Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 143 of 276
Found at i:46549346 original size:241 final size:241
Alignment explanation
Indices: 46548778--46549320 Score: 935
Period size: 241 Copynumber: 2.3 Consensus size: 241
46548768 TTAGTTTACC
* * * *
46548778 AAATTACGGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCTGATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
* * *
46548842 ATATCCTCGATTTGTAAAATTACCGAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
66 ATATCCTCGATTTATAAAATTATCAAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
*
46548907 TGTAAAATTACCGAAATACCGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
131 TGTAAAATTACCGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
46548972 GAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
196 GAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
46549018 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
* * *
46549083 ATATCCTCGATTTATAAAATTATCAAAATATCGTTGATTGTAAAATTACTGAAATACCCTCGATT
66 ATATCCTCGATTTATAAAATTATCAAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
*
46549148 TGTAAAATTACTGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
131 TGTAAAATTACCGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
* *
46549213 GAAATACCCTCAGTTTGTAAAATTATTGAAATACCCTCGATTTGTA
196 GAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
* *
46549259 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACAGAATTACC
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACC
46549321 GTTTTACCCT
Statistics
Matches: 286, Mismatches: 16, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
240 16 0.06
241 270 0.94
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (241 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
ATATCCTCGATTTATAAAATTATCAAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
TGTAAAATTACCGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
GAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
Found at i:46549355 original size:27 final size:27
Alignment explanation
Indices: 46548778--46549356 Score: 583
Period size: 27 Copynumber: 21.6 Consensus size: 27
46548768 TTAGTTTACC
* * *
46548778 AAATTACGGAAATACCC-CCAGTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
46548804 AAATTAC-CAAAGTACCC-CTGATTTATA
1 AAATTACTGAAA-TACCCTC-GATTTGTA
** *
46548831 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
46548858 AAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
46548884 AAATTACTGAAATACCATCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
46548911 AAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
46548937 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
46548964 AAATTA-TCGAAATACCCTC-AGTTTGCA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
46548991 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
46549018 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
46549045 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** * *
46549072 AAATTACCCAAATATCCTCGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
46549099 AAATTA-TCAAAATATCGTTGA-TTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
46549125 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
**
46549152 AAATTACTGAAATACAGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
46549178 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
46549205 AAATTA-TCGAAATACCCTC-AGTTTGTA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
*
46549232 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
46549259 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * **
46549286 AAATTAC-CAAAGTACCCCCGATTTACA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* * *** **
46549313 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
*
46549340 AAATTATTGAAATACCC
1 AAATTACTGAAATACCC
46549357 CTGTAGGGTA
Statistics
Matches: 471, Mismatches: 60, Indels: 43
0.82 0.10 0.07
Matches are distributed among these distances:
25 3 0.01
26 112 0.24
27 343 0.73
28 13 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:46549779 original size:27 final size:27
Alignment explanation
Indices: 46549348--46549775 Score: 552
Period size: 27 Copynumber: 15.9 Consensus size: 27
46549338 CAAAATTATT
