG
Statistics
Matches: 328, Mismatches: 62, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
142 2 0.01
143 139 0.42
144 184 0.56
145 3 0.01
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (144 bp):
AAAATACCCCTTAGGGGTATTTTCGTAATTTGGCCTTCCCAAGCTTGAATTTTCATGAAACTTTT
CAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAACAATACCCTAAGA
GGTGTGAAATTATC
Found at i:18990823 original size:287 final size:286
Alignment explanation
Indices: 18990297--18990844 Score: 722
Period size: 287 Copynumber: 1.9 Consensus size: 286
18990287 AAAATTACAC
* * * * * *
18990297 AATTACTAAAATACCATTTAGGGGTATTTCGTAATTTGGCCTTCCCAAGCTTGAATTTTCATGAA
1 AATTACCAAAATACCACTTAGGGATATTTCGTAATTTAGCCTTCCCAAGCTTCAATTTTCAGGAA
* * *
18990362 ACTTTTTAGATATTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAACAATACC
66 ACTTTTCAGATATTAATTTCATAAAATTTCAGGATTTTTGGTGCATTTGAAATCATAACAATACC
* * * * * * * *
18990427 CTAAGAGGTGTGAAATTTTTAAAATGCCCCTTAGGGGTATTTTTATAATTTGGCCTTTTCGAGTT
131 CTAAGAGGTGTGAAATTATCAAAATACCCCTTAGGGGTATTTTCATAATTTGACCTTTCCAAGCT
* * *
18990492 TGAATTTTCATGAAACTTTTCAGATCTTAATTTCATAGTATTTCACT-ATTTTTGGTGCATTTGA
196 TAAATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCA-TGATTGTTGGTGC-TTTGA
18990556 AATCACAATAGTATCTCAAGAGATATGA
259 AATCACAATAGTATCTCAAGAGATATGA
* * * * *
18990584 AATTACCAAAATACCCCTTAGGGATTTTTTGTAATTTAGCCTTCTCGAGC-TCATATTTTCAGGA
1 AATTACCAAAATACCACTTAGGGATATTTCGTAATTTAGCCTTCCCAAGCTTCA-ATTTTCAGGA
* * *
18990648 AACTTTTCAGATTTTAATTTTATAAAATTTTAGGATTTTTGGTGCATTTGAAATCATAACAATAC
65 AACTTTTCAGATATTAATTTCATAAAATTTCAGGATTTTTGGTGCATTTGAAATCATAACAATAC
* * * * *
18990713 GCTGAGAGGTGTGAAGTTATCAAAATACTCCTTAGGGGTATTTTCGTAATTTGACCTTTCCAAGC
130 CCTAAGAGGTGTGAAATTATCAAAATACCCCTTAGGGGTATTTTCATAATTTGACCTTTCCAAGC
* * * *
18990778 TTAAATTTTTATGAAATTTTTTAGATCTTAATTTTATAATATTTCATGATTGTTGGTGCTTTGAA
195 TTAAATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTGTTGGTGCTTTGAA
18990843 AT
260 AT
18990845 GCTCAAAATG
Statistics
Matches: 222, Mismatches: 37, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
286 11 0.05
287 211 0.95
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (286 bp):
AATTACCAAAATACCACTTAGGGATATTTCGTAATTTAGCCTTCCCAAGCTTCAATTTTCAGGAA
ACTTTTCAGATATTAATTTCATAAAATTTCAGGATTTTTGGTGCATTTGAAATCATAACAATACC
CTAAGAGGTGTGAAATTATCAAAATACCCCTTAGGGGTATTTTCATAATTTGACCTTTCCAAGCT
TAAATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTGTTGGTGCTTTGAAA
TCACAATAGTATCTCAAGAGATATGA
Found at i:18996110 original size:18 final size:19
Alignment explanation
Indices: 18996066--18996113 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
18996056 TAAAAGTGAA
18996066 AAAATAAAAAATAAAAATC
1 AAAATAAAAAATAAAAATC
* * *
18996085 AAATTAAAAAATCAAAGT-
1 AAAATAAAAAATAAAAATC
18996103 AAAATAAAAAA
1 AAAATAAAAAA
18996114 AGAGATCTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (19 bp):
AAAATAAAAAATAAAAATC
Found at i:18998320 original size:36 final size:36
Alignment explanation
Indices: 18998247--18998776 Score: 214
Period size: 36 Copynumber: 14.8 Consensus size: 36
18998237 GTTGGCCCGA
** * * *
18998247 TCATCTTTA-CTTTTTGATGATTAGTGTTGTCTTAG
1 TCATCTTTATCTTCCTGATCATTGGTGTTGTCTCAG
* * *
18998282 TCATCTTTATATTCCTGATTATTGGTGTTATCTCAG
1 TCATCTTTATCTTCCTGATCATTGGTGTTGTCTCAG
* * * **
18998318 TCATCTTTATCTTTCTGACCATTGGTGCTACCTC-G
1 TCATCTTTATCTTCCTGATCATTGGTGTTGTCTCAG
* * * * *
18998353 ATCATCTTTA-CTTTCTAACCATTAGTGTTAT-TCTAG
1 -TCATCTTTATCTTCCTGATCATTGGTGTTGTCTC-AG
* * * * * *
18998389 TCATCCTTATATTCATGATCGTTGGTATTGTATC-G
1 TCATCTTTATCTTCCTGATCATTGGTGTTGTCTCAG
* * * * * *
18998424 ATCATTTTTATCTTCCTAACCATTAGTGCTGTCTCAA
1 -TCATCTTTATCTTCCTGATCATTGGTGTTGTCTCAG
* * * * *
18998461 TCATATTTGTCTTCCCGATTATTGGTGTTGCCTCAG
1 TCATCTTTATCTTCCTGATCATTGGTGTTGTCTCAG
* * ** **
18998497 TCATTTTTATCTTCTTGATTGTTGGTGTTGTCTTGG
1 TCATCTTTATCTTCCTGATCATTGGTGTTGTCTCAG
** * *
18998533 TCATCTTTATCTTTTTCACCATTGGTGTTGTC-CTAG
1 TCATCTTTATCTTCCTGATCATTGGTGTTGTCTC-AG
* * ** * *
18998569 TCAACTTTATTTTTTTGACCATTGGTGTTGTCTCAA
1 TCATCTTTATCTTCCTGATCATTGGTGTTGTCTCAG
* * * * *
18998605 TCATCTTTATCTTTCTCA-CTGTTGGTGTTATCTAAG
1 TCATCTTTATCTTCCTGATC-ATTGGTGTTGTCTCAG
* * ** ** *
18998641 TCATATTTGT-TTTTTCGATTGTTGGTGTTGTCTCAA
1 TCATCTTTATCTTCCT-GATCATTGGTGTTGTCTCAG
* ** ** * * * *
18998677 CCAT-TTTATCTTTTTGATTGTTAGTGTTATCCCAA
1 TCATCTTTATCTTCCTGATCATTGGTGTTGTCTCAG
* * ** **
18998712 TCATTTTTATCTTCATGATCATTGGCATTGTCTTGG
1 TCATCTTTATCTTCCTGATCATTGGTGTTGTCTCAG
* * *
18998748 TCAACTTTATCTTCCTAATCAATGGTGTT
1 TCATCTTTATCTTCCTGATCATTGGTGTT
18998777 TTCCTAATCA
Statistics
Matches: 370, Mismatches: 110, Indels: 29
0.73 0.22 0.06
Matches are distributed among these distances:
34 2 0.01
35 65 0.18
36 300 0.81
37 3 0.01
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (36 bp):
TCATCTTTATCTTCCTGATCATTGGTGTTGTCTCAG
Found at i:18998912 original size:36 final size:36
Alignment explanation
Indices: 18998871--18998940 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
18998861 TTAATTCTCG
* * *
18998871 ATCGTTGGTGTTGTTTTGGTCATATTTATTTTTTGA
1 ATCGTTGGTGTTATCTTGATCATATTTATTTTTTGA
*
18998907 ATCGTTGGTGTTATCTTGATTATATTTATTTTTT
1 ATCGTTGGTGTTATCTTGATCATATTTATTTTTT
18998941 TGACTTGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.16, C:0.06, G:0.19, T:0.60
Consensus pattern (36 bp):
ATCGTTGGTGTTATCTTGATCATATTTATTTTTTGA
Found at i:18998976 original size:36 final size:35
Alignment explanation
Indices: 18998926--18998993 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
18998916 GTTATCTTGA
* * * *
18998926 TTATATTTATTTTTTTGACTTGTAGTGTTGTCTCGG
1 TTATATTTA-GTTTTTGACCTATAATGTTGTCTCGG
*
18998962 TTATGTTTAGTTTTTGACCTATAATGTTGTCT
1 TTATATTTAGTTTTTGACCTATAATGTTGTCT
18998994 TAGTCATCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 19 0.70
36 8 0.30
ACGTcount: A:0.16, C:0.09, G:0.18, T:0.57
Consensus pattern (35 bp):
TTATATTTAGTTTTTGACCTATAATGTTGTCTCGG
Found at i:18999011 original size:35 final size:35
Alignment explanation
Indices: 18998931--18999011 Score: 81
Period size: 35 Copynumber: 2.3 Consensus size: 35
18998921 CTTGATTATA
* * * * * *
18998931 TTTATTTTTTTGACTTGTAGTGTTGTCTCGGTTATG
1 TTTA-TTTTTTGACCTATAATGTTGTCTCAGTCATC
* *
18998967 TTTAGTTTTTGACCTATAATGTTGTCTTAGTCATC
1 TTTATTTTTTGACCTATAATGTTGTCTCAGTCATC
18999002 TTTATTTTTT
1 TTTATTTTTT
18999012 TAACCTGCGA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
35 32 0.89
36 4 0.11
ACGTcount: A:0.15, C:0.10, G:0.16, T:0.59
Consensus pattern (35 bp):
TTTATTTTTTGACCTATAATGTTGTCTCAGTCATC
Found at i:18999167 original size:36 final size:37
Alignment explanation
Indices: 18999127--18999199 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 37
18999117 TTTCGACCTG
*
18999127 TAGTA-TAGTCCCGATCATCTTTA-TTTTTTTGACTTA
1 TAGTATTA-TCCCGATAATCTTTATTTTTTTTGACTTA
* * *
18999163 TAGTATTATTCTGGTAATCTTTATTTTTTTTGACTTA
1 TAGTATTATCCCGATAATCTTTATTTTTTTTGACTTA
18999200 CAATTTTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
36 16 0.52
37 15 0.48
ACGTcount: A:0.22, C:0.12, G:0.11, T:0.55
Consensus pattern (37 bp):
TAGTATTATCCCGATAATCTTTATTTTTTTTGACTTA
Found at i:18999333 original size:36 final size:35
Alignment explanation
Indices: 18999232--18999335 Score: 109
Period size: 36 Copynumber: 2.9 Consensus size: 35
18999222 TTTTCTTGGT
* * *
18999232 CGTTGGTGTTATCGTGATCATCTTTATCTTCTCTAC
