Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 67 of 161
Found at i:20884375 original size:21 final size:20
Alignment explanation
Indices: 20884351--20884396 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
20884341 AGGCTAAAAA
20884351 AATGAGAAGAGAAGTAGCTGC
1 AATGAGAA-AGAAGTAGCTGC
* *
20884372 AATGGAGAAAGAGGTTGCTGC
1 AAT-GAGAAAGAAGTAGCTGC
20884393 AATG
1 AATG
20884397 CGTGTGGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.39, C:0.09, G:0.35, T:0.17
Consensus pattern (20 bp):
AATGAGAAAGAAGTAGCTGC
Found at i:20888779 original size:18 final size:18
Alignment explanation
Indices: 20888753--20888788 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20888743 AAATCGAAAA
20888753 AATTCGGTTAACCGATCG
1 AATTCGGTTAACCGATCG
* *
20888771 AATTTGGTTAATCGATCG
1 AATTCGGTTAACCGATCG
20888789 GTTAACCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (18 bp):
AATTCGGTTAACCGATCG
Found at i:20889003 original size:13 final size:13
Alignment explanation
Indices: 20888985--20889011 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20888975 ACCAACCCAA
20888985 TAAAACTAAAGTC
1 TAAAACTAAAGTC
20888998 TAAAACTAAAGTC
1 TAAAACTAAAGTC
20889011 T
1 T
20889012 CTAACACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (13 bp):
TAAAACTAAAGTC
Found at i:20889480 original size:9 final size:9
Alignment explanation
Indices: 20889466--20889518 Score: 72
Period size: 9 Copynumber: 5.7 Consensus size: 9
20889456 ATAATAAAAT
20889466 TTAATTCGG
1 TTAATTCGG
20889475 TTAATTCAGG
1 TTAATTC-GG
20889485 -TAATTCGG
1 TTAATTCGG
20889493 TTAATTTCCGG
1 TTAA-TT-CGG
20889504 TTAATTCGG
1 TTAATTCGG
20889513 TTAATT
1 TTAATT
20889519 TAGTTAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
8 2 0.05
9 25 0.62
10 6 0.15
11 7 0.17
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.45
Consensus pattern (9 bp):
TTAATTCGG
Found at i:20889506 original size:11 final size:10
Alignment explanation
Indices: 20889466--20889528 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 10
20889456 ATAATAAAAT
20889466 TTAA-TTCGG
1 TTAATTTCGG
20889475 TTAA-TTCAGG
1 TTAATTTC-GG
20889485 -TAA-TTCGG
1 TTAATTTCGG
20889493 TTAATTTCCGG
1 TTAATTT-CGG
20889504 TTAA-TTCGG
1 TTAATTTCGG
*
20889513 TTAATTT-AG
1 TTAATTTCGG
20889522 TTAATTT
1 TTAATTT
20889529 TTAACCAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
8 2 0.04
9 31 0.65
10 8 0.17
11 7 0.15
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (10 bp):
TTAATTTCGG
Found at i:20889506 original size:29 final size:29
Alignment explanation
Indices: 20889472--20889528 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
20889462 AAATTTAATT
*
20889472 CGGTTAATTCAGG-TAATTCGGTTAATTTC
1 CGGTTAATTC-GGTTAATTCAGTTAATTTC
*
20889501 CGGTTAATTCGGTTAATTTAGTTAATTT
1 CGGTTAATTCGGTTAATTCAGTTAATTT
20889529 TTAACCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.46
Consensus pattern (29 bp):
CGGTTAATTCGGTTAATTCAGTTAATTTC
Found at i:20889510 original size:20 final size:20
Alignment explanation
Indices: 20889466--20889527 Score: 87
Period size: 18 Copynumber: 3.3 Consensus size: 20
20889456 ATAATAAAAT
20889466 TTAATTCGGTTAA-TTCAGG
1 TTAATTCGGTTAATTTCAGG
*
20889485 -TAATTCGGTTAATTTCCGG
1 TTAATTCGGTTAATTTCAGG
20889504 TTAATTCGGTTAATTT-A-G
1 TTAATTCGGTTAATTTCAGG
20889522 TTAATT
1 TTAATT
20889528 TTTAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 19 0.49
19 5 0.13
20 15 0.38
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.47
Consensus pattern (20 bp):
TTAATTCGGTTAATTTCAGG
Found at i:20893485 original size:33 final size:33
Alignment explanation
Indices: 20893423--20893488 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
20893413 AACATAGAAA
20893423 TGAATGATGGTAATGTTGTAAATAAAAAGGAGT
1 TGAATGATGGTAATGTTGTAAATAAAAAGGAGT
* * *
20893456 TGAATGATGTTAAAT-TTGTTAATAGAAAGGAGT
1 TGAATGATGGT-AATGTTGTAAATAAAAAGGAGT
20893489 CTAAATGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (33 bp):
TGAATGATGGTAATGTTGTAAATAAAAAGGAGT
Found at i:20896649 original size:20 final size:20
Alignment explanation
Indices: 20896583--20896665 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
20896573 AATGATGTAT
* *
20896583 AACAGAGGGATCGAAGTGCA
1 AACAGAGGCATCAAAGTGCA
* *
20896603 GATAGAGGCA-CAAATGTG-A
1 AACAGAGGCATCAAA-GTGCA
* *
20896622 AATTAGAGGCATCGAAGTGCA
1 AA-CAGAGGCATCAAAGTGCA
*
20896643 AACAGAGGCACCAAAGTGCA
1 AACAGAGGCATCAAAGTGCA
20896663 AAC
1 AAC
20896666 CTGTACAAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
19 5 0.10
20 39 0.78
21 6 0.12
ACGTcount: A:0.42, C:0.17, G:0.29, T:0.12
Consensus pattern (20 bp):
AACAGAGGCATCAAAGTGCA
Found at i:20900733 original size:84 final size:87
Alignment explanation
Indices: 20900559--20900734 Score: 261
Period size: 84 Copynumber: 2.0 Consensus size: 87
20900549 AAGTTAGCTA
* * * *
20900559 TTTATCTCTATTGTTGCATGCACAACTCTTTTTTTTTCTAATCGATCAATTTTTGCTTTTTCCTC
1 TTTATCACTACTGTTGCATGCACAACTC-TTTTTTTTCTAATCAATCAATTTTTGCTTCTTCCTC
20900624 CAACAACGAACTCTTAACATGAT
65 CAACAACGAACTCTTAACATGAT
20900647 TTTATCACTACTGTTGCATGCACAACTC-TTTTTTT-TAATCAATCAATTTTTGCTTCTT-CTCC
1 TTTATCACTACTGTTGCATGCACAACTCTTTTTTTTCTAATCAATCAATTTTTGCTTCTTCCTCC
*
20900709 AAC-ACTGAACTGTTAACATGAT
66 AACAAC-GAACTCTTAACATGAT
20900731 TTTA
1 TTTA
20900735 GAGTATAACA
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
83 2 0.02
84 26 0.32
85 21 0.26
86 7 0.09
88 26 0.32
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (87 bp):
TTTATCACTACTGTTGCATGCACAACTCTTTTTTTTCTAATCAATCAATTTTTGCTTCTTCCTCC
AACAACGAACTCTTAACATGAT
Found at i:20904832 original size:12 final size:13
Alignment explanation
Indices: 20904787--20904839 Score: 56
Period size: 14 Copynumber: 4.0 Consensus size: 13
20904777 AGAGCTCCTA
*
20904787 AAAACATAGCTTAA
1 AAAACATAGCTT-G
20904801 AAAACAATAG-TTG
1 AAAAC-ATAGCTTG
20904814 TAAAACAT-GCTTG
1 -AAAACATAGCTTG
20904827 AAAACATAGCTTG
1 AAAACATAGCTTG
20904840 CATAGGAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
12 8 0.24
13 10 0.29
14 12 0.35
15 4 0.12
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (13 bp):
AAAACATAGCTTG
Found at i:20912910 original size:102 final size:102
Alignment explanation
Indices: 20912730--20912969 Score: 401
Period size: 102 Copynumber: 2.4 Consensus size: 102
20912720 TACCGATGAA
* *
20912730 CACGTGTGTAGTACTGTGTGAAGTCTACTACATGAATCGATAAATGATGGTCACATGTGAAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGAAGTAC
*
20912795 TAAGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGT
66 TAAGTGAAAGCTACAATGTGTACCGAAG-AGCTTTGGT
* *
20912832 CACGTGTCTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGAAGTAC
*
20912897 TAAGTGAAAGCTACTATGTGTACCGAAGAGCTTTGGT
66 TAAGTGAAAGCTACAATGTGTACCGAAGAGCTTTGGT
*
20912934 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAA
20912970 CCATAAAACT
Statistics
Matches: 129, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
102 127 0.98
103 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGAAGTAC
TAAGTGAAAGCTACAATGTGTACCGAAGAGCTTTGGT
Found at i:20913000 original size:50 final size:50
Alignment explanation
Indices: 20912730--20913017 Score: 238
Period size: 51 Copynumber: 5.7 Consensus size: 50
20912720 TACCGATGAA
* * * * ***
20912730 CACGTGTGTAGTACTGTGTGAAGTCTACTACATGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CCATAAAACTTGGT
* * * * * * * *
20912781 CACATGTGAAGTACTAAGTGAAGGCTACAATGTGTACCGA-GAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACC-ATAAAAC-TTGGT
* * * ***
20912832 CACGTGTCTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CCATAAAACTTGGT
* * * * * * *
20912883 CACATGTGTAGTACTAAGTGAAAGCTACTATGTGTACCGA-AGAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACC-ATAAAAC-TTGGT
*
20912934 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCATAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCATAAAACTTGGT
*
20912984 CACGTGTGTAGCACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
20913018 TATCGAATGA
Statistics
Matches: 182, Mismatches: 48, Indels: 15
0.74 0.20 0.06
Matches are distributed among these distances:
50 44 0.24
51 135 0.74
52 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCATAAAACTTGGT
Found at i:20913046 original size:101 final size:102
Alignment explanation
Indices: 20912737--20913056 Score: 268
Period size: 102 Copynumber: 3.1 Consensus size: 102
20912727 GAACACGTGT
* * * ** * * *
20912737 GTAGTACTGTGTGAAGTCTACTACATGAATCGATAAATGATGGTCACATGTGAAGTACTAAGTGA
1 GTAGTACTGTGTGAAGGCTACTACGTGAATCCATAAAACATGATCACATGTGTAGCACTAAGTGA
* * * *** * * *
20912802 AGGCTACAATGTGTACCG-AGAAGCTTTGGTCACGTGT
66 AAGCTACTACGTGTACCGAAG-AGAAATGGTAACATGG
* * ** * *
20912839 CTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAGTGA
1 GTAGTACTGTGTGAAGGCTACTACGTGAATCCATAAAACATGATCACATGTGTAGCACTAAGTGA
* *** * * *
20912904 AAGCTACTATGTGTACCGAAGAGCTTTGGTCACGTGT
66 AAGCTACTACGTGTACCGAAGAGAAATGGTAACATGG
* * * *
20912941 GTAGTACTATGTGAAGGCTACTACGTGAA-CCATAAAACTTGATCACGTGTGTAGCACTATGTGA
1 GTAGTACTGTGTGAAGGCTACTACGTGAATCCATAAAACATGATCACATGTGTAGCACTAAGTGA
* * *
20913005 AGGCTACTACGTGTATCGAATGATAAAT-GTAACATGG
66 AAGCTACTACGTGTACCGAA-GAGAAATGGTAACATGG
20913042 GTAGTACTGTGTGAA
1 GTAGTACTGTGTGAA
20913057 AAACCCCAAA
Statistics
Matches: 189, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
101 64 0.34
102 123 0.65
103 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (102 bp):
GTAGTACTGTGTGAAGGCTACTACGTGAATCCATAAAACATGATCACATGTGTAGCACTAAGTGA
AAGCTACTACGTGTACCGAAGAGAAATGGTAACATGG
Found at i:20915192 original size:25 final size:25
Alignment explanation
Indices: 20915161--20915218 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
20915151 TGCATGCAAG
*
20915161 AATGGGTTGGCTTGATGTTTAGGCA
1 AATGGGTTGGCTGGATGTTTAGGCA
20915186 AATGGGTTGGCTGGATGTTTAGGCA
1 AATGGGTTGGCTGGATGTTTAGGCA
*
20915211 ATTGGGTT
1 AATGGGTT
20915219 TGAAATGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.19, C:0.07, G:0.38, T:0.36
Consensus pattern (25 bp):
AATGGGTTGGCTGGATGTTTAGGCA
Found at i:20935679 original size:22 final size:22
Alignment explanation
Indices: 20935654--20935713 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
20935644 GAAATAAAAT
*
20935654 AAAATCTGAAAAATGACATGCC
1 AAAATCTGGAAAATGACATGCC
20935676 AAAATCTGGAAAATGACATGCC
1 AAAATCTGGAAAATGACATGCC
*
