Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 83 of 345
Found at i:27164015 original size:36 final size:37
Alignment explanation
Indices: 27163960--27164029 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
27163950 CCGAGCTCTA
* *
27163960 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
27163996 AAGACCCGATAACTTCGTGTGGAGATTATGTCCG
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCG
27164030 AATAAGACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 20 0.67
37 10 0.33
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:27164037 original size:37 final size:36
Alignment explanation
Indices: 27163960--27164037 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
27163950 CCGAGCTCTA
* * **
27163960 AAGACCCGATGACTACGTGTGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGATTATGTCCGAAT
*
27163996 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGAAT
1 AAGACCCGATAACTACGTGTGG-GATTATGTCCGAAT
27164033 AAGAC
1 AAGAC
27164038 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 20 0.56
37 16 0.44
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (36 bp):
AAGACCCGATAACTACGTGTGGGATTATGTCCGAAT
Found at i:27166169 original size:19 final size:18
Alignment explanation
Indices: 27166130--27166172 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
27166120 CTTTAGTATG
*
27166130 TTTTTGTATTTTAGCATA
1 TTTTTGTATTGTAGCATA
27166148 TTTTATGTATTGTAGC-TGA
1 TTTT-TGTATTGTAGCAT-A
27166167 TTTTTG
1 TTTTTG
27166173 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTGTAGCATA
Found at i:27166376 original size:68 final size:64
Alignment explanation
Indices: 27166266--27166518 Score: 226
Period size: 68 Copynumber: 3.9 Consensus size: 64
27166256 ATACAGATGG
** ** * * *
27166266 TATGTAGCTAGGTCACATGTATGGTGTTGAGTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 TATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGCTACGAG--A
27166330 TTA
63 -TA
* * *
27166333 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
27166398 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTAAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTAAGT---GTACACCATGTAGACAAGAGAGCTACGAGA
27166463 TA
63 TA
* *
27166465 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGC
27166519 CAAAATTATG
Statistics
Matches: 153, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 3 0.02
66 22 0.14
67 32 0.21
68 50 0.33
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:27175177 original size:11 final size:11
Alignment explanation
Indices: 27175159--27175191 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
27175149 GAGTAATTAA
27175159 CCACTGAGTGT
1 CCACTGAGTGT
*
27175170 CCATTGAGTGT
1 CCACTGAGTGT
27175181 CCACTGAGTGT
1 CCACTGAGTGT
27175192 TGAATAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.30
Consensus pattern (11 bp):
CCACTGAGTGT
Found at i:27178415 original size:31 final size:31
Alignment explanation
Indices: 27178374--27178435 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
27178364 TTATTTATAA
27178374 AAGATATTTAT-TAATTAAATA-ATTATATTAT
1 AAGATATTTATGTAA-TAAATATATTA-ATTAT
*
27178405 AAGATTTTTATGTAATAAATATATTAATTAT
1 AAGATATTTATGTAATAAATATATTAATTAT
27178436 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (31 bp):
AAGATATTTATGTAATAAATATATTAATTAT
Found at i:27178559 original size:16 final size:16
Alignment explanation
Indices: 27178535--27178590 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
27178525 AAAGTAAAAC
27178535 AAAAGAAAAAGAAATG
1 AAAAGAAAAAGAAATG
* *
27178551 AAAAAAAAAAGAGATAG
1 AAAAGAAAAAGAAAT-G
*
27178568 AAAAGAAACAG-AATG
1 AAAAGAAAAAGAAATG
*
27178583 AAACGAAA
1 AAAAGAAA
27178591 CAGAGAGTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 8 0.24
16 15 0.45
17 10 0.30
ACGTcount: A:0.73, C:0.04, G:0.18, T:0.05
Consensus pattern (16 bp):
AAAAGAAAAAGAAATG
Found at i:27178569 original size:22 final size:22
Alignment explanation
Indices: 27178525--27178575 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
27178515 TTATATATAT
* *
27178525 AAAGTAAAACAAAAGAAAAAGA
1 AAAGAAAAAAAAAAGAAAAAGA
* * *
27178547 AATGAAAAAAAAAAGAGATAGA
1 AAAGAAAAAAAAAAGAAAAAGA
27178569 AAAGAAA
1 AAAGAAA
27178576 CAGAATGAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (22 bp):
AAAGAAAAAAAAAAGAAAAAGA
Found at i:27178951 original size:23 final size:24
Alignment explanation
Indices: 27178893--27178951 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
27178883 TGAATGTTTG
27178893 AATTG-AAATAAATATTGATGTTGA
1 AATTGAAAATAAATATT-ATGTTGA
27178917 AATTGAATAATAAATATT-TGTT-A
1 AATTGAA-AATAAATATTATGTTGA
*
27178940 TATTGGAAAATA
1 AATT-GAAAATA
27178952 TATGTAGTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 8 0.26
24 12 0.39
25 1 0.03
26 10 0.32
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (24 bp):
AATTGAAAATAAATATTATGTTGA
Found at i:27179476 original size:18 final size:18
Alignment explanation
Indices: 27179449--27179743 Score: 170
Period size: 18 Copynumber: 16.1 Consensus size: 18
27179439 AAAGGTATAA
* *
27179449 AATAACTGATTATTACTG
1 AATAATTGATTGTTACTG
*
27179467 AATAATTGATTGTTACCG
1 AATAATTGATTGTTACTG
* *
27179485 GATAATTGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
27179503 GAT-ATTAGACTGTTACTG
1 AATAATT-GATTGTTACTG
* * *
27179521 AATAACT-AATATTACTG
1 AATAATTGATTGTTACTG
**
27179538 AATAATTGATCATTACTG
1 AATAATTGATTGTTACTG
* *
27179556 AATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
* *
27179574 AATGAA-TAACTGTTACTG
1 AAT-AATTGATTGTTACTG
* *
27179592 GATAACTTAATTGTTACTG
1 AATAA-TTGATTGTTACTG
27179611 AAT-ATCTGATT-TTACTG
1 AATAAT-TGATTGTTACTG
*
27179628 AATAATTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
* *
27179647 ATAACCGATCAATTGATCGATACTG
1 ---A---AT-AATTGATTGTTACTG
* * * *
27179672 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
*
27179690 AATAATTGATTGTTACCG
1 AATAATTGATTGTTACTG
* *
27179708 AATAACTGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
27179726 AATAAATAATTGTT-CTG
1 AATAATTGATTGTTACTG
27179743 A
1 A
27179744 TTGTTAATAA
Statistics
Matches: 215, Mismatches: 45, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
17 37 0.17
18 142 0.66
19 20 0.09
22 2 0.01
25 3 0.01
26 11 0.05
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:27179541 original size:71 final size:69
Alignment explanation
Indices: 27179449--27179650 Score: 226
Period size: 71 Copynumber: 2.8 Consensus size: 69
27179439 AAAGGTATAA
* * * *
27179449 AATAACTGATTATTACTGAATAATTGATTGTTACCGGATAATTGACTGTTACTGGATATTAGACT
1 AATAACT-AATATTACTGAATAATTGATT-TTACTGAATAATTGACTGTTACTGGATAATA-ACT
27179514 GTTACTG
63 GTTACTG
* * * * *
27179521 AATAACTAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAATAACTG
1 AATAACTAATATTACTGAATAATTGAT-TTTACTGAATAATTGACTGTTACTGGAT-AATAACTG
27179586 TTACTG
64 TTACTG
* *
27179592 GATAACTTAATTGTTACTGAAT-ATCTGATTTTACTGAATAATTGACTGTTACTGGATAA
1 AATAAC-TAA-TATTACTGAATAAT-TGATTTTACTGAATAATTGACTGTTACTGGATAA
27179651 CCGATCAATT
Statistics
Matches: 109, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
71 57 0.52
72 38 0.35
73 14 0.13
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (69 bp):
AATAACTAATATTACTGAATAATTGATTTTACTGAATAATTGACTGTTACTGGATAATAACTGTT
ACTG
Found at i:27179645 original size:90 final size:89
Alignment explanation
Indices: 27179449--27179636 Score: 236
Period size: 89 Copynumber: 2.1 Consensus size: 89
27179439 AAAGGTATAA
* * * * * *
27179449 AATAACTGATTATTACTGAATAATTGATTGTTACCGGATAATTGACTGTTACTGGATATTAGACT
1 AATAATTGATCATTACTGAATAACTGATTGTCACCGAATAATTAACTGTTACTGGATATTAGACT
27179514 GTTACTGAATAACTAATATTACTG
66 GTTACTGAATAACTAATATTACTG
*
27179538 AATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAA-TAACTGTTACTGGATAACTTA-
1 AATAATTGATCATTACTGAATAACTGATTGTCACCGAAT-AATTAACTGTTACTGGAT-A-TTAG
* * * *
27179601 ATTGTTACTGAATATCTGATTTTACTG
63 ACTGTTACTGAATAACTAATATTACTG
27179628 AATAATTGA
1 AATAATTGA
27179637 CTGTTACTGG
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
89 47 0.55
90 35 0.41
91 3 0.04
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (89 bp):
AATAATTGATCATTACTGAATAACTGATTGTCACCGAATAATTAACTGTTACTGGATATTAGACT
GTTACTGAATAACTAATATTACTG
Found at i:27179728 original size:36 final size:36
Alignment explanation
Indices: 27179449--27179743 Score: 197
Period size: 36 Copynumber: 8.0 Consensus size: 36
27179439 AAAGGTATAA
* *
27179449 AATAACTGATTATTACTGAATAATTGATTGTTACCG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * * * *
27179485 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGATTGTTACTGAATAATT-GATTGTTACTG
* * **
27179521 AATAACT-AATATTACTGAATAATTGATCATTACTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * *
27179556 AATAACTGATTGTCACTGAATGAA-TAACTGTTACTG
1 AATAACTGATTGTTACTGAAT-AATTGATTGTTACTG
* *
27179592 GATAACTTAATTGTTACTGAAT-ATCTGATT-TTACTG
1 AATAAC-TGATTGTTACTGAATAAT-TGATTGTTACTG
* * * *
27179628 AATAATTGACTGTTACTGGATAACCGATCAATTGATCGATACTG
1 AATAACTGATTGTTACT-G---A---AT-AATTGATTGTTACTG
* * * *
27179672 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * *
27179708 AATAACTGACTGTTACTGAATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
27179743 A
1 A
27179744 TTGTTAATAA
Statistics
Matches: 194, Mismatches: 48, Indels: 35
0.70 0.17 0.13
Matches are distributed among these distances:
35 41 0.21
36 105 0.54
37 20 0.10
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 19 0.10
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (36 bp):
AATAACTGATTGTTACTGAATAATTGATTGTTACTG
Found at i:27203416 original size:27 final size:27
Alignment explanation
Indices: 27203385--27203562 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27203375 TAAATTGTAC