* *
46549348 GAAATACCCCTGTAGGGTAGAAATACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
46549375 GAAATACTCTTATAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * **
46549402 GAAATACCCTTGTAGAGTAGAATTATT
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
46549429 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
46549456 GAAATACCCTTTTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
46549483 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * * *
46549510 AAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
46549537 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
46549564 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
46549591 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
46549618 GAAATACCCCTGTAGGATAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
46549645 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
46549672 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
46549699 AAAATACCCCTGTAGGATAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
46549726 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
46549753 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCTTGTAGGGTAGAAAT
46549776 TACCATTTTG
Statistics
Matches: 353, Mismatches: 48, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
26 4 0.01
27 349 0.99
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAAATACC
Found at i:46550259 original size:22 final size:22
Alignment explanation
Indices: 46550207--46550271 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
46550197 TTAAAGCCTT
* *
46550207 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
46550229 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
46550251 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
46550272 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:46550469 original size:26 final size:26
Alignment explanation
Indices: 46550422--46550509 Score: 106
Period size: 26 Copynumber: 3.4 Consensus size: 26
46550412 TGCCACGTAT
* *
46550422 TCTGTT-TAGTGGCTTTGTCACATTA
1 TCTGTTCTAGTGGCTCTGTCACAATA
*
46550447 TCTGTTCTAGTGGCTCTGCCACAATA
1 TCTGTTCTAGTGGCTCTGTCACAATA
* **
46550473 TCTGTATCTGGTAACTCTGTCACAATA
1 TCTGT-TCTAGTGGCTCTGTCACAATA
46550500 TCTGTTCTAG
1 TCTGTTCTAG
46550510 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
25 6 0.11
26 25 0.47
27 22 0.42
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (26 bp):
TCTGTTCTAGTGGCTCTGTCACAATA
Found at i:46550496 original size:27 final size:26
Alignment explanation
Indices: 46550437--46550509 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 26
46550427 TTAGTGGCTT
* **
46550437 TGTCACATTATCTGTTCTAGTGGCTC
1 TGTCACAATATCTGTTCTAGTAACTC
* *
46550463 TGCCACAATATCTGTATCTGGTAACTC
1 TGTCACAATATCTGT-TCTAGTAACTC
46550490 TGTCACAATATCTGTTCTAG
1 TGTCACAATATCTGTTCTAG
46550510 CAGCCATGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 17 0.44
27 22 0.56
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (26 bp):
TGTCACAATATCTGTTCTAGTAACTC
Found at i:46550636 original size:6 final size:6
Alignment explanation
Indices: 46550627--46550714 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
46550617 TTGCATTCAC
* *
46550627 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
46550677 ATTCTG ATTCTA ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
46550715 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:46550658 original size:25 final size:25
Alignment explanation
Indices: 46550630--46550693 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
46550620 CATTCACATT
*
46550630 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
46550655 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
*
46550680 CTGATTCTAATTCT
1 CTGATTCTGATTCT
46550694 CATTTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:46556910 original size:19 final size:19
Alignment explanation
Indices: 46556886--46556923 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
46556876 ACATTATCAA
46556886 GTATTT-TTTTTATGAATAT
1 GTATTTGTTTTTAT-AATAT
46556905 GTATTTGGTTTTTATAATA
1 GTATTT-GTTTTTATAATA
46556924 AGAAATGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (19 bp):
GTATTTGTTTTTATAATAT
Found at i:46559070 original size:21 final size:21
