Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 72 of 343
Found at i:23515246 original size:121 final size:121
Alignment explanation
Indices: 23515051--23515271 Score: 343
Period size: 121 Copynumber: 1.8 Consensus size: 121
23515041 TGAGGCGCAG
**
23515051 AAGCCTAGGACCAGCCAACAAAGAAAAAGAGCCGATGTGAGCTATAGAAACAGATTCACTGTTAC
1 AAGCCTAGGACCAGCCAACAAAGAAAAAGAGCCGATGTGAGCTATAGAAACAGATTCACCATTAC
** *
23515116 TTATAGACACTTGATTTGTACCTGTATAGGGAGAATCAAACATGAGAGTTGTGTAA
66 CCATAGACACTTGATTTGTACCTATATAGGGAGAATCAAACATGAGAGTTGTGTAA
* * * * * *
23515172 AAGCTTAGGACCAGCCAATAAAGAAGAAGGGCCTATGTGAGCTATAGAAATAGATTCACCATTAC
1 AAGCCTAGGACCAGCCAACAAAGAAAAAGAGCCGATGTGAGCTATAGAAACAGATTCACCATTAC
23515237 CCATAGACACTTGATTTGTACCTATATAGGGAGAA
66 CCATAGACACTTGATTTGTACCTATATAGGGAGAA
23515272 GCAGACGTGA
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
121 89 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (121 bp):
AAGCCTAGGACCAGCCAACAAAGAAAAAGAGCCGATGTGAGCTATAGAAACAGATTCACCATTAC
CCATAGACACTTGATTTGTACCTATATAGGGAGAATCAAACATGAGAGTTGTGTAA
Found at i:23516660 original size:21 final size:20
Alignment explanation
Indices: 23516634--23516681 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
23516624 CAGATAATAA
* *
23516634 TTAACTATTAACTAACTGTGT
1 TTAACTACTAACTAACTCT-T
23516655 TTAACTACTAACTAACTCTT
1 TTAACTACTAACTAACTCTT
23516675 TTAACTA
1 TTAACTA
23516682 AGTTTATCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (20 bp):
TTAACTACTAACTAACTCTT
Found at i:23519342 original size:9 final size:9
Alignment explanation
Indices: 23519319--23519371 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
23519309 AATAGAACTC
23519319 TTAAAAAA-
1 TTAAAAAAT
*
23519327 TAAAAAAGAT
1 TTAAAAA-AT
*
23519337 TTAAAAATT
1 TTAAAAAAT
23519346 TTAAAAAAAAT
1 TT--AAAAAAT
23519357 TTAAAAAAT
1 TTAAAAAAT
23519366 TTAAAA
1 TTAAAA
23519372 CTCAAAGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
8 6 0.16
9 17 0.46
10 6 0.16
11 8 0.22
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:23519352 original size:20 final size:20
Alignment explanation
Indices: 23519319--23519371 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
23519309 AATAGAACTC
*
23519319 TTAAAAAA--TAAAAAAGAT
1 TTAAAAAATTTAAAAAAAAT
*
23519337 TTAAAAATTTTAAAAAAAAT
1 TTAAAAAATTTAAAAAAAAT
23519357 TTAAAAAATTTAAAA
1 TTAAAAAATTTAAAA
23519372 CTCAAAGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 7 0.23
20 23 0.77
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
TTAAAAAATTTAAAAAAAAT
Found at i:23521513 original size:20 final size:21
Alignment explanation
Indices: 23521476--23521525 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
23521466 AGAAACAAAT
*
23521476 TATTTTATTCATTCATTTA-A
1 TATTTTATTCATTAATTTATA
**
23521496 TATTTTATTTTTTAATTTATA
1 TATTTTATTCATTAATTTATA
*
23521517 TAATTTATT
1 TATTTTATT
23521526 AAATCACTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTTTATTCATTAATTTATA
Found at i:23521637 original size:9 final size:9
Alignment explanation
Indices: 23521620--23521669 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
23521610 TTATATTTTT
23521620 AAATATTAA
1 AAATATTAA
*
23521629 AAATTTTAA
1 AAATATTAA
*
23521638 AAA-ATAAAA
1 AAATAT-TAA
23521647 AGAATATTAA
1 A-AATATTAA
23521657 AAATATTAA
1 AAATATTAA
23521666 AAAT
1 AAAT
23521670 TAAAGTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 1 0.03
9 26 0.76
10 5 0.15
11 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (9 bp):
AAATATTAA
Found at i:23535436 original size:30 final size:30
Alignment explanation
Indices: 23535402--23535463 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
23535392 ACTGAATTGG
23535402 TTGAAATTCGGAGACAGAAATACATCATTT
1 TTGAAATTCGGAGACAGAAATACATCATTT
*
23535432 TTGAAATTTGGAGACAGAAATACATCATTT
1 TTGAAATTCGGAGACAGAAATACATCATTT
23535462 TT
1 TT
23535464 TCACATCCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (30 bp):
TTGAAATTCGGAGACAGAAATACATCATTT
Found at i:23538433 original size:27 final size:27
Alignment explanation
Indices: 23538399--23538629 Score: 245
Period size: 27 Copynumber: 8.6 Consensus size: 27
23538389 TAAATTGTAC
*
23538399 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
23538426 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * **
23538453 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* **
23538479 ATGCACTAAGTGTGCGAAATGAAAATG-
1 A-GCACTAAGTGTGCGAATTGACTATGT
*
23538506 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGACTATGT
*
23538534 GGCACTAAGTGTGCGAGATTGA-TCATGT
1 AGCACTAAGTGTGCGA-ATTGACT-ATGT
* *
23538562 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
23538588 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
23538615 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23538630 GACTCAATAT
Statistics
Matches: 181, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
26 23 0.13
27 135 0.75
28 23 0.13
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:23558435 original size:27 final size:27
Alignment explanation
Indices: 23558405--23558583 Score: 96
Period size: 27 Copynumber: 6.6 Consensus size: 27
23558395 TATAGGGGAG
23558405 AATTACAAAAATACCCCTAGTTTGTAA
1 AATTACAAAAATACCCCTAGTTTGTAA
* * * *
23558432 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACAAAAATACCCCTAGTTTGTAA
* * *
23558459 AATGATC-GAAATA-CCCTCAATTTGTAA
1 AATTA-CAAAAATACCCCT-AGTTTGTAA
* *
23558486 AATTACCAAAATACCCCT-GATT-TACA
1 AATTACAAAAATACCCCTAGTTTGTA-A
* * * *
23558512 AGATTATAAAAATACCCTTGACTTTCTAAA
1 A-ATTACAAAAATACCCCT-AGTTTGT-AA
* * ** * *
23558542 AATTATATAAATACCATTGGTTTGCAA
1 AATTACAAAAATACCCCTAGTTTGTAA
*
23558569 AATTACTAAAATACC
1 AATTACAAAAATACC
23558584 TTTGGTTTGT
Statistics
Matches: 114, Mismatches: 28, Indels: 20
0.70 0.17 0.12
Matches are distributed among these distances:
25 2 0.02
26 8 0.07
27 75 0.66
28 8 0.07
29 17 0.15
30 3 0.03
31 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACAAAAATACCCCTAGTTTGTAA
Found at i:23558525 original size:54 final size:55
Alignment explanation
Indices: 23558405--23558529 Score: 139
Period size: 54 Copynumber: 2.3 Consensus size: 55
23558395 TATAGGGGAG
* * * **
23558405 AATTACAAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTATAAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTGACA
* ** *
23558459 AATGATCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTT-ACA
1 AATTATAAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTGACA
23558512 AGATTATAAAAATACCCT
1 A-ATTATAAAAATACCCT
23558530 TGACTTTCTA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
53 2 0.04
54 54 0.95
55 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (55 bp):
AATTATAAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTGACA
Found at i:23558588 original size:27 final size:27
Alignment explanation
Indices: 23558540--23558592 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
23558530 TGACTTTCTA
23558540 AAAATTATATAAATACCATTGGTTTGC
1 AAAATTATATAAATACCATTGGTTTGC
*
23558567 AAAATTACTA-AAATACCTTTGGTTTG
1 AAAATTA-TATAAATACCATTGGTTTG
23558593 TAGATTTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (27 bp):
AAAATTATATAAATACCATTGGTTTGC
Found at i:23558601 original size:27 final size:27
Alignment explanation
Indices: 23558405--23558606 Score: 75
Period size: 27 Copynumber: 7.4 Consensus size: 27
23558395 TATAGGGGAG
* ** * *
23558405 AATTACAAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCATTGGTTTGCAA
* **
23558432 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCATTGGTTTGCAA
* * * * *** *
23558459 AATGATCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCATTGGTTTGCAA
** * *
23558486 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCATTGGTTTGCAA
* ** * *
23558513 GATTATAAAAATACCCTTGACTTT-CTAAA
1 AATTACCAAAATACCATTG-GTTTGC--AA
*
23558542 AATTA-TATAAATACCATTGGTTTGCAA
1 AATTACCA-AAATACCATTGGTTTGCAA
* * * *
23558569 AATTACTAAAATACCTTTGGTTTGTAG
1 AATTACCAAAATACCATTGGTTTGCAA
*
23558596 ATTTACCAAAA
1 AATTACCAAAA
23558607 CACCCTTGTA
Statistics
Matches: 134, Mismatches: 35, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
27 108 0.81
28 9 0.07
29 17 0.13
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCATTGGTTTGCAA
Found at i:23559556 original size:25 final size:25
Alignment explanation
Indices: 23559518--23559587 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
23559508 AGGAAGTGCT
* *
23559518 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
23559543 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
23559568 AAAAGGCCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
23559588 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:23559599 original size:25 final size:26
Alignment explanation
Indices: 23559528--23559599 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 26
23559518 AAAAGGGCTA
*
23559528 TGCCCCAGTTTACCGAAAAG-GG-CTT
1 TGCCCCAGTTTATC-AAAAGAGGCCTT
23559553 TGCCCCAGTTTATCAAAA-AGGCCTT
1 TGCCCCAGTTTATCAAAAGAGGCCTT
*
23559578 TGCCCCAG-TTATTAAAAGAGGC
1 TGCCCCAGTTTATCAAAAGAGGC
23559600 TAGGCCTCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 14 0.33
25 28 0.67
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCCTT
Found at i:23559798 original size:42 final size:42
Alignment explanation
Indices: 23559735--23559826 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
23559725 TAGTCTCCCC
* *
23559735 AAATGGGCTTGCATGCGTTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
23559777 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
23559819 AAATGGGC
1 AAATGGGC
23559827 CTAAGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:23559888 original size:31 final size:31
Alignment explanation
Indices: 23559850--23559924 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
23559840 CGTTTACAGT
23559850 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
*
23559881 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
23559912 AAAGGCTTCAGCC
1 AAAGGCTTCAGCC