27203385 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27203412 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27203438 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27203466 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27203494 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27203521 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27203548 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27203563 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27203499 original size:82 final size:81
Alignment explanation
Indices: 27203386--27203541 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27203376 AAATTGTACA
* *
27203386 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27203450 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27203467 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27203532 TGCGAGTTGA
65 TGCGAATTGA
27203542 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27203553 original size:82 final size:81
Alignment explanation
Indices: 27203382--27203562 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27203372 GATTAAATTG
* *
27203382 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27203447 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27203463 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27203527 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27203545 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27203563 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27209160 original size:30 final size:32
Alignment explanation
Indices: 27209108--27209170 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 32
27209098 TAATGGTATG
27209108 TAATTAGGGAGAGCTCAGTCACGATACTATAATA
1 TAATTAGGGAGAG--CAGTCACGATACTATAATA
27209142 TAATTAGGGAGAG-A-TCACGATACTATAAT
1 TAATTAGGGAGAGCAGTCACGATACTATAAT
27209171 GAAATGACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 15 0.52
31 1 0.03
34 13 0.45
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.27
Consensus pattern (32 bp):
TAATTAGGGAGAGCAGTCACGATACTATAATA
Found at i:27211273 original size:45 final size:45
Alignment explanation
Indices: 27211223--27211355 Score: 133
Period size: 46 Copynumber: 2.9 Consensus size: 45
27211213 AGTAGTATAG
*
27211223 TTTATCTGCACCATTGAGTGGTTTATCCACACCGT-TTGAGCAGCT
1 TTTATCTGCACCATTGAGTGGTTTATCCACACCGTATT-AGCAACT
** * * * *
27211268 TTTATCTGCACTGTTTGGGTAGTTTATTCACACTGTATTAGCAACT
1 TTTATCTGCAC-CATTGAGTGGTTTATCCACACCGTATTAGCAACT
** * * *
27211314 TTTATCTGCAATAATGAGTGGTTTAACCACACCGTACTAGCA
1 TTTATCTGCACCATTGAGTGGTTTATCCACACCGTATTAGCA
27211356 GTTTAATCTG
Statistics
Matches: 69, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
45 33 0.48
46 34 0.49
47 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (45 bp):
TTTATCTGCACCATTGAGTGGTTTATCCACACCGTATTAGCAACT
Found at i:27212397 original size:18 final size:18
Alignment explanation
Indices: 27212362--27212412 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
27212352 CTCCTGGACG
*
27212362 TTCTTTTTG-TTGTTTCTT
1 TTCTTTTTGCTT-TCTCTT
27212380 TTCTTTTTGCTTTCTCTT
1 TTCTTTTTGCTTTCTCTT
** *
27212398 TGATTTTTTCTTTCT
1 TTCTTTTTGCTTTCT
27212413 TTCTCTTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 26 0.93
19 2 0.07
ACGTcount: A:0.02, C:0.16, G:0.08, T:0.75
Consensus pattern (18 bp):
TTCTTTTTGCTTTCTCTT
Found at i:27213121 original size:21 final size:20
Alignment explanation
Indices: 27213055--27213125 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
27213045 CCACATGAGT
* *
27213055 GTGTGCCTTAGTCACACGGC
1 GTGTGCCTCAGTCATACGGC
** *
27213075 TGTGTGCCTCTCTTCATATGGGC
1 -GTGTGCCTC-AGTCATA-CGGC
27213098 GTGTGCCTCAGTCATACGGTC
1 GTGTGCCTCAGTCATACGG-C
27213119 GTGTGCC
1 GTGTGCC
27213126 CCTCCTCACA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 2 0.05
21 21 0.54
22 13 0.33
23 3 0.08
ACGTcount: A:0.11, C:0.28, G:0.30, T:0.31
Consensus pattern (20 bp):
GTGTGCCTCAGTCATACGGC
Found at i:27214782 original size:20 final size:22
Alignment explanation
Indices: 27214740--27214784 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
27214730 TAAGGAAGTT
27214740 ATATTATAAATTATAAAATTAA
1 ATATTATAAATTATAAAATTAA
*
27214762 ATATTA-AATATT-TAAAATAAA
1 ATATTATAA-ATTATAAAATTAA
27214783 AT
1 AT
27214785 TCAATGTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATTATAAATTATAAAATTAA
Found at i:27215812 original size:21 final size:21
Alignment explanation
Indices: 27215786--27215832 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
27215776 ATAATTTAAT
* *
27215786 AAAAATAAAAATTTAAAAATA
1 AAAAATGAAAAATTAAAAATA
*
27215807 AAAAATGAAAAATTAAATATA
1 AAAAATGAAAAATTAAAAATA
27215828 AAAAA
1 AAAAA
27215833 AATCATTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAAATGAAAAATTAAAAATA
Found at i:27215817 original size:14 final size:14
Alignment explanation
Indices: 27215786--27215819 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
27215776 ATAATTTAAT
* *
27215786 AAAAATAAAAATTT
1 AAAAATAAAAAATG
27215800 AAAAATAAAAAATG
1 AAAAATAAAAAATG
27215814 AAAAAT
1 AAAAAT
27215820 TAAATATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAAAATAAAAAATG
Found at i:27216707 original size:23 final size:22
Alignment explanation
Indices: 27216680--27216748 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 22
27216670 AATAGTTGAA
27216680 TATAATTAAAAATTATTAAATAT
1 TATAATTAAAAATT-TTAAATAT
* *
27216703 TATAA-TAATAATTTTCAA-AT
1 TATAATTAAAAATTTTAAATAT
27216723 TATAATTAAAATATTTTTAACATAT
1 TATAATTAAAA-A-TTTTAA-ATAT
27216748 T
1 T
27216749 CAATATACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.19
21 8 0.22
22 8 0.22
23 10 0.27
24 1 0.03
25 3 0.08
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (22 bp):
TATAATTAAAAATTTTAAATAT
Found at i:27217048 original size:17 final size:18
Alignment explanation
Indices: 27217006--27217041 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27216996 AAAATAAATG
*
27217006 AAATATATTATATTATAA
1 AAATTTATTATATTATAA
27217024 AAATTTATTAT-TTATAA
1 AAATTTATTATATTATAA
27217041 A
1 A
27217042 TTTTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTTATTATATTATAA
Found at i:27217152 original size:16 final size:15
Alignment explanation
Indices: 27217131--27217164 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
27217121 ATGGAAACAT
27217131 AATAATTTAAATATAA
1 AATAA-TTAAATATAA
*
27217147 AATAATTCAATATAA
1 AATAATTAAATATAA
27217162 AAT
1 AAT
27217165 TTTATTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATTAAATATAA
Found at i:27219412 original size:17 final size:17
Alignment explanation
Indices: 27219369--27219416 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
27219359 AAGGCATTAA
27219369 ATTT-AAATTTT-ATAT
1 ATTTGAAATTTTAATAT
* * *
27219384 AGTTGAATTTTTAATTT
1 ATTTGAAATTTTAATAT
27219401 ATTTGAAATTTTAATA
1 ATTTGAAATTTTAATA
27219417 AATAATTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 3 0.12
16 6 0.24
17 16 0.64
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
ATTTGAAATTTTAATAT
Found at i:27220857 original size:23 final size:24
Alignment explanation
Indices: 27220827--27220872 Score: 76
Period size: 23 Copynumber: 1.9 Consensus size: 24
27220817 TACTTCTTAT
27220827 ACTAAAATAAA-AAAATAAATTGA
1 ACTAAAATAAATAAAATAAATTGA
27220850 ACTAAAATAAATTAAAATAAATT
1 ACTAAAATAAA-TAAAATAAATT
27220873 AAAAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 11 0.52
25 10 0.48
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (24 bp):
ACTAAAATAAATAAAATAAATTGA
Found at i:27220865 original size:10 final size:10
Alignment explanation
Indices: 27220852--27220904 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
27220842 TAAATTGAAC
27220852 TAAAATAAAT
1 TAAAATAAAT
27220862 TAAAATAAAT
1 TAAAATAAAT
27220872 TAAAA-ATAAT
1 TAAAATA-AAT
*
27220882 TAATTATATAAT
1 TAA-AATA-AAT
*
27220894 TAAATTAAAT
1 TAAAATAAAT
27220904 T
1 T
27220905 GAAGAAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 1 0.03
10 25 0.68
11 3 0.08
12 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAATAAAT
Found at i:27229894 original size:18 final size:18
Alignment explanation
Indices: 27229858--27229896 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
27229848 GTGGTAAGTC
* *
27229858 AATTATTCATCATGTTAA
1 AATTATTCATCAAGATAA
*
27229876 AATTATTCATTAAGATAA
1 AATTATTCATCAAGATAA
27229894 AAT
1 AAT
27229897 GCCTAATCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (18 bp):
AATTATTCATCAAGATAA
Found at i:27231050 original size:16 final size:16
Alignment explanation
Indices: 27231029--27231059 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27231019 TTTTATATTA
*
27231029 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
27231045 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
27231060 AATTAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:27231639 original size:207 final size:206
Alignment explanation
Indices: 27231268--27231694 Score: 622
Period size: 207 Copynumber: 2.1 Consensus size: 206
27231258 GAGAAATTAC
* * * * *
27231268 ATTAGTTTATTTAAAAACTTTTGTCTCGATCAAACTTATAGTGCGCTTCAAAAACATAATACTTG
1 ATTA-TTTGTTTAAAAACTTTCGTCTCGATCAAACTCAAAGTGCGCTTCAAAAACATAATAATTG
* *
27231333 AAAAAACTTCACACATGTTTAGGAAAGCTTAAACTCGAAAACACTTATTCCAAACCCAAAAATTT
65 -AAAAACTTCACACATGTTTAGGAAAACTTAAACCCGAAAACACTTATTCCAAACCCAAAAATTT
*
27231398 AATTCAGTTTCATTTGTTTCGAAATTAGCAATTTTGGATAAATCTTTTTCGGTTAAGTTTAACGT
129 AATTCAGTTTCATTTGTTTCGAAATTAGCAATTTTGGATAAATCTTTTTCGGTTAAGGTTAACGT
27231463 ATTTTGAAAAAAAA
194 ATTTT-AAAAAAAA
* *
27231477 ATTATTTGTTTAAAAACTTTCGTCTCGATCAAACTCAAAGTGCGTTTCGAAAACATAATAATTG-
1 ATTATTTGTTTAAAAACTTTCGTCTCGATCAAACTCAAAGTGCGCTTCAAAAACATAATAATTGA
* * * * * *
27231541 ACAACTTTCACACATGTTTAGGAAAACTTAAACCCGAAAATACTTATTTCAAGCCTAGAAATTTA
66 AAAAC-TTCACACATGTTTAGGAAAACTTAAACCCGAAAACACTTATTCCAAACCCAAAAATTTA
* * *