Alignment explanation
Indices: 46559044--46559085 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
46559034 AAAGAGCTGA
46559044 TAAAATCCCATAGAAAGCCTG
1 TAAAATCCCATAGAAAGCCTG
46559065 TAAAATCCCATAGAAAGCCTG
1 TAAAATCCCATAGAAAGCCTG
46559086 CCATTTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.24, G:0.14, T:0.19
Consensus pattern (21 bp):
TAAAATCCCATAGAAAGCCTG
Found at i:46565485 original size:19 final size:20
Alignment explanation
Indices: 46565453--46565493 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
46565443 ACTCAATTCA
* *
46565453 AAAAAATTTCAAATTAAATT
1 AAAAAATTTAAAATAAAATT
46565473 AAAAAA-TTAAAATAAAATT
1 AAAAAATTTAAAATAAAATT
46565492 AA
1 AA
46565494 TCAACTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAATTTAAAATAAAATT
Found at i:46565771 original size:26 final size:26
Alignment explanation
Indices: 46565742--46565791 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
46565732 TAGGGTAAAT
46565742 TATATTGATA-TTCATTTAATTATTCG
1 TATATT-ATATTTCATTTAATTATTCG
* *
46565768 TATATTTTATTTTATTTAATTATT
1 TATATTATATTTCATTTAATTATT
46565792 TAATTATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (26 bp):
TATATTATATTTCATTTAATTATTCG
Found at i:46571349 original size:2 final size:2
Alignment explanation
Indices: 46571342--46571380 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
46571332 CAAGAGAAAT
46571342 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
46571381 TACATACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:46582589 original size:8 final size:8
Alignment explanation
Indices: 46582571--46582614 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
46582561 CGTAGATCGG
46582571 CAAAA-GC
1 CAAAATGC
46582578 CAAAATGC
1 CAAAATGC
46582586 CAAAATGC
1 CAAAATGC
*
46582594 CGAAATGC
1 CAAAATGC
46582602 CGAAAA-GC
1 C-AAAATGC
46582610 CAAAA
1 CAAAA
46582615 GTTTGGCTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 9 0.27
8 21 0.64
9 3 0.09
ACGTcount: A:0.52, C:0.25, G:0.16, T:0.07
Consensus pattern (8 bp):
CAAAATGC
Found at i:46582857 original size:29 final size:29
Alignment explanation
Indices: 46582825--46582949 Score: 128
Period size: 29 Copynumber: 4.3 Consensus size: 29
46582815 GCGAGCATGA
* *
46582825 ATATGCATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* * * *
46582854 ATATGAATTTGAATTGGGCCTGATAGGCT
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* * *
46582883 ATATAAATGTGAATTGGGCCTGATGGGCT
1 ATATGAATGTGAATTGGGCCTAATGGGCC
*
46582912 ATATGAATGAG-ATTGGGCC-AAGTGGGCC
1 ATATGAATGTGAATTGGGCCTAA-TGGGCC
*
46582940 ATATGCATGT
1 ATATGAATGT
46582950 ATGTAGGGGT
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
27 1 0.01
28 21 0.26
29 58 0.73
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTAATGGGCC
Found at i:46589929 original size:21 final size:20
Alignment explanation
Indices: 46589892--46589934 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
46589882 ATTAATAAGC
* *
46589892 ATGAATGTTTTATGATAGATT
1 ATGAATGTTTGACGATAG-TT
46589913 ATGAATGTTTGACGATAGTT
1 ATGAATGTTTGACGATAGTT
46589933 AT
1 AT
46589935 ACAAGTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (20 bp):
ATGAATGTTTGACGATAGTT
Found at i:46600386 original size:21 final size:20
Alignment explanation
Indices: 46600360--46600398 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
46600350 ATGTATTTTG
46600360 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAG-TTATGA
46600381 ATGTTTGATGATAGTTAT
1 ATGTTTGATGATAGTTAT
46600399 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (20 bp):
ATGTTTGATGATAGTTATGA
Found at i:46600408 original size:21 final size:21
Alignment explanation
Indices: 46600360--46600406 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
46600350 ATGTATTTTG
*
46600360 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAGATTATCA
46600381 ATGTTTGATGATAG-TTATACA
1 ATGTTTGATGATAGATTAT-CA
46600402 A-GTTT
1 ATGTTT
46600407 TGTTAAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (21 bp):
ATGTTTGATGATAGATTATCA
Found at i:46602790 original size:38 final size:38
Alignment explanation
Indices: 46602729--46602803 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
46602719 ATACCTAAAA