23559925 GAGTAACCGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:23569841 original size:27 final size:27
Alignment explanation
Indices: 23569811--23569868 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
23569801 ATTACCAAAG
* *
23569811 TACCATCGATTTATAGAATCACTGTTT
1 TACCATCGATTTACAAAATCACTGTTT
* * *
23569838 TACCCTCGATTTACAAAATTATTGTTT
1 TACCATCGATTTACAAAATCACTGTTT
23569865 TACC
1 TACC
23569869 CTCATTTGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCATCGATTTACAAAATCACTGTTT
Found at i:23569937 original size:27 final size:26
Alignment explanation
Indices: 23569907--23570031 Score: 101
Period size: 27 Copynumber: 4.7 Consensus size: 26
23569897 TATAGGGTAG
*
23569907 AATTACAAAAATAGCCCTAGTTTGTAA
1 AATTACAAAAATA-CCCTAATTTGTAA
* ** *
23569934 AATTACCAAAATACCACTGGTTTGT-G
1 AATTACAAAAATACC-CTAATTTGTAA
*
23569960 AATTGATC-GAAATACCCTCAATTTGTAA
1 AATT-A-CAAAAATACCCT-AATTTGTAA
* **
23569988 AATTACCAAAATACCCCTAATTTACAA
1 AATTACAAAAATA-CCCTAATTTGTAA
23570015 AATTACAAAAATACCCT
1 AATTACAAAAATACCCT
23570032 TGACTTTTTA
Statistics
Matches: 80, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
26 13 0.16
27 58 0.73
28 9 0.11
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (26 bp):
AATTACAAAAATACCCTAATTTGTAA
Found at i:23570027 original size:54 final size:52
Alignment explanation
Indices: 23569907--23570031 Score: 126
Period size: 54 Copynumber: 2.3 Consensus size: 52
23569897 TATAGGGTAG
* ** ***
23569907 AATTACAAAAATAGCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
1 AATTACAAAAATA-CCCTAATTTGTAAAATTACCAAAATACCACTAATTTCAA
* *
23569960 AATTGATC-GAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATT-A-CAAAAATACCCT-AATTTGTAAAATTACCAAAATACCACTAATTT-CAA
23570015 AATTACAAAAATACCCT
1 AATTACAAAAATACCCT
23570032 TGACTTTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
53 9 0.16
54 44 0.76
55 5 0.09
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (52 bp):
AATTACAAAAATACCCTAATTTGTAAAATTACCAAAATACCACTAATTTCAA
Found at i:23570222 original size:27 final size:28
Alignment explanation
Indices: 23570163--23570223 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
23570153 AAGACCGCAG
*
23570163 AGCCCTTGTAGGGTAAAGTGACCGTAAT
1 AGCCCTTGTAGGGTAAAATGACCGTAAT
*
23570191 A-CCCTTGTATGGTAAAATGA-CG-AAT
1 AGCCCTTGTAGGGTAAAATGACCGTAAT
23570216 ATGCCCTT
1 A-GCCCTT
23570224 ATGTTCCGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 4 0.14
26 2 0.07
27 22 0.76
28 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (28 bp):
AGCCCTTGTAGGGTAAAATGACCGTAAT
Found at i:23571057 original size:25 final size:25
Alignment explanation
Indices: 23571019--23571088 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
23571009 AGGAAGTGCT
* *
23571019 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
23571044 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
23571069 AAAAGGCCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
23571089 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:23571100 original size:25 final size:26
Alignment explanation
Indices: 23571029--23571100 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 26
23571019 AAAAGGGCTA
*
23571029 TGCCCCAGTTTACCGAAAAG-GG-CTT
1 TGCCCCAGTTTATC-AAAAGAGGCCTT
23571054 TGCCCCAGTTTATCAAAA-AGGCCTT
1 TGCCCCAGTTTATCAAAAGAGGCCTT
*
23571079 TGCCCCAG-TTATTAAAAGAGGC
1 TGCCCCAGTTTATCAAAAGAGGC
23571101 TAGGCCTCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 14 0.33
25 28 0.67
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCCTT
Found at i:23571297 original size:42 final size:42
Alignment explanation
Indices: 23571236--23571327 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
23571226 TAGTCTCCCC
* *
23571236 AAATGGGCTTGCATGCATTCATTGACATTACATTTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
23571278 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
23571320 AAATGGGC
1 AAATGGGC
23571328 CTAAGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:23579476 original size:5 final size:5
Alignment explanation
Indices: 23579461--23579552 Score: 55
Period size: 5 Copynumber: 17.2 Consensus size: 5
23579451 TTTTTAGTTC
* *
23579461 TTTATT TTTAT TTTAT TTTAT TATT-T GTTAT TGTT-T GTTATT TTATAT
1 TTTA-T TTTAT TTTAT TTTAT T-TTAT TTTAT T-TTAT TTTA-T TT-TAT
*
23579509 TTTAT ATTTAT TTTAGT TTCT-T TCTTAA TTTAT TTTAT TTTAT T
1 TTTAT -TTTAT TTTA-T TT-TAT T-TTAT TTTAT TTTAT TTTAT T
23579553 ATTCTGCTTC
Statistics
Matches: 69, Mismatches: 6, Indels: 23
0.70 0.06 0.23
Matches are distributed among these distances:
4 4 0.06
5 39 0.57
6 23 0.33
7 3 0.04
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:23579723 original size:12 final size:12
Alignment explanation
Indices: 23579708--23579758 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
23579698 TTACTATATA
*
23579708 TTTTATTATTCT
1 TTTTATTCTTCT
23579720 TTTTATTCTTCT
1 TTTTATTCTTCT
*
23579732 TCTTATTCTTCT
1 TTTTATTCTTCT
* *
23579744 TATTATTCTTAT
1 TTTTATTCTTCT
23579756 TTT
1 TTT
23579759 AAGTATGTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATTCTTCT
Found at i:23581298 original size:26 final size:24
Alignment explanation
Indices: 23581254--23581308 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
23581244 ATTTAATTTA
23581254 ATTTTTATGTTTATGTTTATTTCT
1 ATTTTTATGTTTATGTTTATTTCT
*
23581278 ATTTTTAGTTGTTT-TGTTTTATTTTT
1 ATTTTTA--TGTTTATG-TTTATTTCT
23581304 ATTTT
1 ATTTT
23581309 CTTATACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 7 0.26
25 2 0.07
26 18 0.67
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.75
Consensus pattern (24 bp):
ATTTTTATGTTTATGTTTATTTCT
Found at i:23583182 original size:18 final size:18
Alignment explanation
Indices: 23583151--23583230 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
23583141 ATTGTTAATG
*
23583151 TTTTTAACAA-TTTTACAA
1 TTTTT-ACAATTTTTATAA
*
23583169 TTTTTATAATTTTTAGTAA
1 TTTTTACAATTTTTA-TAA
*
23583188 -TTTTGCAATTTTTA-ATA
1 TTTTTACAATTTTTATA-A
*
23583205 TTTTTAAATATTTGTTATAA
1 TTTTTACA-ATTT-TTATAA
23583225 TTTTTA
1 TTTTTA
23583231 ATTTTAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
16 1 0.02
17 4 0.08
18 27 0.55
19 6 0.12
20 10 0.20
21 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (18 bp):
TTTTTACAATTTTTATAA
Found at i:23583217 original size:27 final size:27
Alignment explanation
Indices: 23583134--23583232 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
23583124 TATTTTTTTA
* *
23583134 TTTACAAATTGTTAATGTTTTTAACA-AT
1 TTTAC-AATTTTTAATATTTTTAA-ATAT
*
23583162 TTTACAATTTTT-ATAATTTTT-AGTAAT
1 TTTACAATTTTTAAT-ATTTTTAAAT-AT
*
23583189 TTTGCAATTTTTAATATTTTTAAATATT
1 TTTACAATTTTTAATATTTTTAAATA-T
*
23583217 TGTTATAATTTTTAAT
1 T-TTACAATTTTTAAT
23583233 TTTAAAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
26 3 0.05
27 31 0.54
28 11 0.19
29 12 0.21
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (27 bp):
TTTACAATTTTTAATATTTTTAAATAT
Found at i:23585286 original size:31 final size:32
Alignment explanation
Indices: 23585229--23585293 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 32
23585219 AAAATAATTA
* * * *
23585229 TTAGTGATTGATTTGGTATTTTTTTTTTAAAT
1 TTAGTGATTGAGTTGATAATTTTTTTTAAAAT
23585261 TTAGTGATTGAGTT-ATAATTTTTTTTAAAAT
1 TTAGTGATTGAGTTGATAATTTTTTTTAAAAT
23585292 TT
1 TT
23585294 TAATAGCTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 16 0.55
32 13 0.45
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (32 bp):
TTAGTGATTGAGTTGATAATTTTTTTTAAAAT
Found at i:23585660 original size:22 final size:21
Alignment explanation
Indices: 23585622--23585666 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
23585612 GAAAATTAAT
23585622 AATTATTATTAATTAATTATA
1 AATTATTATTAATTAATTATA
* *
23585643 AATTTTTATTAAATTAATTTTA
1 AATTATTATT-AATTAATTATA
23585665 AA
1 AA
23585667 ATTCAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATTATTATTAATTAATTATA
Found at i:23600335 original size:17 final size:17
Alignment explanation
Indices: 23600313--23600349 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
23600303 ATGCACTAAC
* *
23600313 ATGAAAATGTAATGACA
1 ATGAAAACGCAATGACA
23600330 ATGAAAACGCAATGACA
1 ATGAAAACGCAATGACA
23600347 ATG
1 ATG
23600350 TATACTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (17 bp):
ATGAAAACGCAATGACA
Found at i:23600796 original size:17 final size:18
Alignment explanation
Indices: 23600774--23600808 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
23600764 TTCTTCGTTT
23600774 CTTTCTCAT-TTTAGCAA
1 CTTTCTCATCTTTAGCAA
*
23600791 CTTTCTCTTCTTTAGCAA
1 CTTTCTCATCTTTAGCAA
23600809 TAGCTTCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.26, G:0.06, T:0.49
Consensus pattern (18 bp):
CTTTCTCATCTTTAGCAA
Found at i:23601292 original size:24 final size:24
Alignment explanation
Indices: 23601226--23601285 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
23601216 CTGTCAGGAG
23601226 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
23601250 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
23601274 AGGATTTAGGAG
1 AGGATTTAGGAG
23601286 CAGATAATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.28
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:23603845 original size:46 final size:46
Alignment explanation
Indices: 23603792--23603882 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
23603782 TATATATACA
* * * **
23603792 CATCTCATACATATCTCACTTTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCAGCTTTACCACATATC
* *
23603838 CATCTCATACACATTTCGCATTAACCATTCAGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAACCATTCAGCTTTACCACATAT
23603883 ATACACTTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.29, C:0.31, G:0.05, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCAGCTTTACCACATATC
Found at i:23603928 original size:47 final size:47
Alignment explanation
Indices: 23603892--23604327 Score: 721
Period size: 47 Copynumber: 9.3 Consensus size: 47
23603882 TATACACTTC
*
23603892 CACATTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* * *