27231606 ATTCAGTTTCGTTTGTTTTGAAATTATCAATTTTGGATAAATCTTTTTCGGTTAAGGTTAACGTA
130 ATTCAGTTTCATTTGTTTCGAAATTAGCAATTTTGGATAAATCTTTTTCGGTTAAGGTTAACGTA
* *
27231671 TTTTCAAAATAA
195 TTTTAAAAAAAA
27231683 ATTATTTGTTTA
1 ATTATTTGTTTA
27231695 CAGAAAAACA
Statistics
Matches: 196, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
206 22 0.11
207 117 0.60
208 53 0.27
209 4 0.02
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (206 bp):
ATTATTTGTTTAAAAACTTTCGTCTCGATCAAACTCAAAGTGCGCTTCAAAAACATAATAATTGA
AAAACTTCACACATGTTTAGGAAAACTTAAACCCGAAAACACTTATTCCAAACCCAAAAATTTAA
TTCAGTTTCATTTGTTTCGAAATTAGCAATTTTGGATAAATCTTTTTCGGTTAAGGTTAACGTAT
TTTAAAAAAAA
Found at i:27232938 original size:29 final size:28
Alignment explanation
Indices: 27232889--27232966 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
27232879 CAAAAGGCCA
**
27232889 GCCCATGTGCCCACACAGCCTACCACAC
1 GCCCATGTGCCCACATGGCCTACCACAC
* *
27232917 GCCCATGTAGCCCACATGGCCTACCATAT
1 GCCCATGT-GCCCACATGGCCTACCACAC
* *
27232946 GCTCGTGTGGCCCACATGGCC
1 GCCCATGT-GCCCACATGGCC
27232967 GTGTGACGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 8 0.19
29 34 0.81
ACGTcount: A:0.21, C:0.42, G:0.21, T:0.17
Consensus pattern (28 bp):
GCCCATGTGCCCACATGGCCTACCACAC
Found at i:27238111 original size:116 final size:117
Alignment explanation
Indices: 27237886--27238114 Score: 277
Period size: 116 Copynumber: 2.0 Consensus size: 117
27237876 CACACACCCA
* * * *
27237886 TGTCCTTGGCCGTGTGGCTTACATACTCTGGGCATATGCCTATGTCCTCTGTCCGCGTGGTTCTA
1 TGTCCTTGGCCGTGTGACTTACAGACTCTGGGCACATGCCGATGTCCTCTGTCCGCGTGGTTCTA
* * * * * *
27237951 AAACATAAACAGTGAGTTACACGGCTTGGAGACACGTCCATGTCCTTGTTCG
66 AAACACAAACAGGGAGTTACACGGCCTAGACACACGCCCATGTCCTTGTTCG
*
27238003 TGTCCTT-GCCTGTGTGACTTACACGAC-CTGGGCACATGCCGATGTCC-CTGGT-CGTGTGGTT
1 TGTCCTTGGCC-GTGTGACTTACA-GACTCTGGGCACATGCCGATGTCCTCT-GTCCGCGTGGTT
** *
27238064 CTAAGTCACAAACAGGGAGTTACACGGCCTAGACACACGCCCGTGTCCTTG
63 CTAAAACACAAACAGGGAGTTACACGGCCTAGACACACGCCCATGTCCTTG
27238115 CCTGTGTGAA
Statistics
Matches: 95, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
116 55 0.58
117 38 0.40
118 2 0.02
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.28
Consensus pattern (117 bp):
TGTCCTTGGCCGTGTGACTTACAGACTCTGGGCACATGCCGATGTCCTCTGTCCGCGTGGTTCTA
AAACACAAACAGGGAGTTACACGGCCTAGACACACGCCCATGTCCTTGTTCG
Found at i:27238791 original size:21 final size:20
Alignment explanation
Indices: 27238749--27238801 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
27238739 GAAACAAGCA
* *
27238749 AAAAGATAAAAAAGAAGAAG
1 AAAAGAAAAAAAAGAACAAG
*
27238769 AAGAAGAAAAAAAAGAACTAG
1 AA-AAGAAAAAAAAGAACAAG
27238790 AAAAGGAAAAAA
1 AAAA-GAAAAAA
27238802 CGATATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (20 bp):
AAAAGAAAAAAAAGAACAAG
Found at i:27245310 original size:19 final size:19
Alignment explanation
Indices: 27245286--27245324 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
27245276 GGGACATGGA
27245286 CGTGTCCCAAGCACACGGG
1 CGTGTCCCAAGCACACGGG
*
27245305 CGTGTCCCAAGCACATGGG
1 CGTGTCCCAAGCACACGGG
27245324 C
1 C
27245325 ATGTGAGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.31, T:0.13
Consensus pattern (19 bp):
CGTGTCCCAAGCACACGGG
Found at i:27251492 original size:14 final size:14
Alignment explanation
Indices: 27251475--27251504 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
27251465 TTTTAAAAAA
27251475 ATTACAAAAATAAT
1 ATTACAAAAATAAT
27251489 ATTACAAAAATAAT
1 ATTACAAAAATAAT
27251503 AT
1 AT
27251505 ATAGTACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
ATTACAAAAATAAT
Found at i:27251542 original size:38 final size:38
Alignment explanation
Indices: 27251499--27251603 Score: 187
Period size: 38 Copynumber: 2.8 Consensus size: 38
27251489 ATTACAAAAA
27251499 TAATATATAGTACAAATTAACTCCTTCAAAATGCAACC
1 TAATATATAGTACAAATTAACTCCTTCAAAATGCAACC
*
27251537 TAATATATAGTACAAATTAACTCGTTCAAAATGCAACC
1 TAATATATAGTACAAATTAACTCCTTCAAAATGCAACC
27251575 TAATATATAGTACAAA-T-ACTCCTTCAAAA
1 TAATATATAGTACAAATTAACTCCTTCAAAA
27251604 CAATAAAAAT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
36 11 0.17
37 1 0.02
38 53 0.82
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (38 bp):
TAATATATAGTACAAATTAACTCCTTCAAAATGCAACC
Found at i:27252453 original size:98 final size:97
Alignment explanation
Indices: 27252202--27252511 Score: 266
Period size: 97 Copynumber: 3.2 Consensus size: 97
27252192 GGTATTTCCA
* * *
27252202 AAACACGTGTAATATTAAGAACTACAGAAGAATAAATGAAGA-TGATGGTTTGTATTTGAACTCT
1 AAACACGTGTAATATTAAGAACTATATAAGAATAAATGAAGACT-ATGGTTTGTATTTAAACTCT
* * *
27252266 AAAATTCAAATCAATTATACGATCGATTTTCAC
65 AAAATTCAAATAAATTATACGATCCATCTTCAC
* * * * * * ** * *
27252299 AAACATGTGTAATATTGAGAACTATATATGAATAAAGGACGACAATAATTTATATTTAAATTTCG
1 AAACACGTGTAATATTAAGAACTATATAAGAATAAATGAAGACTATGGTTTGTATTTAAA-CTC-
* *
27252364 T-AGATT-AAATAAATTATACTATCCATCTTCAC
64 TAAAATTCAAATAAATTATACGATCCATCTTCAC
* * * * * *
27252396 TAAACACGTGTAATATTAATAACTGTATAAGAACAAATGAAGACTATGGTATGTATTTTAACACT
1 -AAACACGTGTAATATTAAGAACTATATAAGAATAAATGAAGACTATGGTTTGTATTTAAACTCT
* * * * * *
27252461 AAAAATCAAATCAATTATAGGAACAATCTTAAC
65 AAAATTCAAATAAATTATACGATCCATCTTCAC
* * *
27252494 AAATATGTGTAACATTAA
1 AAACACGTGTAATATTAA
27252512 AACATGCATG
Statistics
Matches: 162, Mismatches: 45, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
96 1 0.01
97 88 0.54
98 72 0.44
99 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (97 bp):
AAACACGTGTAATATTAAGAACTATATAAGAATAAATGAAGACTATGGTTTGTATTTAAACTCTA
AAATTCAAATAAATTATACGATCCATCTTCAC
Found at i:27257532 original size:98 final size:97
Alignment explanation
Indices: 27257270--27257533 Score: 255
Period size: 98 Copynumber: 2.7 Consensus size: 97
27257260 TGAACTATTG
* * * *
27257270 AGAATTGCATAAGAATAAATGAAGACGATGGTTTGTATTTGAACTCTAAATATCAAATCAGTTAT
1 AGAACTGCATAAGAATAAATGAAGACTATGGTTTGTATTTGAACTCTAAAAATCAAATCAATTAT
** * * *
27257335 ACGATCGATCTTCACAAACACGAGTAATATTG
66 AATATCCATCTTCACAAACACGAGTAATAATA
** * * * * ** * * *
27257367 ATTACTACATATGAATACATGATGA-TAATAATTTATATTTGAATCTCGT--AAATTAAATAAAT
1 AGAACTGCATAAGAATAAATGAAGACT-ATGGTTTGTATTTGAA-CTC-TAAAAATCAAATCAAT
* *
27257429 TATAATATCCATCTTCGCAAAACACGTGTAATAATA
63 TATAATATCCATCTTCAC-AAACACGAGTAATAATA
* *
27257465 AGAACTGCATAAGAATAAATGAAGACTATGGTTTGTATTTTAACACTAAAAATCAAATCAATTAT
1 AGAACTGCATAAGAATAAATGAAGACTATGGTTTGTATTTGAACTCTAAAAATCAAATCAATTAT
27257530 AATA
66 AATA
27257534 CTCTTTGAAG
Statistics
Matches: 125, Mismatches: 35, Indels: 13
0.72 0.20 0.08
Matches are distributed among these distances:
96 1 0.01
97 56 0.45
98 66 0.53
99 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (97 bp):
AGAACTGCATAAGAATAAATGAAGACTATGGTTTGTATTTGAACTCTAAAAATCAAATCAATTAT
AATATCCATCTTCACAAACACGAGTAATAATA
Found at i:27258422 original size:26 final size:26
Alignment explanation
Indices: 27258386--27258438 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
27258376 TTTTAGACAT
*
27258386 ATTCATTACCATATATGTAATTTTGG
1 ATTCATAACCATATATGTAATTTTGG
*
27258412 ATTCATAACCATATATGTGATTTTGG
1 ATTCATAACCATATATGTAATTTTGG
27258438 A
1 A
27258439 CAACACAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.43
Consensus pattern (26 bp):
ATTCATAACCATATATGTAATTTTGG
Found at i:27259246 original size:26 final size:26
Alignment explanation
Indices: 27259217--27259269 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
27259207 TTTTGGACAT
** *
27259217 ATTCATAATTAAATATGTGATTTTGG
1 ATTCATAACCAAATATATGATTTTGG
*
27259243 ATTCATAACCATATATATGATTTTGG
1 ATTCATAACCAAATATATGATTTTGG
27259269 A
1 A
27259270 CAACTCAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (26 bp):
ATTCATAACCAAATATATGATTTTGG
Found at i:27272238 original size:3 final size:3
Alignment explanation
Indices: 27272230--27272262 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
27272220 TTCAAGCATA
*
27272230 AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27272263 TACCATTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27276304 original size:40 final size:40
Alignment explanation
Indices: 27276128--27276350 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
27276118 TCCTCGTTCA
* * * * *
27276128 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
27276167 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
27276207 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
27276247 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
27276287 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
27276327 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
27276351 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:27283941 original size:37 final size:38
Alignment explanation
Indices: 27283833--27283990 Score: 146
Period size: 38 Copynumber: 4.2 Consensus size: 38
27283823 CGGGACATAG
* * * *
27283833 CCCGGTTTTAGTAACTCACACACATGCCTTCGGGAC-TAA
1 CCCGGATTTAATAACTCGCAGA-ATGCCTTC-GGACTTAA
* *
27283872 CCCGGA-TTAACAACTCGCACGACTGCCTTCGGACTTAA
1 CCCGGATTTAATAACTCGCA-GAATGCCTTCGGACTTAA
27283910 CCCGGATTTAATAACTCGCAGAATGCC-TCGGACTTAA
1 CCCGGATTTAATAACTCGCAGAATGCCTTCGGACTTAA
* * *
27283947 CCCGGATTTAGT-A-TCGCACAAAGGCCTTCGGATCTTAA
1 CCCGGATTTAATAACTCGCA-GAATGCCTTCGGA-CTTAA
*
27283985 TCCGGA
1 CCCGGA
27283991 GATATTCACT
Statistics
Matches: 101, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
35 5 0.05
36 6 0.06
37 30 0.30
38 42 0.42
39 18 0.18
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (38 bp):
CCCGGATTTAATAACTCGCAGAATGCCTTCGGACTTAA
Found at i:27290945 original size:20 final size:20
Alignment explanation
Indices: 27290917--27290954 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27290907 AAACATACAT
* *
27290917 TTCACATACAATTTAATCTA
1 TTCAAATACAATTCAATCTA
27290937 TTCAAATACAATTCAATC
1 TTCAAATACAATTCAATC