46602729 TGACCAGTTGATAGTGTGACGATGCTCTAATGATCTCT
1 TGACCAGTTGATAGTGTGACGATGCTCTAATGATCTCT
* *
46602767 TGACTAGTTGATAGTGTGTCGATGCTCTAATGATCTC
1 TGACCAGTTGATAGTGTGACGATGCTCTAATGATCTC
46602804 CAACCTTCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (38 bp):
TGACCAGTTGATAGTGTGACGATGCTCTAATGATCTCT
Found at i:46606012 original size:37 final size:37
Alignment explanation
Indices: 46605962--46606040 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
46605952 TTATTACGAA
* * *
46605962 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
46605999 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
46606036 GTCTT
1 GTCTT
46606041 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:46606304 original size:47 final size:47
Alignment explanation
Indices: 46606159--46606490 Score: 513
Period size: 47 Copynumber: 7.1 Consensus size: 47
46606149 CCCTTCGGGA
* * * * * * *
46606159 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46606206 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46606252 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46606299 CTTATCACATATATACACTTTCACACTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46606346 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46606393 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46606440 CTTATCAAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46606487 CTTA
1 CTTA
46606491 CTATCATTTC
Statistics
Matches: 262, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
46 40 0.15
47 222 0.85
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46609963 original size:40 final size:38
Alignment explanation
Indices: 46609910--46610048 Score: 125
Period size: 40 Copynumber: 3.5 Consensus size: 38
46609900 CATGATTACT
* * *
46609910 CTTCGGGATTTAGCACGGATATATCACTAGCACGAATGC
1 CTTCGGAACTTAGCCCGGATATATCACTAGCAC-AATGC
* * *
46609949 TCTTCGGAACTTAGCCCGGATTTAGTAACTCGCACCAATGC
1 -CTTCGGAACTTAGCCCGGATATA-TCACTAGCA-CAATGC
* * * *
46609990 CTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACAATGC
*
46610030 CTTCGGGACTTAGCCCGGA
1 CTTCGGAACTTAGCCCGGA
46610049 CATCATTCGA
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
40 62 0.78
41 16 0.20
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (38 bp):
CTTCGGAACTTAGCCCGGATATATCACTAGCACAATGC
Found at i:46625968 original size:28 final size:28
Alignment explanation
Indices: 46625930--46626004 Score: 141
Period size: 28 Copynumber: 2.7 Consensus size: 28
46625920 AGTGAATAAC
46625930 ACAGTCTGGGCCTAAGCCCAGATCAGTA
1 ACAGTCTGGGCCTAAGCCCAGATCAGTA
*
46625958 ACAGTCTGGGCCTAAGCCCAGATCGGTA
1 ACAGTCTGGGCCTAAGCCCAGATCAGTA
46625986 ACAGTCTGGGCCTAAGCCC
1 ACAGTCTGGGCCTAAGCCC
46626005 TATTTAGTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.25, C:0.31, G:0.27, T:0.17
Consensus pattern (28 bp):
ACAGTCTGGGCCTAAGCCCAGATCAGTA
Found at i:46626028 original size:33 final size:33
Alignment explanation
Indices: 46625986--46626112 Score: 155
Period size: 33 Copynumber: 3.8 Consensus size: 33
46625976 CAGATCGGTA
* **
46625986 ACAGTCTGGGCCTAAGCCCTATTTAGTATCAAT
1 ACAGTCTGGGCCTTAGCCCTATACAGTATCAAT
* *
46626019 ACAGTCTGGGCCTTAGTCCTATACAGTATCAGT
1 ACAGTCTGGGCCTTAGCCCTATACAGTATCAAT
* * * *
46626052 ACAGTCTGGGCCTTAGCCTTGTACAGTATTAGT
1 ACAGTCTGGGCCTTAGCCCTATACAGTATCAAT
* *
46626085 ACAGTCCGGGCCATAGCCCTATACAGTA
1 ACAGTCTGGGCCTTAGCCCTATACAGTA
46626113 ATAGTGTGGG
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 81 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (33 bp):
ACAGTCTGGGCCTTAGCCCTATACAGTATCAAT
Found at i:46626064 original size:66 final size:66
Alignment explanation
Indices: 46625986--46626143 Score: 164
Period size: 66 Copynumber: 2.5 Consensus size: 66
46625976 CAGATCGGTA
** * * *
46625986 ACAGTCTGGGCCTAAGCCCTATTTAGTATCAATACAGTCTGGGCCTTAGTCCTATACAGTATCAG
1 ACAGTCTGGGCCTAAGCCCTATACAGTATCAATACAGTCCGGGCCATAGCCCTATACAGTATCAG
46626051 T
66 T
* * * * *
46626052 ACAGTCTGGGCCTTAGCCTTGTACAGTATTAGTACAGTCCGGGCCATAGCCCTATACAGTA--A-
1 ACAGTCTGGGCCTAAGCCCTATACAGTATCAATACAGTCCGGGCCATAGCCCTATACAGTATCAG
46626114 T
66 T
* * *
46626115 --AGTGTGGGCCTAAGCCCAATGCAGTATCA
1 ACAGTCTGGGCCTAAGCCCTATACAGTATCA
46626144 GTATAGTGTA
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