20935698 AAAGTCTGGAAAATGA
1 AAAATCTGGAAAATGA
20935714 ATTACCTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAATCTGGAAAATGACATGCC
Found at i:20935735 original size:11 final size:11
Alignment explanation
Indices: 20935719--20935758 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
20935709 AATGAATTAC
20935719 CTTCAAAATGA
1 CTTCAAAATGA
20935730 CTTCAAATAT-A
1 CTTCAAA-ATGA
20935741 -TT-AAAATGA
1 CTTCAAAATGA
20935750 CTTCAAAAT
1 CTTCAAAAT
20935759 CTGGAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.08
9 4 0.16
10 4 0.16
11 13 0.52
12 2 0.08
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (11 bp):
CTTCAAAATGA
Found at i:20935766 original size:20 final size:20
Alignment explanation
Indices: 20935654--20935769 Score: 62
Period size: 22 Copynumber: 5.8 Consensus size: 20
20935644 GAAATAAAAT
* *
20935654 AAAATCTGAAAAATGACATGCC
1 AAAATCTGGAAAATGAC-T-TC
*
20935676 AAAATCTGGAAAATGACATGCC
1 AAAATCTGGAAAATGAC-T-TC
* *
20935698 AAAGTCTGGAAAATGAATT-
1 AAAATCTGGAAAATGACTTC
* **
20935717 ---ACCTTCAAAATGACTTC
1 AAAATCTGGAAAATGACTTC
* *
20935734 AAATATAT-TAAAATGACTTC
1 AAA-ATCTGGAAAATGACTTC
20935754 AAAATCTGGAAAATGA
1 AAAATCTGGAAAATGA
20935770 AAAGCACTAG
Statistics
Matches: 74, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
16 11 0.15
19 3 0.04
20 21 0.28
21 3 0.04
22 36 0.49
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.24
Consensus pattern (20 bp):
AAAATCTGGAAAATGACTTC
Found at i:20936215 original size:12 final size:12
Alignment explanation
Indices: 20936198--20936222 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20936188 GACGTGCATT
20936198 CGGTTAACCGAC
1 CGGTTAACCGAC
20936210 CGGTTAACCGAC
1 CGGTTAACCGAC
20936222 C
1 C
20936223 CGAATTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:20936396 original size:9 final size:9
Alignment explanation
Indices: 20936382--20936465 Score: 107
Period size: 9 Copynumber: 9.4 Consensus size: 9
20936372 TGGTTAAAAA
20936382 TTAACCGAT
1 TTAACCGAT
*
20936391 TTAACCTAT
1 TTAACCGAT
20936400 TTAACCGA-
1 TTAACCGAT
*
20936408 TTAACCGAC
1 TTAACCGAT
20936417 TTAACCGAT
1 TTAACCGAT
*
20936426 TTAACCGAC
1 TTAACCGAT
20936435 TTAACCGAT
1 TTAACCGAT
* *
20936444 TTAACCCAC
1 TTAACCGAT
*
20936453 TTAATCGAT
1 TTAACCGAT
20936462 TTAA
1 TTAA
20936466 ATTACTATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
8 8 0.12
9 56 0.88
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (9 bp):
TTAACCGAT
Found at i:20936405 original size:18 final size:18
Alignment explanation
Indices: 20936382--20936465 Score: 125
Period size: 18 Copynumber: 4.7 Consensus size: 18
20936372 TGGTTAAAAA
* *
20936382 TTAACCGATTTAACCTAT
1 TTAACCGATTTAACCGAC
20936400 TTAACCGA-TTAACCGAC
1 TTAACCGATTTAACCGAC
20936417 TTAACCGATTTAACCGAC
1 TTAACCGATTTAACCGAC
*
20936435 TTAACCGATTTAACCCAC
1 TTAACCGATTTAACCGAC
*
20936453 TTAATCGATTTAA
1 TTAACCGATTTAA
20936466 ATTACTATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
17 15 0.25
18 46 0.75
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (18 bp):
TTAACCGATTTAACCGAC
Found at i:20936428 original size:35 final size:36
Alignment explanation
Indices: 20936382--20936465 Score: 125
Period size: 35 Copynumber: 2.4 Consensus size: 36
20936372 TGGTTAAAAA
* * *
20936382 TTAACCGATTTAACCTATTTAACCGA-TTAACCGAC
1 TTAACCGATTTAACCGACTTAACCGATTTAACCCAC
20936417 TTAACCGATTTAACCGACTTAACCGATTTAACCCAC
1 TTAACCGATTTAACCGACTTAACCGATTTAACCCAC
*
20936453 TTAATCGATTTAA
1 TTAACCGATTTAA
20936466 ATTACTATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 24 0.55
36 20 0.45
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (36 bp):
TTAACCGATTTAACCGACTTAACCGATTTAACCCAC
Found at i:20936538 original size:37 final size:37
Alignment explanation
Indices: 20936480--20936574 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
20936470 CTATATAATT
* *
20936480 TAAAAA-ATT-CATAAGTCTTTGAATCACTACATAAC
1 TAAAAACATTACATAAATCTTTGAATCACTAAATAAC
* *
20936515 TAAAAACATTACATAAATTTTTGAATCACTAAATAAT
1 TAAAAACATTACATAAATCTTTGAATCACTAAATAAC
*
20936552 TAAAAACATTACATAAGTCTTTG
1 TAAAAACATTACATAAATCTTTG
20936575 TAACACATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 6 0.12
36 3 0.06
37 43 0.83
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (37 bp):
TAAAAACATTACATAAATCTTTGAATCACTAAATAAC
Found at i:20936755 original size:7 final size:7
Alignment explanation
Indices: 20936745--20936769 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20936735 TGCAGTATTG
20936745 CATGAAA
1 CATGAAA
20936752 CATGAAA
1 CATGAAA
20936759 CATGAAA
1 CATGAAA
20936766 CATG
1 CATG
20936770 CAGTATAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (7 bp):
CATGAAA
Found at i:20936837 original size:7 final size:7
Alignment explanation
Indices: 20936825--20936876 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
20936815 GTACAGAAGA
20936825 AAACATG
1 AAACATG
20936832 AAACATG
1 AAACATG
* **
20936839 CAGTATG
1 AAACATG
20936846 AAACATG
1 AAACATG
*
20936853 AAATCGTG
1 AAA-CATG
20936861 AAACATG
1 AAACATG
20936868 AAACATG
1 AAACATG
20936875 AA
1 AA
20936877 TTGTTCTTGG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
7 30 0.83
8 6 0.17
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.17
Consensus pattern (7 bp):
AAACATG
Found at i:20938593 original size:79 final size:75
Alignment explanation
Indices: 20938463--20938613 Score: 230
Period size: 79 Copynumber: 2.0 Consensus size: 75
20938453 AGTGATGCCT
* *
20938463 TGTTGAAACCTCAATTTCTTTTAAGAAACCTTGATAGATTCACCATCTAAATTAAATTTTATTTT
1 TGTTGAAACCTCAATTTCTTTTAAGAAACCTTAATAAATTCACCATCTAAATTAAATTTTA-TTT
20938528 ATTTTATTTCCC
65 -TTTTATTTCCC
* *
20938540 TGTTGAAATCCTCAATTTCTTTTAAGGAAACCTTAATAAATTTATCATCTAAATTAAATTTTATT
1 TGTTGAAA-CCTCAATTTCTTTTAA-GAAACCTTAATAAATTCACCATCTAAATTAAATTTTATT
20938605 TTTTTATTT
64 TTTTTATTT
20938614 TTTAAAGGGA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
77 16 0.24
78 19 0.28
79 33 0.49
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.48
Consensus pattern (75 bp):
TGTTGAAACCTCAATTTCTTTTAAGAAACCTTAATAAATTCACCATCTAAATTAAATTTTATTTT
TTTATTTCCC
Found at i:20939351 original size:12 final size:12
Alignment explanation
Indices: 20939334--20939364 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20939324 AGAAAACCCT
20939334 TATGGGCCAGAA
1 TATGGGCCAGAA
20939346 TATGGGCCAGAA
1 TATGGGCCAGAA
*
20939358 GATGGGC
1 TATGGGC
20939365 AACTATATTC
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:0.29, C:0.16, G:0.39, T:0.16
Consensus pattern (12 bp):
TATGGGCCAGAA
Found at i:20941094 original size:13 final size:13
Alignment explanation
Indices: 20941076--20941187 Score: 115
Period size: 13 Copynumber: 8.7 Consensus size: 13
20941066 TTCTTCATTA
20941076 CTTTTAAAAAGTG
1 CTTTTAAAAAGTG
20941089 CTTTT-AAAAGTG
1 CTTTTAAAAAGTG
*
20941101 -TTATTAAAAAATG
1 CTT-TTAAAAAGTG
*
20941114 CTTTTGAAAAGTG
1 CTTTTAAAAAGTG
20941127 CTTTT-AAAAGTG
1 CTTTTAAAAAGTG
20941139 -TTATTAAAAAGTG
1 CTT-TTAAAAAGTG
* *
20941152 CTTTTGATAAGTG
1 CTTTTAAAAAGTG
* *
20941165 CTTTTGAGAAGTG
1 CTTTTAAAAAGTG
20941178 CTTTTGAAAA
1 CTTTT-AAAA
20941188 TTTTGATTGT
Statistics
Matches: 84, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
11 4 0.05
12 18 0.21
13 56 0.67
14 6 0.07
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (13 bp):
CTTTTAAAAAGTG
Found at i:20941127 original size:38 final size:38
Alignment explanation
Indices: 20941076--20941169 Score: 161
Period size: 38 Copynumber: 2.5 Consensus size: 38
20941066 TTCTTCATTA
*
20941076 CTTTTAAAAAGTGCTTTTAAAAGTGTTATTAAAAAATG
1 CTTTTGAAAAGTGCTTTTAAAAGTGTTATTAAAAAATG
*
20941114 CTTTTGAAAAGTGCTTTTAAAAGTGTTATTAAAAAGTG
1 CTTTTGAAAAGTGCTTTTAAAAGTGTTATTAAAAAATG
*
20941152 CTTTTGATAAGTGCTTTT
1 CTTTTGAAAAGTGCTTTT
20941170 GAGAAGTGCT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (38 bp):
CTTTTGAAAAGTGCTTTTAAAAGTGTTATTAAAAAATG
Found at i:20941176 original size:26 final size:26
Alignment explanation
Indices: 20941076--20941187 Score: 124
Period size: 25 Copynumber: 4.4 Consensus size: 26
20941066 TTCTTCATTA
*
20941076 CTTTTAAAAAGTGCTTTT-AAAAGTG
1 CTTTTGAAAAGTGCTTTTGAAAAGTG
* *
20941101 -TTATTAAAAAATGCTTTTGAAAAGTG
1 CTT-TTGAAAAGTGCTTTTGAAAAGTG
*
20941127 CTTTT-AAAAGTG-TTATTAAAAAGTG
1 CTTTTGAAAAGTGCTT-TTGAAAAGTG
* *
20941152 CTTTTGATAAGTGCTTTTGAGAAGTG
1 CTTTTGAAAAGTGCTTTTGAAAAGTG
20941178 CTTTTGAAAA
1 CTTTTGAAAA
20941188 TTTTGATTGT
Statistics
Matches: 74, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
24 4 0.05
25 34 0.46
26 32 0.43
27 4 0.05
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (26 bp):
CTTTTGAAAAGTGCTTTTGAAAAGTG
Found at i:20944620 original size:20 final size:20
Alignment explanation
Indices: 20944597--20944666 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 20
20944587 AACTATATAC
20944597 ATGAACAAATAACAGTATTA
1 ATGAACAAATAACAGTATTA
20944617 ATGAATCAAAAATTTAAC--TATATA
1 ATGAA-C--AAA--TAACAGTAT-TA
20944641 CATGAACAAATAACAGTATTA
1 -ATGAACAAATAACAGTATTA
20944662 ATGAA
1 ATGAA
20944667 GCTTGTTGCC
Statistics
Matches: 41, Mismatches: 0, Indels: 18
0.69 0.00 0.31
Matches are distributed among these distances:
20 14 0.34
21 3 0.07
22 6 0.15
23 6 0.15
24 3 0.07
25 9 0.22
ACGTcount: A:0.54, C:0.10, G:0.09, T:0.27
Consensus pattern (20 bp):
ATGAACAAATAACAGTATTA
Found at i:20944629 original size:45 final size:45
Alignment explanation
Indices: 20944576--20944666 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
20944566 TTACATGTGT
20944576 ATCAAAAATTTAACTATATACATGAACAAATAACAGTATTAATGA
1 ATCAAAAATTTAACTATATACATGAACAAATAACAGTATTAATGA
20944621 ATCAAAAATTTAACTATATACATGAACAAATAACAGTATTAATGA
1 ATCAAAAATTTAACTATATACATGAACAAATAACAGTATTAATGA
20944666 A
1 A
20944667 GCTTGTTGCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.29
Consensus pattern (45 bp):
ATCAAAAATTTAACTATATACATGAACAAATAACAGTATTAATGA
Found at i:20944645 original size:25 final size:24
Alignment explanation
Indices: 20944578--20944650 Score: 77
Period size: 20 Copynumber: 3.2 Consensus size: 24
20944568 ACATGTGTAT
20944578 CAAAAATTTAACTATATACATGAA
1 CAAAAATTTAACTATATACATGAA
20944602 C--AAA--TAAC-AGTATTA-ATGAA
1 CAAAAATTTAACTA-TA-TACATGAA
20944622 TCAAAAATTTAACTATATACATGAA
1 -CAAAAATTTAACTATATACATGAA
20944647 CAAA
1 CAAA
20944651 TAACAGTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 18