1 CGTTGGTGTTATC-TGATCATCTTTATTTTTTCAAC
* * * *
18999268 CATTGGGGTTATCTTGATCATATTCATTTTTTCAAC
1 CGTTGGTGTTATC-TGATCATCTTTATTTTTTCAAC
*
18999304 TGTTGGTGTTATCTCGATCATCTTTATTTTTT
1 CGTTGGTGTTATCT-GATCATCTTTATTTTTT
18999336 TTTATCATTG
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
35 1 0.02
36 53 0.98
ACGTcount: A:0.16, C:0.17, G:0.15, T:0.51
Consensus pattern (35 bp):
CGTTGGTGTTATCTGATCATCTTTATTTTTTCAAC
Found at i:18999688 original size:71 final size:71
Alignment explanation
Indices: 18999602--18999733 Score: 160
Period size: 71 Copynumber: 1.9 Consensus size: 71
18999592 ACCTACAATA
* * *
18999602 TTGTCTCGATCATATTCAT-TTTC-CCAACCATTGACGTTGTCCCAGTCATCTTTATTTTTTTAC
1 TTGTCTCGATCATATT--TGTTTCTCCAACCATTGACGTTATCCCAATCATATTTATTTTTTTAC
18999665 TTGTAGTG
64 TTGTAGTG
* * * **
18999673 TTGTCTTGGTCATATTTGTTTCTCCGACCATTGGTGTTATCCCAATCATATTTATTTTTTT
1 TTGTCTCGATCATATTTGTTTCTCCAACCATTGACGTTATCCCAATCATATTTATTTTTTT
18999734 TGACCTATGG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
69 1 0.02
70 4 0.08
71 46 0.90
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.49
Consensus pattern (71 bp):
TTGTCTCGATCATATTTGTTTCTCCAACCATTGACGTTATCCCAATCATATTTATTTTTTTACTT
GTAGTG
Found at i:19000055 original size:323 final size:320
Alignment explanation
Indices: 18999492--19000072 Score: 699
Period size: 323 Copynumber: 1.8 Consensus size: 320
18999482 TCAACCGTTG
* * *
18999492 GTGTTGTTTCTGATTATATTCATTTTCTCGATTGTTGGTGTTGTCCTATTCATATTTAATTTTTT
1 GTGTTGTTTCTGATCATATTCATTTTCTCAATTGTTGGTGTTGTCCTAGTCATATTTAATTTTTT
* * * * * *
18999557 AACCTGTAGTGTTGTCTTGGTTATCTTTATTTTTAACCTACAATATTGTCTCGATCATATTCATT
66 AACCTGTAGTGTTGTCCTGGTCATCTTTATTTTTAACCTACAAGATTCTCTCAACCATATTCATT
* * * *
18999622 TTCCCAACCATTGACGTTGTCCCAGTCATCTTTATTTTTTTACTTGTAGTGTTGTCTTGGTCATA
131 TTCCCAACCATTGACGTTATCCCAGTAATCTTTATTTTTTTACTTGTAGTGTTGTCTAGATCATA
* * *
18999687 TTTGTTTCTCCGACCATTGGTGTTATCCCAATCATATTTATTTTTTTTGACCTATGGTGTTGTCT
196 TTTATTTCTCCGACAATTAGTGTTATCCCAATCATATTTA--TTTTTTGACCTATGGTGTTGTCT
18999752 TGACCATCTTTAATTTTTGACTTGTGATGTTATCCCAGACATCATTATTTTTTTAACATGCA
259 TGACCATCTTTAATTTTTGACTTGTGATGTTATCCCAGACATCATTATTTTTTTAACATGCA
** * * *
18999814 GTGTTGTTTC-GATCATATTTGTTTTTTCAATTGTTTGGTGTTGTCCTAGTCATCTTTATTTTTT
1 GTGTTGTTTCTGATCATATTCATTTTCTCAATTG-TTGGTGTTGTCCTAGTCATATTTA-ATTTT
* * * * * *
18999878 TTGATCTGTAGTGTTGTCCTGGTCATCTTTATTTTTTGACCTGCTAGGTTCTCTCAACCATCATT
64 TTAACCTGTAGTGTTGTCCTGGTCATCTTTA-TTTTTAACCTACAAGATTCTCTCAACCAT-ATT
* * *
18999943 -ATTTT-TCAATC-TATGTC-TTATCCCAGTAATCTTTATTTTTTTGACTTGT-GATGTTGT-TC
127 CATTTTCCCAACCAT-TGACGTTATCCCAGTAATCTTTATTTTTTT-ACTTGTAG-TGTTGTCT-
* ** * * *
19000002 AGATCATATTTATTTTTTTGATAATTAGTGTTATCCCAATCATTTTTATTTTTTGACCTGTGGTG
188 AGATCATATTTATTTCTCCGACAATTAGTGTTATCCCAATCATATTTATTTTTTGACCTATGGTG
19000067 TTGTCT
253 TTGTCT
19000073 CGGTCATATT
Statistics
Matches: 215, Mismatches: 36, Indels: 17
0.80 0.13 0.06
Matches are distributed among these distances:
321 40 0.19
322 58 0.27
323 88 0.41
324 26 0.12
325 3 0.01
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.51
Consensus pattern (320 bp):
GTGTTGTTTCTGATCATATTCATTTTCTCAATTGTTGGTGTTGTCCTAGTCATATTTAATTTTTT
AACCTGTAGTGTTGTCCTGGTCATCTTTATTTTTAACCTACAAGATTCTCTCAACCATATTCATT
TTCCCAACCATTGACGTTATCCCAGTAATCTTTATTTTTTTACTTGTAGTGTTGTCTAGATCATA
TTTATTTCTCCGACAATTAGTGTTATCCCAATCATATTTATTTTTTGACCTATGGTGTTGTCTTG
ACCATCTTTAATTTTTGACTTGTGATGTTATCCCAGACATCATTATTTTTTTAACATGCA
Found at i:19000085 original size:35 final size:35
Alignment explanation
Indices: 18999637--19000730 Score: 321
Period size: 35 Copynumber: 30.7 Consensus size: 35
18999627 AACCATTGAC
* * * * *
18999637 GTTGTCCCAGTCATCTTTATTTTTTTACTTGTAGT
1 GTTGTCTCAGTCATCTTTATTTTTTGACCTATGGT
** * * **
18999672 GTTGTCTTGGTCATATTTGTTTCTCCGACC-ATTGGT
1 GTTGTCTCAGTCATCTTTATTT-TTTGACCTA-TGGT
* * * *
18999708 GTTATCCCAATCATATTTATTTTTTTTGACCTATGGT
1 GTTGTCTCAGTCATCTTTA--TTTTTTGACCTATGGT
* * * * * *
18999745 GTTGTCT-TGACCATCTTTAATTTTTGACTTGTGAT
1 GTTGTCTCAG-TCATCTTTATTTTTTGACCTATGGT
* * * * * *
18999780 GTTATCCCAGACATCATTATTTTTTTAAC-ATGCAGT
1 GTTGTCTCAGTCATCTTTATTTTTTGACCTATG--GT
* * * * ** *
18999816 GTTGTTTC-GATCATATTTGTTTTTTCAATTGTTTGGT
1 GTTGTCTCAG-TCATCTTTATTTTTT-GA-CCTATGGT
* * *
18999853 GTTGTC-CTAGTCATCTTTATTTTTTTTGATCTGTAGT
1 GTTGTCTC-AGTCATCTTTA--TTTTTTGACCTATGGT
* * *
18999890 GTTGTC-CTGGTCATCTTTATTTTTTGACCTGCTAG-
1 GTTGTCTC-AGTCATCTTTATTTTTTGACCT-ATGGT
* ** * ** *
18999925 GTTCTCTCAACCATCATTATTTTTCAATCTAT-GT
1 GTTGTCTCAGTCATCTTTATTTTTTGACCTATGGT
* * * * * * *
18999959 CTTATCCCAGTAATCTTTATTTTTTTGACTTGTGAT
1 GTTGTCTCAGTCATCTTTA-TTTTTTGACCTATGGT
* *
18999995 GTTGT-TCAGATCATATTTATTTTTTTGA--TAATTAGT
1 GTTGTCTCAG-TCATCTTTA-TTTTTTGACCT-A-TGGT
* * * * *
19000031 GTTATCCCAATCATTTTTATTTTTTGACCTGTGGT
1 GTTGTCTCAGTCATCTTTATTTTTTGACCTATGGT
* * **
19000066 GTTGTCTCGGTCATATTTATTTTTCCAACCGT-TGGT
1 GTTGTCTCAGTCATCTTTATTTTT-TGACC-TATGGT
* * * * *
19000102 GATCTCTAAGTTATCTTTATTTTTTTTGACTTATGGT
1 GTTGTCTCAGTCATCTTTA--TTTTTTGACCTATGGT
* * * *
19000139 GGTG-CCCTAGTCATCTTTATTTTTTTACCTATAGT
1 GTTGTCTC-AGTCATCTTTATTTTTTGACCTATGGT
* * * *
19000174 GTTCTTTCAGTCACCTTTATTTTTTGA-CTGGTGGT
1 GTTGTCTCAGTCATCTTTATTTTTTGACCT-ATGGT
* * * *
19000209 ATTGTCCTTA-TCATATCTGTT-TTTTTTGATCATTTGGT
1 GTTGT-CTCAGTC--ATCT-TTATTTTTTGA-CCTATGGT
* * **
19000247 ATTATCTTGGTCATCTTTATTTTTTTTGACCTATGGT
1 GTTGTCTCAGTCATCTTTA--TTTTTTGACCTATGGT
* * * * *
19000284 ATTATCTCAGTCATTTTTA-TTTTTGACCTGTGAT
1 GTTGTCTCAGTCATCTTTATTTTTTGACCTATGGT
* * * * * *
19000318 ATTATCCCAGTCATCTTTATTTTTTCA-ATTTGCAGT
1 GTTGTCTCAGTCATCTTTATTTTTTGACCTATG--GT
* * * *
19000354 GTTGTCTCAATCATATTTGTTTTCCTGACC-ATTGGT
1 GTTGTCTCAGTCATCTTTATTTT-TTGACCTA-TGGT
* * * *
19000390 GTTGTTTTAGTCATCTTTATTTTTTGACCTACGAT
1 GTTGTCTCAGTCATCTTTATTTTTTGACCTATGGT
* * * *
19000425 GTTGTCTCAATCATTTTTATTTTTTGACTTAAGGT
1 GTTGTCTCAGTCATCTTTATTTTTTGACCTATGGT
* * * * **
19000460 GTTATCTCGGTCATCTTTATTTTTAGACTTACAGT
1 GTTGTCTCAGTCATCTTTATTTTTTGACCTATGGT
* * * *
19000495 GTTATCT-TGATCATCTTTATTTTTTCGA-CTACGTT
1 GTTGTCTCAG-TCATCTTTATTTTTT-GACCTATGGT
* * * **
19000530 GTTGTCTCAATCATTTTTATTTTTTGACTTGCGGT
1 GTTGTCTCAGTCATCTTTATTTTTTGACCTATGGT
* ** *
19000565 GTTGTCTC-GATCATATTTATTTTTCAACCTACGGT
1 GTTGTCTCAG-TCATCTTTATTTTTTGACCTATGGT
* * * ***
19000600 GTTGTCTCAATTATCTTTATTTTTTTACCTGCAGT
1 GTTGTCTCAGTCATCTTTATTTTTTGACCTATGGT
* * * * *
19000635 GATGTCT-AGGTCATATTTGTTTTTTCGATCATTTGGT
1 GTTGTCTCA-GTCATCTTTATTTTTT-GA-CCTATGGT
* * * *
19000672 GTTGTCCCAGTCATTTTTATTTTTTTAACC--TGAT
1 GTTGTCTCAGTCATCTTTA-TTTTTTGACCTATGGT
*
19000706 GTTGTCCCAGTCATCTTTATTTTTT
1 GTTGTCTCAGTCATCTTTATTTTTT
19000731 ATCCCTATCA
Statistics
Matches: 769, Mismatches: 226, Indels: 130
0.68 0.20 0.12
Matches are distributed among these distances:
33 7 0.01
34 76 0.10
35 352 0.46
36 148 0.19
37 137 0.18
38 40 0.05
39 9 0.01
ACGTcount: A:0.17, C:0.16, G:0.15, T:0.52
Consensus pattern (35 bp):
GTTGTCTCAGTCATCTTTATTTTTTGACCTATGGT
Found at i:19000270 original size:37 final size:37
Alignment explanation
Indices: 19000228--19000342 Score: 119
Period size: 34 Copynumber: 3.2 Consensus size: 37
19000218 ATCATATCTG
* **
19000228 TTTTTTTTGATCATTTGGTATTATCTTGGTCATCTTTA
1 TTTTTTTTGA-CATATGGTATTATCTCAGTCATCTTTA
*
19000266 TTTTTTTTGACCTATGGTATTATCTCAGTCA--TTT-
1 TTTTTTTTGACATATGGTATTATCTCAGTCATCTTTA
* * * * *
19000300 TTATTTTTGACCTGTGATATTATCCCAGTCATCTTTA