27290955 ACACCCAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (20 bp):
TTCAAATACAATTCAATCTA
Found at i:27306438 original size:46 final size:46
Alignment explanation
Indices: 27306297--27306468 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 46
27306287 GTTTGGGCAT
*
27306297 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *** * * * *
27306341 TCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
* *
27306386 ATCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
27306433 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27306469 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
44 21 0.20
45 13 0.12
46 68 0.65
47 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:27309405 original size:15 final size:15
Alignment explanation
Indices: 27309385--27309453 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
27309375 GTATCTTTGG
27309385 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* **
27309400 TCTCTTTATTATGGA
1 TTTCTTTATCCTGGA
* *
27309415 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
27309430 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
27309445 TTTCTTTAT
1 TTTCTTTAT
27309454 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.13, C:0.16, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:27309454 original size:30 final size:30
Alignment explanation
Indices: 27309376--27309463 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
27309366 CATAGTATCG
* * *
27309376 TATCTTTGG-TTTCTTTATCCTGGATCTCTT
1 TATC-TTGGATTTCTTTATTCTGGATTTCTC
*
27309406 TAT-TATGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
27309436 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
27309464 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
28 1 0.02
29 10 0.20
30 38 0.76
31 1 0.02
ACGTcount: A:0.11, C:0.16, G:0.15, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:27309464 original size:14 final size:14
Alignment explanation
Indices: 27309385--27309464 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
27309375 GTATCTTTGG
*
27309385 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
27309400 TCTCTTTATTATGGA
1 TTTCTTTATT-CGGA
*
27309415 TTTCTTTATTCTGGG
1 TTTCTTTATTC-GGA
* *
27309430 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
27309445 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
27309459 TTTCTT
1 TTTCTT
27309465 GTTATCTTTG
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
14 9 0.18
15 40 0.80
16 1 0.02
ACGTcount: A:0.11, C:0.16, G:0.14, T:0.59
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:27311411 original size:46 final size:45
Alignment explanation
Indices: 27311361--27311536 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
27311351 TGTTTGGGCA
* *
27311361 TCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
27311407 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
27311454 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
27311500 CCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27311537 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:27311516 original size:93 final size:93
Alignment explanation
Indices: 27311357--27311528 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
27311347 AGGATGTTTG
* * *
27311357 GGCATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
27311422 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
27311450 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
27311515 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
27311529 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:27316776 original size:23 final size:23
Alignment explanation
Indices: 27316746--27316789 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
27316736 AAAATACAAC
27316746 CTTTTTCTTTAAGTGAACCTTAA
1 CTTTTTCTTTAAGTGAACCTTAA
27316769 CTTTTTCTTTAAGTGAACCTT
1 CTTTTTCTTTAAGTGAACCTT
27316790 TAGAACACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.18, G:0.09, T:0.50
Consensus pattern (23 bp):
CTTTTTCTTTAAGTGAACCTTAA
Found at i:27321382 original size:37 final size:37
Alignment explanation
Indices: 27321331--27321404 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
27321321 CGATCGAAGT
*
27321331 CTGTATTTCGCCTTTCTTGATCTAAATGTAATCAAAA
1 CTGTATTTCACCTTTCTTGATCTAAATGTAATCAAAA
*
27321368 CTGTATTTCACCTTTCTTTATCTAAATGTAATCAAAA
1 CTGTATTTCACCTTTCTTGATCTAAATGTAATCAAAA
27321405 TTAACTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (37 bp):
CTGTATTTCACCTTTCTTGATCTAAATGTAATCAAAA
Found at i:27328042 original size:91 final size:91
Alignment explanation
Indices: 27327885--27328066 Score: 346
Period size: 91 Copynumber: 2.0 Consensus size: 91
27327875 AATTTAACTA
*
27327885 AAAACGCAACAGAAAATGAAATAGGAAATAATTGAAGATAACCAAAGAGAAAGACAATACCGAGG
1 AAAACGCAACAGAAAATGAAATAGGAAATAATTGAAGATAACCAAAGAGAAAGACAATACCCAGG
27327950 AAATAACCCACCTAGACTTCTCCTAT
66 AAATAACCCACCTAGACTTCTCCTAT
*
27327976 AAAACGCAACAGAAAATGAAATAGGAAATAATTGAATATAACCAAAGAGAAAGACAATACCCAGG
1 AAAACGCAACAGAAAATGAAATAGGAAATAATTGAAGATAACCAAAGAGAAAGACAATACCCAGG
27328041 AAATAACCCACCTAGACTTCTCCTAT
66 AAATAACCCACCTAGACTTCTCCTAT
27328067 TATTCTGAGT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.16
Consensus pattern (91 bp):
AAAACGCAACAGAAAATGAAATAGGAAATAATTGAAGATAACCAAAGAGAAAGACAATACCCAGG
AAATAACCCACCTAGACTTCTCCTAT
Found at i:27329312 original size:9 final size:9
Alignment explanation
Indices: 27329298--27329335 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
27329288 ATATGAATCC
27329298 AATAAATTA
1 AATAAATTA
27329307 AATAAATTA
1 AATAAATTA
27329316 AATAAATTA
1 AATAAATTA
27329325 AATAAATTA
1 AATAAATTA
27329334 AA
1 AA
27329336 AGATAGATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AATAAATTA
Found at i:27329317 original size:5 final size:5
Alignment explanation
Indices: 27329300--27329335 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
27329290 ATGAATCCAA
27329300 TAAAT TAAA- TAAAT TAAA- TAAAT TAAA- TAAAT TAAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
27329336 AGATAGATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 12 0.43
5 16 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (5 bp):
TAAAT
Found at i:27333392 original size:43 final size:43
Alignment explanation
Indices: 27333325--27333410 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
27333315 GAGATATGTG
* * * *
27333325 GCATCCGAGCTCTTTGAGAGGTCTGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTCGAGAAGTCTGAGTTCATAATGGATGCGA
*
27333368 GCATTCGAGCTCGTCGAGAAGTCTGAGTTCATAATGGATGCGA
1 GCATCCGAGCTCGTCGAGAAGTCTGAGTTCATAATGGATGCGA
27333411 TTCATGTAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCTCGTCGAGAAGTCTGAGTTCATAATGGATGCGA
Found at i:27339862 original size:19 final size:19
Alignment explanation
Indices: 27339840--27339885 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
27339830 GAAGAGGCTG
27339840 CATGAGAGA-CCGAGGAGGC
1 CATGAG-GACCCGAGGAGGC
27339859 CATGAGGACCCGAGGAGGC
1 CATGAGGACCCGAGGAGGC
27339878 CATGAGGA
1 CATGAGGA
27339886 AACAATATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.30, C:0.22, G:0.41, T:0.07
Consensus pattern (19 bp):
CATGAGGACCCGAGGAGGC
Found at i:27342847 original size:23 final size:23
Alignment explanation
Indices: 27342788--27342847 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
27342778 TGTCCTAATG
27342788 CACACGGGCGTGTGCATTGCCTC
1 CACACGGGCGTGTGCATTGCCTC
* * *
27342811 CATACGGGCATGTGCGTTGCCTC
1 CACACGGGCGTGTGCATTGCCTC
*
27342834 CACACGGCCGTGTG
1 CACACGGGCGTGTG
27342848 AGGCTTAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.13, C:0.33, G:0.32, T:0.22
Consensus pattern (23 bp):
CACACGGGCGTGTGCATTGCCTC
Found at i:27345171 original size:33 final size:33
Alignment explanation
Indices: 27345107--27345172 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
27345097 GAATGTAGTA
*
27345107 AACTAATAACACAAACTTAATCAAACTTTTTAT
1 AACTAATAACACAAACTTAATCAAACATTTTAT
* * ** *
27345140 AACTGATAACATAAACTTGGTCCAACATTTTAT
1 AACTAATAACACAAACTTAATCAAACATTTTAT
27345173 TATTACAAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (33 bp):
AACTAATAACACAAACTTAATCAAACATTTTAT
Found at i:27351930 original size:48 final size:48
Alignment explanation
Indices: 27351856--27351952 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
27351846 CCCCACACTT
* *
27351856 AAGCATTTTCTTGTCCTCAAGCAAAATCCTCATCTCACATCAAAATTA
1 AAGCATTTTCTTATCCTCAAGAAAAATCCTCATCTCACATCAAAATTA
*
27351904 AAGCATTTTCTTATCCTCAAGAAAAATCCTCATCTCACATTAAAATTA
1 AAGCATTTTCTTATCCTCAAGAAAAATCCTCATCTCACATCAAAATTA
27351952 A
1 A
27351953 TATTTCTCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (48 bp):
AAGCATTTTCTTATCCTCAAGAAAAATCCTCATCTCACATCAAAATTA
Found at i:27361796 original size:6 final size:6
Alignment explanation
Indices: 27361785--27361814 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
27361775 TTAAAACTAC
27361785 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
27361815 GTAGATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:27366731 original size:30 final size:30
Alignment explanation
Indices: 27366697--27366763 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
27366687 CAATAATAAT
27366697 AATAATC-GA-AGAACCTATAAATAAGAAGAA
1 AATAATCAGATAGAA-CTA-AAATAAGAAGAA
* *
27366727 AATAAACAGATAGAACTAAAATAAGAATAA
1 AATAATCAGATAGAACTAAAATAAGAAGAA
27366757 AAGTAAT
1 AA-TAAT
27366764 AATAAGATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 19 0.61
31 8 0.26
32 4 0.13
ACGTcount: A:0.63, C:0.07, G:0.12, T:0.18
Consensus pattern (30 bp):
AATAATCAGATAGAACTAAAATAAGAAGAA
Found at i:27366769 original size:18 final size:18
Alignment explanation
Indices: 27366746--27366840 Score: 93
Period size: 18 Copynumber: 5.2 Consensus size: 18
27366736 ATAGAACTAA
*
27366746 AATAAGAATAAAAGTAAT
1 AATAAGAATAAAAATAAT