23603939 CACATTTATCACATTGGCCATTCAGCCTTATCACATATGTGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
*
23603986 CACATTCATCACATTGGCCATTCAGCCTTATCACATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
23604033 CACA-TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
*
23604079 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGAT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
23604126 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
*
23604173 CACATTCATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* * *
23604220 CACCTTCATCACATTGGTCATTCGGCCTTATCACACATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* * * * **
23604267 CACATTCATCACATTTGCCATTCGGCCTTAGCTCATATATACACATT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
23604314 CACATTCATCACAT
1 CACATTCATCACAT
23604328 AAAATCCTAA
Statistics
Matches: 366, Mismatches: 22, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
46 45 0.12
47 321 0.88
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
Found at i:23606647 original size:13 final size:13
Alignment explanation
Indices: 23606629--23606654 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23606619 ATTTTTATTT
23606629 TTAACATAAAATA
1 TTAACATAAAATA
23606642 TTAACATAAAATA
1 TTAACATAAAATA
23606655 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:23608120 original size:11 final size:10
Alignment explanation
Indices: 23608092--23608125 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
23608082 AGCCAGTAAG
23608092 TATTCTGAAT
1 TATTCTGAAT
*
23608102 TTTTCTGAAT
1 TATTCTGAAT
23608112 ATATTCTGAAT
1 -TATTCTGAAT
23608123 TAT
1 TAT
23608126 CTGTCTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:23613367 original size:24 final size:24
Alignment explanation
Indices: 23613300--23613359 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
23613290 CTGTCAGGAG
23613300 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
23613324 AAGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
23613348 AGGATTTAGGAG
1 AGGATTTAGGAG
23613360 CAGATAAGCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.37, T:0.28
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:23614853 original size:27 final size:26
Alignment explanation
Indices: 23614790--23614899 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 26
23614780 AAGCGTCCTA
* *
23614790 GTGGCTATGCCACAAATTATCTGATCTG
1 GTGGCTCTGCCAC--ATTATCTGTTCTG
*
23614818 GTGGCTCTGCCACATATACCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
* *
23614845 GTGGTTCTGCCATGATTATCTGTATCTG
1 GTGGCTCTGCCA-CATTATCTGT-TCTG
* *
23614873 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGTTCTG
23614899 G
1 G
23614900 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
26 7 0.10
27 35 0.51
28 27 0.39
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:23616966 original size:23 final size:23
Alignment explanation
Indices: 23616936--23616986 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
23616926 TGAGCTTTCA
23616936 ATTCTTTTAACTCTGTCGGAGTC
1 ATTCTTTTAACTCTGTCGGAGTC
23616959 ATTCTTTTAACTCTGTCGGAGTC
1 ATTCTTTTAACTCTGTCGGAGTC
23616982 ATTCT
1 ATTCT
23616987 GTACGGAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.45
Consensus pattern (23 bp):
ATTCTTTTAACTCTGTCGGAGTC
Found at i:23624732 original size:20 final size:23
Alignment explanation
Indices: 23624684--23624741 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
23624674 CTAGTGATAA
*
23624684 ACATTTCAGTGCTAGTGAAAGTG
1 ACATTTCAGTGCTAGTGAAAGTC
*
23624707 ACATTTCGGTGC-AGT-AAAG-C
1 ACATTTCAGTGCTAGTGAAAGTC
23624727 ACATTT--GTGCTAGTG
1 ACATTTCAGTGCTAGTG
23624742 GAGTGATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 4 0.13
19 3 0.10
20 6 0.19
21 4 0.13
22 3 0.10
23 11 0.35
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (23 bp):
ACATTTCAGTGCTAGTGAAAGTC
Found at i:23630429 original size:63 final size:64
Alignment explanation
Indices: 23630349--23630530 Score: 217
Period size: 65 Copynumber: 2.8 Consensus size: 64
23630339 AGACATTATG
* *
23630349 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
23630412 ATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGATA
23630477 A
64 A
* * * *
23630478 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
23630531 GAACTATATG
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
62 1 0.01
63 43 0.43
64 3 0.03
65 46 0.46
66 6 0.06
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:23635775 original size:29 final size:29
Alignment explanation
Indices: 23635712--23635779 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
23635702 TAATCAACCA
23635712 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
23635741 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
23635770 CGCACACTTA
1 CGCACACTTA
23635780 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:23635920 original size:29 final size:30
Alignment explanation
Indices: 23635881--23635959 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
23635871 CTTAATAATC
23635881 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
23635911 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
23635940 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
23635960 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:23638020 original size:36 final size:36
Alignment explanation
Indices: 23637952--23638024 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
23637942 ACGATAGGAG
*
23637952 TCTGTTGAAAAAACTTCAGGTAAAATCGACATGGAT
1 TCTGTTGAAAAAACTTCAGGTAAAATCAACATGGAT
**
23637988 TCTGTTGGTAAAACTTCAGGTAAAA-CTAACATGGAT
1 TCTGTTGAAAAAACTTCAGGTAAAATC-AACATGGAT
23638024 T
1 T
23638025 GATCAGATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 32 0.97
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (36 bp):
TCTGTTGAAAAAACTTCAGGTAAAATCAACATGGAT
Found at i:23645580 original size:17 final size:18
Alignment explanation
Indices: 23645543--23645588 Score: 69
Period size: 17 Copynumber: 2.6 Consensus size: 18
23645533 TTTTCACATA
23645543 AATTTAA-AAATTATTAAT
1 AATTTAATAAATTA-TAAT
23645561 AATTTAATAAATTA-AAT
1 AATTTAATAAATTATAAT
23645578 AATTTAATAAA
1 AATTTAATAAA
23645589 ATTTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.52
18 7 0.26
19 6 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTAATAAATTATAAT
Found at i:23645598 original size:17 final size:18
Alignment explanation
Indices: 23645543--23645598 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
23645533 TTTTCACATA
*
23645543 AATTTAA-AAATTATTAAT
1 AATTTAATAAAAT-TTAAT
*
23645561 AATTTAAT-AAATTAAAT
1 AATTTAATAAAATTTAAT
23645578 AATTTAATAAAATTTAA-
1 AATTTAATAAAATTTAAT
23645595 AATT
1 AATT
23645599 GAAGAGGTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 16 0.48
18 17 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTTAATAAAATTTAAT
Found at i:23648631 original size:21 final size:22
Alignment explanation
Indices: 23648602--23648648 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
23648592 CAGAAGGAGT
*
23648602 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
23648624 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
23648645 GAGT
1 GAGT
23648649 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:23657757 original size:10 final size:10
Alignment explanation
Indices: 23657742--23657767 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
23657732 GCGCGAATCT
23657742 GTCAAAATTA
1 GTCAAAATTA
23657752 GTCAAAATTA
1 GTCAAAATTA
23657762 GTCAAA
1 GTCAAA
23657768 GTTAAGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (10 bp):
GTCAAAATTA
Found at i:23658569 original size:59 final size:59
Alignment explanation
Indices: 23658481--23658598 Score: 202
Period size: 59 Copynumber: 2.0 Consensus size: 59
23658471 GAAAGACTAT
*
23658481 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCAC-ACTCGTGAACCCACACATTGGAGATAG
1 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAAC-CGTGAACCCACACATTAGAGATAG
*
23658540 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAACCGTGAACCTACACATTAGAGATAG
1 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAACCGTGAACCCACACATTAGAGATAG
23658599 CAATAGTAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
59 54 0.96
60 2 0.04
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.15
Consensus pattern (59 bp):
TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAACCGTGAACCCACACATTAGAGATAG
Found at i:23665249 original size:28 final size:28
Alignment explanation
Indices: 23665196--23665249 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
23665186 CAGTGCAGTT
* * * *
23665196 TGGGCCTTAGCCCTATATAGTGATAGTG
1 TGGGCCTAAGCCCTAAACAGTAATAGTG
23665224 TGGGCCTAAGCCCTAAACAGTAATAG
1 TGGGCCTAAGCCCTAAACAGTAATAG
23665250 CACATGCAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (28 bp):
TGGGCCTAAGCCCTAAACAGTAATAGTG
Found at i:23668922 original size:16 final size:16
Alignment explanation
Indices: 23668901--23668932 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23668891 AATCGGGTTG
*
23668901 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
23668917 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
23668933 TAAATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:23674910 original size:17 final size:18
Alignment explanation
Indices: 23674869--23674911 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
23674859 TGTATTTACT
23674869 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
23674887 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
23674904 TATTATAT
1 TATTATAT
23674912 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:23675898 original size:6 final size:6
Alignment explanation
Indices: 23675887--23675918 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
23675877 TCTGTACCTG
*
23675887 ACTGTT ACTGTT ACTGTT ACTATT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
23675919 CCTTACGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:23676801 original size:22 final size:22