61 22 0.29
63 1 0.01
64 1 0.01
66 51 0.68
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (66 bp):
ACAGTCTGGGCCTAAGCCCTATACAGTATCAATACAGTCCGGGCCATAGCCCTATACAGTATCAG
T
Found at i:46626334 original size:27 final size:27
Alignment explanation
Indices: 46626304--46626382 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
46626294 TGCCAGAAAT
*
46626304 AGTAAATGTGGCAAAGCCA-CATGTATC
1 AGTAAATGTGGCAAAGCCACCA-GTAAC
* *
46626331 AGTAATTGTGGCATAGCCACCAGTAAC
1 AGTAAATGTGGCAAAGCCACCAGTAAC
* * *
46626358 AGTAAATGTGACATAGTCACCAGTA
1 AGTAAATGTGGCAAAGCCACCAGTA
46626383 CCGAACTTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 43 0.96
28 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (27 bp):
AGTAAATGTGGCAAAGCCACCAGTAAC
Found at i:46626822 original size:27 final size:27
Alignment explanation
Indices: 46626521--46626824 Score: 421
Period size: 27 Copynumber: 11.3 Consensus size: 27
46626511 AGGCATAATC
*
46626521 GTCATTTTAC-CATACAGGGGTATTACG
1 GTCATTTTACTC-TACAGGGGCATTACG
*
46626548 ATCATTTTACTCTACAGGGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
* *
46626575 ATCATTTTACTCTACAGGGGAATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
*
46626602 GTCATTTTACTCTACAAGGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
*
46626629 GTCATTTCACTCTACAGGGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
* **
46626656 GTCATTTTACTTTATGGGGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
**
46626683 GTCATTTTACTCTATGGGGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
* *
46626710 GTCATTTTACTCTACAAGGGCATTACA
1 GTCATTTTACTCTACAGGGGCATTACG
*
46626737 TTCATTTTACTCTACAGGGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
*
46626764 ATCATTTTACTCTACAGGGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
* * **
46626791 ATCATTTTACTCTACAAGGGCATTATA
1 GTCATTTTACTCTACAGGGGCATTACG
46626818 GTCATTT
1 GTCATTT
46626825 CACGACCTCT
Statistics
Matches: 251, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
27 250 1.00
28 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GTCATTTTACTCTACAGGGGCATTACG
Found at i:46629139 original size:10 final size:10
Alignment explanation
Indices: 46629097--46629139 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
46629087 AAAAGTAACC
*
46629097 AAAATTAATC
1 AAAATTAATT
46629107 AAAATTAATTAT
1 AAAATTAA-T-T
46629119 AAAATTAATT
1 AAAATTAATT
*
46629129 AAAATTCATT
1 AAAATTAATT
46629139 A
1 A
46629140 TATTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 19 0.66
11 2 0.07
12 8 0.28
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAATTAATT
Found at i:46629150 original size:22 final size:22
Alignment explanation
Indices: 46629097--46629141 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
46629087 AAAAGTAACC
*
46629097 AAAATTAATCAAAATTAATTAT
1 AAAATTAATTAAAATTAATTAT
*
46629119 AAAATTAATTAAAATTCATTAT
1 AAAATTAATTAAAATTAATTAT
46629141 A
1 A
46629142 TTAATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAATTAATTAAAATTAATTAT
Found at i:46632342 original size:48 final size:48
Alignment explanation
Indices: 46632270--46632943 Score: 1078
Period size: 48 Copynumber: 14.0 Consensus size: 48
46632260 CAAGATAAAT
* * * * *
46632270 ATATATATGTGTGGTAAAGTCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
46632318 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
46632366 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * * *
46632414 ATATATATGTGTGGTAAATCCGAATGGCTAGTGTGATATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
46632462 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
46632510 ATATGTATATGTGGTAAAGCCGAATGCCTAGGGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
46632558 ATATGTATATGTGGTAAAGCCGAATGCCTAGGGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
46632606 ATATGTATATGTGGTAAAGCCGAATGCCTAGGGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
46632654 ATATGTATATGTGGTAAAGCCGAATGCCTAGGGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
46632702 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
46632750 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGATATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
46632798 ATATGTATATGTGGTAAAGCCGAATGGCTAGAGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