1 TTTTTTTTGACATATGGTATTATCTCAGTCATCTTTA
19000337 TTTTTT
1 TTTTTT
19000343 CAATTTGCAG
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
34 27 0.42
35 3 0.05
36 3 0.05
37 22 0.34
38 10 0.15
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.57
Consensus pattern (37 bp):
TTTTTTTTGACATATGGTATTATCTCAGTCATCTTTA
Found at i:19001068 original size:36 final size:35
Alignment explanation
Indices: 19000951--19001073 Score: 115
Period size: 36 Copynumber: 3.4 Consensus size: 35
19000941 GTTATCTAAT
* * *
19000951 TCATCTTTATTTTTTCAA-TTTGTGGTGTCGTCACAG
1 TCATCTTTATTTTTTCAACTAT-TAGTGTTGTC-CAG
* *
19000987 TCATTTTTATTTTTTCAACTTATTA-TGTTGTCCCG
1 TCATCTTTATTTTTTCAAC-TATTAGTGTTGTCCAG
* * *
19001022 ATTATATTTATTTTCTCAACTATTAGTGTTGTCCTAG
1 -TCATCTTTATTTTTTCAACTATTAGTGTTGTCC-AG
19001059 TCATCTTTATTTTTT
1 TCATCTTTATTTTTT
19001074 TAACCTGCGA
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
35 7 0.10
36 59 0.84
37 2 0.03
38 2 0.03
ACGTcount: A:0.19, C:0.15, G:0.11, T:0.55
Consensus pattern (35 bp):
TCATCTTTATTTTTTCAACTATTAGTGTTGTCCAG
Found at i:19001338 original size:36 final size:35
Alignment explanation
Indices: 19001298--19001365 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
19001288 CTAACGATTA
*
19001298 GTGTTGTCTCAATAATCTTTATTTTTTTGACTTGTT
1 GTGTTATCTCAATAATCTTTA-TTTTTTGACTTGTT
** *
19001334 GTGTTATCTTGATCATCTTTATTTTTTGACTT
1 GTGTTATCTCAATAATCTTTATTTTTTGACTT
19001366 ACGATATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 11 0.39
36 17 0.61
ACGTcount: A:0.16, C:0.12, G:0.13, T:0.59
Consensus pattern (35 bp):
GTGTTATCTCAATAATCTTTATTTTTTGACTTGTT
Found at i:19001414 original size:53 final size:53
Alignment explanation
Indices: 19001335--19001437 Score: 154
Period size: 53 Copynumber: 1.9 Consensus size: 53
19001325 TGACTTGTTG
19001335 TGTTATCTTGATCATCTTTATTTTTTGACTTACGA-TATTATCTTGATCATATT
1 TGTTATCTTGATCATCTTTATTTTTTGACTTA-GAGTATTATCTTGATCATATT
* * * *
19001388 TGTTGTCTTGGTCATCTTTATTTTTTGACTTATAGTGTTATCTTGATCAT
1 TGTTATCTTGATCATCTTTATTTTTTGACTTAGAGTATTATCTTGATCAT
19001438 CTTTATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.02
53 44 0.98
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.55
Consensus pattern (53 bp):
TGTTATCTTGATCATCTTTATTTTTTGACTTAGAGTATTATCTTGATCATATT
Found at i:19001439 original size:35 final size:35
Alignment explanation
Indices: 19001388--19001518 Score: 156
Period size: 35 Copynumber: 3.7 Consensus size: 35
19001378 TGATCATATT
* *
19001388 TGTTGTCTTGGTCATCTTTATTTTTTGACTTATAG
1 TGTTATCTTGATCATCTTTATTTTTTGACTTATAG
* *
19001423 TGTTATCTTGATCATCTTTATTTTTTAACTTGTAG
1 TGTTATCTTGATCATCTTTATTTTTTGACTTATAG
* *
19001458 TGTTATCTTGATTATCTTTATTTTTTGACCTAT-G
1 TGTTATCTTGATCATCTTTATTTTTTGACTTATAG
*** *
19001492 ATGTTATCCCAATCATATTTATTTTTT
1 -TGTTATCTTGATCATCTTTATTTTTT
19001519 TGATCGCTGT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
34 1 0.01
35 81 0.99
ACGTcount: A:0.19, C:0.12, G:0.11, T:0.57
Consensus pattern (35 bp):
TGTTATCTTGATCATCTTTATTTTTTGACTTATAG
Found at i:19001507 original size:70 final size:70
Alignment explanation
Indices: 19001388--19001679 Score: 225
Period size: 70 Copynumber: 4.1 Consensus size: 70
19001378 TGATCATATT
* * * ***
19001388 TGTTGTCTTGGTCATCTTTATTTTTTGACTTAT-AGTGTTATCTTGATCATCTTTATTTTTTAAC
1 TGTTATCTTGTTCATCTTTATTTTTTGACCTATGA-TGTTATCCCAATCATCTTTATTTTTTAAC
*
19001452 TTGTAG
65 CTGTAG
*
19001458 TGTTATCTTGATT-ATCTTTATTTTTTGACCTATGATGTTATCCCAATCATATTTATTTTTTTGA
1 TGTTATCTTG-TTCATCTTTATTTTTTGACCTATGATGTTATCCCAATCATCTTTA-TTTTTT-A
* *
19001522 TCGCTGTTG
63 AC-CTGTAG
* * * * * * * *
19001531 TTGTTGTCCTGTTCATCTTTGTTTTTTTAATCGT-TGGTGTTAT-TCAATCATCTTTACTTTTTA
1 -TGTTATCTTGTTCATCTTT-ATTTTTTGA-CCTATGATGTTATCCCAATCATCTTTATTTTTTA
* *
19001594 ACCTATGG
63 ACCTGTAG
* * * * **
19001602 TGTTGTGC-CGTTCATATTTATTTTTTGACCTATGATGTTGTCCCGGTCATCTTTATTTTTTAAC
1 TGTTAT-CTTGTTCATCTTTATTTTTTGACCTATGATGTTATCCCAATCATCTTTATTTTTTAAC
*
19001666 TTGTAG
65 CTGTAG
19001672 TGTTATCT
1 TGTTATCT
19001680 CGATCATATT
Statistics
Matches: 172, Mismatches: 37, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
68 2 0.01
69 15 0.09
70 85 0.49
71 13 0.08
72 4 0.02
73 11 0.06
74 25 0.15
75 15 0.09
76 2 0.01
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (70 bp):
TGTTATCTTGTTCATCTTTATTTTTTGACCTATGATGTTATCCCAATCATCTTTATTTTTTAACC
TGTAG
Found at i:19001634 original size:35 final size:35
Alignment explanation
Indices: 19001578--19001665 Score: 122
Period size: 35 Copynumber: 2.5 Consensus size: 35
19001568 TGTTATTCAA
* * * *
19001578 TCATCTTTACTTTTTAACCTATGGTGTTGTGCCGT
1 TCATCTTTATTTTTTAACCTATGATGTTGTCCCGG
* *
19001613 TCATATTTATTTTTTGACCTATGATGTTGTCCCGG
1 TCATCTTTATTTTTTAACCTATGATGTTGTCCCGG
19001648 TCATCTTTATTTTTTAAC
1 TCATCTTTATTTTTTAAC
19001666 TTGTAGTGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.17, C:0.18, G:0.14, T:0.51
Consensus pattern (35 bp):
TCATCTTTATTTTTTAACCTATGATGTTGTCCCGG
Found at i:19001687 original size:70 final size:69
Alignment explanation
Indices: 19001399--19001766 Score: 219
Period size: 70 Copynumber: 5.2 Consensus size: 69
19001389 GTTGTCTTGG
* *** *
19001399 TCATCTTTATTTTTTGACTTAT-AGTGTTATCTTGATCATCTTTATTTTTTAACTTGTAGTGTTA
1 TCATCTTTATTTTTTGACCTATGA-TGTTATCCCAATCATCTTTATTTTTTAACCTGTAGTGTTA
*
19001463 TCTTGA
65 TC-CGA
* * * *
19001469 TTATCTTTATTTTTTGACCTATGATGTTATCCCAATCATATTTATTTTTTTGATCGCTGTTGTTG
1 TCATCTTTATTTTTTGACCTATGATGTTATCCCAATCATCTTTA-TTTTTT-AAC-CTGTAG-TG
* *
19001534 TTGTCCTGT
62 TTATCC-GA
* * * * * * * *
19001543 TCATCTTTGTTTTTTTAATCGT-TGGTGTTAT-TCAATCATCTTTACTTTTTAACCTATGGTGTT
1 TCATCTTT-ATTTTTTGA-CCTATGATGTTATCCCAATCATCTTTATTTTTTAACCTGTAGTGTT
* *
19001606 GTGCCGT
64 AT-CCGA
* * ** *
19001613 TCATATTTATTTTTTGACCTATGATGTTGTCCCGGTCATCTTTATTTTTTAACTTGTAGTGTTAT
1 TCATCTTTATTTTTTGACCTATGATGTTATCCCAATCATCTTTATTTTTTAACCTGTAGTGTTAT
19001678 CTCGA
66 C-CGA
* * ** * * * * **
19001683 TCATATTTGCTTTCCTAACC-ATTGGTGTTGTCTCAATCATC-TT-TTTTTT-ACCCATAGTGTT
1 TCATCTTT-ATTTTTTGACCTA-TGATGTTATCCCAATCATCTTTATTTTTTAACCTGTAGTGTT
*
19001744 GTCCTGA
64 ATCC-GA
19001751 TCATCTTTATTTTTTG
1 TCATCTTTATTTTTTG
19001767 GTCTATGGTG
Statistics
Matches: 228, Mismatches: 55, Indels: 33
0.72 0.17 0.10
Matches are distributed among these distances:
67 5 0.02
68 22 0.10
69 21 0.09
70 90 0.39
71 35 0.15
72 4 0.02
73 9 0.04
74 25 0.11
75 15 0.07
76 2 0.01
ACGTcount: A:0.17, C:0.16, G:0.13, T:0.54
Consensus pattern (69 bp):
TCATCTTTATTTTTTGACCTATGATGTTATCCCAATCATCTTTATTTTTTAACCTGTAGTGTTAT
CCGA
Found at i:19001938 original size:36 final size:36
Alignment explanation
Indices: 19001852--19001941 Score: 119
Period size: 36 Copynumber: 2.5 Consensus size: 36
19001842 CTTGTTATTG
* *
19001852 TCCTGGTCA-TCTTATGTTTTTGATCGTTGGTGTTA
1 TCCTGGTCATTTTTATCTTTTTGATCGTTGGTGTTA
** *
19001887 TCCTAATCATCTTTATCTTTTTGATCGTTGGTGTTA
1 TCCTGGTCATTTTTATCTTTTTGATCGTTGGTGTTA
*
19001923 TCTTGGTCATTTTTATCTT
1 TCCTGGTCATTTTTATCTT
19001942 CCTGACCGAT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 7 0.16
36 38 0.84
ACGTcount: A:0.13, C:0.16, G:0.17, T:0.54
Consensus pattern (36 bp):
TCCTGGTCATTTTTATCTTTTTGATCGTTGGTGTTA
Found at i:19001955 original size:36 final size:36
Alignment explanation
Indices: 19001879--19001974 Score: 86
Period size: 36 Copynumber: 2.7 Consensus size: 36
19001869 TTTTGATCGT