0.69 0.00 0.31
Matches are distributed among these distances:
19 1 0.03
20 11 0.28
21 3 0.08
22 3 0.08
23 3 0.08
24 7 0.17
25 11 0.28
26 1 0.03
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.27
Consensus pattern (24 bp):
CAAAAATTTAACTATATACATGAA
Found at i:20947378 original size:72 final size:72
Alignment explanation
Indices: 20947233--20947396 Score: 215
Period size: 72 Copynumber: 2.3 Consensus size: 72
20947223 CGAAGTATGT
* * * * *
20947233 TTTTATCAGTAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTGTTTATGTGT
1 TTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTATTTATGTCT
20947298 AATCTAG
66 AATCTAG
* * *
20947305 TTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTATTT-TTTAC
1 TTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTATTTATGT-C
20947369 TAAAT-TAG
65 T-AATCTAG
*
20947377 TTTTATCAATAGTTTTTTAT
1 TTTTATCAATAGTTATTTAT
20947397 ATGTGATTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
71 2 0.03
72 75 0.94
73 3 0.04
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.57
Consensus pattern (72 bp):
TTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTATTTATGTCT
AATCTAG
Found at i:20949459 original size:13 final size:13
Alignment explanation
Indices: 20949435--20949485 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
20949425 ACAATCAAAA
20949435 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
20949448 TTTTCCATAGCAC
1 TTTTCAAAAGCAC
20949461 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
20949474 TTTTCAAGAGCA
1 TTTTCAAAAGCA
20949486 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:20949485 original size:26 final size:26
Alignment explanation
Indices: 20949435--20949485 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
20949425 ACAATCAAAA
* *
20949435 TTTTCAAAAGCACTTTTCCATAGCAC
1 TTTTCAAAAGCACTTTTCAAGAGCAC
20949461 TTTTCAAAAGCACTTTTCAAGAGCA
1 TTTTCAAAAGCACTTTTCAAGAGCA
20949486 ATGAAGAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (26 bp):
TTTTCAAAAGCACTTTTCAAGAGCAC
Found at i:20950305 original size:17 final size:18
Alignment explanation
Indices: 20950283--20950331 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
20950273 TAAACCAAGT
20950283 TTTATTAATTTAT-TAAA
1 TTTATTAATTTATATAAA
*
20950300 TTTATT-ATATATATAAA
1 TTTATTAATTTATATAAA
20950317 TTTATATAAATTTAT
1 TTTAT-T-AATTTAT
20950332 GTATTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 1 0.04
20 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTATTAATTTATATAAA
Found at i:20950324 original size:10 final size:9
Alignment explanation
Indices: 20950283--20950331 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
20950273 TAAACCAAGT
20950283 TTTATT-AA
1 TTTATTAAA
20950291 TTTATTAAA
1 TTTATTAAA
*
20950300 TTTATTATA
1 TTTATTAAA
*
20950309 TATA-TAAA
1 TTTATTAAA
20950317 TTTATATAAA
1 TTTAT-TAAA
20950327 TTTAT
1 TTTAT
20950332 GTATTTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 12 0.35
9 13 0.38
10 9 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTTATTAAA
Found at i:20950344 original size:26 final size:24
Alignment explanation
Indices: 20950283--20950345 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 24
20950273 TAAACCAAGT
*
20950283 TTTATTAATTTATTAAATTTATTA
1 TTTAATAATTTATTAAATTTATTA
*
20950307 TATATATAAATTTATATAAATTTATGTA
1 TTTA-AT-AATTTAT-TAAATTTAT-TA
20950335 TTTAATAATTT
1 TTTAATAATTT
20950346 GATTTACTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
24 3 0.09
25 1 0.03
26 12 0.38
27 11 0.34
28 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTAATAATTTATTAAATTTATTA
Found at i:20950781 original size:20 final size:21
Alignment explanation
Indices: 20950744--20950783 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20950734 TGCACATTAC
20950744 GTTTGAAATATATATAATATG
1 GTTTGAAATATATATAATATG
*
20950765 GTTTGAAATA-GTATAATAT
1 GTTTGAAATATATATAATAT
20950784 CGAATTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (21 bp):
GTTTGAAATATATATAATATG
Found at i:20953905 original size:38 final size:38
Alignment explanation
Indices: 20953822--20953924 Score: 113
Period size: 38 Copynumber: 2.7 Consensus size: 38
20953812 GGTTTTTAAC
*
20953822 CCATTGCCACTAGGGTGCATTGTGGTATTCTGTTTTGA
1 CCATTGCCACTAGGGTGAATTGTGGTATTCTGTTTTGA
*
20953860 CCTATTGCCACT-GTGGTGAATTG-GG-GTTCTGGTTTTGA
1 CC-ATTGCCACTAG-GGTGAATTGTGGTATTCT-GTTTTGA
* *
20953898 TCCATTGCCACTAGGTTTAATTGTGGT
1 -CCATTGCCACTAGGGTGAATTGTGGT
20953925 TTTTGATCTT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
37 4 0.07
38 28 0.52
39 22 0.41
ACGTcount: A:0.16, C:0.17, G:0.27, T:0.40
Consensus pattern (38 bp):
CCATTGCCACTAGGGTGAATTGTGGTATTCTGTTTTGA
Found at i:20956804 original size:17 final size:18
Alignment explanation
Indices: 20956782--20956819 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
20956772 CGTTTTATTA
20956782 TTTATTATTTA-TTTTAT
1 TTTATTATTTATTTTTAT
*
20956799 TTTATTTTTTATTTTTAT
1 TTTATTATTTATTTTTAT
20956817 TTT
1 TTT
20956820 TGTGTCACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTATTATTTATTTTTAT
Found at i:20956819 original size:12 final size:12
Alignment explanation
Indices: 20956774--20956820 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
20956764 ATATACTTCG
20956774 TTTTATTATTTAT
1 TTTTATT-TTTAT
20956787 TATTTA-TTTTA-
1 T-TTTATTTTTAT
20956798 TTTTATTTTTTAT
1 TTTTA-TTTTTAT
20956811 TTTTATTTTT
1 TTTTATTTTT
20956821 GTGTCACCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
10 4 0.13
11 1 0.03
12 14 0.47
13 7 0.23
14 4 0.13
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:20956820 original size:24 final size:24
Alignment explanation
Indices: 20956774--20956819 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
20956764 ATATACTTCG
20956774 TTTTATTATTTATTATTTATTTTA
1 TTTTATTATTTATTATTTATTTTA
*
20956798 TTTTATTTTTTATT-TTTATTTT
1 TTTTATTATTTATTATTTATTTT
20956820 TGTGTCACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTATTATTTATTATTTATTTTA
Found at i:20961556 original size:6 final size:6
Alignment explanation
Indices: 20961547--20961592 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
20961537 AAAAAAAACA
* * * *
20961547 AAAATC AAAATC AAAATC AAAGTC AAAATG AAAATG AAAATT AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
20961593 AAAAGAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.67, C:0.09, G:0.07, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:20961601 original size:9 final size:9
Alignment explanation
Indices: 20961589--20961620 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
20961579 AATGAAAATT
20961589 AAAAAAAAG
1 AAAAAAAAG
20961598 AAAAAAAAG
1 AAAAAAAAG
*
20961607 AAAAAAATG
1 AAAAAAAAG
20961616 AAAAA
1 AAAAA
20961621 GAAAAGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:20962478 original size:7 final size:7
Alignment explanation
Indices: 20962466--20962507 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
20962456 TAAAAAAATG
20962466 TGAAAAA
1 TGAAAAA
*
20962473 TGAAAAG
1 TGAAAAA
20962480 TG-AAAA
1 TGAAAAA
20962486 TGAAAAAA
1 TG-AAAAA
20962494 TGAAAAA
1 TGAAAAA
20962501 TGAAAAA
1 TGAAAAA
20962508 GTAAAAATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 5 0.16
7 20 0.65
8 6 0.19
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
TGAAAAA
Found at i:20962484 original size:14 final size:15
Alignment explanation
Indices: 20962459--20962515 Score: 75
Period size: 15 Copynumber: 3.9 Consensus size: 15
20962449 TTTGAGTTAA
20962459 AAAAATGTGAAAAATG
1 AAAAA-GTGAAAAATG
20962475 -AAAAGTG-AAAATG
1 AAAAAGTGAAAAATG
*
20962488 AAAAAATGAAAAATG
1 AAAAAGTGAAAAATG
20962503 AAAAAGT-AAAAAT
1 AAAAAGTGAAAAAT
20962516 AGAGAGGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
13 6 0.16
14 15 0.41
15 16 0.43
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (15 bp):
AAAAAGTGAAAAATG
Found at i:20962494 original size:21 final size:21
Alignment explanation
Indices: 20962468--20962515 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
20962458 AAAAAATGTG
* *
20962468 AAAAATGAAAAGTGAAAATGA
1 AAAAATGAAAAATGAAAAAGA
*
20962489 AAAAATGAAAAATGAAAAAGT
1 AAAAATGAAAAATGAAAAAGA
20962510 AAAAAT
1 AAAAAT
20962516 AGAGAGGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (21 bp):
AAAAATGAAAAATGAAAAAGA
Found at i:20963983 original size:44 final size:44
Alignment explanation
Indices: 20963929--20964349 Score: 200
Period size: 44 Copynumber: 9.6 Consensus size: 44
20963919 AGAATTTCAG
* * *
20963929 ATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGTTGGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAGTA
* * * * * * * * *
20963973 ATCCTATCTCCCTAAGATTACAGTGAAGCGGATTAAAATAAATG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAGTA
** * * * *
20964017 ATCTTATCTCTTTGA-AGTTACAGTAGAGTAGATCGCA-TTAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTTAGTA
* * ** ** *
20964058 GTCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGAATT-TTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG--TTAGTA
* *
20964103 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAGTA
* ** * * * *
20964148 ATCCTATCTTTCTGAGATTACAGTGGAGCAGATTCAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGT-TAGTA
* * * * * *
20964192 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TCA--A
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTTAGTA
* * * ** **
20964233 GTCTTATCTTCCTGAGATTATAGTGGAATAGACCGAAGAATT--TCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG--TTAGT-A
* * * *
20964278 GATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTGGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAGTA
*
20964323 ATCCTATCTCCCTGAGATTACAGTGGA
1 ATCTTATCTCCCTGAGATTACAGTGGA
20964350 ATAGACCGAA
Statistics
Matches: 277, Mismatches: 80, Indels: 40
0.70 0.20 0.10
Matches are distributed among these distances:
41 55 0.20
42 2 0.01
43 5 0.02
44 146 0.53
45 6 0.02
46 63 0.23
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAGTA
Found at i:20964348 original size:175 final size:175
Alignment explanation
Indices: 20963794--20964349 Score: 871
Period size: 175 Copynumber: 3.2 Consensus size: 175
20963784 CCTTGGTCAT
* * *
20963794 TGGTAATCCTATCTCCCTAAGAGTACAGTAGAGCGGATTAAAATCAAGGATCTTATCTCTCTGAA
1 TGGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