*
27366764 AATAAGATTAAAAATAAT
1 AATAAGAATAAAAATAAT
* ** *
27366782 AATAGACGCATAGTACTAA-
1 AATA-A-GAATAAAAATAAT
*
27366801 AATAAGAATAAAAGTAAT
1 AATAAGAATAAAAATAAT
*
27366819 AATAAGATTAAAAATAAT
1 AATAAGAATAAAAATAAT
27366837 AATA
1 AATA
27366841 GACGCAATAT
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
17 8 0.13
18 41 0.67
19 5 0.08
20 7 0.11
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.24
Consensus pattern (18 bp):
AATAAGAATAAAAATAAT
Found at i:27366800 original size:55 final size:55
Alignment explanation
Indices: 27366736--27366846 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
27366726 AAATAAACAG
27366736 ATAGAACTAAAATAAGAATAAAAGTAATAATAAGATTAAAAATAATAATAGACGC
1 ATAGAACTAAAATAAGAATAAAAGTAATAATAAGATTAAAAATAATAATAGACGC
*
27366791 ATAGTACTAAAATAAGAATAAAAGTAATAATAAGATTAAAAATAATAATAGACGC
1 ATAGAACTAAAATAAGAATAAAAGTAATAATAAGATTAAAAATAATAATAGACGC
27366846 A
1 A
27366847 ATATCTAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (55 bp):
ATAGAACTAAAATAAGAATAAAAGTAATAATAAGATTAAAAATAATAATAGACGC
Found at i:27374699 original size:6 final size:6
Alignment explanation
Indices: 27374688--27374715 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27374678 TTGACACATT
27374688 AATTAA AATTAA AATTAA AATTAA AATT
1 AATTAA AATTAA AATTAA AATTAA AATT
27374716 TTACAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AATTAA
Found at i:27380766 original size:47 final size:47
Alignment explanation
Indices: 27380707--27381177 Score: 759
Period size: 47 Copynumber: 10.1 Consensus size: 47
27380697 GAAATGATAG
*
27380707 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
27380754 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
27380801 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
27380848 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
27380895 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
27380942 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
27380989 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27381036 TAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTA-ATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27381081 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
27381127 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27381174 TAAG
1 TAAG
27381178 TCCCGAAGGG
Statistics
Matches: 403, Mismatches: 18, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
45 28 0.07
46 69 0.17
47 306 0.76
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:27381352 original size:37 final size:36
Alignment explanation
Indices: 27381296--27381373 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 36
27381286 CCAAGCTCTA
* * *
27381296 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGT-CGGGT
*
27381333 AAGACCCGATAACTTCGTGTGGAGATTATGTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCGGGT
27381369 AAGAC
1 AAGAC
27381374 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 10 0.27
37 27 0.73
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (36 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCGGGT
Found at i:27391541 original size:47 final size:47
Alignment explanation
Indices: 27391481--27391602 Score: 183
Period size: 47 Copynumber: 2.6 Consensus size: 47
27391471 GCATTGGCAC
27391481 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGA-ATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACAT-GACATTTGG
* *
27391528 TAAGACAATGATACCATGTATGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* **
27391575 TAAGATAAGGATTTCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
27391603 CCAAGCCATG
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 2 0.03
47 65 0.97
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
Found at i:27391710 original size:55 final size:54
Alignment explanation
Indices: 27391589--27391884 Score: 359
Period size: 55 Copynumber: 5.5 Consensus size: 54
27391579 ATAAGGATTT
* * * * * *
27391589 CATGTAAGACCATGCCAAGCCATGACATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATAC
* *
27391643 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGGAAAGG-TCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAA-GGCAAGGATAC
* * * *
27391698 CATGTAAGACCATGCCAAGGCATGGCATCGGTGAGTT-TATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATAC
* *
27391751 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGG-TCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-CAAGGATAC
* *
27391806 CATGTAAGACCATGTCAAGGCAT-GCATTGGTGAGTTC-ATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATAC
**
27391858 CACATAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGTCAAGACATGGCA
27391885 ATGGTAAGTT
Statistics
Matches: 207, Mismatches: 27, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
51 4 0.02
52 34 0.16
53 44 0.21
54 45 0.22
55 70 0.34
56 10 0.05
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATAC
Found at i:27391756 original size:108 final size:108
Alignment explanation
Indices: 27391589--27391884 Score: 468
Period size: 108 Copynumber: 2.7 Consensus size: 108
27391579 ATAAGGATTT
* * * * * *
27391589 CATGTAAGACCATGCCAAGCCATGACATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-TATAAGGCAAGGATACCATGTAAGACC
*
27391654 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGGAAAGGTCC
65 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
*
27391698 CATGTAAGACCATGCCAAGGCATGGCATCGGTGAGTTTATAAGGCAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTTATAAGGCAAGGATACCATGTAAGACCA
27391763 TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
66 TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
* * **
27391806 CATGTAAGACCATGTCAAGGCAT-GCATTGGTGAGTTCATAAGGCAAGGATACCACATAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTTATAAGGCAAGGATACCATGTAAGACCA
27391870 TGTCAAGACATGGCA
66 TGTCAAGACATGGCA
27391885 ATGGTAAGTT
Statistics
Matches: 174, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
107 52 0.30
108 90 0.52
109 32 0.18
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTTATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
Found at i:27393658 original size:48 final size:48
Alignment explanation
Indices: 27393581--27393911 Score: 321
Period size: 48 Copynumber: 6.9 Consensus size: 48
27393571 GGTTATGTGT
* * *
27393581 GAGCCAGTGTAAGATCATGT-TTGGAACATGGCATCGGTATTGATATGA
1 GAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCATTGATATGA
* * ** *
27393629 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATATGC
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGA
* ** *
27393677 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCAACATTGTTATGA
1 GAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCATTGATATGA
* * * ** *
27393725 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAATATGC
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGA
* ** * *
27393773 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCAACATTGTTATGT
1 GAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCATTGATATGA
* * *
27393821 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACTGATGTATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGA--TATGA
*
27393871 GAGCCAGCGTAAGACCATGTCCGTA--ACATGGCATCGGCATT
1 GAGCCAGTGTAAGACCATGT-C-TAGGACATGGCATCGGCATT
27393912 TTACCCTTTT
Statistics
Matches: 230, Mismatches: 44, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
47 6 0.03
48 176 0.77
49 9 0.04
50 37 0.16
51 1 0.00
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGA
Found at i:27393745 original size:96 final size:96
Alignment explanation
Indices: 27393581--27393905 Score: 479
Period size: 96 Copynumber: 3.4 Consensus size: 96
27393571 GGTTATGTGT
* *** *
27393581 GAGCCAGTGTAAGATCATGTTTGGAACATGGCATCGGTATTGATATGAGAGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGTTATGAGAGCTAGTGTAAGACCA
27393646 TGTCTAGGACATGGCATCGGCCTCAATATGC
66 TGTCTAGGACATGGCATCGGCCTCAATATGC
27393677 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGTTATGAGAGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGTTATGAGAGCTAGTGTAAGACCA
*
27393742 TGTCTAGGACATGGCATCAGCCTCAATATGC
66 TGTCTAGGACATGGCATCGGCCTCAATATGC
* *
27393773 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGTTATGTGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGTTATGAGAGCTAGTGTAAGACCA
* * * * *
27393838 TGTCTGGGACATGGCATTGGCACTGATGTATGA
66 TGTCTAGGACATGGCATCGGC-CTCA-ATATGC
* ** *
27393871 GAGCCAGCGTAAGACCATGTCCGTAACATGGCATC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
27393906 GGCATTTTAC
Statistics
Matches: 209, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
96 171 0.82
97 3 0.01
98 35 0.17
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGTTATGAGAGCTAGTGTAAGACCA
TGTCTAGGACATGGCATCGGCCTCAATATGC
Found at i:27397365 original size:22 final size:22
Alignment explanation
Indices: 27397335--27397385 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
27397325 TCCATTTACA
*
27397335 TCATATTAGAGAGCTATAAATT
1 TCATTTTAGAGAGCTATAAATT
27397357 TCATTTTAGAGAGCTATAAATT
1 TCATTTTAGAGAGCTATAAATT
27397379 TCATTTT
1 TCATTTT
27397386 CTTTGCATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (22 bp):
TCATTTTAGAGAGCTATAAATT
Found at i:27409724 original size:5 final size:5
Alignment explanation
Indices: 27409714--27409762 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
27409704 AGGTGTGCAT
* * *
27409714 GGGCC GGGCC GGGCC GGGCC GGGTTC GGGCT GGGCC GGGTTC GGGCC GG
1 GGGCC GGGCC GGGCC GGGCC GGG-CC GGGCC GGGCC GGG-CC GGGCC GG
27409763 ACCCATAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 28 0.78
6 8 0.22
ACGTcount: A:0.00, C:0.31, G:0.59, T:0.10
Consensus pattern (5 bp):
GGGCC
Found at i:27409748 original size:16 final size:16
Alignment explanation