** * *
19001879 TGGTGTTATCCTAATCATCTTTATCTTTTTGATCGT
1 TGGTGTTATCCTAATCATCTTTATCTTCCTGACCGA
* ** *
19001915 TGGTGTTATCTTGGTCATTTTTATCTTCCTGACCGA
1 TGGTGTTATCCTAATCATCTTTATCTTCCTGACCGA
* *
19001951 TGGTGTTGTCC-AAGTCATATTTAT
1 TGGTGTTATCCTAA-TCATCTTTAT
19001975 TTATTGTCCA
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.49
Consensus pattern (36 bp):
TGGTGTTATCCTAATCATCTTTATCTTCCTGACCGA
Found at i:19002136 original size:36 final size:36
Alignment explanation
Indices: 19002054--19002439 Score: 181
Period size: 36 Copynumber: 10.9 Consensus size: 36
19002044 ACTTCCCAAT
* * ** *
19002054 CATTGGTGTTGTCCCAATCATATTCATTTTTTCGAT
1 CATTGGTGTTGTCCCGATCATATTTATTTTTTTAAC
* * *
19002090 CGTTGTTGTTGTCCCGATCATCTTTATTTTTTTAAC
1 CATTGGTGTTGTCCCGATCATATTTATTTTTTTAAC
*** * *
19002126 CATTGGTGTTGTATTGATCATATTTAGTTTTTTGAC
1 CATTGGTGTTGTCCCGATCATATTTATTTTTTTAAC
** *
19002162 CGCTGGTGTTGTCCC-AGTCATATAT-TTTTTTTAA-
1 CATTGGTGTTGTCCCGA-TCATATTTATTTTTTTAAC
* * * * *
19002196 C-TTGCGATATTGT-CCTAGTCATCTTTATTTTTTGAAT
1 CATTG-G-TGTTGTCCCGA-TCATATTTATTTTTTTAAC
* *
19002233 TA-T-GCGTTGTCCCGATCATATTTATTTTTTCT-AC
1 CATTGGTGTTGTCCCGATCATATTTATTTTTT-TAAC
* * ***
19002267 CATTGGTGTTATCCC-AGTCATATTTGTTTTCCCAAC
1 CATTGGTGTTGTCCCGA-TCATATTTATTTTTTTAAC
* ** * * * *
19002303 CATTGGTATTGTCTTGGTCATCTTTA-TTTTCTGA-
1 CATTGGTGTTGTCCCGATCATATTTATTTTTTTAAC
* ** *
19002337 CTTGTGGTGTTGTCTTGATCATATTTATTTTTTTGAC
1 CAT-TGGTGTTGTCCCGATCATATTTATTTTTTTAAC
* * * *
19002374 TAGTGGTGTTATCCCGATCAT-CTT-TTTTTTT-AC
1 CATTGGTGTTGTCCCGATCATATTTATTTTTTTAAC
** *
19002407 CTATT-GTGTTGTCCTAATCATTTTTATTTTTTT
1 C-ATTGGTGTTGTCCCGATCATATTTATTTTTTT
19002440 CGACCTGTGA
Statistics
Matches: 259, Mismatches: 71, Indels: 41
0.70 0.19 0.11
Matches are distributed among these distances:
33 17 0.07
34 37 0.14
35 61 0.24
36 143 0.55
37 1 0.00
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.52
Consensus pattern (36 bp):
CATTGGTGTTGTCCCGATCATATTTATTTTTTTAAC
Found at i:19002364 original size:35 final size:35
Alignment explanation
Indices: 19002306--19002618 Score: 181
Period size: 35 Copynumber: 8.9 Consensus size: 35
19002296 TCCCAACCAT
* *
19002306 TGGTATTGTCTTGGTCATCTTTATTTTCTGACTTG
1 TGGTGTTGTCTTGATCATCTTTATTTTCTGACTTG
* * *
19002341 TGGTGTTGTCTTGATCATATTTATTTTTTTGACTAG
1 TGGTGTTGTCTTGATCATCTTTA-TTTTCTGACTTG
* ** * * *
19002377 TGGTGTTATCCCGATCATCTTT-TTTT-TTACCTA
1 TGGTGTTGTCTTGATCATCTTTATTTTCTGACTTG
* * * * * *
19002410 TTGTGTTGTCCTAATCATTTTTATTTTTTTCGACCTG
1 TGGTGTTGTCTTGATCATCTTTA-TTTTCT-GACTTG
* * *
19002447 TGATGTTGTCTTGGTCATCTTTA-TTTCTGTC-TG
1 TGGTGTTGTCTTGATCATCTTTATTTTCTGACTTG
* * * * *
19002480 TGGTGTTGTCGTAAT-ATATTTGTTTTCTCGACAAT-
1 TGGTGTTGTCTTGATCATCTTTATTTTCT-GAC-TTG
* * *
19002515 TGGTGTTGTCTTGGTCATTTTTATTTTTTGACTTG
1 TGGTGTTGTCTTGATCATCTTTATTTTCTGACTTG
* **
19002550 TGGTATTGTC-CAAGTCATCTTTATTTTCTGACTTG
1 TGGTGTTGTCTTGA-TCATCTTTATTTTCTGACTTG
** * * **
19002585 CAGTGTTGTCTCGGTCAAATTTATTTTCTTGACT
1 TGGTGTTGTCTTGATCATCTTTATTTTC-TGACT
19002619 GTTGGTATTA
Statistics
Matches: 209, Mismatches: 55, Indels: 27
0.72 0.19 0.09
Matches are distributed among these distances:
32 5 0.02
33 38 0.18
34 9 0.04
35 90 0.43
36 46 0.22
37 21 0.10
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.53
Consensus pattern (35 bp):
TGGTGTTGTCTTGATCATCTTTATTTTCTGACTTG
Found at i:19002488 original size:70 final size:72
Alignment explanation
Indices: 19002306--19002576 Score: 247
Period size: 70 Copynumber: 3.9 Consensus size: 72
19002296 TCCCAACCAT
* * *
19002306 TGGTATTGTCTTGGTCATCTTTATTTTCTGACTTGTGGTGTTGTCTTGATCATATTTATTTTTTT
1 TGGTGTTGTCTTGGTCATCTTTATTTTCTGACTTGTGGTGTTGTCCTAATCATATTTATTTTTTT
19002371 -GA-CTAG
66 CGACCT-G
* ** * * * * * *
19002377 TGGTGTTATCCCGATCATCTTT-TTTT-TTACCTATTGTGTTGTCCTAATCATTTTTATTTTTTT
1 TGGTGTTGTCTTGGTCATCTTTATTTTCTGACTTGTGGTGTTGTCCTAATCATATTTATTTTTTT
19002440 CGACCTG
66 CGACCTG
* * * * *
19002447 TGATGTTGTCTTGGTCATCTTTA-TTTCTGTC-TGTGGTGTTGTCGTAAT-ATATTT-GTTTTCT
1 TGGTGTTGTCTTGGTCATCTTTATTTTCTGACTTGTGGTGTTGTCCTAATCATATTTATTTTTTT
*
19002508 CGACAAT-
66 CGAC-CTG
* * * *
19002515 TGGTGTTGTCTTGGTCATTTTTATTTTTTGACTTGTGGTATTGTCC-AAGTCATCTTTATTTT
1 TGGTGTTGTCTTGGTCATCTTTATTTTCTGACTTGTGGTGTTGTCCTAA-TCATATTTATTTT
19002577 CTGACTTGCA
Statistics
Matches: 156, Mismatches: 34, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
68 30 0.19
69 44 0.28
70 53 0.34
71 26 0.17
72 3 0.02
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.54
Consensus pattern (72 bp):
TGGTGTTGTCTTGGTCATCTTTATTTTCTGACTTGTGGTGTTGTCCTAATCATATTTATTTTTTT
CGACCTG
Found at i:19002528 original size:68 final size:68
Alignment explanation
Indices: 19002270--19002620 Score: 217
Period size: 70 Copynumber: 5.0 Consensus size: 68
19002260 TTTCTACCAT
* * * * * *
19002270 TGGTGTTATCCCAGTCATATTTGTTTTCCCAACCATTGGTATTGTCTTGGTCATCTTTATTTTCT
1 TGGTGTTGTCCTAATCATATTTGTTTTCTCGA-CATTGGTGTTGTCTTGGTCATCTTTA-TTTCT
19002335 GACTTG
64 GAC-TG
* * * * * * * ** * * *
19002341 TGGTGTTGTCTTGATCATATTTATTTTTTTGACTAGTGGTGTTATCCCGATCATCTTT-TTTTTT
1 TGGTGTTGTCCTAATCATATTTGTTTTCTCGAC-ATTGGTGTTGTCTTGGTCATCTTTATTTCTG
*
19002405 ACCTA
65 A-CTG
* * * * * *
19002410 TTGTGTTGTCCTAATCATTTTTATTTTTTTCGACCTGTGATGTTGTCTTGGTCATCTTTATTTCT
1 TGGTGTTGTCCTAATCATATTT-GTTTTCTCGACAT-TGGTGTTGTCTTGGTCATCTTTATTTCT
*
19002475 GTCTG
64 GACTG
* * *
19002480 TGGTGTTGTCGTAAT-ATATTTGTTTTCTCGACAATTGGTGTTGTCTTGGTCATTTTTATTTTTT
1 TGGTGTTGTCCTAATCATATTTGTTTTCTCGAC-ATTGGTGTTGTCTTGGTCATCTTTA-TTTCT
19002544 GACTTG
64 GAC-TG
* * * * **
19002550 TGGTATTGTCC-AAGTCATCTTTATTTTCT-GAC-TTGCAGTGTTGTCTCGGTCAAATTTATTTT
1 TGGTGTTGTCCTAA-TCATATTTGTTTTCTCGACATTG--GTGTTGTCTTGGTCATCTTTA-TTT
19002612 CTTGACTG
62 C-TGACTG
19002620 T
1 T
19002621 TGGTATTATC
Statistics
Matches: 213, Mismatches: 54, Indels: 27
0.72 0.18 0.09
Matches are distributed among these distances:
68 33 0.15
69 38 0.18
70 83 0.39
71 59 0.28
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.52
Consensus pattern (68 bp):
TGGTGTTGTCCTAATCATATTTGTTTTCTCGACATTGGTGTTGTCTTGGTCATCTTTATTTCTGA
CTG
Found at i:19002601 original size:70 final size:72
Alignment explanation
Indices: 19002517--19002658 Score: 184
Period size: 71 Copynumber: 2.0 Consensus size: 72
19002507 TCGACAATTG
* ** *
19002517 GTGTTGTCTTGGTCATTTTTATTTT-TTGACT-TGTGGTATTGT-CCAAGTCATCTTTATTTTCT
1 GTGTTGTCTCGGTCAAATTTATTTTCTTGACTGT-TGGTATTATCCCAA-TCATCTTTATTTTCT
19002579 -GACTTGCA
64 GGACTTGCA
* *
19002587 GTGTTGTCTCGGTCAAATTTATTTTCTTGACTGTTGGTATTATCCCCATCATCTTTATTTTTTGG
1 GTGTTGTCTCGGTCAAATTTATTTTCTTGACTGTTGGTATTATCCCAATCATCTTTATTTTCTGG
19002652 ACTTGCA
66 ACTTGCA
19002659 TTTATGTCCC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
70 22 0.35
71 28 0.45
72 12 0.19
ACGTcount: A:0.15, C:0.16, G:0.18, T:0.51
Consensus pattern (72 bp):
GTGTTGTCTCGGTCAAATTTATTTTCTTGACTGTTGGTATTATCCCAATCATCTTTATTTTCTGG
ACTTGCA
Found at i:19002731 original size:107 final size:107
Alignment explanation
Indices: 19002564--19002756 Score: 241
Period size: 107 Copynumber: 1.8 Consensus size: 107
19002554 ATTGTCCAAG
* * * *
19002564 TCATCTTTATTTTCTGACTTGCAGTGTTGTCTCGGTCAAATTTATTTTCTTGACTGTTGGTATTA
1 TCATCTTTATTTTCTGACATGCAGTGTTATCTCAGTCAAATTGATTTTCTTGACTGTTGGTATTA
19002629 TCCCCA-TCATCTTTATTTTTTGGACTTGCATTTATGTCCCTA
66 T-CCCAGTCATCTTTATTTTTTGGACTTGCATTTATGTCCCTA
* * *
19002671 TCATCTTTATTTT-TGACATGCAGTGTTATCTCAGTCATAGTTGCTTTT-TTGA-TCGTTTGGTG