* * **
20963859 GTTACAGTAGAGTAGATCGCATCAGGCCTTGTC-TCCAAAGATTATAGTGGAATAGACCGAAGAA
66 GTTACAGTAGAGTAGATCGCATCAGGTCTTATCTTCCTGAGATTATAGTGGAATAGACCGAAGAA
* *
20963923 TTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGT
131 TTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC
* * *
20963968 TGGTAATCCTATCTCCCTAAGATTACAGTGAAGCGGATTAAAATAAATGATCTTATCTCTTTGAA
1 TGGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
* * * *
20964033 GTTACAGTAGAGTAGATCGCATTAGGTCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGAA
66 GTTACAGTAGAGTAGATCGCATCAGGTCTTATCTTCCTGAGATTATAGTGGAATAGACCGAAGAA
*
20964098 TTTTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC
131 TTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC
* ** * * *
20964143 TAGTAATCCTATCTTTCTGAGATTACAGTGGAGCAGATTCAAATAAAGGATCTTATCTCTCTGAA
1 TGGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
*
20964208 GTTACAGTAGAGTAGATCGCATCAAGTCTTATCTTCCTGAGATTATAGTGGAATAGACCGAAGAA
66 GTTACAGTAGAGTAGATCGCATCAGGTCTTATCTTCCTGAGATTATAGTGGAATAGACCGAAGAA
*
20964273 TTTCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGC
131 TTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC
*
20964318 TGGTAATCCTATCTCCCTGAGATTACAGTGGA
1 TGGTAATCCTATCTCCCTAAGATTACAGTGGA
20964350 ATAGACCGAA
Statistics
Matches: 345, Mismatches: 36, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
174 89 0.26
175 256 0.74
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (175 bp):
TGGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
GTTACAGTAGAGTAGATCGCATCAGGTCTTATCTTCCTGAGATTATAGTGGAATAGACCGAAGAA
TTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC
Found at i:20964402 original size:90 final size:89
Alignment explanation
Indices: 20963897--20964382 Score: 412
Period size: 90 Copynumber: 5.5 Consensus size: 89
20963887 TTGTCTCCAA
* *
20963897 AGATTATAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGAT
1 AGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
* *
20963962 TGAAGTTGGTAATCCTATCTCCCTA
66 TGAAGCT-GTAATCCTATCTCCCTG
* * ** ** ** *
20963987 AGATTACAGT-G-A-AG-CGGATTA-AAATAAATGATCTTATCTCTTTGA-AGTTACAGTAGAGT
1 AGATTACAGTGGAATAGACCGA--AGAATTTCA-GATCTTATCTCCCTGAGA-TTACAGCGGAGC
* * * *
20964046 AGATCGCA--T-TAGGTCTTATCTCCCTG
62 AGATTGAAGCTGTA-ATCCTATCTCCCTG
* *
20964072 AGGTTACAGTGGAATAGACCGAAGAATTTTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
1 AGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
**
20964137 TGAAGCTAGTAATCCTATCTTTCTG
66 TGAAGCT-GTAATCCTATCTCCCTG
** * ** * ** *
20964162 AGATTACAGTGGAGCAGATTC--A-AA-TAAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTA
1 AGATTACAGTGGAATAGA-CCGAAGAATTTCA-GATCTTATCTCCCTGAGA-TTACAGCGGAGCA
* * * * *
20964222 GATCGCA--T-CAAGTCTTATCTTCCTG
63 GATTGAAGCTGTAA-TCCTATCTCCCTG
* *
20964247 AGATTATAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAACAGAT
1 AGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
20964312 TGAAGCTGGTAATCCTATCTCCCTG
66 TGAAGCT-GTAATCCTATCTCCCTG
20964337 AGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTG
1 AGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTG
20964383 GCGATGTAAT
Statistics
Matches: 304, Mismatches: 64, Indels: 56
0.72 0.15 0.13
Matches are distributed among these distances:
84 5 0.02
85 46 0.15
86 7 0.02
87 71 0.23
88 73 0.24
89 7 0.02
90 90 0.30
91 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (89 bp):
AGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
TGAAGCTGTAATCCTATCTCCCTG
Found at i:20964550 original size:100 final size:100
Alignment explanation
Indices: 20964369--20964913 Score: 682
Period size: 100 Copynumber: 5.4 Consensus size: 100
20964359 AGAATTTCAG
* * * * * * * * * *
20964369 ATCTTATCTCCCTGGCGATGTAATGGAGCAGATTAAAGCCACGACGGCGTATCTTGCTTCCCCGA
1 ATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
* * * * * *
20964434 CATTTCAGTTAAAAAGACTAAAGCCACAGCGGTGA
66 CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * *
20964469 GTGTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTG-CTCCCCTG
1 ATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTG
*
20964533 ACATTGTGGTTAAAAAGATTAAAGCTACAGCAGCGA
65 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* ** * *
20964569 ATCTTACCTCCAAAACGGTGCAGTGGAACAGATTAAAGGCACAACGGTGAATCTTGCCTCCCTGA
1 ATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
*
20964634 CATTGCGGTTAAAAAGATTAAAGCTATAGCAGCGA
66 CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * *
20964669 ATCCTACCTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTCGCCTCCCTGA
1 ATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
* *
20964734 CATTGCGGTTAAAAAGATTAAAGCTACAACAGCAA
66 CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * * *
20964769 ATCTTACCTCCCAGGAGGTGCAGTTGAACAGATTAAAGCCATAATGGTGAATCTTGCCTCCCTGA
1 ATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
*
20964834 CATTGCGGTTAAAAATATTAAAGCTACAGCAGCGA
66 CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
20964869 ATCTTACACTCCCAGGC-AGTGCAGT-GAAGCAGATTAAAGCCACAA
1 ATCTTAC-CTCCCAGGCGA-TGCAGTGGAA-CAGATTAAAGCCACAA
20964914 TGTGGAGCGG
Statistics
Matches: 388, Mismatches: 52, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
99 1 0.00
100 356 0.92
101 31 0.08
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (100 bp):
ATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
Found at i:20964854 original size:50 final size:50
Alignment explanation
Indices: 20964398--20964857 Score: 289
Period size: 50 Copynumber: 9.2 Consensus size: 50
20964388 GTAATGGAGC
* * * * * * *
20964398 AGATTAAAGCCACGACGGCGTATCTTGCTTCCCCGACATTTCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
* * * * * * * * ** *
20964448 AGACTAAAGCCACAGCGGTGAGTGTTACTTCCCTGGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGAC-ATTGCGGTTAAAA
*
20964498 AGATTAAAGCCACAACGGTGAATCTTG-CTCCCCTGACATTGTGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTGACATTGCGGTTAAAA
* * * * * *** ** * ** *
20964548 AGATTAAAGCTACAGCAGCGAATCTTACCTCCAAAACGGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
*
20964598 AGATTAAAGGCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
* * * * * * * * ** * ** *
20964648 AGATTAAAGCTATAGCAGCGAATCCTACCT-CCTAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCT-GACATTGCGGTTAAAA
*
20964698 AGATTAAAGCCACAACGGTGAATCTCGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
* * ** * * ** * * *
20964748 AGATTAAAGCTACAACAGCAAATCTTACCTCCCAGGA-GGTGCAGTTGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCC-TGACATTGCGGTTAAAA
* *
20964798 AGATTAAAGCCATAATGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
*
20964848 ATATTAAAGC
1 AGATTAAAGC
20964858 TACAGCAGCG
Statistics
Matches: 290, Mismatches: 112, Indels: 16
0.69 0.27 0.04
Matches are distributed among these distances:
49 7 0.02
50 275 0.95
51 8 0.03
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
Found at i:20966465 original size:24 final size:24
Alignment explanation
Indices: 20966431--20966492 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
20966421 GTGGTTCTCT
20966431 TTTTACTTATTTTATATATACTTCA
1 TTTTA-TTATTTTATATATACTTCA
* * * *
20966456 TTTTATTATTTAATATTTATTTTA
1 TTTTATTATTTTATATATACTTCA
20966480 TTTTATT-TTTTAT
1 TTTTATTATTTTAT
20966493 TTTTTATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 5 0.16
24 22 0.69
25 5 0.16
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTATTATTTTATATATACTTCA
Found at i:20966490 original size:7 final size:7
Alignment explanation
Indices: 20966480--20966509 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
20966470 ATTTATTTTA
20966480 TTTTATT
1 TTTTATT
20966487 TTTTATT
1 TTTTATT
20966494 TTTTA-T
1 TTTTATT
20966500 TTTTATT
1 TTTTATT
20966507 TTT
1 TTT
20966510 GTGTCACCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTATT
Found at i:20966498 original size:24 final size:25
Alignment explanation
Indices: 20966455--20966508 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
20966445 TATATACTTC
20966455 ATTTTATTATTTAATATTTA-TTTT
1 ATTTTATTATTTAATATTTATTTTT
* * *
20966479 ATTTTATTTTTTATTTTTTATTTTT
1 ATTTTATTATTTAATATTTATTTTT
20966504 ATTTT
1 ATTTT
20966509 TGTGTCACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (25 bp):
ATTTTATTATTTAATATTTATTTTT
Found at i:20968895 original size:33 final size:33
Alignment explanation
Indices: 20968850--20968931 Score: 148
Period size: 33 Copynumber: 2.5 Consensus size: 33
20968840 ATCTGTATGG
20968850 ACACCTCT-ATGGCTATCTTGTGTACATGTTTGA
1 ACACC-CTGATGGCTATCTTGTGTACATGTTTGA
20968883 ACACCCTGATGGCTATCTTGTGTACATGTTTGA
1 ACACCCTGATGGCTATCTTGTGTACATGTTTGA
20968916 ACACCCTGATGGCTAT
1 ACACCCTGATGGCTAT
20968932 GTAATGAGAG
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
32 2 0.04
33 46 0.96
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (33 bp):
ACACCCTGATGGCTATCTTGTGTACATGTTTGA
Found at i:20978163 original size:28 final size:23
Alignment explanation
Indices: 20978058--20978147 Score: 92
Period size: 23 Copynumber: 3.8 Consensus size: 23
20978048 ACAGGTATAC
* * *
20978058 ATATACTACATAAAAAGATGCATAT
1 ATATATTATATAAAAACATGC--AT
*
20978083 ATATATTATAAAAAAACCATGCGA-
1 ATATATTATATAAAAA-CATGC-AT
*
20978107 GTATATTATATAAAAACATGCAT
1 ATATATTATATAAAAACATGCAT
20978130 ATATATTATATAAAAACA
1 ATATATTATATAAAAACA
20978148 ATGCGTGTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
22 1 0.02
23 22 0.40
24 14 0.25
25 14 0.25
26 4 0.07
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (23 bp):
ATATATTATATAAAAACATGCAT
Found at i:20978201 original size:12 final size:13
Alignment explanation
Indices: 20978166--20978204 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
20978156 ATGAATATAG
20978166 AAATAATGATAAT
1 AAATAATGATAAT
*
20978179 AAA-CATGATAAT
1 AAATAATGATAAT
20978191 AAATAAT-ATAAT
1 AAATAATGATAAT
20978203 AA
1 AA
20978205 TAAATAATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (13 bp):
AAATAATGATAAT
Found at i:20979831 original size:89 final size:88
Alignment explanation
Indices: 20979734--20980233 Score: 431
Period size: 89 Copynumber: 5.6 Consensus size: 88
20979724 ACCAATATGG
* * * * * *
20979734 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGATAAGATTCGTTATCC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGCCAATACATGAAGACAAGATTCATTATCT