Indices: 27409713--27409759 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
27409703 GAGGTGTGCA
*
27409713 TGGGCCGGG-CCGGGC
1 TGGGCCGGGTTCGGGC
*
27409728 CGGGCCGGGTTCGGGC
1 TGGGCCGGGTTCGGGC
27409744 TGGGCCGGGTTCGGGC
1 TGGGCCGGGTTCGGGC
27409760 CGGACCCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 8 0.29
16 20 0.71
ACGTcount: A:0.00, C:0.30, G:0.57, T:0.13
Consensus pattern (16 bp):
TGGGCCGGGTTCGGGC
Found at i:27409940 original size:24 final size:25
Alignment explanation
Indices: 27409913--27409961 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
27409903 CTTTTTTTAT
*
27409913 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
27409937 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
27409962 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:27409954 original size:25 final size:23
Alignment explanation
Indices: 27409925--27409989 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
27409915 AATAAAAAAC
*
27409925 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
27409950 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
27409971 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
27409990 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:27409988 original size:19 final size:20
Alignment explanation
Indices: 27409951--27409989 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
27409941 TCAAATACAT
27409951 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
27409971 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
27409990 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:27414432 original size:43 final size:44
Alignment explanation
Indices: 27414369--27414454 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 44
27414359 ATCAAAATAT
* *
27414369 GATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAAC
1 GATATTCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAAAC
* *
27414413 GATA-TCGGGCTTTGAGCCTAGTAGGCTATAATACCGGTGAAA
1 GATATTCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAAA
27414455 TGAAATGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 34 0.89
44 4 0.11
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (44 bp):
GATATTCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAAAC
Found at i:27415072 original size:38 final size:38
Alignment explanation
Indices: 27414733--27415079 Score: 496
Period size: 38 Copynumber: 9.1 Consensus size: 38
27414723 ATTTGATGTG
* *
27414733 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATA
*
27414773 TATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
27414811 TATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
27414849 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
27414887 TATCCGGGTTAAATGCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
27414925 TATCCGGGTTAAATCCTGCAAGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * *
27414963 TATCCGGGTTTAATCCCGCAGGCTTCGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * * *
27415001 TATCTGGGTTAAATCCGGTAGGGTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * * *
27415039 TATCCGGGTTAAATCCCACAGGCCTAGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
27415077 TAT
1 TAT
27415080 TTAGGCCTTG
Statistics
Matches: 278, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 265 0.95
39 5 0.02
40 8 0.03
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:27421663 original size:31 final size:31
Alignment explanation
Indices: 27421616--27421703 Score: 158
Period size: 31 Copynumber: 2.8 Consensus size: 31
27421606 CATAGGATTC
*
27421616 CGATATGTGATGTGCGAGTAAGACCATGGCAT
1 CGATATATG-TGTGCGAGTAAGACCATGGCAT
27421648 CGATATATGTGTGCGAGTAAGACCATGGCAT
1 CGATATATGTGTGCGAGTAAGACCATGGCAT
27421679 CGATATATGTGTGCGAGTAAGACCA
1 CGATATATGTGTGCGAGTAAGACCA
27421704 CATCTAGTAC
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 47 0.85
32 8 0.15
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (31 bp):
CGATATATGTGTGCGAGTAAGACCATGGCAT
Found at i:27422289 original size:15 final size:15
Alignment explanation
Indices: 27422266--27422313 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
27422256 ATGATTCAAG
*
27422266 TATGCGAATTTGGTT
1 TATGTGAATTTGGTT
27422281 TATGTGAATTTGGTT
1 TATGTGAATTTGGTT
* * *
27422296 TGTGTGAGTTTGATT
1 TATGTGAATTTGGTT
27422311 TAT
1 TAT
27422314 ATGATTTAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.19, C:0.02, G:0.27, T:0.52
Consensus pattern (15 bp):
TATGTGAATTTGGTT
Found at i:27428900 original size:56 final size:56
Alignment explanation
Indices: 27428832--27428940 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
27428822 GACCATGGTA
* * *
27428832 TCGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCAATATATGATT
1 TCGATAAATGTGTGCGAGTAAGACCACATCTAATACGTTAGCATCAATATATGATT
* * * * *
27428888 TCGATAAATGTGTGTGAGTAAGACCTCGTCTAGTACGTTAGCATCGATATATG
1 TCGATAAATGTGTGCGAGTAAGACCACATCTAATACGTTAGCATCAATATATG
27428941 TGGTTACGAG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (56 bp):
TCGATAAATGTGTGCGAGTAAGACCACATCTAATACGTTAGCATCAATATATGATT
Found at i:27438731 original size:23 final size:20
Alignment explanation
Indices: 27438683--27438726 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
27438673 GAAACCCAAA
27438683 TAATTT-TAAAAAAATCATT
1 TAATTTATAAAAAAATCATT
*
27438702 TCATTTATAAAAAAATC--T
1 TAATTTATAAAAAAATCATT
27438720 TAATTTA
1 TAATTTA
27438727 ATTTAGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 5 0.23
20 10 0.45
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
TAATTTATAAAAAAATCATT
Found at i:27444957 original size:28 final size:28
Alignment explanation
Indices: 27444925--27445074 Score: 210
Period size: 28 Copynumber: 5.4 Consensus size: 28
27444915 CAGTAGGGCC
* *
27444925 GACCATATATCATTCAGGTGACAAAGCT
1 GACCATATATCATTCAGGCGACAGAGCT
27444953 GACCATATATCATTCAGGCGACAGAGCT
1 GACCATATATCATTCAGGCGACAGAGCT
* * * *
27444981 AACGATATATCATTCAGGTGACAGAGCC
1 GACCATATATCATTCAGGCGACAGAGCT
* *
27445009 GAACATATATCATTCAGGCAACAGAGCT
1 GACCATATATCATTCAGGCGACAGAGCT
* *
27445037 GACTATATATCATTCAGGCGACAGAGCC
1 GACCATATATCATTCAGGCGACAGAGCT
27445065 GACCATATAT
1 GACCATATAT
27445075 AAAAGCTAAC
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 105 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (28 bp):
GACCATATATCATTCAGGCGACAGAGCT
Found at i:27446416 original size:77 final size:77
Alignment explanation
Indices: 27446284--27446437 Score: 263
Period size: 77 Copynumber: 2.0 Consensus size: 77
27446274 CATACCAAAG
* * *
27446284 ATCAGTCGTTTCATTCTTCTGGGTCTTGTCCACATATGCTGACTCTATAGATTACACATAAACTG
1 ATCAATCGTTTCATTCTTCTGGGTCTCGTCCACATATGCTAACTCTATAGATTACACATAAACTG
27446349 ACTCTATTTTTC
66 ACTCTATTTTTC
* *
27446361 ATCAATCGTTTCATTCTTTTGGGTCTCGTCCACATATGCTAACTGTATAGATTACACATAAACTG
1 ATCAATCGTTTCATTCTTCTGGGTCTCGTCCACATATGCTAACTCTATAGATTACACATAAACTG
27446426 ACTCTATTTTTC
66 ACTCTATTTTTC
27446438 TTCCTTTCAT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (77 bp):
ATCAATCGTTTCATTCTTCTGGGTCTCGTCCACATATGCTAACTCTATAGATTACACATAAACTG
ACTCTATTTTTC
Found at i:27448767 original size:40 final size:40
Alignment explanation
Indices: 27448712--27448935 Score: 297
Period size: 40 Copynumber: 5.5 Consensus size: 40
27448702 TATTCGAATG
*
27448712 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
27448752 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
27448795 ATACCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
27448835 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
27448875 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
27448915 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
27448936 ATACTTGGGT
Statistics
Matches: 164, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 114 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:27448858 original size:83 final size:80
Alignment explanation
Indices: 27448719--27448935 Score: 287
Period size: 83 Copynumber: 2.7 Consensus size: 80
27448709 ATGATATCCG
* * *
27448719 GGCTAAGTCTCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTATGC
27448784 GAGTAGTTG-CTATACCCA
66 ---TAG-TGACTATACCCA
*
27448802 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTATGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTATGC
* *
27448867 TAGTGACTATATCCG
66 TAGTGACTATACCCA
* * *
27448882 GGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 GGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
27448936 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 44 0.36
81 2 0.02
83 61 0.50
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTATGC
TAGTGACTATACCCA
Found at i:27452246 original size:26 final size:26
Alignment explanation
Indices: 27452210--27452259 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
27452200 TGGACATATA
27452210 CATAACCATATATGTGATTTTGGATT
1 CATAACCATATATGTGATTTTGGATT
*
27452236 CATAATCATATATGTGATTTTGGA
1 CATAACCATATATGTGATTTTGGA
27452260 CAACTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (26 bp):
CATAACCATATATGTGATTTTGGATT
Found at i:27453056 original size:11 final size:12
Alignment explanation
Indices: 27453035--27453059 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27453025 CATAAATGTC
27453035 TTTCTTTTTTTT
1 TTTCTTTTTTTT
27453047 TTTCTTTTTTTT
1 TTTCTTTTTTTT
27453059 T
1 T
27453060 GACATATTCA
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:27455793 original size:39 final size:39
Alignment explanation
Indices: 27455738--27455979 Score: 317
Period size: 39 Copynumber: 6.0 Consensus size: 39
27455728 TTACTAGCAC
* *
27455738 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAACATG
1 AAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAACACG
27455777 AAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAGCACGAACAGCATG
1 AAGCCTGCGGGTCTTTAGCCCGGATACATTT----C-C-AACA-C--G