1 TCATCTTTATTTTCTGACATGCAGTGTTATCTCAGTCA-AATTGATTTTCTTGACT-G-TTGGTA
* *
19002733 TTGTCCCAGTTATCTTTATTTTTT
63 TTATCCCAGTCATCTTTATTTTTT
19002757 TTGATCTATG
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
105 1 0.01
106 30 0.41
107 42 0.58
ACGTcount: A:0.16, C:0.18, G:0.15, T:0.51
Consensus pattern (107 bp):
TCATCTTTATTTTCTGACATGCAGTGTTATCTCAGTCAAATTGATTTTCTTGACTGTTGGTATTA
TCCCAGTCATCTTTATTTTTTGGACTTGCATTTATGTCCCTA
Found at i:19002858 original size:36 final size:36
Alignment explanation
Indices: 19002797--19003390 Score: 244
Period size: 36 Copynumber: 16.6 Consensus size: 36
19002787 GTTGTCCTGG
* *
19002797 TCATCTCTATTTTTTTTGACCTGTGGTGTTGTCTCAA
1 TCATCTTTA-TTTTTTTGACTTGTGGTGTTGTCTCAA
* *
19002834 TCATCTTTATTTTTTTAACTTGTGGTGTTGTCTCGA
1 TCATCTTTATTTTTTTGACTTGTGGTGTTGTCTCAA
* * * * *
19002870 TCTTATTTATTTTTTTGAC-AGTTGATGTTGTCTCGA
1 TCATCTTTATTTTTTTGACTTG-TGGTGTTGTCTCAA
* ** * * *
19002906 TCATCTTTATTATTTCAACTTATGGTGTTGTCCCAG
1 TCATCTTTATTTTTTTGACTTGTGGTGTTGTCTCAA
* * * *
19002942 TCATCTTTA-TTTTTT-ACTTGTAGTGTTGTTTTAG
1 TCATCTTTATTTTTTTGACTTGTGGTGTTGTCTCAA
** * * *
19002976 TCAGATTTGTTTTCTTGACTAT-TGGTGTTG-CTTCAG
1 TCATCTTTATTTTTTTGACT-TGTGGTGTTGTC-TCAA
* * * * * *
19003012 TTATCTTTATTTTTTTAACCTGCGATGTTGTC-CTAT
1 TCATCTTTATTTTTTTGACTTGTGGTGTTGTCTC-AA
* * * * ** * *
19003048 TTATATTTA-TTTTTCGACCTGCAGTGTTGTCCCAG
1 TCATCTTTATTTTTTTGACTTGTGGTGTTGTCTCAA
* * *
19003083 TCATGC-TTATTTTTTTGA-TCGTTGATGTTGTCCCAA
1 TCAT-CTTTATTTTTTTGACTTG-TGGTGTTGTCTCAA
* * ** * *
19003119 TCATATTTGTTTTCCTAAC-TGTTGGTGTTGTCGCAA
1 TCATCTTTATTTTTTTGACTTG-TGGTGTTGTCTCAA
* * * * *
19003155 TCACCTTTA-TTTTTTGACCTGCGGTATTGTCCCAA
1 TCATCTTTATTTTTTTGACTTGTGGTGTTGTCTCAA
* * * * * ** * *
19003190 TAATTTTTA-TTTTCTAAGTTGCAGTGTTGTCCCGA
1 TCATCTTTATTTTTTTGACTTGTGGTGTTGTCTCAA
* * * ** ** *
19003225 TCATATTTGTTTTCTCAACTACTGGTGTTGTCTCGA
1 TCATCTTTATTTTTTTGACTTGTGGTGTTGTCTCAA
* * ** * * *
19003261 TTATCTTTATTTCTTTTGACCTACGATGTTGTCCCAG
1 TCATCTTTATTT-TTTTGACTTGTGGTGTTGTCTCAA
* * * *
19003298 TCATATTTA-TTTTTTGACCTATGGTGTTGTCTCGA
1 TCATCTTTATTTTTTTGACTTGTGGTGTTGTCTCAA
* * * *
19003333 TCATCTTTATTTTTTTGA-TCTATGATATTGTCTCGA
1 TCATCTTTATTTTTTTGACT-TGTGGTGTTGTCTCAA
19003369 TCATCTTTATTTTTTTGACTTG
1 TCATCTTTATTTTTTTGACTTG
19003391 CAGTATTATT
Statistics
Matches: 412, Mismatches: 124, Indels: 43
0.71 0.21 0.07
Matches are distributed among these distances:
34 20 0.05
35 113 0.27
36 248 0.60
37 31 0.08
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (36 bp):
TCATCTTTATTTTTTTGACTTGTGGTGTTGTCTCAA
Found at i:19002948 original size:271 final size:266
Alignment explanation
Indices: 19002517--19003027 Score: 579
Period size: 271 Copynumber: 1.9 Consensus size: 266
19002507 TCGACAATTG
* * *
19002517 GTGTTGTCTTGGTCATTTTTATTTTTTGACTTGTGGTATTGTCCAAGTCATCTTTATTTTCTGAC
1 GTGTTGTCCTGGTCATTTTTATTTTTTGACCTGTGGTATTGTCCAAGTCATCTTTATTTTCTAAC
* * * *
19002582 TTGCAGTGTTGTCTCGGTCAAATTTATTTTCTTGACTGTTGGTATTATCCCCATCATCTTTATTT
66 TTGCAGTGTTGTCTCGATCAAATTTATTTTCTTGACAGTTGATATTATCCCCATCATCTTTATTA
** *
19002647 TTTGGACTTGCATTTATGTCCCTATCATCTTTATTTTTGACATGCAGTGTTATCTCAGTCATAGT
131 TTTCAACTT-CATTTATGTCCCTATCATCTTTATTTTTGACATGCAGTGTTATCTCAGTCAGAGT
19002712 TGCTTTT-TTGATCGT-TTGGTGTTG-TCCCAGTTATCTTTATTTTTTTTGATCTATGGTGTGTC
195 TG-TTTTCTTGA-C-TATTGGTGTTGCT-CCAGTTATCTTTATTTTTTTTGATCTATGGTGTGTC
19002774 CCGGTCATCTT
256 CCGGTCATCTT
*
19002785 GTGTTGTCCTGGTCATCTCTATT-TTTTTTGACCTGTGGTGTTGTCTCAA-TCATCTTTATTTTT
1 GTGTTGTCCTGGTCAT-T-T-TTATTTTTTGACCTGTGGTATTGTC-CAAGTCATCTTTA-TTTT
* ** ** * * * * *
19002848 TTAACTTGTGGTGTTGTCTCGATCTTATTTATTTTTTTGACAGTTGATGTTGTCTCGATCATCTT
61 CTAACTTGCAGTGTTGTCTCGATCAAATTTATTTTCTTGACAGTTGATATTATCCCCATCATCTT
* * * * * *
19002913 TATTATTTCAACTT-ATGGTGT-TGTCCC-AGTCATCTTTATTTTTTACTTGTAGTGTTGTTTTA
126 TATTATTTCAACTTCAT--T-TATGTCCCTA-TCATCTTTATTTTTGACATGCAGTGTTATCTCA
* *
19002975 GTCAGATTTGTTTTCTTGACTATTGGTGTTGCTTCAGTTATCTTTATTTTTTT
187 GTCAGAGTTGTTTTCTTGACTATTGGTGTTGCTCCAGTTATCTTTATTTTTTT
19003028 AACCTGCGAT
Statistics
Matches: 202, Mismatches: 29, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
268 15 0.07
269 4 0.02
270 64 0.32
271 118 0.58
272 1 0.00
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.53
Consensus pattern (266 bp):
GTGTTGTCCTGGTCATTTTTATTTTTTGACCTGTGGTATTGTCCAAGTCATCTTTATTTTCTAAC
TTGCAGTGTTGTCTCGATCAAATTTATTTTCTTGACAGTTGATATTATCCCCATCATCTTTATTA
TTTCAACTTCATTTATGTCCCTATCATCTTTATTTTTGACATGCAGTGTTATCTCAGTCAGAGTT
GTTTTCTTGACTATTGGTGTTGCTCCAGTTATCTTTATTTTTTTTGATCTATGGTGTGTCCCGGT
CATCTT
Found at i:19003269 original size:106 final size:108
Alignment explanation
Indices: 19003108--19003310 Score: 259
Period size: 106 Copynumber: 1.9 Consensus size: 108
19003098 TGATCGTTGA
**
19003108 TGTTGTCCCAATCATATTTGTTTTCCTAACTGTTGGTGTTGTCGCAATCACCTTTA-TT-TTTTG
1 TGTTGTCCCAATCATATTTGTTTTCCTAACTACTGGTGTTGTCGCAATCACCTTTATTTCTTTTG
* * *
19003171 ACCTGCGGTATTGTCCCAATAATTTTTATTTTCTAAGTTGCAG
66 ACCTACGATATTGTCCCAATAATATTTATTTTCTAAGTTGCAG
* * * * *
19003214 TGTTGTCCCGATCATATTTGTTTT-CTCAACTACTGGTGTTGTCTCGATTATCTTTATTTCTTTT
1 TGTTGTCCCAATCATATTTGTTTTCCT-AACTACTGGTGTTGTCGCAATCACCTTTATTTCTTTT
* * *
19003278 GACCTACGATGTTGTCCCAGTCATATTTATTTT
65 GACCTACGATATTGTCCCAATAATATTTATTTT
19003311 TTGACCTATG
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
105 2 0.02
106 46 0.57
107 2 0.02
108 31 0.38
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (108 bp):
TGTTGTCCCAATCATATTTGTTTTCCTAACTACTGGTGTTGTCGCAATCACCTTTATTTCTTTTG
ACCTACGATATTGTCCCAATAATATTTATTTTCTAAGTTGCAG
Found at i:19003328 original size:108 final size:105
Alignment explanation
Indices: 19003072--19003387 Score: 287
Period size: 108 Copynumber: 2.9 Consensus size: 105
19003062 CGACCTGCAG
** * *
19003072 TGTTGTCCCAGTCATGCTTATTTTTTTGATCGTTGATGTTGTCCCAATCATATTTGTTTTC-CTA
1 TGTTGTCCCAGTCATATTTA-TTTTTTGA-CGTTGGTGTTGTCCCGATCATATTTGTTTTCTC-A
* * * * * *
19003136 ACTGTTGGTGTTGTCGCAATCACCTTTA-TTTTTTGACCTGCGG
63 ACT-ATGGTGTTGTCTCGATCATCTTTATTTTTTTGACCTACGA
* * * * * *
19003179 TATTGTCCCAATAATTTTTATTTTCT-AAGTTGCAGTGTTGTCCCGATCATATTTGTTTTCTCAA
1 TGTTGTCCCAGTCATATTTATTTTTTGACGTTG--GTGTTGTCCCGATCATATTTGTTTTCTCAA
*
19003243 CTACTGGTGTTGTCTCGATTATCTTTATTTCTTTTGACCTACGA
64 CTA-TGGTGTTGTCTCGATCATCTTTATTT-TTTTGACCTACGA
* * * * * * *
19003287 TGTTGTCCCAGTCATATTTATTTTTTGACCTATGGTGTTGTCTCGATCATCTTTATTTTTTTGAT
1 TGTTGTCCCAGTCATATTTATTTTTTGACGT-TGGTGTTGTCCCGATCATATTT-GTTTTCTCAA
* *
19003352 CTATGATATTGTCTCGATCATCTTTATTTTTTTGAC
64 CTATGGTGTTGTCTCGATCATCTTTATTTTTTTGAC
19003388 TTGCAGTATT
Statistics
Matches: 168, Mismatches: 32, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
104 4 0.02
105 1 0.01
106 52 0.31
107 25 0.15
108 73 0.43
109 11 0.07
110 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.16, T:0.49
Consensus pattern (105 bp):
TGTTGTCCCAGTCATATTTATTTTTTGACGTTGGTGTTGTCCCGATCATATTTGTTTTCTCAACT
ATGGTGTTGTCTCGATCATCTTTATTTTTTTGACCTACGA
Found at i:19003379 original size:18 final size:18
Alignment explanation
Indices: 19003324--19003379 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
19003314 ACCTATGGTG
19003324 TTGTCTCGATCATCTTTA
1 TTGTCTCGATCATCTTTA
* * * **
19003342 TTTTTTTGATCTAT-GATA
1 TTGTCTCGATC-ATCTTTA
19003360 TTGTCTCGATCATCTTTA
1 TTGTCTCGATCATCTTTA
19003378 TT
1 TT
19003380 TTTTTGACTT
Statistics
Matches: 26, Mismatches: 10, Indels: 4