Alignment explanation
Indices: 23676776--23676827 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
23676766 CAGGTTGATG
* *
23676776 ACACGGGCATGTCACATCAGGA
1 ACACGGGCATGTCACACCAGCA
* *
23676798 ACACGGGCCTGTCACACCAGCC
1 ACACGGGCATGTCACACCAGCA
23676820 ACACGGGC
1 ACACGGGC
23676828 GTGTGGTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.37, G:0.27, T:0.10
Consensus pattern (22 bp):
ACACGGGCATGTCACACCAGCA
Found at i:23678723 original size:43 final size:44
Alignment explanation
Indices: 23678656--23678753 Score: 180
Period size: 43 Copynumber: 2.2 Consensus size: 44
23678646 CTTTAAGCAT
23678656 CCGCACACTTAGTGCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
1 CCGCACACTTAG-GCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
23678701 CCGCACACTTA-GCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
1 CCGCACACTTAGGCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
23678744 CCGCACACTT
1 CCGCACACTT
23678754 TGTGCCATCT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 42 0.79
45 11 0.21
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
CCGCACACTTAGGCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
Found at i:23683512 original size:19 final size:20
Alignment explanation
Indices: 23683488--23683525 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
23683478 GGTACCACCA
23683488 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
23683507 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
23683526 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:23683869 original size:92 final size:93
Alignment explanation
Indices: 23683755--23683924 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
23683745 GCCCCTAAGT
* *
23683755 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
23683820 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
23683848 GAACTC-GACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
23683912 CGAGTTCGGATGC
66 CGAGTTCGGATGC
23683925 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 66 0.92
93 6 0.08
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:23683921 original size:46 final size:46
Alignment explanation
Indices: 23683750--23683921 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
23683740 AACCCGCCCC
* * * *
23683750 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
23683796 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
23683844 TCA-CGAACTC-GACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
23683888 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23683922 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 2 0.02
45 6 0.06
46 75 0.71
47 6 0.06
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:23691469 original size:92 final size:92
Alignment explanation
Indices: 23691312--23691481 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
23691302 GCCCCTAAGT
* *
23691312 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
23691377 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
* * *
23691404 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
23691469 CGAGTTCGGATGC
66 CGAGTTCGGATGC
23691482 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:23691478 original size:46 final size:46
Alignment explanation
Indices: 23691307--23691478 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
23691297 AACCCGCCCC
* * * *
23691307 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
23691353 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT---
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
23691400 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
23691445 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23691479 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
45 2 0.02
46 89 0.85
47 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:23691497 original size:46 final size:46
Alignment explanation
Indices: 23691309--23691497 Score: 135
Period size: 46 Copynumber: 4.1 Consensus size: 46
23691299 CCCGCCCCTA
* ** * *
23691309 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
* *
23691354 AAATGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * *
23691402 A-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
23691447 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
23691493 AGTGA
1 AGTGA
23691498 CATGTCACTT
Statistics
Matches: 114, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
44 8 0.07
45 3 0.03
46 94 0.82
47 1 0.01
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:23698512 original size:19 final size:20
Alignment explanation
Indices: 23698488--23698525 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
23698478 GGTACCACCA
23698488 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
23698507 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
23698526 ACCACATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:23698919 original size:93 final size:93
Alignment explanation
Indices: 23698755--23698925 Score: 225
Period size: 93 Copynumber: 1.8 Consensus size: 93
23698745 GCCCCTAAGT
* * * * *
23698755 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGTATCCGTAAATGAACTCAAACTCAACTCAA
1 GAACTCAGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAAACTCAACTCAA
23698820 CAAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
* * * * ***
23698848 GAACTCGGACTCAAATCAACGAGTTCGGACATTTGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAAACTCAACTCAA
*
23698913 CGAGTTCGGATGC
66 CAAGTTCGGATGC
23698926 TCAACCATCC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
93 65 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAAACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:23701919 original size:27 final size:26
Alignment explanation
Indices: 23701879--23701990 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
23701869 AGCATGGCTG
* *
23701879 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
23701905 CCAGATACATATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
23701933 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
23701960 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
23701987 CCAG
1 CCAG
23701991 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:23701973 original size:54 final size:54
Alignment explanation
Indices: 23701879--23701990 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
23701869 AGCATGGCTG
* *
23701879 CCAGAACAGATAATGTGACAGAGTCACCAGATACATATAATCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
* * * *
23701933 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
23701987 CCAG
1 CCAG
23701991 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
Found at i:23703437 original size:24 final size:24
Alignment explanation
Indices: 23703410--23703456 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
23703400 CTAGATTTCC
**
23703410 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
23703434 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
23703457 CTCCTGACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:23705461 original size:46 final size:46
Alignment explanation
Indices: 23705394--23705569 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
23705384 TGTAACCCGC
* * *
23705394 CCATAAGTGAACTCGGACTCAAATCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
23705440 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGC-A--T
* *** * **
23705487 ACATCTTTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
23705534 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
23705570 ATGCCCAAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 62 0.58
47 10 0.09
48 26 0.24
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:23705563 original size:94 final size:93
Alignment explanation
Indices: 23705402--23705574 Score: 274
Period size: 94 Copynumber: 1.8 Consensus size: 93
23705392 GCCCATAAGT
* ** *
23705402 GAACTCGGACTCAAATCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAAATCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23705467 CGAGCTCGGGATGCCTAGTTACATCTTTC
66 CGAGCTC-GGATGCCTAGTTACATCTTTC
* *
23705496 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAAATCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
23705561 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
23705575 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 7 0.10
94 65 0.90
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAAATCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTTTC
Found at i:23705589 original size:46 final size:44
Alignment explanation
Indices: 23705445--23705589 Score: 100
Period size: 46 Copynumber: 3.1 Consensus size: 44
23705435 CGCATCCATA
* *
23705445 AGTGAACTCGGACTCAACTCAACGAGCTCGGGATGCCTAGT-TACATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCCCA-TAT-C--CT
* * * *
23705493 -TTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGC--ATCCAT
1 AGT-GAACTCGGACTCAACTCAACGAGTTCG--GATGCCCATATCC-T
23705538 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC--ATATCCT
23705585 AGTGA
1 AGTGA
23705590 CATGTCACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
44 5 0.07
45 1 0.01
46 33 0.43
47 5 0.07
48 29 0.38
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATCCT
Found at i:23712091 original size:12 final size:12
Alignment explanation
Indices: 23712074--23712099 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23712064 GACTCTTAAG
23712074 TTTATTTGGGTT
1 TTTATTTGGGTT
23712086 TTTATTTGGGTT
1 TTTATTTGGGTT
23712098 TT
1 TT
23712100 CTAGTATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.23, T:0.69
Consensus pattern (12 bp):
TTTATTTGGGTT
Found at i:23732191 original size:18 final size:19
Alignment explanation
Indices: 23732164--23732203 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
23732154 TCTGTAGACT
* *
23732164 TTTGGGTTTT-ATTTTGGA
1 TTTGGATTTTAATTTGGGA
23732182 TTTGGATTTTAATTTGGGA
1 TTTGGATTTTAATTTGGGA
23732201 TTT
1 TTT