46632846 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
46632894 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
46632942 AT
1 AT
46632944 GTGTGTATAT
Statistics
Matches: 590, Mismatches: 36, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 590 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:46633137 original size:37 final size:37
Alignment explanation
Indices: 46633084--46633186 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
46633074 GGAAATATAT
46633084 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
46633121 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
46633158 TCCGGGTAAGACCTGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
46633187 GTACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:46641139 original size:40 final size:39
Alignment explanation
Indices: 46641054--46641144 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 39
46641044 ATATGTTCGA
* * *
46641054 CACTAAGTCTGCGATTTGAAATAGCTTCGGCTATAAATAG
1 CACTAAGTGTGAGAATTGAAATAGCTTCGGCTAT-AATAG
* *
46641094 TACTAAGTGTGAGAATTGGAATAGCTTCGGCTAT-ATGAGG
1 CACTAAGTGTGAGAATTGAAATAGCTTCGGCTATAAT-A-G
46641134 CACTAAGTGTG
1 CACTAAGTGTG
46641145 CGATACCAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.05
39 1 0.02
40 40 0.93
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (39 bp):
CACTAAGTGTGAGAATTGAAATAGCTTCGGCTATAATAG
Found at i:46644444 original size:40 final size:40
Alignment explanation
Indices: 46644400--46644483 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
46644390 GTGATGTACA
* *
46644400 TAGCTGAAGCTAT-CTCAAATCGCACACTAAGTGCCAAATT
1 TAGCTGAAGCTATAC-CAAACCACACACTAAGTGCCAAATT
* * *
46644440 TAGCTGAAGCTATACCGAACCACGCACTAAGTGCCATATT
1 TAGCTGAAGCTATACCAAACCACACACTAAGTGCCAAATT
46644480 TAGC
1 TAGC
46644484 CAATATATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 37 0.97
41 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
TAGCTGAAGCTATACCAAACCACACACTAAGTGCCAAATT
Found at i:46647970 original size:27 final size:26
Alignment explanation
Indices: 46647940--46648017 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 26
46647930 GGGCATAATC
46647940 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
* *
46647967 GTCACTTTACCCCACAGGGGTATTACG
1 GTCATTTTA-CCTACAGGGGTATTACG
* *
46647994 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-CAGGGGTATT
46648018 TTAGTCATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.07
27 38 0.88
28 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:46648246 original size:27 final size:27
Alignment explanation
Indices: 46648062--46648331 Score: 170
Period size: 27 Copynumber: 9.9 Consensus size: 27
46648052 TATACAAACC
* * **
46648062 AAGGGCATTTCAGTAATTTTTCAAACC
1 AAGGGTATTTCAGTAATTTTACAAATT
* * *
46648089 AATGGTATTTCTA-TAATTTTTAGAAAGTC
1 AAGGGTATTTC-AGTAA-TTTTACAAA-TT
* * ** *
46648118 AAGGGTATTTCTGTAATTATGTAAATC
1 AAGGGTATTTCAGTAATTTTACAAATT
* *
46648145 AGGGGTATTTCTA-TAATTTTCCAAATT
1 AAGGGTATTTC-AGTAATTTTACAAATT
* *
46648172 AAGGGTATTTTAGTAATTTTCCAAATT
1 AAGGGTATTTCAGTAATTTTACAAATT
**
46648199 AAGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTCAGTAATTTTACAAATT
* * *
46648226 GAGGGTATTTCAATAATTTTAC-AAGT
1 AAGGGTATTTCAGTAATTTTACAAATT
** * **
46648252 CGGAGGTATTTCAGTAATTTTATAGGTT
1 AAG-GGTATTTCAGTAATTTTACAAATT
* * * *
46648280 GAGGGTGTTTC-GATAATTTCACAAACT
1 AAGGGTATTTCAG-TAATTTTACAAATT
**
46648307 AAGGGTATTTTGGTAATTTTACAAA
1 AAGGGTATTTCAGTAATTTTACAAA
46648332 CCAGAGGTAT
Statistics
Matches: 189, Mismatches: 44, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
26 6 0.03
27 152 0.80
28 17 0.09
29 14 0.07
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTCAGTAATTTTACAAATT
Found at i:46648260 original size:81 final size:81
Alignment explanation
Indices: 46648055--46648353 Score: 196
Period size: 81 Copynumber: 3.7 Consensus size: 81
46648045 TGGTAAATAT
* * * * * *
46648055 ACAAACCAAGGGCATTTCAGTAATTTTTCAAACCA-ATGGTATTTCTA-TAATTTTTAGAAAGTC
1 ACAAACTAAGGGTATTTCAATAATTTTACAAACCAGA-GGTATTT-TAGTAA-TTTTACAAA-TT
46648118 AAGGGTATTTCTG-TAATTAT-
62 AAGGGTATTTC-GATAATT-TC
** * * * ** *
46648138 GTAAA-TCAGGGGTATTTCTATAATTTTCCAAATTA-AGGGTATTTTAGTAATTTTCCAAATTAA