0.65 0.25 0.10
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (18 bp):
TTGTCTCGATCATCTTTA
Found at i:19003387 original size:72 final size:72
Alignment explanation
Indices: 19003216--19003383 Score: 198
Period size: 71 Copynumber: 2.3 Consensus size: 72
19003206 AGTTGCAGTG
* * * * *
19003216 TTGTCCC-GATCATATTTGTTTTCTCAACTACTGGTGTTGTCTCGATTATCTTTATTTCTTTTGA
1 TTGTCCCAG-TCATATTTATTTTTTGACCTA-TGGTGTTGTCTCGATCATCTTTATTTCTTTTGA
*
19003280 CCTACGATG
64 CCTACGATA
*
19003289 TTGTCCCAGTCATATTTATTTTTTGACCTATGGTGTTGTCTCGATCATCTTTATTT-TTTTGATC
1 TTGTCCCAGTCATATTTATTTTTTGACCTATGGTGTTGTCTCGATCATCTTTATTTCTTTTGACC
*
19003353 TATGATA
66 TACGATA
* *
19003360 TTGTCTC-GATCATCTTTATTTTTT
1 TTGTCCCAG-TCATATTTATTTTTT
19003384 TGACTTGCAG
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
70 1 0.01
71 32 0.39
72 25 0.30
73 24 0.29
74 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.14, T:0.52
Consensus pattern (72 bp):
TTGTCCCAGTCATATTTATTTTTTGACCTATGGTGTTGTCTCGATCATCTTTATTTCTTTTGACC
TACGATA
Found at i:19003452 original size:36 final size:36
Alignment explanation
Indices: 19003249--19003454 Score: 163
Period size: 36 Copynumber: 5.8 Consensus size: 36
19003239 TCAACTACTG
* *
19003249 GTGTTGTCTCGATTATCTTTATTTCTTTTGACCTA-C
1 GTGTTGTCTCGATCATCTTTATTT-TTTTGACCTATA
* * *
19003285 GATGTTGTC-CCAGTCATATTTA-TTTTTTGACCTATG
1 G-TGTTGTCTCGA-TCATCTTTATTTTTTTGACCTATA
*
19003321 GTGTTGTCTCGATCATCTTTATTTTTTTGATCTAT-
1 GTGTTGTCTCGATCATCTTTATTTTTTTGACCTATA
* * **
19003356 GATATTGTCTCGATCATCTTTATTTTTTTGACTTGCA
1 G-TGTTGTCTCGATCATCTTTATTTTTTTGACCTATA
* * * * * **
19003393 GTATTATTTTGATCGTAATT-TTTTTTT-ACCTATA
1 GTGTTGTCTCGATCATCTTTATTTTTTTGACCTATA
* *
19003427 GTGTTATCTCGATTATCTTTATTTTTTT
1 GTGTTGTCTCGATCATCTTTATTTTTTT
19003455 AACTTGTGGT
Statistics
Matches: 134, Mismatches: 28, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
34 17 0.13
35 40 0.30
36 62 0.46
37 15 0.11
ACGTcount: A:0.17, C:0.15, G:0.13, T:0.55
Consensus pattern (36 bp):
GTGTTGTCTCGATCATCTTTATTTTTTTGACCTATA
Found at i:19003522 original size:14 final size:13
Alignment explanation
Indices: 19003492--19003566 Score: 63
Period size: 13 Copynumber: 5.9 Consensus size: 13
19003482 TTATCTTTTG
19003492 AAAA-AAAAAAACC
1 AAAACAAAAAAA-C
*
19003505 AAAACAAAACAAAG
1 AAAACAAAA-AAAC
19003519 AAAAC--AAAAAC
1 AAAACAAAAAAAC
19003530 -AAACAAACAAAAGC
1 AAAACAAA-AAAA-C
19003544 AAAAC-AAAAAA-
1 AAAACAAAAAAAC
19003555 AAAACAAAAAAA
1 AAAACAAAAAAA
19003567 ATGAAAAATG
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
10 4 0.08
11 8 0.15
12 9 0.17
13 12 0.23
14 12 0.23
15 7 0.13
ACGTcount: A:0.83, C:0.15, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAACAAAAAAAC
Found at i:19003533 original size:19 final size:18
Alignment explanation
Indices: 19003496--19003564 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 18
19003486 CTTTTGAAAA
*
19003496 AAAAAAACCAAAACAAAAC
1 AAAAAAACAAAAAC-AAAC
19003515 AAAGAAAACAAAAACAAAC
1 AAA-AAAACAAAAACAAAC
19003534 AAACAAAAGC-AAAACAAA-
1 AAA-AAAA-CAAAAACAAAC
19003552 AAAAAAACAAAAA
1 AAAAAAACAAAAA
19003565 AAATGAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
16 1 0.02
17 8 0.18
18 3 0.07
19 22 0.49
20 11 0.24
ACGTcount: A:0.81, C:0.16, G:0.03, T:0.00
Consensus pattern (18 bp):
AAAAAAACAAAAACAAAC
Found at i:19003566 original size:19 final size:20
Alignment explanation
Indices: 19003499--19003566 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 20
19003489 TTGAAAAAAA
* *
19003499 AAAACCAAAACAAAACAAAG
1 AAAACAAAAAAAAAACAAAG
19003519 AAAACAAAAACAAACAAACAAAAG
1 AAAAC-AAAA-AAA-AAAC-AAAG
19003543 CAAAACAAAAAAAAAACAAA-
1 -AAAACAAAAAAAAAACAAAG
19003563 AAAA
1 AAAA
19003567 ATGAAAAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.10
20 5 0.12
21 6 0.15
22 6 0.15
23 7 0.17
24 8 0.20
25 5 0.12
ACGTcount: A:0.81, C:0.16, G:0.03, T:0.00
Consensus pattern (20 bp):
AAAACAAAAAAAAAACAAAG
Found at i:19003567 original size:14 final size:14
Alignment explanation
Indices: 19003492--19003567 Score: 55
Period size: 15 Copynumber: 5.3 Consensus size: 14
19003482 TTATCTTTTG
*
19003492 AAAAAAAAAAACCA
1 AAAAAAAAAAAACA
* * *
19003506 AAACAAAACAAAGA
1 AAAAAAAAAAAACA
*
19003520 AAACAAAAACAAACA
1 AAA-AAAAAAAAACA
**
19003535 AACAAAAGCAAAACA
1 AA-AAAAAAAAAACA
19003550 AAAAAAAAACAAA-A
1 AAAAAAAAA-AAACA
19003564 AAAA
1 AAAA
19003568 TGAAAAATGG
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 23 0.48
15 24 0.50
16 1 0.02
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAACA
Found at i:19003574 original size:10 final size:10
Alignment explanation
Indices: 19003494--19003567 Score: 60
Period size: 11 Copynumber: 6.8 Consensus size: 10
19003484 ATCTTTTGAA
19003494 AAAAAAAAACC
1 AAAAAAAAA-C
*
19003505 AAAACAAAAC
1 AAAAAAAAAC
19003515 AAAGAAAACAA-
1 AAA-AAAA-AAC
19003526 AAACAAACAAAC
1 AAA-AAA-AAAC
*
19003538 AAAAGCAAAAC
1 AAAA-AAAAAC
19003549 AAAAAAAAAAC
1 -AAAAAAAAAC
19003560 AAAAAAAA
1 AAAAAAAA
19003568 TGAAAAATGG
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
10 12 0.23
11 29 0.56
12 11 0.21
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:19004641 original size:344 final size:343
Alignment explanation
Indices: 19004014--19004700 Score: 1031
Period size: 344 Copynumber: 2.0 Consensus size: 343
19004004 GATTTTTAAA
*
19004014 GCACTAAAACTTTTATTACACTTAGGAAATTACAAAATTACTAAAATGCCCTTTTGAGGTATTTT
1 GCACTAAAACTTTTATTACACCTAGGAAATTACAAAATTACTAAAATGCCCTTTTGAGGTATTTT
* * * *
19004079 TGTAATTTGGTTTTTTTTAACCTTGGATTTTCATAAAACTTTCAAGATCTTAATTTCATAATATT
66 TGTAATATGGTCTTTTTTAA-CTCGAATTTTCATAAAACTTTCAAGATCTTAATTTCATAATATT
19004144 TCATCATTTTTGATGCATTTGAAATGACAACGTACCCTGAGAAGTATGAAATTATCAAAATACTC
130 TCATCATTTTTGATGCATTTGAAATGACAACGTACCCTGAGAAGTATGAAATTATCAAAATACTC
* *
19004209 TTTAGAGGTTTTTCGTGATTTAGCCTTCTTAAGCTCAGATTTTCTTGAAACTTTTCAAATCTTAA
195 ATTAGAGGTTTTTCGTGATTTAGCCTTCTTAAGCTCAGATTTTCTTAAAACTTTTCAAATCTTAA
* * * ** *
19004274 TTTCATAATATTTCATAATTTTTGGTGTATTTGAAATCATAACGGTA-CCTCGAGAGGTGTGAAA
260 TTTCATAATATTTCATAATTTTTGGAGCATTTGAAATCACAACAATACCCT-AAGAGGTGTGAAA
*
19004338 TTATCAAAATACCTTTTATT
324 TTATCAAAATACCTCTTATT
* * * *
19004358 GCACTAAAATTTTTATTACACCTAGGGAATTACAAAATTA-TGAAAATGCTCTTTTGGGGTATTT
1 GCACTAAAACTTTTATTACACCTAGGAAATTACAAAATTACT-AAAATGCCCTTTTGAGGTATTT
*
19004422 TTGTAATATGGTCTTTTTTAGA-TCGAATTTTCATAAAACTTTTCAA-ATCTTAATTTCATAGTA
65 TTGTAATATGGTCTTTTTTA-ACTCGAATTTTCATAAAAC-TTTCAAGATCTTAATTTCATAATA
* * *
19004485 TTTCATGATTTTTGGTGCATTTGAAATGACAACAGTACCTTGAGAAGTATGAAATTATCAAAATA
128 TTTCATCATTTTTGATGCATTTGAAATGACAAC-GTACCCTGAGAAGTATGAAATTATCAAAATA
* * * *
19004550 CTCATTAGTGGTTTTTCGTGATTTGGCCTTTTTAAGCTCGGATTTTCTTAAAACTTTTCAAATCT
192 CTCATTAGAGGTTTTTCGTGATTTAGCCTTCTTAAGCTCAGATTTTCTTAAAACTTTTCAAATCT
*
19004615 TAATTTCATAATATTTCATGATTTTTGGAGCATTTGAAATCACAACAATACCCTAAGAGGTGTGA
257 TAATTTCATAATATTTCATAATTTTTGGAGCATTTGAAATCACAACAATACCCTAAGAGGTGTGA
**
19004680 AATTATTGAAATACCTCTTAT
322 AATTATCAAAATACCTCTTAT
19004701 GGGCATTTCG
Statistics
Matches: 309, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
343 63 0.20
344 242 0.78
345 4 0.01
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (343 bp):
GCACTAAAACTTTTATTACACCTAGGAAATTACAAAATTACTAAAATGCCCTTTTGAGGTATTTT
TGTAATATGGTCTTTTTTAACTCGAATTTTCATAAAACTTTCAAGATCTTAATTTCATAATATTT
CATCATTTTTGATGCATTTGAAATGACAACGTACCCTGAGAAGTATGAAATTATCAAAATACTCA