23732204 CTAGCATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.15, C:0.00, G:0.25, T:0.60
Consensus pattern (19 bp):
TTTGGATTTTAATTTGGGA
Found at i:23739966 original size:48 final size:48
Alignment explanation
Indices: 23739897--23740208 Score: 401
Period size: 48 Copynumber: 6.5 Consensus size: 48
23739887 TGCCATGTTT
* * **
23739897 AGACATGGTCTTACTCTGGCACACATATCATCGTTGATGCCATGTCCC
1 AGACATGGTCTTACACTGGCACATATATCATCACTGATGCCATGTCCC
* * *
23739945 AAACATGGTCTTACACTGGCACACATATCATCACCGATGCCATGTCCC
1 AGACATGGTCTTACACTGGCACATATATCATCACTGATGCCATGTCCC
* * *
23739993 AAACAAGGTCTTACACTGGCACATATATCATCGCTGATGCCATGTCCC
1 AGACATGGTCTTACACTGGCACATATATCATCACTGATGCCATGTCCC
* * *
23740041 AGACATGGTCTTAC-GTAGGCACATATATCATTACCGATGCCATGTCCC
1 AGACATGGTCTTACACT-GGCACATATATCATCACTGATGCCATGTCCC
* * * * *
23740089 AGACATTGTCTTACACAGGCACATATATCATCGCTCATGCCATGTCTC
1 AGACATGGTCTTACACTGGCACATATATCATCACTGATGCCATGTCCC
* * * *
23740137 AGACATGGTCTTACACAGGCACATAAATCATCATTGATGACATGTCCC
1 AGACATGGTCTTACACTGGCACATATATCATCACTGATGCCATGTCCC
*
23740185 AGACATGGTCTTACACAGGCACAT
1 AGACATGGTCTTACACTGGCACAT
23740209 TTAGCACGGT
Statistics
Matches: 232, Mismatches: 30, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
47 1 0.00
48 231 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (48 bp):
AGACATGGTCTTACACTGGCACATATATCATCACTGATGCCATGTCCC
Found at i:23740039 original size:96 final size:96
Alignment explanation
Indices: 23739841--23740208 Score: 438
Period size: 96 Copynumber: 3.8 Consensus size: 96
23739831 AGTACCAATT
* * * * **
23739841 CCATGTCCCCAACATGGTCTTACA-T-GAATCCACATATCATTACCAATGCCATGT-TTAGACAT
1 CCATGTCCCAAACATGGTCTTACACTGGCA--CACATATCATCACCGATGCCATGTCCCAGACAT
* * * *
23739903 GGTCTTACTCTGGCACACATATCATCGTTGATG
64 GGTCTTACACAGGCACATATATCATCGCTGATG
* *
23739936 CCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAAACAAGG
1 CCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAGACATGG
*
23740001 TCTTACACTGGCACATATATCATCGCTGATG
66 TCTTACACAGGCACATATATCATCGCTGATG
* * * * *
23740032 CCATGTCCCAGACATGGTCTTAC-GTAGGCACATATATCATTACCGATGCCATGTCCCAGACATT
1 CCATGTCCCAAACATGGTCTTACACT-GGCACACATATCATCACCGATGCCATGTCCCAGACATG
*
23740096 GTCTTACACAGGCACATATATCATCGCTCATG
65 GTCTTACACAGGCACATATATCATCGCTGATG
* * * * * ** *
23740128 CCATGTCTCAGACATGGTCTTACACAGGCACATAAATCATCATTGATGACATGTCCCAGACATGG
1 CCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAGACATGG
23740193 TCTTACACAGGCACAT
66 TCTTACACAGGCACAT
23740209 TTAGCACGGT
Statistics
Matches: 239, Mismatches: 29, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
95 46 0.19
96 191 0.80
97 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (96 bp):
CCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAGACATGG
TCTTACACAGGCACATATATCATCGCTGATG
Found at i:23742375 original size:13 final size:13
Alignment explanation
Indices: 23742357--23742382 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23742347 GCTCGACAGG
23742357 GACACGCCCGTGT
1 GACACGCCCGTGT
23742370 GACACGCCCGTGT
1 GACACGCCCGTGT
23742383 ACAATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:23746319 original size:37 final size:37
Alignment explanation
Indices: 23746264--23746363 Score: 155
Period size: 37 Copynumber: 2.7 Consensus size: 37
23746254 CGAATAGTCC
* * **
23746264 CCACTCGTAGTTATCGGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
*
23746301 CCACACGTAGTCATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
23746338 CCACACGTAGTCATCGGGTCTTACCC
1 CCACACGTAGTCATCGGGTCTTACCC
23746364 GGAATATATT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
Found at i:23746565 original size:48 final size:48
Alignment explanation
Indices: 23746507--23747180 Score: 1123
Period size: 48 Copynumber: 14.0 Consensus size: 48
23746497 ATATACACAC
* * *
23746507 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23746555 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23746603 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
23746651 ATCTCATATATATTTCACATTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23746699 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
23746747 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23746795 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
23746843 ATCTCATATATATTTCACATTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23746891 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23746939 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACTTATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
23746987 ATCTCATATATATTTCACATTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23747035 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
23747083 ATCTCATATATATTTCACATTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23747131 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23747179 AT
1 AT
23747181 ATTTTTCTTG
Statistics
Matches: 580, Mismatches: 46, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 580 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:23750182 original size:46 final size:46
Alignment explanation
Indices: 23750114--23750250 Score: 166
Period size: 46 Copynumber: 3.0 Consensus size: 46
23750104 TATATATACA
* * * * *
23750114 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACGTATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * * *
23750160 CATCTCATACACGTTTTGCATTAGCTACTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
**
23750206 CATCTCATACACATTTCGCATTAGCCATTCGGCTTCGCCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
23750251 ATACACTTCC
Statistics
Matches: 74, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:23750295 original size:47 final size:46
Alignment explanation
Indices: 23750244--23750393 Score: 192
Period size: 47 Copynumber: 3.2 Consensus size: 46
23750234 TCGGCTTCGC
* * **
23750244 CACATATATACACTTCCACGTTCATCACATTGGCCATTCTACCTTAT
1 CACACATATACA-TTCCACATTCATCACATTGGCCATTCGGCCTTAT
* * *
23750291 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACACATATACAT-TCCACATTCATCACATTGGCCATTCGGCCTTAT
* *
23750338 CACACATATTCATGCTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACACATATACATTC-CACATTCATCACATTGGCCATTCGGCCTTAT
23750385 CACACATAT
1 CACACATAT
23750394 TCGGCCTTAT
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
46 1 0.01
47 91 0.99
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (46 bp):
CACACATATACATTCCACATTCATCACATTGGCCATTCGGCCTTAT
Found at i:23750395 original size:47 final size:47
Alignment explanation
Indices: 23750264--23750393 Score: 215
Period size: 47 Copynumber: 2.8 Consensus size: 47
23750254 CACTTCCACG
** * *
23750264 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
*
23750311 TTCATCACATTGGCCATTCGGCCTTATCACACATATTCATGCTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
23750358 TTCATCACATTGGCCATTCGGCCTTATCACACATAT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATAT
23750394 TCGGCCTTAT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 78 1.00
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
Found at i:23750397 original size:19 final size:19
Alignment explanation
Indices: 23750373--23750478 Score: 88
Period size: 19 Copynumber: 5.1 Consensus size: 19
23750363 CACATTGGCC
23750373 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
23750392 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
* * *
23750411 ATGCATGTTCACATTCATCACATTGGC-C
1 ATTC--G-GC-C-TT-ATCACA----CAT
23750439 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
23750458 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
23750477 AT
1 AT
23750479 GCATGTTCAC
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
18 1 0.01
19 43 0.61
21 1 0.01
22 7 0.10
23 3 0.04
24 3 0.04
25 7 0.10
26 1 0.01
28 3 0.04
29 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.32
Consensus pattern (19 bp):
ATTCGGCCTTATCACACAT
Found at i:23750403 original size:66 final size:66
Alignment explanation
Indices: 23750326--23750525 Score: 373
Period size: 66 Copynumber: 3.0 Consensus size: 66
23750316 CACATTGGCC
* *
23750326 ATTCGGCCTTATCACACATATTCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
23750391 T
66 T
23750392 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
23750457 T
66 T
*
23750458 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
1 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
23750523 T
66 T
23750524 AT
1 AT
23750526 GCATGCTCAC
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 131 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.33
Consensus pattern (66 bp):
ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
T
Found at i:23750509 original size:113 final size:117
Alignment explanation
Indices: 23750264--23750547 Score: 358
Period size: 113 Copynumber: 2.5 Consensus size: 117
23750254 CACTTCCACG
**
23750264 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
* * *
23750329 CGGCCTTATCACACATATTCATGCTCACATTCATCACATTGGCCATTCGGCC
66 CGGCCTTATCACACATATTCAGGCTCACATTCATCACATTGGCCATTCGACA
* *
23750381 TT-ATCACA----CATATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCAT
1 TTCATCACATTGGC-CATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCAT
**
23750441 TCGGCCTTATCACACATATTC-GGC-CTTA-TCA-CACATAT-G-CATGTTC-ACA
65 TCGGCCTTATCACACATATTCAGGCTCACATTCATCACAT-TGGCCA--TTCGACA
*
23750490 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATT
23750548 AAAATCCTAA
Statistics
Matches: 146, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
108 2 0.01
109 9 0.06
110 13 0.09
111 2 0.01
112 3 0.02
113 108 0.74
114 1 0.01
116 6 0.04
117 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (117 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACACATATTCAGGCTCACATTCATCACATTGGCCATTCGACA
Found at i:23750514 original size:47 final size:47
Alignment explanation
Indices: 23750458--23750547 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
23750448 TATCACACAT
*
23750458 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCC
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCC
*
23750505 ATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATT
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATT
23750548 AAAATCCTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCC
Found at i:23753881 original size:55 final size:55
Alignment explanation
Indices: 23753822--23753925 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
23753812 ACCACAGGTG
23753822 TTCCACACGGGCGTGTCGAACGCCCATGCTGTTTTGGCAGGCTCGACCACGATTC
1 TTCCACACGGGCGTGTCGAACGCCCATGCTGTTTTGGCAGGCTCGACCACGATTC
* * * * *
23753877 TTCCACACGGGTGTGTCGCACGCCCGTGTTGTTTTGGCAGGCTTGACCA
1 TTCCACACGGGCGTGTCGAACGCCCATGCTGTTTTGGCAGGCTCGACCA
23753926 TGGTCATATC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.26
Consensus pattern (55 bp):
TTCCACACGGGCGTGTCGAACGCCCATGCTGTTTTGGCAGGCTCGACCACGATTC
Found at i:23753941 original size:55 final size:55
Alignment explanation
Indices: 23753809--23753925 Score: 155
Period size: 55 Copynumber: 2.1 Consensus size: 55
23753799 TTTAACAAGT
* *
23753809 TCGACCAC-AGGTGTTCCACACGGGCGTGTCGAACGCCCATGCTGTTTTGGCAGGC
1 TCGACCACGA-GTCTTCCACACGGGTGTGTCGAACGCCCATGCTGTTTTGGCAGGC
* * * *
23753864 TCGACCACGATTCTTCCACACGGGTGTGTCGCACGCCCGTGTTGTTTTGGCAGGC
1 TCGACCACGAGTCTTCCACACGGGTGTGTCGAACGCCCATGCTGTTTTGGCAGGC
*
23753919 TTGACCA
1 TCGACCA
23753926 TGGTCATATC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 53 0.98
56 1 0.02
ACGTcount: A:0.15, C:0.31, G:0.29, T:0.25
Consensus pattern (55 bp):
TCGACCACGAGTCTTCCACACGGGTGTGTCGAACGCCCATGCTGTTTTGGCAGGC
Found at i:23761667 original size:21 final size:19
Alignment explanation
Indices: 23761639--23761684 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
23761629 TGGGACTAAA
23761639 TCAAAAAC-TTAGAGAATTTT
1 TCAAAAACATT-GA-AATTTT
23761659 TCGAAAAACATTGAAATTTT
1 TC-AAAAACATTGAAATTTT
23761679 TCAAAA
1 TCAAAA
23761685 CTGTAGGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.17
20 10 0.42
21 8 0.33
22 2 0.08
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.33
Consensus pattern (19 bp):
TCAAAAACATTGAAATTTT
Found at i:23770416 original size:40 final size:40
Alignment explanation
Indices: 23770354--23770575 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
23770344 ATTCGGATTG
* *
23770354 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
23770394 ATACCCAGGCTAAGTCCCGAAGGCATTTGGGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
23770434 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
23770474 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
23770514 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
23770554 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
23770576 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 16 0.10
40 149 0.90
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:23780341 original size:15 final size:16
Alignment explanation
Indices: 23780307--23780342 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
23780297 TTGGATTAAA
23780307 TTGAATGAAATTATGT
1 TTGAATGAAATTATGT
*
23780323 TTGAATGAGATTA-GT
1 TTGAATGAAATTATGT
23780338 TTGAA
1 TTGAA
23780343 ATTGTATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (16 bp):
TTGAATGAAATTATGT
Found at i:23783982 original size:30 final size:30
Alignment explanation
Indices: 23783948--23784008 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
23783938 TCCTTAACTC
23783948 AAACTTTTGAAAAATTACGA-TTTTGCCCCT
1 AAACTTTTGAAAAATTAC-ACTTTTGCCCCT
* * *
23783978 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACACTTTTGCCCCT
23784008 A
1 A
23784009 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACACTTTTGCCCCT
Found at i:23787207 original size:27 final size:27
Alignment explanation
Indices: 23787176--23787350 Score: 185
Period size: 27 Copynumber: 6.6 Consensus size: 27
23787166 TAAATTGTAC
*
23787176 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
23787203 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
23787229 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
23787257 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
23787284 AGCACTAAGTGTGCGATTTGATTACG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
23787310 -GCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
23787336 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23787351 GACTCAATAT
Statistics
Matches: 124, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
25 22 0.18
27 102 0.82
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:23787237 original size:54 final size:53
Alignment explanation
Indices: 23787176--23787350 Score: 212
Period size: 54 Copynumber: 3.3 Consensus size: 53
23787166 TAAATTGTAC
**
23787176 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATG--GCACTAAGTGTGCGAGTTGAATATGAT
* * *
23787231 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTAT--GGCACTAAGTGTGCGAGTTGAATATGAT
* * *
23787284 AGCACTAAGTGTGCGATTTGATTACGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGGCACTAAGTGTGCGAGTTGAATATGAT
*
23787336 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23787351 GACTCAATAT
Statistics
Matches: 105, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
52 39 0.37
53 1 0.01
54 64 0.61
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGACTATGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:23795320 original size:27 final size:27
Alignment explanation
Indices: 23795286--23795463 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
23795276 TAAATTGTAC
*
23795286 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
23795313 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
23795339 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
23795367 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
23795394 AGCACTAAGTGTGCGAGTTTGATTATGC
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
23795422 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
23795449 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23795464 GACTTAATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:23795347 original size:54 final size:55
Alignment explanation
Indices: 23795286--23795463 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
23795276 TAAATTGTAC
** **
23795286 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAGTTGAATATGAT
* * *
23795341 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAGTTGAATATGAT
* *
23795394 AGCACTAAGTGTGCGAGTTTGATTATGCGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGCGGCACTAAGTGTGCGAGTTGAATATGAT
*
23795449 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23795464 GACTTAATAT
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 47 0.44
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:23801883 original size:58 final size:58
Alignment explanation
Indices: 23801813--23801928 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
23801803 AATATCCCAC
23801813 CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCATATGTAT
1 CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCATATGTAT
23801871 CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCATATGTAT
1 CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCATATGTAT
23801929 TCTTTCAGTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (58 bp):
CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCATATGTAT
Found at i:23801922 original size:29 final size:29
Alignment explanation
Indices: 23801832--23801923 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
23801822 ATGTGATATG
23801832 TCATACAATATTTTAGTCAAATGCACATT
1 TCATACAATATTTTAGTCAAATGCACATT
** *** * * * *
23801861 TCATA-TGTATCCCA-TGCACATGTGATATG
1 TCATACAATATTTTAGT-CAAATG-CACATT
23801890 TCATACAATATTTTAGTCAAATGCACATT
1 TCATACAATATTTTAGTCAAATGCACATT
23801919 TCATA
1 TCATA
23801924 TGTATTCTTT
Statistics
Matches: 41, Mismatches: 18, Indels: 8
0.61 0.27 0.12
Matches are distributed among these distances:
27 1 0.02
28 9 0.22
29 21 0.51
30 9 0.22
31 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (29 bp):
TCATACAATATTTTAGTCAAATGCACATT
Found at i:23803430 original size:44 final size:42
Alignment explanation
Indices: 23803376--23803478 Score: 127
Period size: 44 Copynumber: 2.4 Consensus size: 42
23803366 TTCCGATATG
**
23803376 TGATTTCGTGTAAGACCACGTCTGGGACATTAGCATC-CATT
1 TGATTTCGTGTAAGACCACGTCTAAGACATTAGCATCGCATT
* * *
23803417 TGAGATTTACGTGTAAGACCATGTCTAAGACATTGGCATCGTATT
1 T--GATTT-CGTGTAAGACCACGTCTAAGACATTAGCATCGCATT
23803462 TGATTTCGTGTAAGACC
1 TGATTTCGTGTAAGACC
23803479 CTATCTAGGA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 11 0.21
43 10 0.19
44 27 0.51
45 4 0.08
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTAAGACATTAGCATCGCATT
Found at i:23803499 original size:42 final size:43
Alignment explanation
Indices: 23803420--23803532 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 43
23803410 ATCCATTTGA
* * * *
23803420 GATTTACGTGTAAGACCATGTCTAAGACATTGGCATCG-TATTT
1 GATTT-CGTGTAAGACCATATCTAAGACAGTGACATCGATACTT
* * *
23803463 GATTTCGTGTAAGACCCTATCTAGGATAGTGACATCGATACTT
1 GATTTCGTGTAAGACCATATCTAAGACAGTGACATCGATACTT
* * * *
23803506 GATTACATGTAAGACCACATCTGAGAC
1 GATTTCGTGTAAGACCATATCTAAGAC
23803533 GATGGCATTG
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 26 0.47
43 29 0.53
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATATCTAAGACAGTGACATCGATACTT
Found at i:23808409 original size:5 final size:5
Alignment explanation
Indices: 23808399--23808425 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
23808389 TTGTGTGTTC
23808399 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
23808426 ACAATAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:23809871 original size:60 final size:60
Alignment explanation
Indices: 23809782--23809948 Score: 158
Period size: 60 Copynumber: 2.8 Consensus size: 60
23809772 AAACAAGGAA
* *
23809782 TGCCAAGGCCTCCATTTGGT-GTGGGTAGCTCCTCAAATGTTGTTGCTAATGGCTTGGGGT
1 TGCCAAGGCCTCCATTTGGTAAT-GATAGCTCCTCAAATGTTGTTGCTAATGGCTTGGGGT