20979799 TCGATCTACTTCATGCTAATACAT
65 TCGATCTACTTCATGCTAATACAT
* * * *
20979823 GAAAACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-TT-TC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGAT-T-CATTATC
* * * * *
20979886 TTTGATCTACTTCGCTGCCAGTACAG
64 TTCGATCTACTTC-ATGCTAATACAT
* * * *
20979912 GAAGACAAGATCTGCTATC-TCTGATATACTTCATGTCAATACATGAAGACAAGATCCACTATC-
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGCCAATACATGAAGACAAGATTCATTATCT
* *
20979975 TCTAATCAACTTCATG-TCAATACAT
65 TC-GATCTACTTCATGCT-AATACAT
* *** * * ** * * * * *
20980000 GAAGGCAAGATCCATTATCTTCAATTTACTTCACCACCAGTATAGGAAGATAAGA-TCTACTATC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGCCAATACATGAAGACAAGATTC-ATTATC
20980064 TTCGATCTACTTCATG-TCAATACAT
64 TTCGATCTACTTCATGCT-AATACAT
* *
20980089 GAAGACAAGATCTGCTATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGCCAATACATGAAGACAAGATTCATTATCT
* ** * * ***
20980153 TTGATCTACTTCACCACCAGTATGG
65 TCGATCTACTTCA-TGCTAATACAT
*
20980178 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATT
20980234 TGCTGCTTTT
Statistics
Matches: 325, Mismatches: 69, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
87 1 0.00
88 101 0.31
89 218 0.67
90 5 0.02
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (88 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATTCATTATCTT
CGATCTACTTCATGCTAATACAT
Found at i:20979848 original size:44 final size:44
Alignment explanation
Indices: 20979734--20980237 Score: 387
Period size: 44 Copynumber: 11.4 Consensus size: 44
20979724 ACCAATATGG
* * * *
20979734 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGCTAATACAT
* * *
20979779 GAAGATAAGAT-TCGTTATCCTCGATCTACTTCATGCTAATACAT
1 GAAGACAAGATCT-GCTATCTTCGATCTACTTCATGCTAATACAT
* * * * *
20979823 GAAAACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCTAATACAT
* * * * * *
20979867 GAAGACAAGATCTGCTTTCTTTGATCTACTTCGCTGCCAGTACAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ATGCTAATACAT
*
20979912 GAAGACAAGATCTGCTATC-TCTGATATACTTCATG-TCAATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGCT-AATACAT
** * *
20979956 GAAGACAAGATCCACTATC-TCTAATCAACTTCATG-TCAATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGCT-AATACAT
* *** * * ** * * * *
20980000 GAAGGCAAGATCCATTATCTTCAATTTACTTCACCACCAGTATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGCTAATACAT
* *
20980045 GAAGATAAGATCTACTATCTTCGATCTACTTCATG-TCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCT-AATACAT
20980089 GAAGACAAGATCTGCTATC-TCTGATCTACTTCATG-TCAATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGCT-AATACAT
*** * ** * * ***
20980133 GAAGACAAGATCCATTATCTTTGATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGCTAATACAT
20980178 GAAGACAAGATCTGCTATCTTCGATCTACTTCATG-TCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCT-AATACAT
*
20980222 GAAGACAAGATTTGCT
1 GAAGACAAGATCTGCT
20980238 GCTTTTCAAC
Statistics
Matches: 366, Mismatches: 79, Indels: 29
0.77 0.17 0.06
Matches are distributed among these distances:
43 2 0.01
44 235 0.64
45 129 0.35
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCTAATACAT
Found at i:20979872 original size:133 final size:133
Alignment explanation
Indices: 20979734--20980237 Score: 602
Period size: 133 Copynumber: 3.8 Consensus size: 133
20979724 ACCAATATGG
** ** * *
20979734 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGATAAGAT-TCGTTATC
1 GAAGACAAGATCCACTATCTTTGATCTACTTCACCACCAGTACAGGAAGACAAGATCT-GCTATC
* * *
20979798 CTCGATCTACTTCATG-CTAATACATGAAAACAAGATCTGTTTTCT-TCGATCTACTTCACGCCA
65 CTCGATCTACTTCATGTC-AATACATGAAGACAAGATCTGCTATCTCT-GATCTACTTCACGCCA
20979861 ATACAT
128 ATACAT
** * * **
20979867 GAAGACAAGATCTGCTTTCTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTAT-C
1 GAAGACAAGATCCACTATCTTTGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTATCC
* ** * * * *
20979931 TCTGATATACTTCATGTCAATACATGAAGACAAGATCCACTATCTCTAATCAACTTCATGTCAAT
66 TC-GATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTCTGATCTACTTCACGCCAAT
20979996 ACAT
130 ACAT
* * ** * * * * *
20980000 GAAGGCAAGATCCATTATCTTCAATTTACTTCACCACCAGTATAGGAAGATAAGATCTACTATCT
1 GAAGACAAGATCCACTATCTTTGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTATCC
* *
20980065 TCGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAATA
66 TCGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTCTGATCTACTTCACGCCAATA
20980130 CAT
131 CAT
* ** *
20980133 GAAGACAAGATCCATTATCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCCACTATCTTTGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTATCC
*
20980198 TCGATCTACTTCATGTCAATACATGAAGACAAGATTTGCT
66 TCGATCTACTTCATGTCAATACATGAAGACAAGATCTGCT
20980238 GCTTTTCAAC
Statistics
Matches: 324, Mismatches: 42, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
132 3 0.01
133 316 0.98
134 5 0.02
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (133 bp):
GAAGACAAGATCCACTATCTTTGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTATCC
TCGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTCTGATCTACTTCACGCCAATA
CAT
Found at i:20981527 original size:17 final size:16
Alignment explanation
Indices: 20981486--20981542 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
20981476 TCCATTTTAC
* *
20981486 TTTTCCATTTTTTATT
1 TTTTTCATTTTTCATT
20981502 TTTCATTCACTTTTTCATT
1 TTT--TTCA-TTTTTCATT
*
20981521 TTTTTCATTTCATCATT
1 TTTTTCATTT-TTCATT
20981538 TTTTT
1 TTTTT
20981543 TACGACTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 6 0.18
17 14 0.41
18 3 0.09
19 11 0.32
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTCATTTTTCATT
Found at i:20981531 original size:26 final size:25
Alignment explanation
Indices: 20981484--20981541 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
20981474 TCTCCATTTT
* *
20981484 ACTTTTCCATTTTTTATTTTTCATTC
1 ACTTTTTCATTTTTTATATTTCA-TC
20981510 ACTTTTTCATTTTTT-TCATTTCATC
1 ACTTTTTCATTTTTTAT-ATTTCATC
*
20981535 ATTTTTT
1 ACTTTTT
20981542 TTACGACTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.16, C:0.17, G:0.00, T:0.67
Consensus pattern (25 bp):
ACTTTTTCATTTTTTATATTTCATC
Found at i:20982502 original size:18 final size:18
Alignment explanation
Indices: 20982481--20982520 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20982471 TGGTTTGGCA
20982481 GAAAAAATCCAAAAGAAT
1 GAAAAAATCCAAAAGAAT
* **
20982499 GAAAACATCGTAAAGAAT
1 GAAAAAATCCAAAAGAAT
20982517 GAAA
1 GAAA
20982521 GAGCATTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.10, G:0.15, T:0.12
Consensus pattern (18 bp):
GAAAAAATCCAAAAGAAT
Found at i:20984438 original size:19 final size:19
Alignment explanation
Indices: 20984414--20984459 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
20984404 AACGGTGTCT
* *
20984414 AATGCATATG-ATGTAATG
1 AATGCAAATGCATGAAATG
20984432 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
20984452 AATGCAAA
1 AATGCAAA
20984460 AAATAGGCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:20986457 original size:23 final size:23
Alignment explanation
Indices: 20986413--20986488 Score: 73
Period size: 23 Copynumber: 3.1 Consensus size: 23
20986403 GATGCATATA
20986413 TATATTATATAAAAAAACCATGCGAG
1 TATATTATAT--AAAAA-CATGCGAG
* *
20986439 TATATTATATAAAAACATG-TATA
1 TATATTATATAAAAACATGCGA-G
*
20986462 TATATTATATAAAAACAATGCGTG
1 TATATTATATAAAAAC-ATGCGAG
20986486 TAT
1 TAT
20986489 GAATATAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.02
23 20 0.48
24 11 0.26
26 10 0.24
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34
Consensus pattern (23 bp):
TATATTATATAAAAACATGCGAG
Found at i:20986538 original size:18 final size:18
Alignment explanation
Indices: 20986517--20986560 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
20986507 AATAACCATG
*
20986517 ATAATAAATAATATTATA
1 ATAATAAATAATAGTATA
*
20986535 ATAATAAATAATGGTATA
1 ATAATAAATAATAGTATA
*
20986553 ATGATAAA
1 ATAATAAA
20986561 CATTAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (18 bp):
ATAATAAATAATAGTATA
Found at i:21003341 original size:52 final size:52
Alignment explanation
Indices: 21003272--21003374 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
21003262 AGAGTAAAGC
21003272 CAAAGCTGACTTAAGAGGAGGTGAAATATGGATCCTTAACCCACTTGAAATG
1 CAAAGCTGACTTAAGAGGAGGTGAAATATGGATCCTTAACCCACTTGAAATG
*
21003324 CAAAGCTGACTTAAGAGGAGGTGAAATATGGATCGTTAACCCACTTGAAAT
1 CAAAGCTGACTTAAGAGGAGGTGAAATATGGATCCTTAACCCACTTGAAAT
21003375 ACTTTTCGAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (52 bp):
CAAAGCTGACTTAAGAGGAGGTGAAATATGGATCCTTAACCCACTTGAAATG
Found at i:21011181 original size:40 final size:40
Alignment explanation
Indices: 21011126--21011217 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
21011116 AAAATGCCGC
*
21011126 AATGCAGCAAAAGGTAAGAAATAGTGGCGTTTGTGGTAAA
1 AATGCCGCAAAAGGTAAGAAATAGTGGCGTTTGTGGTAAA
* * *
21011166 AATGCCGCAAAAGGTAAGCAATAGTGGTGTTTGTGTTAAA
1 AATGCCGCAAAAGGTAAGAAATAGTGGCGTTTGTGGTAAA
* *
21011206 AAAGCCGTAAAA
1 AATGCCGCAAAA
21011218 TGTTTTTTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.40, C:0.10, G:0.27, T:0.23
Consensus pattern (40 bp):
AATGCCGCAAAAGGTAAGAAATAGTGGCGTTTGTGGTAAA
Found at i:21011337 original size:47 final size:48
Alignment explanation
Indices: 21011284--21011430 Score: 122
Period size: 47 Copynumber: 3.1 Consensus size: 48
21011274 ACACGAATTA
* **
21011284 TTTTCTTTCT-AAGTA-TTTTTTTGCTTAAAACCCCAAAATCATTTCCC
1 TTTTCTTTCTCAAG-ACTTTCTTTGCTTAAAACCCCAAAATCACATCCC
* * * *
21011331 TTTTCTTT-TCCAGACTTTCTTTGCTTGAAACCCTAAAATCCCATCCC
1 TTTTCTTTCTCAAGACTTTCTTTGCTTAAAACCCCAAAATCACATCCC
* * * * * *
21011378 TTTTCTTTCTCAA-TCTTTTCGTTGCTGAAAAACCCTAAAATCTCGTCCC
1 TTTTCTTTCTCAAGAC-TTTCTTTGCT-TAAAACCCCAAAATCACATCCC
21011427 TTTT
1 TTTT
21011431 TCTTCTATTT
Statistics
Matches: 81, Mismatches: 14, Indels: 8
0.79 0.14 0.08
Matches are distributed among these distances:
46 2 0.02
47 45 0.56
48 12 0.15
49 22 0.27
ACGTcount: A:0.22, C:0.27, G:0.06, T:0.44
Consensus pattern (48 bp):
TTTTCTTTCTCAAGACTTTCTTTGCTTAAAACCCCAAAATCACATCCC
Found at i:21016294 original size:16 final size:16
Alignment explanation
Indices: 21016270--21016305 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21016260 TCCCGAAACT
21016270 ACTACTTTTCAACACC
1 ACTACTTTTCAACACC
* *