TTAGAGGTTTTTCGTGATTTAGCCTTCTTAAGCTCAGATTTTCTTAAAACTTTTCAAATCTTAAT
TTCATAATATTTCATAATTTTTGGAGCATTTGAAATCACAACAATACCCTAAGAGGTGTGAAATT
ATCAAAATACCTCTTATT
Found at i:19004710 original size:143 final size:143
Alignment explanation
Indices: 19004434--19004782 Score: 391
Period size: 143 Copynumber: 2.4 Consensus size: 143
19004424 GTAATATGGT
* * * *
19004434 CTTTTTTAGATCGAATTTTCATAAAACTTTTCAAATCTTAATTTCATAGTATTTCATGATTTTTG
1 CTTTTTAAGCTCGGATTTTCATAAAACTTTTCAAATCTTAATTTCATAATATTTCATGATTTTTG
* * * * * **
19004499 GTGCATTTGAAATGACAACAGTACCTTGAGAAGTATGAAATTATCAAAATACTCATTAGTGGTTT
66 GAGCATTTGAAATCACAACAATACCCTAAGAAGTATGAAATTATCAAAATACTCATTAGTGGCAT
* **
19004564 TTCGTGATTTGGC
131 TTCGTAATTTAAC
*
19004577 CTTTTTAAGCTCGGATTTTCTTAAAACTTTTCAAATCTTAATTTCATAATATTTCATGATTTTTG
1 CTTTTTAAGCTCGGATTTTCATAAAACTTTTCAAATCTTAATTTCATAATATTTCATGATTTTTG
* * **
19004642 GAGCATTTGAAATCACAACAATACCCTAAGAGGTGTGAAATTATTGAAATACCTC-TTA-TGGGC
66 GAGCATTTGAAATCACAACAATACCCTAAGAAGTATGAAATTATCAAAATA-CTCATTAGT-GGC
*
19004705 ATTTCGTAATTTAAT
129 ATTTCGTAATTTAAC
** * * * * *
19004720 CTTTTTGGGCTCAGATTTTCATGAAATTTTTTAGAT-TTCAAATTT-ATAATATTTCATGATTTT
1 CTTTTTAAGCTCGGATTTTCATAAAACTTTTCAAATCTT--AATTTCATAATATTTCATGATTTT
19004783 CGTTGCTTTA
Statistics
Matches: 174, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
142 3 0.02
143 163 0.94
144 8 0.05
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (143 bp):
CTTTTTAAGCTCGGATTTTCATAAAACTTTTCAAATCTTAATTTCATAATATTTCATGATTTTTG
GAGCATTTGAAATCACAACAATACCCTAAGAAGTATGAAATTATCAAAATACTCATTAGTGGCAT
TTCGTAATTTAAC
Found at i:19005592 original size:17 final size:17
Alignment explanation
Indices: 19005570--19005603 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19005560 GTGATATAAG
19005570 GATGTTGTTTGACTTTA
1 GATGTTGTTTGACTTTA
19005587 GATGTTGTTTGACTTTA
1 GATGTTGTTTGACTTTA
19005604 CATATTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.24, T:0.53
Consensus pattern (17 bp):
GATGTTGTTTGACTTTA
Found at i:19013720 original size:22 final size:22
Alignment explanation
Indices: 19013691--19013740 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
19013681 TTCAAAGATA
* *
19013691 AGCATGATTTATAAGACCTTCG
1 AGCATGATCTATAAGACCTCCG
*
19013713 CGCATGATCTATAAGACCTCCG
1 AGCATGATCTATAAGACCTCCG
19013735 AGCATG
1 AGCATG
19013741 TTCTTCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (22 bp):
AGCATGATCTATAAGACCTCCG
Found at i:19013956 original size:20 final size:21
Alignment explanation
Indices: 19013928--19013973 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
19013918 CCTCTAAAAT
*
19013928 TTTTTAATGTGAA-CTTTGAA
1 TTTTGAATGTGAATCTTTGAA
19013948 TTTTGAATGTGAATCTTTGAA
1 TTTTGAATGTGAATCTTTGAA
19013969 TTTTG
1 TTTTG
19013974 TGAATCTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.52
Consensus pattern (21 bp):
TTTTGAATGTGAATCTTTGAA
Found at i:19014037 original size:17 final size:17
Alignment explanation
Indices: 19013955--19014097 Score: 60
Period size: 17 Copynumber: 8.4 Consensus size: 17
19013945 GAATTTTGAA
*
19013955 TGTGAATCTTTGAATT-T
1 TGTGAAT-TTTAAATTCT
19013972 TGTGAATCTTT-AATTCT
1 TGTGAAT-TTTAAATTCT
* * ** *
19013989 TATCAATAATAAAATCT
1 TGTGAATTTTAAATTCT
* *
19014006 TG-GAAATATTCAATTCT
1 TGTG-AATTTTAAATTCT
*
19014023 TGTGAATTTTAAATTTT
1 TGTGAATTTTAAATTCT
* * **
19014040 TGCGAA-TCTACTTTCT
1 TGTGAATTTTAAATTCT
**
19014056 TGTGAATTTTCGATTCT
1 TGTGAATTTTAAATTCT
** *
19014073 TACGAATATTCAAATTCT
1 TGTGAAT-TTTAAATTCT
19014091 TGTGAAT
1 TGTGAAT
19014098 CTAAGTGCTT
Statistics
Matches: 90, Mismatches: 30, Indels: 11
0.69 0.23 0.08
Matches are distributed among these distances:
16 16 0.18
17 61 0.68
18 13 0.14
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (17 bp):
TGTGAATTTTAAATTCT
Found at i:19014386 original size:15 final size:15
Alignment explanation
Indices: 19014363--19014392 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19014353 GGAAATTTGA
19014363 AAATCTTGTGAATCT
1 AAATCTTGTGAATCT
*
19014378 AAATTTTGTGAATCT
1 AAATCTTGTGAATCT
19014393 TTCAAAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (15 bp):
AAATCTTGTGAATCT
Found at i:19022259 original size:27 final size:30
Alignment explanation
Indices: 19022205--19022269 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 30
19022195 TCTGTTCAAC
19022205 TTAAATTCAAAACTTTGTTAACTCAAATTAAT
1 TTAAATTCAAAACTTTGTTAA--CAAATTAAT
19022237 TTAAATTCAAAA-TTT-TTAA-AAATTAAT
1 TTAAATTCAAAACTTTGTTAACAAATTAAT
*
19022264 TAAAAT
1 TTAAAT
19022270 ATTCAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 13 0.41
30 4 0.12
31 3 0.09
32 12 0.38
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (30 bp):
TTAAATTCAAAACTTTGTTAACAAATTAAT
Found at i:19026388 original size:101 final size:101
Alignment explanation
Indices: 19026213--19026406 Score: 379
Period size: 101 Copynumber: 1.9 Consensus size: 101
19026203 AATTGATCGC
*
19026213 TAATAATATTTTGATCACTTACGAGATCATCCATAAGCTCAAGATGAGAAACAGAGAGAAAGGAG
1 TAATAATATTTTGATCACTTACGAGATCATCCATAAGCTCAAGATCAGAAACAGAGAGAAAGGAG
19026278 GTTTTGTGGCACTCAAACTTGACATAAGGCGTATGA
66 GTTTTGTGGCACTCAAACTTGACATAAGGCGTATGA
19026314 TAATAATATTTTGATCACTTACGAGATCATCCATAAGCTCAAGATCAGAAACAGAGAGAAAGGAG
1 TAATAATATTTTGATCACTTACGAGATCATCCATAAGCTCAAGATCAGAAACAGAGAGAAAGGAG
19026379 GTTTTGTGGCACTCAAACTTGACATAAG
66 GTTTTGTGGCACTCAAACTTGACATAAG
19026407 TAAGGCGTAT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (101 bp):
TAATAATATTTTGATCACTTACGAGATCATCCATAAGCTCAAGATCAGAAACAGAGAGAAAGGAG
GTTTTGTGGCACTCAAACTTGACATAAGGCGTATGA
Found at i:19026622 original size:154 final size:154
Alignment explanation
Indices: 19026342--19026647 Score: 441
Period size: 154 Copynumber: 2.0 Consensus size: 154
19026332 TTACGAGATC
* * ** * *
19026342 ATCCATAAGCTCAAGATCAGAAACAGAGAGAAAGGAGGTTTTGTGGCACTCAAACTTGACATAAG
1 ATCCATAAGCTAAAGAGCAGAAACAGAGAGAAAAAAGGTCTCGTGGCACTCAAACTTGACATAAG
* * * * * *
19026407 TAAGGCGTATGATAGGGTTGAGTGGTCGTTTTTTGAAGCTATGATGTATAGGCTTGGATTCCACC
66 TAAGGCATATGACAAGGTTGAGTGATCATTTTTTGAAGCTATGATGTACAGGCTTGGATTCCACC
19026472 CTAAGTGGGCTAATCTCATTATAA
131 CTAAGTGGGCTAATCTCATTATAA
* * *
19026496 ATCCATAAGCTAAAGAGGAGAAACAGAGAGAAAAAAGGTCTCGTGGGACTCAAACTTGATATAAG
1 ATCCATAAGCTAAAGAGCAGAAACAGAGAGAAAAAAGGTCTCGTGGCACTCAAACTTGACATAAG
* * *
19026561 TAAGGCATATGGCAAGGTTGAGTGATCATTTTTTGAGGCTATGATGTACAGGCTTGGATTCCATC
66 TAAGGCATATGACAAGGTTGAGTGATCATTTTTTGAAGCTATGATGTACAGGCTTGGATTCCACC
*
19026626 CTAAGTGGGTTAATCTCATTAT
131 CTAAGTGGGCTAATCTCATTAT
19026648 GCAATGTATA
Statistics
Matches: 133, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
154 133 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (154 bp):
ATCCATAAGCTAAAGAGCAGAAACAGAGAGAAAAAAGGTCTCGTGGCACTCAAACTTGACATAAG
TAAGGCATATGACAAGGTTGAGTGATCATTTTTTGAAGCTATGATGTACAGGCTTGGATTCCACC
CTAAGTGGGCTAATCTCATTATAA
Found at i:19029977 original size:2 final size:2
Alignment explanation
Indices: 19029972--19029996 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19029962 TATATTTTGC
19029972 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
19029997 ACGGATTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19030094 original size:40 final size:40
Alignment explanation
Indices: 19030034--19030112 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
19030024 TATTTACTAT
* * *
19030034 CCATTGCTTTCCCAAGAGAAAGGTGTAGTAAAAATTGTAC