* * * ** * * *
23809842 TGCCCAGTCCTCCATTTGGTAATGATAGCTCTTCGGATGTTGCTT-TTGATTGCTTGGGGT
1 TGCCAAGGCCTCCATTTGGTAATGATAGCTCCTCAAATGTTG-TTGCTAATGGCTTGGGGT
* * * * **
23809902 TGCTAAGGCCTCCATTTGGTAAGGACAACTCCTCCCATGTTGTTGCT
1 TGCCAAGGCCTCCATTTGGTAATGATAGCTCCTCAAATGTTGTTGCT
23809949 TATGCCTTAG
Statistics
Matches: 84, Mismatches: 20, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
59 2 0.02
60 79 0.94
61 3 0.04
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (60 bp):
TGCCAAGGCCTCCATTTGGTAATGATAGCTCCTCAAATGTTGTTGCTAATGGCTTGGGGT
Found at i:23810079 original size:60 final size:60
Alignment explanation
Indices: 23809988--23810129 Score: 144
Period size: 60 Copynumber: 2.4 Consensus size: 60
23809978 TGGTGAGAGA
* * *
23809988 AGCTCCTTAAATGTTGCTT-CTGATCACTTGGGACTACCAAGG-CTTCCATTTGGTGAAGGT
1 AGCTCCTCAAATGTTG-TTGTTGATCACTTGGGACTACCAAGGCCTT-CATTTGGGGAAGGT
* * * ** ** *
23810048 CGCTCCTCAAATGTTGTTGTTGATTATTTGGGGTTGTCAAGGCCTTCATTTGGGGAGGGT
1 AGCTCCTCAAATGTTGTTGTTGATCACTTGGGACTACCAAGGCCTTCATTTGGGGAAGGT
*
23810108 AACTCCTCAAATGTTGTTGTTG
1 AGCTCCTCAAATGTTGTTGTTG
23810130 GCCACTTTGG
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
59 2 0.03
60 62 0.93
61 3 0.04
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (60 bp):
AGCTCCTCAAATGTTGTTGTTGATCACTTGGGACTACCAAGGCCTTCATTTGGGGAAGGT
Found at i:23811636 original size:40 final size:40
Alignment explanation
Indices: 23811581--23811662 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
23811571 TAAAAGAAAA
23811581 AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
1 AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
23811621 AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
1 AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
23811661 AA
1 AA
23811663 AGTAGATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (40 bp):
AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
Found at i:23811896 original size:22 final size:23
Alignment explanation
Indices: 23811871--23811916 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
23811861 CAACCAAACC
23811871 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
23811893 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
23811916 A
1 A
23811917 CGACATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:23827235 original size:40 final size:40
Alignment explanation
Indices: 23827180--23827435 Score: 374
Period size: 40 Copynumber: 6.4 Consensus size: 40
23827170 GATGATAACG
* *
23827180 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
23827220 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
23827260 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAATATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
23827300 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
23827340 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
23827380 GGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
23827420 -GGCTAAATTCCGAAGG
1 GGGCTAAGTCCCGAAGG
23827436 TACTTGGCTT
Statistics
Matches: 202, Mismatches: 12, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
39 16 0.08
40 185 0.92
41 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:23833114 original size:41 final size:41
Alignment explanation
Indices: 23833069--23833258 Score: 227
Period size: 41 Copynumber: 4.6 Consensus size: 41
23833059 AATTATTCTT
* *
23833069 TGAATTTCACATACATGCCCTTGTTTGTACTTTGATACCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
** * *
23833110 TGAATTGCACATATGTGCCCCTGTTTCTACTTTGATACCAC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
* *
23833151 TGAACTGCACATATATGCCCCTGTTTGTACTTTGATACCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
* * * * * *
23833192 TGAATTGAACATACGTGCCCTTATTTGTACTTCGGTACCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
* * *
23833233 TGAATAGCACCTACTTGCCCCTGTTT
1 TGAATTGCACATACATGCCCCTGTTT
23833259 ACACTCCGGC
Statistics
Matches: 125, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 125 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.36
Consensus pattern (41 bp):
TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
Found at i:23833193 original size:20 final size:20
Alignment explanation
Indices: 23833090--23833193 Score: 59
Period size: 20 Copynumber: 5.1 Consensus size: 20
23833080 TACATGCCCT
23833090 TGTTTGTACTTTGATACCCC
1 TGTTTGTACTTTGATACCCC
* * * *
23833110 TGAATTGCACATATG-TGCCCC
1 TG-TTTGTAC-TTTGATACCCC
* *
23833131 TGTTTCTACTTTGATACCAC
1 TGTTTGTACTTTGATACCCC
** * * *
23833151 TGAACTGCACATAT-ATGCCCC
1 TG-TTTGTAC-TTTGATACCCC
23833172 TGTTTGTACTTTGATACCCC
1 TGTTTGTACTTTGATACCCC
23833192 TG
1 TG
23833194 AATTGAACAT
Statistics
Matches: 56, Mismatches: 22, Indels: 12
0.62 0.24 0.13
Matches are distributed among these distances:
19 5 0.09
20 24 0.43
21 22 0.39
22 5 0.09
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTTTGTACTTTGATACCCC
Found at i:23836429 original size:29 final size:29
Alignment explanation
Indices: 23836397--23836452 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
23836387 ATTTAATACG
23836397 AACTTTGGAAAAATTACACTTTTGCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCTA
* * *
23836426 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGAAAAATTACACTTTTGCCC
23836453 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTGCCCTA
Found at i:23843923 original size:30 final size:30
Alignment explanation
Indices: 23843889--23843945 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
23843879 ATTTAATACG
23843889 AACTTTGGAAAAATTACACTTTTGCCCTTA
1 AACTTTGGAAAAATTACACTTTTGCCCTTA
* * *
23843919 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGAAAAATTACACTTTTGCCC
23843946 CTAGGCTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCTTA
Found at i:23849818 original size:26 final size:26
Alignment explanation
Indices: 23849709--23849810 Score: 177
Period size: 26 Copynumber: 3.9 Consensus size: 26
23849699 CATGAAATTC
23849709 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23849735 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23849761 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
23849787 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
23849811 TACTATCAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23856613 original size:37 final size:37
Alignment explanation
Indices: 23856571--23856644 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
23856561 ATTTGAACTG
*
23856571 TTTATTTGCTTATGACTTATTAAGCTATAAAAGCTTA
1 TTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTA
*
23856608 TTTATTTGCTTATGATTTACTAAGCTATAAAAGCTTA
1 TTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTA
23856645 CTTTGTGTAT
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:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (37 bp):
TTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTA
Found at i:23864540 original size:37 final size:37
Alignment explanation
Indices: 23864498--23864571 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
23864488 ATTTGAACTG
*
23864498 TTTATTTGCTTATGACTTATTAAGCTATAAAAGCTTA
1 TTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTA
23864535 TTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTA
1 TTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTA
23864572 CTCTGTGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (37 bp):
TTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTA
Found at i:23867868 original size:20 final size:18
Alignment explanation
Indices: 23867832--23867874 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
23867822 GAGATTAGTA
23867832 AAATTTTAATCTTAAGT-
1 AAATTTTAATCTTAAGTC
23867849 AAATTTTAATCATTTTAAGTC
1 AAATTTTAATC---TTAAGTC
23867870 AAATT
1 AAATT
23867875 AATATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 11 0.50
20 6 0.27
21 5 0.23
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (18 bp):
AAATTTTAATCTTAAGTC
Found at i:23872674 original size:30 final size:31
Alignment explanation
Indices: 23872640--23872698 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
23872630 ATTTTCAGAC
* *
23872640 CTAGGGGTAAAATGGTCATTTTG-CAAATGT
1 CTAGGGGCAAAATGATCATTTTGCCAAATGT
23872670 CTAGGGGCAAAATGATCATTTTGCCAAAT
1 CTAGGGGCAAAATGATCATTTTGCCAAAT
23872699 TATAAATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (31 bp):
CTAGGGGCAAAATGATCATTTTGCCAAATGT
Found at i:23876101 original size:48 final size:48
Alignment explanation
Indices: 23875999--23876552 Score: 397
Period size: 48 Copynumber: 11.6 Consensus size: 48
23875989 GAAGAAAGCT
** *
23875999 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC--A-AGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAAC-ACATATAGAGGTGTC
* *
23876043 AGTGAAAGACCATGTTTGGGACATGGCATCAACACATATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACACATATAGAGGTGTC
* * *
23876091 AGTATAAGACCATGTCTGGGACATGGCATCGACACTTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACACATATAGAGGTGTC
* * ** * * *
23876139 AGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATATATAAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACAC--ATATAGAGGTGTC
* *
23876188 TAGTGTAAGACCATGTCTGGGACAT-GCATCAGCTAC--A-AGATGTGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCAAC-ACATATAGAGGTGTC
*
23876234 AGTGTAAGACCATGTCTGGGACATGGCATCAACACATATAGAGGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACACATATAGAGGTGTC
* * ** *
23876282 AGTATAAGACCATGTGTGGGACATGGCATCGGCACTTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACACATATAGAGGTGTC
* * ** * *
23876330 AGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATAT-GTAAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACAC--ATATAG-AGGTGTC
* ** * * *
23876379 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGA--TAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATC-AACAC-ATATAGAGGT-GTC
* ** * * *
23876429 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGA--TAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-AACAC-ATATAGAGGT-GTC