*
27455825 AAGCCTGC-GGTCTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAACACG
*
27455863 AAGCCTGCGGGTCTTTAGCCCGGATACATTT-CAAGCACA
1 AAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAA-CACG
*
27455902 AAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAACACG
*
27455941 AAGCCTGCGGGTCTTTAGCCCGGATATATTTCCATACAC
1 AAGCCTGCGGGTCTTTAGCCCGGATACATTTCCA-ACAC
27455980 ATTTCATCTT
Statistics
Matches: 181, Mismatches: 9, Indels: 25
0.84 0.04 0.12
Matches are distributed among these distances:
38 11 0.06
39 122 0.67
40 6 0.03
41 3 0.02
42 1 0.01
43 2 0.01
44 1 0.01
45 4 0.02
47 22 0.12
48 9 0.05
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
AAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAACACG
Found at i:27458782 original size:196 final size:194
Alignment explanation
Indices: 27458445--27458797 Score: 462
Period size: 196 Copynumber: 1.8 Consensus size: 194
27458435 GTATGAATGA
* ** * *
27458445 ATGACGACAATAATTTCTATTTGAATCCTACAAATTAAATAAACTATATGATTGATGTTGACAAA
1 ATGACGACAATAATTTATATTTGAATCCTACAAATTAAATAAACTATATGATCCATCTTCACAAA
* * * * *
27458510 ACGCATATAGTATTGAGAACTGCAAAAGAATAAATGAAGATGATAGTTTGTTTTTTAACTCTAAA
66 ACACATATAATATTGAGAACTGCAAAAGAATAAATGAAAATGATAGTTTGTATTTTAACACTAAA
27458575 AATCAAATCAATTATACGATCGATCTTCACAAGCACAAGTAATATTCATAACTACATATGCATAC
131 AATCAAATCAATTATACGATC-ATCTTCACAAGCACAAGTAATATTCATAACTACATATGCATAC
* * *
27458640 ATGACGATAATAATTTATATTTGAAT-CTCATAAATTAAATAAATTATAAT-ATCCATCTTCACA
1 ATGACGACAATAATTTATATTTGAATCCT-ACAAATTAAATAAACTAT-ATGATCCATCTTCAC-
* * * *
27458703 AAAACACATGTAATA-TGAAGAATTGCATAAGAATAAATGAAAACT-ATGGTTTGTATTTTAACA
63 AAAACACATATAATATTG-AGAACTGCAAAAGAATAAATGAAAA-TGATAGTTTGTATTTTAACA
*
27458766 CTAAAAATCAAATCAATTATCCGATCATCTTC
126 CTAAAAATCAAATCAATTATACGATCATCTTC
27458798 TCAAATATGT
Statistics
Matches: 135, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
194 2 0.01
195 56 0.41
196 76 0.56
197 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (194 bp):
ATGACGACAATAATTTATATTTGAATCCTACAAATTAAATAAACTATATGATCCATCTTCACAAA
ACACATATAATATTGAGAACTGCAAAAGAATAAATGAAAATGATAGTTTGTATTTTAACACTAAA
AATCAAATCAATTATACGATCATCTTCACAAGCACAAGTAATATTCATAACTACATATGCATAC
Found at i:27461724 original size:23 final size:23
Alignment explanation
Indices: 27461697--27461742 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
27461687 AAGTGATTGC
27461697 ATCAAGTTCTATGGTGCTAATAG
1 ATCAAGTTCTATGGTGCTAATAG
27461720 ATCAAGTTCTATGGTGCTAATAG
1 ATCAAGTTCTATGGTGCTAATAG
27461743 CTCTCCTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (23 bp):
ATCAAGTTCTATGGTGCTAATAG
Found at i:27465494 original size:37 final size:38
Alignment explanation
Indices: 27465453--27465525 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
27465443 TGGTGTGTTA
** *
27465453 GGTGGATGAACCTATTATAGT-TTTATGTGGTGTGCAT
1 GGTGGATGAACCTACCATAGTCCTTATGTGGTGTGCAT
**
27465490 GGTGGATGGGCCTACCATAGTCCTTATGTGGTGTGC
1 GGTGGATGAACCTACCATAGTCCTTATGTGGTGTGC
27465526 TAGATGGACG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 17 0.57
38 13 0.43
ACGTcount: A:0.18, C:0.14, G:0.33, T:0.36
Consensus pattern (38 bp):
GGTGGATGAACCTACCATAGTCCTTATGTGGTGTGCAT
Found at i:27469020 original size:46 final size:46
Alignment explanation
Indices: 27468955--27469100 Score: 168
Period size: 46 Copynumber: 3.1 Consensus size: 46
27468945 GCCACAATAT
* * * *
27468955 ATATATACACATCTCATACATATCTCACATTAGCCATTTGGCTTTACC
1 ATATAT-C-CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
* * * *
27469003 ATATATCCATCTGATACACGTTTCGTATTATCCATTCGGCTTTACC
1 ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
*
27469049 -TCATATCCATCTCATACACATTTCGCATTAGCCATTCGACTTTACC
1 AT-ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
*
27469095 ACATAT
1 ATATAT
27469101 ATACACTTCC
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
45 1 0.01
46 74 0.90
47 1 0.01
48 6 0.07
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (46 bp):
ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
Found at i:27469145 original size:47 final size:47
Alignment explanation
Indices: 27469074--27469358 Score: 383
Period size: 47 Copynumber: 6.1 Consensus size: 47
27469064 ACACATTTCG
* * * * * * *
27469074 CATTAGCCATTCGACTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
27469121 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
27469168 CATTTGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
27469215 CATTGGCCATTCGGCCTTATCATACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
27469262 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
27469309 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
27469356 CAT
1 CAT
27469359 AAAATCCTAA
Statistics
Matches: 215, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 1 0.00
47 214 1.00
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:27482689 original size:85 final size:86
Alignment explanation
Indices: 27482540--27482765 Score: 289
Period size: 85 Copynumber: 2.7 Consensus size: 86
27482530 GGGGTGTTAC
** * * * *
27482540 AGAACATGACCTTTAGCAACGCTTTACC-ACAAACGCCGCTATAGAACATGACATTTAGCGGCAC
1 AGAACATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACATGACCTTTAGCAGCAC
* *
27482604 TTTTCCCATAAACGCCGCTAA
66 TTTTCCCACAAACGCCACTAA
* * *
27482625 AGAACATGACATTTAGCGGTGCTTTTCCTACAAACGCCGCTAAAGAACAT-ACCTTTAGTAGCAC
1 AGAACATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACATGACCTTTAGCAGCAC
* *
27482689 TTTTGCCACAAACGCCACTAT
66 TTTTCCCACAAACGCCACTAA
*
27482710 AGAACA-AACCTTTAGCGGCGCTTTT-CTCACAAACGCCGCTAAAGAACATGACCTTT
1 AGAACATGACCTTTAGCGGCGCTTTTCCT-ACAAACGCCGCTAAAGAACATGACCTTT
27482766 TAAAAAATAT
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
83 2 0.02
84 37 0.30
85 63 0.52
86 20 0.16
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.24
Consensus pattern (86 bp):
AGAACATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACATGACCTTTAGCAGCAC
TTTTCCCACAAACGCCACTAA
Found at i:27482700 original size:42 final size:42
Alignment explanation
Indices: 27482540--27482765 Score: 267
Period size: 42 Copynumber: 5.3 Consensus size: 42
27482530 GGGGTGTTAC
** * *
27482540 AGAACATGACCTTTAGCAACGCTTTACCACAAACGCCGCTAT
1 AGAACATGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAA
* * *
27482582 AGAACATGACATTTAGCGGCACTTTTCCCATAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAA
* *
27482625 AGAACATGACATTTAGCGGTGCTTTTCCTACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAA
** * * *
27482668 AGAACAT-ACCTTTAGTAGCACTTTTGCCACAAACGCCACTAT
1 AGAACATGACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAA
*
27482710 AGAACA-AACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTC-CACAAACGCCGCTAA
27482752 AGAACATGACCTTT
1 AGAACATGACCTTT
27482766 TAAAAAATAT
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.01
42 88 0.57
43 66 0.43
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.24
Consensus pattern (42 bp):
AGAACATGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAA
Found at i:27488249 original size:40 final size:40
Alignment explanation
Indices: 27488205--27488388 Score: 300
Period size: 40 Copynumber: 4.6 Consensus size: 40
27488195 GCTACTAGCT
27488205 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
27488245 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
27488285 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
27488325 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
27488364 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
27488389 GTATCAATCC
Statistics
Matches: 137, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
38 1 0.01
39 34 0.25
40 102 0.74
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:27499000 original size:35 final size:35
Alignment explanation
Indices: 27498961--27499031 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 35
27498951 TCTAGGATCA
27498961 CATATCTTTGAAGATCT-CCTTCCATATTTGCCAAG
1 CATATCTTTGAAGAT-TACCTTCCATATTTGCCAAG
*
27498996 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTTGAAGATTACCTTCCATATTTGCCAAG
27499031 C
1 C
27499032 TCCGGAGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 1 0.03
35 33 0.97
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (35 bp):
CATATCTTTGAAGATTACCTTCCATATTTGCCAAG
Found at i:27510230 original size:16 final size:15
Alignment explanation
Indices: 27510197--27510238 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
27510187 AGATGATAAT
27510197 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
27510213 TATTCATTATAATATA
1 TATTAATTATAAT-TA
27510229 TATTAATTAT
1 TATTAATTAT
27510239 TATAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:27510242 original size:19 final size:22
Alignment explanation
Indices: 27510195--27510243 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
27510185 AAAGATGATA
27510195 ATTATTAATATATAATTATATTC
1 ATTA-TAATATATAATTATATTC
27510218 ATTATAATATAT-ATTA-ATT-
1 ATTATAATATATAATTATATTC
27510237 ATTATAA
1 ATTATAA
27510244 ATTTTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.27
20 3 0.12
21 4 0.15
22 8 0.31
23 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATAATATATAATTATATTC
Found at i:27521148 original size:20 final size:20
Alignment explanation
Indices: 27521123--27521213 Score: 95
Period size: 20 Copynumber: 4.8 Consensus size: 20
27521113 TTCTTAAAAG
27521123 ATAAAATAAAATTAATAACT
1 ATAAAATAAAATTAATAACT
27521143 ATAAAATAAAATT-A-AACT
1 ATAAAATAAAATTAATAACT
* * *
27521161 ATAAACT----TTAAAACACA
1 ATAAAATAAAATTAATA-ACT
27521178 ATAAAAATAAAATTAATAACT
1 AT-AAAATAAAATTAATAACT
27521199 ATAAAATAAAATTAA
1 ATAAAATAAAATTAA
27521214 ACTCTAAACT
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
14 2 0.03
15 1 0.02
16 1 0.02
17 4 0.07
18 14 0.24
19 1 0.02
20 26 0.45
21 4 0.07
22 5 0.09