1 CCATTGCCTTCCCAAAAGAAAAGTGTAGTAAAAATTGTAC
19030074 CCATTGCCTTCCCAAAAGAAAAGTGTAGTAAAAATTGTA
1 CCATTGCCTTCCCAAAAGAAAAGTGTAGTAAAAATTGTA
19030113 GGTATTTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (40 bp):
CCATTGCCTTCCCAAAAGAAAAGTGTAGTAAAAATTGTAC
Found at i:19033663 original size:13 final size:13
Alignment explanation
Indices: 19033641--19033675 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
19033631 AGGAAAAATG
*
19033641 AAATATAAAGAAA
1 AAATAAAAAGAAA
19033654 AAATAAAAAGAAA
1 AAATAAAAAGAAA
*
19033667 AAAGAAAAA
1 AAATAAAAA
19033676 TTTTCATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (13 bp):
AAATAAAAAGAAA
Found at i:19034549 original size:12 final size:13
Alignment explanation
Indices: 19034534--19034593 Score: 65
Period size: 12 Copynumber: 4.7 Consensus size: 13
19034524 AAATTATTTT
19034534 TTTAATTT-TATA
1 TTTAATTTATATA
19034546 TTTAATTATATATA
1 TTTAATT-TATATA
19034560 TTT--TTATATATA
1 TTTAATT-TATATA
19034572 TTTAATTT-TATA
1 TTTAATTTATATA
19034584 TTTATATTTA
1 TTTA-ATTTA
19034594 AAATAATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
12 27 0.64
13 6 0.14
14 9 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTAATTTATATA
Found at i:19034566 original size:22 final size:22
Alignment explanation
Indices: 19034539--19034594 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
19034529 ATTTTTTTAA
19034539 TTTTATATTTAATT-ATATATAT
1 TTTTATATTTAATTAAT-TATAT
* * *
19034561 TTTTATATATATTTAATTTTAT
1 TTTTATATTTAATTAATTATAT
*
19034583 ATTTATATTTAA
1 TTTTATATTTAA
19034595 AATAATATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTATATTTAATTAATTATAT
Found at i:19034571 original size:16 final size:16
Alignment explanation
Indices: 19034552--19034590 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19034542 TATATTTAAT
*
19034552 TATATATATTTTTATA
1 TATATATAATTTTATA
*
19034568 TATATTTAATTTTATA
1 TATATATAATTTTATA
*
19034584 TTTATAT
1 TATATAT
19034591 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATATAATTTTATA
Found at i:19036077 original size:12 final size:12
Alignment explanation
Indices: 19036060--19036090 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
19036050 TTTATTTATT
19036060 TTTATTTTACTA
1 TTTATTTTACTA
*
19036072 TTTATTTTGCTA
1 TTTATTTTACTA
19036084 TTTATTT
1 TTTATTT
19036091 ATTACTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTATTTTACTA
Found at i:19036643 original size:25 final size:24
Alignment explanation
Indices: 19036600--19036657 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
19036590 GAAATTTTTT
***
19036600 TATTTTTTATTTTTATTATGTTTA
1 TATTTTTTATTTTTATTATACCTA
19036624 TATTTTTTATAATTTT-TTATACCTA
1 TATTTTTTAT--TTTTATTATACCTA
19036649 TATTTTTTA
1 TATTTTTTA
19036658 ATTAATTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.34
25 15 0.52
26 4 0.14
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (24 bp):
TATTTTTTATTTTTATTATACCTA
Found at i:19039340 original size:37 final size:36
Alignment explanation
Indices: 19039240--19039340 Score: 93
Period size: 33 Copynumber: 2.9 Consensus size: 36
19039230 CTAAAAAGTT
* *
19039240 CTTGGATATCACCATCGA-AAAATTTTAA--AGAAG
1 CTTGGATATCACCATTGAGAAAATTTTAATGAAAAG
* * * * *
19039273 CTCGAATATGACCA-TGAGAAAATATCAATGAAAAGG
1 CTTGGATATCACCATTGAGAAAATTTTAATGAAAA-G
*
19039309 CTTGGATATTACCATTGAGAAAATTTTAATGA
1 CTTGGATATCACCATTGAGAAAATTTTAATGA
19039341 CATTCAAATG
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
32 2 0.04
33 19 0.37
35 3 0.06
36 12 0.24
37 15 0.29
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (36 bp):
CTTGGATATCACCATTGAGAAAATTTTAATGAAAAG
Found at i:19043973 original size:16 final size:16
Alignment explanation
Indices: 19043926--19043977 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
19043916 CTTAATTGTT
19043926 TAATTTTGTATTTTTAG
1 TAATTTT-TATTTTTAG
* **
19043943 CAATTTCCATTTTTAG
1 TAATTTTTATTTTTAG
*
19043959 TAATTTTTATATTTAG
1 TAATTTTTATTTTTAG
19043975 TAA
1 TAA
19043978 GGTTTAGTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 23 0.82
17 5 0.18
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.58
Consensus pattern (16 bp):
TAATTTTTATTTTTAG
Found at i:19046914 original size:14 final size:14
Alignment explanation
Indices: 19046895--19046923 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19046885 TACAACATAG
19046895 TCTTGACACATCAA
1 TCTTGACACATCAA
19046909 TCTTGACACATCAA
1 TCTTGACACATCAA
19046923 T
1 T
19046924 TTACTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (14 bp):
TCTTGACACATCAA
Found at i:19055522 original size:21 final size:20
Alignment explanation
Indices: 19055494--19055547 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
19055484 CCAAGATTGC
19055494 AAAA-GGATCGATCACCCAGA
1 AAAAGGGATCGATCACCCA-A
** * *
19055514 CTAAGGGATTGATCACCTAA
1 AAAAGGGATCGATCACCCAA
19055534 AAAAGGGATCGATC
1 AAAAGGGATCGATC
19055548 CCTTATGCCC
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (20 bp):
AAAAGGGATCGATCACCCAA
Found at i:19061359 original size:15 final size:16
Alignment explanation
Indices: 19061333--19061366 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
19061323 AGCAACAAAG
19061333 AAAATACATAAAAGTA
1 AAAATACATAAAAGTA
*
19061349 AAAATAC-TAAAATTA
1 AAAATACATAAAAGTA
19061364 AAA
1 AAA
19061367 TTATTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAATACATAAAAGTA
Found at i:19064986 original size:18 final size:19
Alignment explanation
Indices: 19064959--19065000 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
19064949 TAAAATAAAG
19064959 AAAAACTTCAT-T-TTTTGA
1 AAAAACTTCATCTCTTTT-A
*
19064977 AAAAATTTCATCTCTTTTA
1 AAAAACTTCATCTCTTTTA
19064996 AAAAA
1 AAAAA
19065001 AAAAATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
19 7 0.33
20 4 0.19
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (19 bp):
AAAAACTTCATCTCTTTTA
Found at i:19065497 original size:55 final size:55
Alignment explanation
Indices: 19065413--19065524 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
19065403 ACCAATGATA
19065413 AGCTGCAAACGGGAAGGGTTCAATTTGAGATAGAGTACTTCATTTGCTATTGCAG
1 AGCTGCAAACGGGAAGGGTTCAATTTGAGATAGAGTACTTCATTTGCTATTGCAG
*
19065468 AGCTGCAAACGGGAAGGGTTCAATTTGAGATAGAGTACTTCATTTGCTATTGTAG
1 AGCTGCAAACGGGAAGGGTTCAATTTGAGATAGAGTACTTCATTTGCTATTGCAG
19065523 AG
1 AG
19065525 GTTATCACTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCTGCAAACGGGAAGGGTTCAATTTGAGATAGAGTACTTCATTTGCTATTGCAG
Found at i:19065590 original size:61 final size:61
Alignment explanation
Indices: 19065495--19065616 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
19065485 GTTCAATTTG
* *
19065495 AGATAGAGTACTTCATTTGCTATTGTAGAGGTTATCACTTCACGAGAGTATAGGTACTCTA
1 AGATAGAGTACTTCATTTGCTATTGCAGAGGTTATCACTTCACGAGAGTATAAGTACTCTA
*
19065556 AGATAGAGTACTTCATTTGCTATTGCAGAGGTTATCACTTCACGAGAGTATAAGTATTCTA
1 AGATAGAGTACTTCATTTGCTATTGCAGAGGTTATCACTTCACGAGAGTATAAGTACTCTA
19065617 CTTTTTTATA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (61 bp):
AGATAGAGTACTTCATTTGCTATTGCAGAGGTTATCACTTCACGAGAGTATAAGTACTCTA
Found at i:19066091 original size:10 final size:10
Alignment explanation
Indices: 19066076--19066101 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
19066066 TAATAAAATC
19066076 TTAAAATTTA
1 TTAAAATTTA
19066086 TTAAAATTTA
1 TTAAAATTTA
19066096 TTAAAA
1 TTAAAA
19066102 AGATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAAAATTTA
Done.