21016286 ACTATTTTTCGACACC
1 ACTACTTTTCAACACC
21016302 ACTA
1 ACTA
21016306 AAAAACGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.33, G:0.03, T:0.33
Consensus pattern (16 bp):
ACTACTTTTCAACACC
Found at i:21018631 original size:28 final size:28
Alignment explanation
Indices: 21018591--21018654 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
21018581 AGGGAATAGT
*
21018591 CTAGTGGTTTATTAACTCTCTAGCTATC
1 CTAGTGGTTTATTAACTCTCTAGCTACC
* *
21018619 CTAGTGGTTTATTAATTCTTTAGCTACC
1 CTAGTGGTTTATTAACTCTCTAGCTACC
21018647 CTAGTGGT
1 CTAGTGGT
21018655 CCAAGGTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (28 bp):
CTAGTGGTTTATTAACTCTCTAGCTACC
Found at i:21026467 original size:227 final size:227
Alignment explanation
Indices: 21026072--21026524 Score: 870
Period size: 227 Copynumber: 2.0 Consensus size: 227
21026062 GTTTCTCCTC
21026072 CGAAGGATCCAGGAGAAACAGCTGAGAAGGAGAGTGCAACCCTGCAATTGAACCACCAAATATAA
1 CGAAGGATCCAGGAGAAACAGCTGAGAAGGAGAGTGCAACCCTGCAATTGAACCACCAAATATAA
21026137 TTATCCTCCCACAAGGCATGCTTACCGCAACATGATCCAGTCTAGGAGGAGGTACCACAGCATTT
66 TTATCCTCCCACAAGGCATGCTTACCGCAACATGATCCAGTCTAGGAGGAGGTACCACAGCATTT
*
21026202 TGGCTACCAACACTGGTGAAGGCACTACAGTCCAGTTGCCGCCACTGTGGTTCTTCGTCCTCCAA
131 TGGCTACCAACACTGGTGAAGGCACTACAGTCCAGTTGCCACCACTGTGGTTCTTCGTCCTCCAA
21026267 ATCAATGGTGTAGGCTTCACCTGATCGCAATT
196 ATCAATGGTGTAGGCTTCACCTGATCGCAATT
* *
21026299 CGAAGGATCCAGGAGAAACAGCTGAGAAGGAGAGTGTAATCCTGCAATTGAACCACCAAATATAA
1 CGAAGGATCCAGGAGAAACAGCTGAGAAGGAGAGTGCAACCCTGCAATTGAACCACCAAATATAA
*
21026364 TTATCCTCCCACAAGGCATGCTTACGGCAACATGATCCAGTCTAGGAGGAGGTACCACAGCATTT
66 TTATCCTCCCACAAGGCATGCTTACCGCAACATGATCCAGTCTAGGAGGAGGTACCACAGCATTT
21026429 TGGCTACCAACACTGGTGAAGGCACTACAGTCCAGTTGCCACCACTGTGGTTCTTCGTCCTCCAA
131 TGGCTACCAACACTGGTGAAGGCACTACAGTCCAGTTGCCACCACTGTGGTTCTTCGTCCTCCAA
21026494 ATCAATGGTGTAGGCTTCACCTGATCGCAAT
196 ATCAATGGTGTAGGCTTCACCTGATCGCAAT
21026525 CGCAAGTTCC
Statistics
Matches: 222, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
227 222 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (227 bp):
CGAAGGATCCAGGAGAAACAGCTGAGAAGGAGAGTGCAACCCTGCAATTGAACCACCAAATATAA
TTATCCTCCCACAAGGCATGCTTACCGCAACATGATCCAGTCTAGGAGGAGGTACCACAGCATTT
TGGCTACCAACACTGGTGAAGGCACTACAGTCCAGTTGCCACCACTGTGGTTCTTCGTCCTCCAA
ATCAATGGTGTAGGCTTCACCTGATCGCAATT
Found at i:21029575 original size:25 final size:24
Alignment explanation
Indices: 21029547--21029626 Score: 66
Period size: 24 Copynumber: 3.5 Consensus size: 24
21029537 AAAATCTTCA
21029547 ATTACTCCAAAAATCAGCACAAAAT
1 ATTA-TCCAAAAATCAGCACAAAAT
*
21029572 ATTATTCAAAAA-C-G-ATC---A-
1 ATTATCCAAAAATCAGCA-CAAAAT
21029590 ATTACTCCAAAAATCAGCACAAAAT
1 ATTA-TCCAAAAATCAGCACAAAAT
*
21029615 ATTATTCAAAAA
1 ATTATCCAAAAA
21029627 CGAAAGGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 19
0.66 0.05 0.29
Matches are distributed among these distances:
18 4 0.09
19 8 0.19
20 1 0.02
21 3 0.07
22 3 0.07
23 1 0.02
24 15 0.35
25 8 0.19
ACGTcount: A:0.53, C:0.20, G:0.04, T:0.24
Consensus pattern (24 bp):
ATTATCCAAAAATCAGCACAAAAT
Found at i:21029583 original size:43 final size:43
Alignment explanation
Indices: 21029544--21029629 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
21029534 AAAAAAATCT
21029544 TCAATTACTCCAAAAATCAGCACAAAATATTATTCAAAAACGA
1 TCAATTACTCCAAAAATCAGCACAAAATATTATTCAAAAACGA
21029587 TCAATTACTCCAAAAATCAGCACAAAATATTATTCAAAAACGA
1 TCAATTACTCCAAAAATCAGCACAAAATATTATTCAAAAACGA
21029630 AAGGAAAAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.23
Consensus pattern (43 bp):
TCAATTACTCCAAAAATCAGCACAAAATATTATTCAAAAACGA
Found at i:21031137 original size:21 final size:21
Alignment explanation
Indices: 21031108--21031174 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
21031098 CCCAATATGT
21031108 ATTACTGTAATATGTAGCTCAA
1 ATTA-TGTAATATGTAGCTCAA
*
21031130 ATTATGT-AT-TGTAG-TTAA
1 ATTATGTAATATGTAGCTCAA
21031148 TATTCA--TAATATTGTAGCTCAA
1 -ATT-ATGTAATA-TGTAGCTCAA
21031170 ATTAT
1 ATTAT
21031175 CAATCCGTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 15
0.68 0.04 0.28
Matches are distributed among these distances:
18 4 0.11
19 10 0.28
20 4 0.11
21 11 0.31
22 7 0.19
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (21 bp):
ATTATGTAATATGTAGCTCAA
Found at i:21035917 original size:15 final size:15
Alignment explanation
Indices: 21035882--21035923 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21035872 TTAAAAATTT
*
21035882 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21035896 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21035910 TATTTAATAATAAT
1 TATTTAATTATAAT
21035924 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21036157 original size:45 final size:43
Alignment explanation
Indices: 21036057--21036166 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
21036047 TTTTCCATTA
21036057 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
21036096 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
21036141 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
21036167 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:21036168 original size:16 final size:16
Alignment explanation
Indices: 21036147--21036214 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
21036137 GATTTGCTAT
*
21036147 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
21036163 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
21036179 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
21036195 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21036211 TACA
1 TACA
21036215 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:21036188 original size:32 final size:32
Alignment explanation
Indices: 21036147--21036214 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
21036137 GATTTGCTAT
21036147 TACACCTCTATTCCAATACACCTCTAATCCAA
1 TACACCTCTATTCCAATACACCTCTAATCCAA
21036179 TACACCTCTATTCCAATACACCTCTAATCCAA
1 TACACCTCTATTCCAATACACCTCTAATCCAA
21036211 TACA
1 TACA
21036215 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (32 bp):
TACACCTCTATTCCAATACACCTCTAATCCAA
Found at i:21040072 original size:14 final size:15
Alignment explanation
Indices: 21040049--21040084 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
21040039 CATTTTTTAC
*
21040049 ATATTTTAATATT-T
1 ATATTATAATATTAT
21040063 ATATTATAATATTAT
1 ATATTATAATATTAT
21040078 ATATTAT
1 ATATTAT
21040085 TATAGATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATTATAATATTAT
Found at i:21046992 original size:23 final size:23
Alignment explanation
Indices: 21046949--21046992 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
21046939 AAGTAAACAA
* *
21046949 AAATAATCAATACAAATTAAATC
1 AAATAAACAATACAAAGTAAATC
21046972 AAATAAACAAT-CAATAGTAAA
1 AAATAAACAATACAA-AGTAAA
21046993 ATCTTAGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.64, C:0.11, G:0.02, T:0.23
Consensus pattern (23 bp):
AAATAAACAATACAAAGTAAATC
Found at i:21048685 original size:18 final size:18
Alignment explanation
Indices: 21048639--21048695 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
21048629 ACATAAGTGC
* *
21048639 TTTC-ATTTATTCTTTTT
1 TTTCTATTTTTTCATTTT
*
21048656 TTTCCTA-TTTTTCCTTTT
1 TTT-CTATTTTTTCATTTT
21048674 TTTCTATTTTTTTCATTTT
1 TTTCTA-TTTTTTCATTTT
21048693 TTT
1 TTT
21048696 ACTTTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 6 0.18
18 13 0.39
19 14 0.42
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTCTATTTTTTCATTTT
Found at i:21048695 original size:9 final size:9
Alignment explanation
Indices: 21048639--21048695 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
21048629 ACATAAGTGC
21048639 TTTCA-TTT
1 TTTCATTTT
* *
21048647 ATTCTTTTT
1 TTTCATTTT
* *
21048656 TTTCCTATT
1 TTTCATTTT
*
21048665 TTTCCTTTT
1 TTTCATTTT
21048674 TTTCTATTTT
1 TTTC-ATTTT
21048684 TTTCATTTT
1 TTTCATTTT
21048693 TTT
1 TTT
21048696 ACTTTAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
8 3 0.08
9 29 0.73
10 8 0.20
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTCATTTT
Found at i:21050368 original size:51 final size:50
Alignment explanation
Indices: 21050285--21050421 Score: 131
Period size: 51 Copynumber: 2.7 Consensus size: 50
21050275 CAAATGAACA
* *
21050285 AAAATGATGAAATGGAGAAATAGGAAACATTTGAAAATGATTAAGGTTTTCTCT
1 AAAATGA--AAATGGAGAAAT--GAAACATTTGAAAATGAATAAGGTTTTCTCC
* **
21050339 AAAATGAAAATGGAGAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCC
1 AAAATGAAAATGGAGAAATGAAA-CATTTGAAAATGAATAAGGTTTTCTCC
* *
21050390 AAATTG-AAATTGA-AAATGAAA-A--TGAAAATGAA
1 AAAATGAAAATGGAGAAATGAAACATTTGAAAATGAA
21050422 AATTGAAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
45 9 0.12
47 1 0.01
49 8 0.11
50 10 0.14
51 27 0.36
52 12 0.16
54 7 0.09
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.28
Consensus pattern (50 bp):
AAAATGAAAATGGAGAAATGAAACATTTGAAAATGAATAAGGTTTTCTCC
Found at i:21050401 original size:6 final size:6
Alignment explanation
Indices: 21050394--21050447 Score: 72
Period size: 6 Copynumber: 8.5 Consensus size: 6
21050384 TTCTCCAAAT
*
21050394 TGAAAT TGAAAA TGAAAA TGAAAA TGAAAA TTGAAAAA TGAAAAA TGAAAA
1 TGAAAA TGAAAA TGAAAA TGAAAA TGAAAA -TG-AAAA TG-AAAA TGAAAA
21050445 TGA
1 TGA
21050448 CTTGAGGAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
6 30 0.67
7 11 0.24
8 4 0.09
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (6 bp):
TGAAAA
Found at i:21054623 original size:21 final size:21
Alignment explanation
Indices: 21054598--21054643 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
21054588 TTCTTGGCAG
*
21054598 GTGGATATCGTGATACCCAAA
1 GTGGATATCATGATACCCAAA
21054619 GTGGATATCATGATACCCAAA
1 GTGGATATCATGATACCCAAA
21054640 GTGG
1 GTGG
21054644 CCTCCATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (21 bp):
GTGGATATCATGATACCCAAA
Found at i:21054716 original size:5 final size:5
Alignment explanation
Indices: 21054706--21054739 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
21054696 ACCCCAAAGT
21054706 AAATA AAATA AAATAA TAAATA AAATA AAATA AA
1 AAATA AAATA AAAT-A -AAATA AAATA AAATA AA
21054740 TTGAATTGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 21 0.78
6 2 0.07
7 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:21054725 original size:17 final size:17
Alignment explanation