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAAAATAAAATTAATAACT
Found at i:27521151 original size:25 final size:25
Alignment explanation
Indices: 27521123--27521210 Score: 79
Period size: 25 Copynumber: 3.3 Consensus size: 25
27521113 TTCTTAAAAG
27521123 ATAAAATAAAATTAATAACTATAAA
1 ATAAAATAAAATTAATAACTATAAA
* * *
27521148 ATAAAATTAAACT-ATAAACTTTAAAACACA
1 ATAAAATAAAATTAAT-AAC--T-ATA-A-A
27521178 ATAAAAATAAAATTAATAACTATAAA
1 AT-AAAATAAAATTAATAACTATAAA
27521204 ATAAAAT
1 ATAAAAT
27521211 TAAACTCTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
24 2 0.04
25 19 0.39
26 3 0.06
27 2 0.04
28 4 0.08
29 2 0.04
30 3 0.06
31 12 0.24
32 2 0.04
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (25 bp):
ATAAAATAAAATTAATAACTATAAA
Found at i:27521191 original size:56 final size:56
Alignment explanation
Indices: 27521125--27521240 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
27521115 CTTAAAAGAT
27521125 AAAATAAAATTAATAACTATAAAATAAAATTAAACTATAAACTTTAAAACACAATA
1 AAAATAAAATTAATAACTATAAAATAAAATTAAACTATAAACTTTAAAACACAATA
*
27521181 AAAATAAAATTAATAACTATAAAATAAAATTAAACTCTAAACTTTAAAACACAATA
1 AAAATAAAATTAATAACTATAAAATAAAATTAAACTATAAACTTTAAAACACAATA
27521237 AAAA
1 AAAA
27521241 CAATTGTAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (56 bp):
AAAATAAAATTAATAACTATAAAATAAAATTAAACTATAAACTTTAAAACACAATA
Found at i:27525526 original size:42 final size:47
Alignment explanation
Indices: 27525474--27525593 Score: 142
Period size: 49 Copynumber: 2.6 Consensus size: 47
27525464 TGTCATAGTT
*
27525474 CAACTATGGTCTTACAC-A-T-C-T-TCATATATCAATGCCATAGCC
1 CAACTATGGTCTTACACAATTACATATCACATATCAATGCCATAGCC
*
27525516 CAACTATGGTCTTACACGTAATTACATATCACATATCGATGCCATAGCC
1 CAACTATGGTCTTACAC--AATTACATATCACATATCAATGCCATAGCC
* *
27525565 CAGCTATGGTCTTACACGAATCACATATC
1 CAACTATGGTCTTACAC-AATTACATATC
27525594 TCACTGATGC
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
42 17 0.26
45 1 0.02
46 1 0.02
47 1 0.02
48 11 0.17
49 35 0.53
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.29
Consensus pattern (47 bp):
CAACTATGGTCTTACACAATTACATATCACATATCAATGCCATAGCC
Found at i:27525560 original size:49 final size:48
Alignment explanation
Indices: 27525499--27525593 Score: 154
Period size: 49 Copynumber: 2.0 Consensus size: 48
27525489 ACATCTTCAT
*
27525499 ATATCAATGCCATAGCCCAACTATGGTCTTACACGTAATTACATATCAC
1 ATATCAATGCCATAGCCCAACTATGGTCTTACACG-AATCACATATCAC
* *
27525548 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATC
1 ATATCAATGCCATAGCCCAACTATGGTCTTACACGAATCACATATC
27525594 TCACTGATGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
48 10 0.23
49 33 0.77
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (48 bp):
ATATCAATGCCATAGCCCAACTATGGTCTTACACGAATCACATATCAC
Found at i:27525624 original size:46 final size:47
Alignment explanation
Indices: 27525505--27525671 Score: 142
Period size: 47 Copynumber: 3.5 Consensus size: 47
27525495 TCATATATCA
* * ** *
27525505 ATGCCATAGCCCA-ACTATGGTCTTACA-CGTAATTACATATCACATATCG
1 ATGCCATATCCCAGA-TATGGTCTTACATAG-AAGCACATATCACA-CT-G
* * * * *
27525554 ATGCCATAGCCCAGCTATGGTCTTACA-CGAATCACATATCTCACTG
1 ATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACACTG
* * * *
27525600 ATGCCATATCCCAGATATGATCTTATATAGTAGCATATATCACACTG
1 ATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACACTG
*
27525647 ATGTCATATCCCAGATATGGTCTTA
1 ATGCCATATCCCAGATATGGTCTTA
27525672 TACAGAAATC
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
46 24 0.24
47 38 0.38
48 12 0.12
49 27 0.27
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (47 bp):
ATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACACTG
Found at i:27525728 original size:31 final size:31
Alignment explanation
Indices: 27525693--27525841 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
27525683 CTTGTCACTT
*
27525693 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
27525724 GTAGCCGAAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
27525755 GTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
27525786 GTAGCAGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
27525817 GTAGTCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
27525842 TGTCATTTGT
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:27525911 original size:50 final size:51
Alignment explanation
Indices: 27525817--27525945 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
27525807 CACTGATCAG
* * * *
27525817 GTAGTCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
27525868 GTAGCCGAAGCTATTACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
27525918 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
27525946 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 48 0.68
51 23 0.32
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:27534520 original size:19 final size:19
Alignment explanation
Indices: 27534480--27534523 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
27534470 TCCTCAATTC
*
27534480 ATTGTGATTCTTTTTTTCT
1 ATTGTGATTCTTTGTTTCT
*
27534499 ATTGTGATTGTTATGTTT-T
1 ATTGTGATTCTT-TGTTTCT
27534518 ATTGTG
1 ATTGTG
27534524 GGATGCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.14, C:0.05, G:0.18, T:0.64
Consensus pattern (19 bp):
ATTGTGATTCTTTGTTTCT
Found at i:27537514 original size:5 final size:5
Alignment explanation
Indices: 27537504--27537533 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
27537494 TAGATATTAA
27537504 TATTT TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT TATTT
27537534 ACATGTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:27542745 original size:22 final size:22
Alignment explanation
Indices: 27542719--27542760 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27542709 TCACTACAGC
27542719 ATACATTCTTGACTCACATAAT
1 ATACATTCTTGACTCACATAAT
* *
27542741 ATACATTCTTGCCTCGCATA
1 ATACATTCTTGACTCACATA
27542761 GTACACTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (22 bp):
ATACATTCTTGACTCACATAAT
Found at i:27542846 original size:22 final size:22
Alignment explanation
Indices: 27542824--27542912 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
27542814 CATGTAGTAT
* * *
27542824 ACATTCTTGAATCGCATAATAT
1 ACATACTTGACTCGCATAATAC
* * * *
27542846 ACATTCTTGCCTCCCATAGTAC
1 ACATACTTGACTCGCATAATAC
*
27542868 ACATACTTGACTTGCATAATAC
1 ACATACTTGACTCGCATAATAC
**
27542890 ACATACTTGACTCATATAATAC
1 ACATACTTGACTCGCATAATAC
27542912 A
1 A
27542913 ATGGTTCGCA
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.33
Consensus pattern (22 bp):
ACATACTTGACTCGCATAATAC
Found at i:27542909 original size:125 final size:125
Alignment explanation
Indices: 27542719--27543013 Score: 329
Period size: 125 Copynumber: 2.4 Consensus size: 125
27542709 TCACTACAGC
* * * * * **
27542719 ATACATTCTTGACTCACATAATATACATTCTTGCCTCGCATAGTACACTTACTTGACTTGCATAA
1 ATACATTCTTGACTCACATAATACACATACTTGACTCGCATAATACACATACTTGACTCACATAA
* * * *
27542784 TACAGTGGTTTGCATGTAATTTATGACTTGCATGTAGTATACATTCTTGAATCGCATAAT
66 TACAATGGTTCGCATGTAATTTATGACTTGCATGGAATATACATTCTTGAATCGCATAAT
* * * * *
27542844 ATACATTCTTGCCTCCCATAGTACACATACTTGACTTGCATAATACACATACTTGACTCATATAA
1 ATACATTCTTGACTCACATAATACACATACTTGACTCGCATAATACACATACTTGACTCACATAA
* * * *
27542909 TACAATGGTTCGCATGTAATTTATGACTTGTATGGAATATACGTTCTTGACTCTCATAAT
66 TACAATGGTTCGCATGTAATTTATGACTTGCATGGAATATACATTCTTGAATCGCATAAT
* * * * * * * * *
27542969 ACACATGCTTGAGTCGCATAACACATATGCCTAACTCGCATAATA
1 ATACATTCTTGACTCACATAATACACATACTTGACTCGCATAATA
27543014 TAGTGGTACG
Statistics
Matches: 138, Mismatches: 32, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
125 138 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (125 bp):
ATACATTCTTGACTCACATAATACACATACTTGACTCGCATAATACACATACTTGACTCACATAA
TACAATGGTTCGCATGTAATTTATGACTTGCATGGAATATACATTCTTGAATCGCATAAT
Found at i:27542948 original size:103 final size:103
Alignment explanation
Indices: 27542841--27543074 Score: 243
Period size: 103 Copynumber: 2.3 Consensus size: 103
27542831 TGAATCGCAT
* * * * * * *
27542841 AATATACATTCTTGCCTCCCATAGTACACATACTTGACTTGCATAATACACATACTTGACTCATA
1 AATATACATTCTTGACTCCCATAATACACATACTTGACTCGCATAACACACATACCTAACTCACA
*
27542906 TAATACAATGGTTCGCATGTAATTTATGACTTGTATGG
66 TAATACAATGGTACGCATGTAATTTATGACTTGTATGG
* * * * * * *
27542944 AATATACGTTCTTGACTCTCATAATACACATGCTTGAGTCGCATAACACATATGCCTAACTCGCA
1 AATATACATTCTTGACTCCCATAATACACATACTTGACTCGCATAACACACATACCTAACTCACA
* * * * * *
27543009 TAATATAGTGGTACGTATGTAATTTATGACTCGCATGC
66 TAATACAATGGTACGCATGTAATTTATGACTTGTATGG
** **
27543047 AATATATGTTCTTGACTTGCATAATACA
1 AATATACATTCTTGACTCCCATAATACA
27543075 GTGGTTCACA
Statistics
Matches: 107, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (103 bp):
AATATACATTCTTGACTCCCATAATACACATACTTGACTCGCATAACACACATACCTAACTCACA
TAATACAATGGTACGCATGTAATTTATGACTTGTATGG
Found at i:27542979 original size:22 final size:22
Alignment explanation
Indices: 27542954--27543013 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
27542944 AATATACGTT
*
27542954 CTTGACTCTCATAATACACATG
1 CTTGACTCGCATAATACACATG
* * *
27542976 CTTGAGTCGCATAACACATATG
1 CTTGACTCGCATAATACACATG
* *
27542998 CCTAACTCGCATAATA
1 CTTGACTCGCATAATA
27543014 TAGTGGTACG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (22 bp):
CTTGACTCGCATAATACACATG
Found at i:27553882 original size:29 final size:29
Alignment explanation
Indices: 27553846--27553914 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
27553836 CATGTTTGCT
27553846 TATACTAGGGCTCGCACAACAGCTTCACA
1 TATACTAGGGCTCGCACAACAGCTTCACA
* * * *
27553875 TATACTAGTGCTGGCACAATAGCTTTACA
1 TATACTAGGGCTCGCACAACAGCTTCACA
*
27553904 TTTACTAGGGC
1 TATACTAGGGC
27553915 AAGGCTTGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (29 bp):
TATACTAGGGCTCGCACAACAGCTTCACA
Done.