* * * * * * *
23876478 AGTGTAAGACCATGTTTGGGACATGGCATC--GACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACACAT-ATAGAGGTGTC
*
23876525 AGTGTAAGACCATGTCTGAGACATGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCA
23876553 CCGGTATTAT
Statistics
Matches: 428, Mismatches: 57, Indels: 47
0.80 0.11 0.09
Matches are distributed among these distances:
44 8 0.02
45 46 0.11
46 19 0.04
47 30 0.07
48 163 0.38
49 88 0.21
50 70 0.16
51 4 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAACACATATAGAGGTGTC
Found at i:23876234 original size:191 final size:191
Alignment explanation
Indices: 23875950--23876404 Score: 772
Period size: 191 Copynumber: 2.4 Consensus size: 191
23875940 TTGTGAGAGC
* * ** * *
23875950 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-AGAA-AGCTAGTGTAAGA-CATG
1 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATATATAAGAGCTAGTGTAAGACCATG
* *
23876012 TCTGGGACATGCATCGGCTACAAGATGTGTCAGTGAAAGACCATGTTTGGGACATGGCATCAACA
66 TCTGGGACATGCATCAGCTACAAGATGTGTCAGTGAAAGACCATGTCTGGGACATGGCATCAACA
23876077 CATATAGAGGTGTCAGTATAAGACCATGTCTGGGACATGGCATCGACACTTATAGAGGTGT
131 CATATAGAGGTGTCAGTATAAGACCATGTCTGGGACATGGCATCGACACTTATAGAGGTGT
23876138 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATATATAAGAGCTAGTGTAAGACCATG
1 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATATATAAGAGCTAGTGTAAGACCATG
*
23876203 TCTGGGACATGCATCAGCTACAAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACA
66 TCTGGGACATGCATCAGCTACAAGATGTGTCAGTGAAAGACCATGTCTGGGACATGGCATCAACA
* * *
23876268 CATATAGAGGTGTTAGTATAAGACCATGTGTGGGACATGGCATCGGCACTTATAGAGGTGT
131 CATATAGAGGTGTCAGTATAAGACCATGTCTGGGACATGGCATCGACACTTATAGAGGTGT
*
23876329 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATATGTAAGAGCTAGTGTAAGACCATG
1 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATATATAAGAGCTAGTGTAAGACCATG
23876394 TCTGGGACATG
66 TCTGGGACATG
23876405 GCGTCGGCCT
Statistics
Matches: 251, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
188 36 0.14
189 3 0.01
190 13 0.05
191 199 0.79
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (191 bp):
CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATATATAAGAGCTAGTGTAAGACCATG
TCTGGGACATGCATCAGCTACAAGATGTGTCAGTGAAAGACCATGTCTGGGACATGGCATCAACA
CATATAGAGGTGTCAGTATAAGACCATGTCTGGGACATGGCATCGACACTTATAGAGGTGT
Found at i:23876274 original size:143 final size:145
Alignment explanation
Indices: 23876043--23876316 Score: 410
Period size: 143 Copynumber: 1.9 Consensus size: 145
23876033 AAGATGTGTC
*
23876043 AGTGAAAGACCATGTTTGGGACATGGCATCAACACATATAGAGGTGTCAGTATAAGACCATGTCT
1 AGTGAAAGACCATGTCTGGGACATGGCATCAACACA-ATAGAGGTGTCAGTATAAGACCATGTCT
* * * * *
23876108 GGGACATGGCATCGACACTTATAGAGGTGTCAGTGTGAGACCATGTTTGGGACATGGCATCGGCA
65 GGGACATGGCATCAACACATATAGAGGTGTCAGTATAAGACCATGTGTGGGACATGGCATCGGCA
23876173 CGGATATATAAGAGCT
130 CGGATATATAAGAGCT
* * * *
23876189 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCTAC-A-AGATGTGTCAGTGTAAGACCATGTCT
1 AGTGAAAGACCATGTCTGGGACATGGCATCAAC-ACAATAGAGGTGTCAGTATAAGACCATGTCT
*
23876251 GGGACATGGCATCAACACATATAGAGGTGTTAGTATAAGACCATGTGTGGGACATGGCATCGGCA
65 GGGACATGGCATCAACACATATAGAGGTGTCAGTATAAGACCATGTGTGGGACATGGCATCGGCA
23876316 C
130 C
23876317 TTATAGAGGT
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
143 84 0.72
144 1 0.01
145 7 0.06
146 24 0.21
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (145 bp):
AGTGAAAGACCATGTCTGGGACATGGCATCAACACAATAGAGGTGTCAGTATAAGACCATGTCTG
GGACATGGCATCAACACATATAGAGGTGTCAGTATAAGACCATGTGTGGGACATGGCATCGGCAC
GGATATATAAGAGCT
Found at i:23876444 original size:49 final size:49
Alignment explanation
Indices: 23875905--23876552 Score: 327
Period size: 48 Copynumber: 13.6 Consensus size: 49
23875895 ATTGTGTGCT
* * * * * *
23875905 AGTGTAAGA-CATGTCTAGGACAT-GCATTGGCCAC-ATTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATAGTC
* * *** *
23875951 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GAAGAAAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATAGTC
***
23875998 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTAC-AAGATG-T-GTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATTTTGATAGTC
* * ** * * *
23876043 AGTGAAAGACCATGTTTGGGACATGGCATC-AACAC-ATATAGAGGT-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGA--TAGTC
* * * *** *
23876091 AGTATAAGACCATGTCTGGGACATGGCATCGACACT-TATAGAGGT-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATTTTGATAGTC
* * * * * *
23876139 AGTGTGAGACCATGTTTGGGACATGGCATCGGCAC-GGATATATAAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT-TTTGATAGTC
* ***
23876188 TAGTGTAAGACCATGTCTGGGACAT-GCATCAG-CTAC-AAGATG-T-GTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATTTTGATAGTC
** * * * *
23876234 AGTGTAAGACCATGTCTGGGACATGGCATC-AACAC-ATATAGAGGT-GTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGA--TAGTC
* * * *** *
23876282 AGTATAAGACCATGTGTGGGACATGGCATCGGCACT-TATAGAGGT-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATTTTGATAGTC
* * * * * *
23876330 AGTGTGAGACCATGTTTGGGACATGGCATCGGCAC-GGATATGTAAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT-TTTGATAGTC
*
23876379 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATAGTC
*
23876429 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATAGTC
* * * * *
23876478 AGTGTAAGACCATGTTTGGGACATGGCATC-GACTTGA--TGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGAT-AGTC
*
23876525 AGTGTAAGACCATGTCTGAGACATGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCA
23876553 CCGGTATTAT
Statistics
Matches: 478, Mismatches: 86, Indels: 75
0.75 0.13 0.12
Matches are distributed among these distances:
44 9 0.02
45 47 0.10
46 36 0.08
47 60 0.13
48 162 0.34
49 94 0.20
50 70 0.15
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATAGTC
Found at i:23884064 original size:48 final size:47
Alignment explanation
Indices: 23884005--23884425 Score: 269
Period size: 47 Copynumber: 8.9 Consensus size: 47
23883995 ACCACATTAT
* * *
23884005 GAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATGGAGA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
* *
23884052 CGAGAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGAT-
1 -GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-G-GATA
* **
23884099 GTA-AGCTAGTGTAAGA-TATGTCTGGGACAT-GCATCGGC-TACA-A
1 G-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
* * *
23884142 GATGTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACATGTATA
1 GA-GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
* * * *
23884190 GAG-GTGTCAGTGTAAGACCATGTTTGGG-CATGGCATTGGCACT-TATA
1 GAGAG-CT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGGATA
* * * * *
23884237 GAGGTGTTAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATA
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
* * * *
23884285 TGTAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTTGATTTCA
1 -G--AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGA--T-A
* * * * * *
23884338 -ATAG-TCAGTGTAAGACCATGTTTGGGACATGGTATCGAC-TTGATG
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
* ** *
23884383 GATGAGCCAGCATAAGACCATGTCTGGGACATGACATCGGCAT
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
23884426 TATACCCTAT
Statistics
Matches: 298, Mismatches: 46, Indels: 58
0.74 0.11 0.14
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 10 0.03
45 14 0.05
46 53 0.18
47 83 0.28
48 64 0.21
49 33 0.11
50 34 0.11
51 1 0.00
52 1 0.00
53 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (47 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
Found at i:23884265 original size:95 final size:98
Alignment explanation
Indices: 23883966--23884376 Score: 285
Period size: 95 Copynumber: 4.3 Consensus size: 98
23883956 ATTGTGTGCT
* * *
23883966 AGTGTAAGA-CATGTTTGGGACAT-GTATCAACCAC--ATTATG--AGAGCCAGTGTAAGACCAT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGA-CACGGA-TATGTAAGAGCTAGTGTAAGACCAT
* * * * * *
23884025 ATCTGGGACATGGCATCGGCATGGA-GACGAGAG-C
64 GTCTGGGACATGGCATTGGCCTTGATTAC-AGTGTC
* * * * * *
23884059 TAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-CTCGAGATGT-A-AGCTAGTGTAAGA-TAT
1 -AGTGTAAGACCATGTTTGGGACATGGCATCGACAC-GGATATGTAAGAGCTAGTGTAAGACCAT
* ** *
23884118 GTCTGGGACAT-GCATCGG-C-T-ACAAGATGTGTC
64 GTCTGGGACATGGCATTGGCCTTGATTACA-GTGTC
* * * * *
23884150 AGTGTAAGACCATGTCTGGGACATGGCATCGACATGTATA-G-AGGTG-TCAGTGTAAGACCATG
1 AGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTAAGAGCT-AGTGTAAGACCATG
* * *
23884212 TTTGGG-CATGGCATTGGCACTT-A-TAGAGGTGTT
65 TCTGGGACATGGCATTGGC-CTTGATTACA-GTGTC
23884245 AGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTAAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTAAGAGCTAGTGTAAGACCATGT
* * *
23884310 CTGGGACATGGCGTTGGCCTTGATTTCAATAGTC
66 CTGGGACATGGCATTGGCCTTGATTACAGT-GTC
*
23884344 AGTGTAAGACCATGTTTGGGACATGGTATCGAC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGAC
23884377 TTGATGGATG
Statistics
Matches: 252, Mismatches: 40, Indels: 45
0.75 0.12 0.13
Matches are distributed among these distances:
89 2 0.01
90 12 0.05
91 16 0.06
92 30 0.12
93 27 0.11
94 40 0.16
95 47 0.19
96 3 0.01
97 25 0.10
98 14 0.06
99 36 0.14
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (98 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTAAGAGCTAGTGTAAGACCATGT
CTGGGACATGGCATTGGCCTTGATTACAGTGTC
Found at i:23888039 original size:19 final size:19
Alignment explanation
Indices: 23888015--23888077 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
23888005 TAATTCAACT
23888015 AAAACATGTATCAATATTA
1 AAAACATGTATCAATATTA
*
23888034 AAAACAT-CAGT-AA-ATTA
1 AAAACATGTA-TCAATATTA
*
23888051 ACTAAA-ATGTATCAATGTTA
1 A--AAACATGTATCAATATTA
23888071 AAAACAT
1 AAAACAT
23888078 CAATAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
17 5 0.15
18 9 0.26
19 16 0.47
20 4 0.12
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (19 bp):
AAAACATGTATCAATATTA
Done.