Indices: 21054705--21054738 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
21054695 AACCCCAAAG
21054705 TAAATAAAATAAAATAA
1 TAAATAAAATAAAATAA
21054722 TAAATAAAATAAAATAA
1 TAAATAAAATAAAATAA
21054739 ATTGAATTGC
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATAAAATAAAATAA
Found at i:21055143 original size:111 final size:110
Alignment explanation
Indices: 21054852--21055148 Score: 285
Period size: 113 Copynumber: 2.7 Consensus size: 110
21054842 AAATAGATTT
* * * **
21054852 CATTCCAATAGAAAACTTAGT-AACTTTTCTGCCTAGTTTCACTCCAAAAGAAACAA-ATTCCGC
1 CATTCCAAAAGAAAACTTAGTAAAC-TCTCTGCCTAGTTTCACTCC-AATGAAA-AAGATTATGC
** * * *
21054915 TCCAACAGATAACTAGAAAACTAATTTCGCTCCAATAGAAACAGATCC
63 TCCAATGGAAAACTAGAAAACTAATTTCGCTCCAACAAAAACAGATCC
* * * * * **
21054963 CATTCCAAAAAAAAAAACTTAGCAAACTCTCTACCTAGTTTCACTCCAATAGGAACAGGCTATGC
1 CATTCC--AAAAGAAAACTTAGTAAACTCTCTGCCTAGTTTCACTCCAAT-GAAAAAGATTATGC
* * *
21055028 TCCAATGGAAAACTAGCAAACTAAGTTT-GCTCCAACAAAAACATATTC
63 TCCAATGGAAAACTAGAAAACTAA-TTTCGCTCCAACAAAAACAGATCC
* ** *
21055076 CATTCCAACAGAAAACTTAGTAAACTCTCTGCCTAGTTTCGGTCCAATGAAAATAGATTTTGCTC
1 CATTCCAAAAGAAAACTTAGTAAACTCTCTGCCTAGTTTCACTCCAATGAAAA-AGATTATGCTC
21055141 CAATGGAA
65 CAATGGAA
21055149 TGAGTCTATA
Statistics
Matches: 148, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
110 3 0.02
111 58 0.39
112 3 0.02
113 78 0.53
114 6 0.04
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.25
Consensus pattern (110 bp):
CATTCCAAAAGAAAACTTAGTAAACTCTCTGCCTAGTTTCACTCCAATGAAAAAGATTATGCTCC
AATGGAAAACTAGAAAACTAATTTCGCTCCAACAAAAACAGATCC
Found at i:21056615 original size:21 final size:21
Alignment explanation
Indices: 21056589--21056628 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21056579 CATCTACCAA
*
21056589 CCATTAGACCTAT-TCAAAATG
1 CCATTAAACCT-TCTCAAAATG
21056610 CCATTAAACCTTCTCAAAA
1 CCATTAAACCTTCTCAAAA
21056629 CATGCTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.40, C:0.28, G:0.05, T:0.28
Consensus pattern (21 bp):
CCATTAAACCTTCTCAAAATG
Found at i:21060292 original size:30 final size:31
Alignment explanation
Indices: 21060229--21060294 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 31
21060219 AAGAAAGGGA
21060229 AAACCTAATCTAAAAATAAGAAGAAAAGAAAAG
1 AAACCTAATCTAAAAAT-A-AAGAAAAGAAAAG
* *
21060262 AAACCTAATCTAAAAAT-ATGAAAAGTAAAG
1 AAACCTAATCTAAAAATAAAGAAAAGAAAAG
21060292 AAA
1 AAA
21060295 ATGTTCAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 14 0.45
33 17 0.55
ACGTcount: A:0.65, C:0.09, G:0.11, T:0.15
Consensus pattern (31 bp):
AAACCTAATCTAAAAATAAAGAAAAGAAAAG
Found at i:21061657 original size:27 final size:27
Alignment explanation
Indices: 21061627--21061731 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 27
21061617 TTTAATCTCT
**
21061627 TAGGGGTATAATAATCATTTTACCCTA
1 TAGGGGTATTTTAATCATTTTACCCTA
* *
21061654 TAGGGGTATTTTTATAATTTTACCC-A
1 TAGGGGTATTTTAATCATTTTACCCTA
* * *
21061680 TCGAGGGTATTTTAGTCATTTTACCCTT
1 TAG-GGGTATTTTAATCATTTTACCCTA
* * *
21061708 TGGGGGTATTTTAGTAATTTTACC
1 TAGGGGTATTTTAATCATTTTACC
21061732 TATCGATGGT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.05
27 60 0.92
28 2 0.03
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (27 bp):
TAGGGGTATTTTAATCATTTTACCCTA
Found at i:21061752 original size:81 final size:81
Alignment explanation
Indices: 21061643--21061827 Score: 223
Period size: 81 Copynumber: 2.3 Consensus size: 81
21061633 TATAATAATC
* ** * *
21061643 ATTTTACCCTATAG-GGGTATTTTTATAATTTTACCCATCGA-GGGTATTTTAGTCATTTTACCC
1 ATTTTACCC-ATCGAGGGTATTTCGATAATTTTACCCAT-GAGGGGTATTTCAGTAATTTTA-CC
*
21061706 T-TTGGGGGTATTTTAGTA
63 TATTGGGGGTATTTCAGTA
* * * *
21061724 ATTTTACCTATCGATGGTATTTCGATAATTTTACTCATTAGGGGTATTTCAGTAATTTTACCTAT
1 ATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATGAGGGGTATTTCAGTAATTTTACCTAT
*
21061789 TGGGGGTATTTCGGTA
66 TGGGGGTATTTCAGTA
21061805 ATTTTACCCATCGAGGGTATTTC
1 ATTTTACCCATCGAGGGTATTTC
21061828 AGTTATTCTA
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 7 0.08
81 81 0.92
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (81 bp):
ATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATGAGGGGTATTTCAGTAATTTTACCTAT
TGGGGGTATTTCAGTA
Found at i:21061827 original size:27 final size:27
Alignment explanation
Indices: 21061643--21061840 Score: 170
Period size: 27 Copynumber: 7.3 Consensus size: 27
21061633 TATAATAATC
* *
21061643 ATTTTACCCTATAG-GGGTATTTTTA-TA
1 ATTTTACCC-ATCGAGGGTA-TTTCAGTA
* *
21061670 ATTTTACCCATCGAGGGTATTTTAGTC
1 ATTTTACCCATCGAGGGTATTTCAGTA
* * * *
21061697 ATTTTACCCTTTGGGGGTATTTTAGTA
1 ATTTTACCCATCGAGGGTATTTCAGTA
* *
21061724 ATTTTACCTATCGATGGTATTTC-GATA
1 ATTTTACCCATCGAGGGTATTTCAG-TA
* *
21061751 ATTTTACTCAT-TAGGGGTATTTCAGTA
1 ATTTTACCCATCGA-GGGTATTTCAGTA
* * * *
21061778 ATTTTACCTATTGGGGGTATTTCGGTA
1 ATTTTACCCATCGAGGGTATTTCAGTA
*
21061805 ATTTTACCCATCGAGGGTATTTCAGTT
1 ATTTTACCCATCGAGGGTATTTCAGTA
*
21061832 ATTCTACCC
1 ATTTTACCC
21061841 TATAGAGTTA
Statistics
Matches: 138, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
26 10 0.07
27 127 0.92
28 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCAGTA
Found at i:21061853 original size:54 final size:52
Alignment explanation
Indices: 21061643--21061864 Score: 169
Period size: 54 Copynumber: 4.1 Consensus size: 52
21061633 TATAATAATC
* * * ** *
21061643 ATTTTACCCTAT-AGGGGTATTTTTA-TAATTTTACCCATCGAGGGTATTTTAGTC
1 ATTTTACCC-ATGA-GGGTA-TTTCAGTAATTTTACCTATAGA-GGTATTTCGGTA
* * * * *
21061697 ATTTTACCCTTTGGGGGTATTTTAGTAATTTTACCTATCGATGGTATTTCGATA
1 ATTTTACCC-ATGAGGGTATTTCAGTAATTTTACCTATAGA-GGTATTTCGGTA
* * * *
21061751 ATTTTACTCATTAGGGGTATTTCAGTAATTTTACCTATTGGGGGTATTTCGGTA
1 ATTTTACCCATGA-GGGTATTTCAGTAATTTTACCTA-TAGAGGTATTTCGGTA
* * * *
21061805 ATTTTACCCATCGAGGGTATTTCAGTTATTCTACCCTATAGAGTTATTTCGGTT
1 ATTTTACCCAT-GAGGGTATTTCAGTAATTTTA-CCTATAGAGGTATTTCGGTA
21061859 ATTTTA
1 ATTTTA
21061865 TCTAGTTTGG
Statistics
Matches: 138, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
53 6 0.04
54 125 0.91
55 7 0.05
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (52 bp):
ATTTTACCCATGAGGGTATTTCAGTAATTTTACCTATAGAGGTATTTCGGTA
Found at i:21061853 original size:81 final size:81
Alignment explanation
Indices: 21061643--21061864 Score: 202
Period size: 81 Copynumber: 2.7 Consensus size: 81
21061633 TATAATAATC
* ** * * * *
21061643 ATTTTACCCTATAG-GGGTATTTTTATAATTTTACCCA-TCGAGGGTATTTTAGTCATTTTACCC
1 ATTTTACCC-ATCGAGGGTATTTCGATAATTCTACCCATTAGA-GGTATTTCAGTAATTTTACCC
*
21061706 TTTGGGGGTATTTTAGTA
64 TTTGGGGGTATTTCAGTA
* * * * *
21061724 ATTTTACCTATCGATGGTATTTCGATAATTTTACTCATTAGGGGTATTTCAGTAATTTTA-CCTA
1 ATTTTACCCATCGAGGGTATTTCGATAATTCTACCCATTAGAGGTATTTCAGTAATTTTACCCT-
*
21061788 TTGGGGGTATTTCGGTA
65 TTGGGGGTATTTCAGTA
* * * *
21061805 ATTTTACCCATCGAGGGTATTTC-AGTTATTCTACCC-TATAGAGTTATTTCGGTTATTTTA
1 ATTTTACCCATCGAGGGTATTTCGA-TAATTCTACCCAT-TAGAGGTATTTCAGTAATTTTA
21061865 TCTAGTTTGG
Statistics
Matches: 115, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
80 8 0.07
81 105 0.91
82 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (81 bp):
ATTTTACCCATCGAGGGTATTTCGATAATTCTACCCATTAGAGGTATTTCAGTAATTTTACCCTT
TGGGGGTATTTCAGTA
Found at i:21076013 original size:36 final size:36
Alignment explanation
Indices: 21075973--21076092 Score: 168
Period size: 36 Copynumber: 3.3 Consensus size: 36
21075963 GTCAGTTCAA
**
21075973 CCAAAACACACCAGATGCTCACCCGAGCCAATCCCT
1 CCAAAACACACCAGATGCTCATACGAGCCAATCCCT
* *
21076009 CCAAAACACAACAGATGCTTATACGAGCCAATCCCT
1 CCAAAACACACCAGATGCTCATACGAGCCAATCCCT
* * *
21076045 CCAAAACACACTAGATGCTCATACGAACAAATCCCT
1 CCAAAACACACCAGATGCTCATACGAGCCAATCCCT
*
21076081 CCGAAACACACC
1 CCAAAACACACC
21076093 GATATTCATA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 73 1.00
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.13
Consensus pattern (36 bp):
CCAAAACACACCAGATGCTCATACGAGCCAATCCCT
Found at i:21078538 original size:18 final size:16
Alignment explanation
Indices: 21078507--21078541 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
21078497 CATTAGAGAC
21078507 TAAATTGAATAAAATT
1 TAAATTGAATAAAATT
21078523 TAAATTTGACATAAAATT
1 TAAA-TTGA-ATAAAATT
21078541 T
1 T
21078542 TAGTAGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 4 0.24
18 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (16 bp):
TAAATTGAATAAAATT
Found at i:21085835 original size:18 final size:18
Alignment explanation
Indices: 21085805--21085853 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
21085795 AAAAAAAAGG
*
21085805 TTTTGAAATTGAATAATGA
1 TTTTGAAAATGAATAAT-A
*
21085824 -TTTGTAAATGAATAATA
1 TTTTGAAAATGAATAATA
21085841 TTTTGAAAATGAA
1 TTTTGAAAATGAA
21085854 CGACACGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (18 bp):
TTTTGAAAATGAATAATA
Found at i:21086436 original size:13 final size:13
Alignment explanation
Indices: 21086418--21086460 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
21086408 AATTTTAAAT
21086418 TATTTAGTGATAA
1 TATTTAGTGATAA
*
21086431 TATTTA--GA-AT
1 TATTTAGTGATAA
21086441 TATTTAGTGATAA
1 TATTTAGTGATAA
21086454 TATTTAG
1 TATTTAG
21086461 CAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:21086459 original size:23 final size:23
Alignment explanation
Indices: 21086411--21086460 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
21086401 ATTTTTAAAT
21086411 TTTA-AATTATTTAGTGATAATA
1 TTTAGAATTATTTAGTGATAATA
21086433 TTTAGAATTATTTAGTGATAATA
1 TTTAGAATTATTTAGTGATAATA
21086456 TTTAG
1 TTTAG
21086461 CAAAAATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (23 bp):
TTTAGAATTATTTAGTGATAATA
Found at i:21087353 original size:23 final size:23
Alignment explanation
Indices: 21087300--21087357 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
21087290 TTATTTATCC
*
21087300 ATTTATTTTATTTTCTTAAATTT
1 ATTTATTTTATTTTCTGAAATTT
21087323 ATTT-TTTTATTTT-TGAATATATT
1 ATTTATTTTATTTTCTGAA-AT-TT
21087346 -TTTATTTTATTT
1 ATTTATTTTATTT
21087358 ATTTTTCGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 3 0.10
22 14 0.45
23 14 0.45
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (23 bp):
ATTTATTTTATTTTCTGAAATTT
Found at i:21093120 original size:81 final size:81
Alignment explanation
Indices: 21092917--21093128 Score: 234
Period size: 81 Copynumber: 2.6 Consensus size: 81
21092907 CTGCACCGAG
** * *
21092917 ACCCCCATAGGGTAAAATGACCAAAATACCTCTTTAGGG-TAAAATAACCGAAATACCCCCATAG
1 ACCCCCATAGGGTAAAATGACTGAAATACCTC-TTAGGGATAAAATGACTGAAATACCCCCATAG
21092981 GGTAAAATGACCGAAAT
65 GGTAAAATGACCGAAAT
* * * * * *
21092998 AGCCTCATAAGGCAAAATGA-TCGAAATATCCTCATA-GGATAAAATGACTGAAATACCCTCATA
1 ACCCCCATAGGGTAAAATGACT-GAAATA-CCTCTTAGGGATAAAATGACTGAAATACCCCCATA
*
21093061 GGGTAAAATGACTGAAAT
64 GGGTAAAATGACCGAAAT
** *
21093079 ACCCCCATAGGGTAAAATGACTGTTATACCTC-TAGGAGATAAATTGACTG
1 ACCCCCATAGGGTAAAATGACTGAAATACCTCTTAGG-GATAAAATGACTG
21093129 TTATGGTCTT
Statistics
Matches: 107, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
79 2 0.02
80 7 0.07
81 93 0.87
82 5 0.05
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (81 bp):
ACCCCCATAGGGTAAAATGACTGAAATACCTCTTAGGGATAAAATGACTGAAATACCCCCATAGG
GTAAAATGACCGAAAT
Found at i:21093121 original size:27 final size:27
Alignment explanation
Indices: 21092917--21093101 Score: 212
Period size: 27 Copynumber: 6.9 Consensus size: 27
21092907 CTGCACCGAG
* **
21092917 ACCCCCATAGGGTAAAATGACCAAAAT
1 ACCCTCATAGGGTAAAATGACTGAAAT
* * *
21092944 A-CCTCTTTAGGGTAAAATAACCGAAAT
1 ACCCTC-ATAGGGTAAAATGACTGAAAT
* *
21092971 ACCCCCATAGGGTAAAATGACCGAAAT
1 ACCCTCATAGGGTAAAATGACTGAAAT
* * *
21092998 AGCCTCATAAGGCAAAATGA-TCGAAAT
1 ACCCTCATAGGGTAAAATGACT-GAAAT
* *
21093025 ATCCTCATAGGATAAAATGACTGAAAT
1 ACCCTCATAGGGTAAAATGACTGAAAT
21093052 ACCCTCATAGGGTAAAATGACTGAAAT
1 ACCCTCATAGGGTAAAATGACTGAAAT
*
21093079 ACCCCCATAGGGTAAAATGACTG
1 ACCCTCATAGGGTAAAATGACTG
21093102 TTATACCTCT
Statistics
Matches: 135, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.02
27 128 0.95
28 4 0.03
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
ACCCTCATAGGGTAAAATGACTGAAAT
Found at i:21093128 original size:54 final size:54
Alignment explanation
Indices: 21092917--21093099 Score: 235
Period size: 54 Copynumber: 3.4 Consensus size: 54
21092907 CTGCACCGAG
* * * *
21092917 ACCCCCATAGGGTAAAATGACCAAAATA-CCTCTTTAGGGTAAAATAACCGAAAT
1 ACCCCCATAGGGTAAAATGACCGAAATACCCTC-ATAGGGTAAAATGACTGAAAT
* * *
21092971 ACCCCCATAGGGTAAAATGACCGAAATAGCCTCATAAGGCAAAATGA-TCGAAAT
1 ACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACT-GAAAT
* * * *
21093025 ATCCTCATAGGATAAAATGACTGAAATACCCTCATAGGGTAAAATGACTGAAAT
1 ACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAAT
21093079 ACCCCCATAGGGTAAAATGAC
1 ACCCCCATAGGGTAAAATGAC
21093100 TGTTATACCT
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
54 105 0.95
55 5 0.05
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (54 bp):
ACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAAT
Found at i:21097524 original size:23 final size:23
Alignment explanation
Indices: 21097498--21097549 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
21097488 TGATTTTTAA
* *
21097498 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTAATAAT
*
21097521 ATTTAGAATTATTTAGTAATAGT
1 ATTTAGAATTATTTAGTAATAAT
21097544 ATTTAG
1 ATTTAG
21097550 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTAATAAT
Found at i:21098456 original size:26 final size:26
Alignment explanation
Indices: 21098427--21098476 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
21098417 GTTTTTGTAT
21098427 TTTTTAATATATTT-TTATTTTATTTA
1 TTTTTAATAT-TTTCTTATTTTATTTA
*
21098453 TTTTTCATATTTTCTTATTTTATT
1 TTTTTAATATTTTCTTATTTTATT
21098477 ATCTTAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTTAATATTTTCTTATTTTATTTA
Found at i:21103076 original size:38 final size:39
Alignment explanation
Indices: 21102987--21103086 Score: 121
Period size: 39 Copynumber: 2.6 Consensus size: 39
21102977 CGAATATAAT
* * * *
21102987 AATTATAATTACCATAATTATAATAATGTTTGACTAAAA
1 AATTATAATTACAATAATTATAAAAATATTCGACTAAAA
* ***
21103026 AATTACAATTACAATAATTATAAAAATATTCGA-TCGTA
1 AATTATAATTACAATAATTATAAAAATATTCGACTAAAA
21103064 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
21103087 CAATGATTTC
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
38 24 0.46
39 28 0.54
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (39 bp):
AATTATAATTACAATAATTATAAAAATATTCGACTAAAA
Found at i:21103886 original size:43 final size:43
Alignment explanation
Indices: 21103838--21103923 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
21103828 TTGTAATCAC
21103838 TACGAGTAATGTAGTGACTATTACATAATAATCCAAGAAACAT
1 TACGAGTAATGTAGTGACTATTACATAATAATCCAAGAAACAT
* *
21103881 TACGAGTAATGTTGTGACTTTTACATAATAATCCAAGAAACAT
1 TACGAGTAATGTAGTGACTATTACATAATAATCCAAGAAACAT
21103924 ACTCCTAGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (43 bp):
TACGAGTAATGTAGTGACTATTACATAATAATCCAAGAAACAT
Found at i:21105634 original size:15 final size:16
Alignment explanation
Indices: 21105614--21105646 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21105604 TGATGCCCCA
*
21105614 AATTTCTTAAATT-TT
1 AATTTCGTAAATTGTT
21105629 AATTTCGTAAATTGTT
1 AATTTCGTAAATTGTT
21105645 AA
1 AA
21105647 ATAATTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (16 bp):
AATTTCGTAAATTGTT
Found at i:21107001 original size:7 final size:7
Alignment explanation
Indices: 21106991--21107034 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
21106981 TATGTATGCC
21106991 ATATGAT
1 ATATGAT
21106998 ATATGAT
1 ATATGAT
21107005 ATATGTAT
1 ATATG-AT
*
21107013 GTATGAT
1 ATATGAT
21107020 ATATGAT
1 ATATGAT
21107027 -TATGAT
1 ATATGAT
21107033 AT
1 AT
21107035 GCATGTGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 6 0.18
7 21 0.64
8 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (7 bp):
ATATGAT
Found at i:21107011 original size:29 final size:28
Alignment explanation
Indices: 21106979--21107034 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
21106969 AAAGTACATG
*
21106979 TGTATGTATGCCATATGATATATGATATA
1 TGTATGTATGACATATGAT-TATGATATA
*
21107008 TGTATGTATGATATATGATTATGATAT
1 TGTATGTATGACATATGATTATGATAT
21107035 GCATGTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.45
Consensus pattern (28 bp):
TGTATGTATGACATATGATTATGATATA
Found at i:21107020 original size:22 final size:22
Alignment explanation
Indices: 21106992--21107035 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
21106982 ATGTATGCCA
21106992 TATGATATATGATATATG-TATG
1 TATGATATATGAT-TATGATATG
21107014 TATGATATATGATTATGATATG
1 TATGATATATGATTATGATATG
21107036 CATGTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (22 bp):
TATGATATATGATTATGATATG
Found at i:21107766 original size:35 final size:33
Alignment explanation
Indices: 21107727--21107985 Score: 290
Period size: 35 Copynumber: 7.7 Consensus size: 33
21107717 TTGTCTTTTC
* *
21107727 TTGCAGGGAATATTTCCTGTTCACGCATTATTCTG
1 TTGCAGGGAATCTCTCCTGTTCAC-CATTATT-TG
* * *
21107762 TTGCAGGGAATCTTTCCTGTTCA-CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACCATTATTTG
*
21107794 TTGCAGGGAATCTTTCCTGTTCACACATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCAC-CATTA-TTTG
21107829 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCAC-CATTA-TTTG
* * * * *
21107864 TTGTAGGGAATCTTTCCTATTCA-CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACCATTATTTG
* *
21107896 TTGCAGGGAATCTCTCATGTTCACGGATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCAC-CATTA-TTTG
* *
21107931 TTGCAGGGAATCTCTCCTGTTCA-CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACCATTATTTG
21107963 TTGCAGGGAATCTCTCCTGTTCA
1 TTGCAGGGAATCTCTCCTGTTCA
21107986 TGTATTATTT
Statistics
Matches: 196, Mismatches: 22, Indels: 15
0.84 0.09 0.06
Matches are distributed among these distances:
32 72 0.37
33 13 0.07
34 7 0.04
35 104 0.53
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (33 bp):
TTGCAGGGAATCTCTCCTGTTCACCATTATTTG
Found at i:21107903 original size:102 final size:102
Alignment explanation
Indices: 21107722--21107985 Score: 374
Period size: 102 Copynumber: 2.6 Consensus size: 102
21107712 TTCACTTGTC
* * * * *
21107722 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTATTCACA
* *
21107787 TCATTTCTTGCAGGGAATCTTTCCTGTTCACACATTA
66 TCATTTCTTGCAGGGAATCTCTCATGTTCACACATTA
* *
21107824 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGTAGGGAATCTTTCCTATTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTATTCACA
**
21107889 TCATTTCTTGCAGGGAATCTCTCATGTTCACGGATTA
66 TCATTTCTTGCAGGGAATCTCTCATGTTCACACATTA
* *
21107926 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCA-T-TTC--TTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACA-CATTATTCTGTTGCAGGGAATCTTTCCTATTCA
21107986 TGTATTATTT
Statistics
Matches: 146, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
99 20 0.14
101 2 0.01
102 122 0.84
103 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTATTCACA
TCATTTCTTGCAGGGAATCTCTCATGTTCACACATTA
Found at i:21107993 original size:67 final size:67
Alignment explanation
Indices: 21107722--21107995 Score: 320
Period size: 67 Copynumber: 4.0 Consensus size: 67
21107712 TTCACTTGTC
* * * *
21107722 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCA--
1 TTTTCTTGCAGGGAATCTTTCCTGTTCA--CATCATT-TCTTGCAGGGAATCTCTCCTGTTCACG
*
21107785 CATCA
63 CATTA
* * *
21107790 -TTTCTTGCAGGGAATCTTTCCTGTTCACACATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTTTCCTGTT--CACATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACG
21107854 CATTA
63 CATTA
* * * * *
21107859 TTTTGTTGTAGGGAATCTTTCCTATTCACATCATTTCTTGCAGGGAATCTCTCATGTTCACGGAT
1 TTTTCTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
21107924 TA
66 TA
* * * *
21107926 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTAT
1 TTTTCTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
21107991 TA
66 TA
21107993 TTT
1 TTT
21107996 CTTTTTGGAC
Statistics
Matches: 183, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
67 147 0.80
68 8 0.04
69 6 0.03
70 22 0.12
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (67 bp):
TTTTCTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
TA
Found at i:21110825 original size:21 final size:22
Alignment explanation
Indices: 21110795--21110839 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
21110785 GAGCAAATTG
21110795 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
21110817 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
21110838 TT
1 TT
21110840 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Done.