1 ACAAACT-AAGGGTATTTCAATAATTTTACAAACCAGA-GGTATTTTAGTAATTTTACAAATTAA
* * *
46648201 GGGTATTTTGGTAATTTT
64 GGGTATTTCGATAATTTC
* * ** * * * ** *
46648219 ACAAATTGAGGGTATTTCAATAATTTTACAAGTCGGAGGTATTTCAGTAATTTTATAGGTTGAGG
1 ACAAACTAAGGGTATTTCAATAATTTTACAAACCAGAGGTATTTTAGTAATTTTACAAATTAAGG
*
46648284 GTGTTTCGATAATTTC
66 GTATTTCGATAATTTC
*** *
46648300 ACAAACTAAGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGGTAATTTT
1 ACAAACTAAGGGTATTTCAATAATTTTACAAACCAGAGGTATTTTAGTAATTTT
46648354 GTAAACCAAG
Statistics
Matches: 166, Mismatches: 44, Indels: 14
0.74 0.20 0.06
Matches are distributed among these distances:
80 2 0.01
81 118 0.71
82 11 0.07
83 35 0.21
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (81 bp):
ACAAACTAAGGGTATTTCAATAATTTTACAAACCAGAGGTATTTTAGTAATTTTACAAATTAAGG
GTATTTCGATAATTTC
Found at i:46648332 original size:27 final size:27
Alignment explanation
Indices: 46648035--46648369 Score: 144
Period size: 27 Copynumber: 12.3 Consensus size: 27
46648025 TGTCACCTAC
* * * *
46648035 AAGGGTGTTTTGGTAAATATACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* ** * *
46648062 AAGGGCATTTCAGTAATTTTTCAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
46648089 AATGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTACAAACT
*
46648117 CAAGGGTATTTCT-GTAATTATGTA-AATC-
1 -AAGGGTATTT-TGGTAATT-T-TACAAACT
* * * *
46648145 AGGGGTATTTCT-ATAATTTTCCAAATT
1 AAGGGTATTT-TGGTAATTTTACAAACT
* * *
46648172 AAGGGTATTTTAGTAATTTTCCAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
46648199 AAGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* *** *
46648226 GAGGGTATTTCAATAATTTTAC-AAGT
1 AAGGGTATTTTGGTAATTTTACAAACT
** ** * ***
46648252 CGGAGGTATTTCAGTAATTTTATAGGTT
1 AAG-GGTATTTTGGTAATTTTACAAACT
* * * * *
46648280 GAGGGTGTTTCGATAATTTCACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
46648307 AAGGGTATTTTGGTAATTTTACAAAC-
1 AAGGGTATTTTGGTAATTTTACAAACT
* ** *
46648333 CAGAGGTATTTTGGTAATTTTGTAAACC
1 AAG-GGTATTTTGGTAATTTTACAAACT
46648361 AAGGGTATT
1 AAGGGTATT
46648370 CAGTAATTCG
Statistics
Matches: 237, Mismatches: 59, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
25 1 0.00
26 10 0.04
27 194 0.82
28 13 0.05
29 17 0.07
30 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:46648389 original size:26 final size:27
Alignment explanation
Indices: 46648360--46648430 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
46648350 TTTTGTAAAC
*
46648360 CAAGGGTA-TTCAGTAATTCGACCCTA
1 CAAGGGCATTTCAGTAATTCGACCCTA
*
46648386 CAAGGGCATTTCAGTAATTCTACCCTA
1 CAAGGGCATTTCAGTAATTCGACCCTA
* * *
46648413 CAGGGGCAATCCAGTAAT
1 CAAGGGCATTTCAGTAAT
46648431 ACTAGCCTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 7 0.18
27 32 0.82
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (27 bp):
CAAGGGCATTTCAGTAATTCGACCCTA
Found at i:46648439 original size:27 final size:27
Alignment explanation
Indices: 46648370--46648442 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
46648360 CAAGGGTATT
* * * * *
46648370 CAGTAATTCGACCCTACAAGGGCATTT
1 CAGTAATACTACCCTACAGGGGCAATC
*
46648397 CAGTAATTCTACCCTACAGGGGCAATC
1 CAGTAATACTACCCTACAGGGGCAATC
*
46648424 CAGTAATACTAGCCTACAG
1 CAGTAATACTACCCTACAG
46648443 ATATGAGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (27 bp):
CAGTAATACTACCCTACAGGGGCAATC
Found at i:46658107 original size:47 final size:47
Alignment explanation
Indices: 46658044--46658260 Score: 245
Period size: 47 Copynumber: 4.8 Consensus size: 47
46658034 TCAAATTAAC
* * * *
46658044 ATATATAACCGTGGCATATCCGCTTAGCACCATGTTAATAAATCAAT
1 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTAATATATCAAT
* *
46658091 ATATGTAATCGTGGCATATGCACTTAGCACCAC----AT-TA-C-AT
1 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTAATATATCAAT
* * *
46658131 GT-T-TAACCGTGGTATATCCACTTAGCACCACGTTAATAGATCAAT
1 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTAATATATCAAT
*
46658176 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTA-ATATATCAAT
* * *
46658224 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTA
1 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTA
46658261 CACGTATAAC
Statistics
Matches: 142, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
38 25 0.18
39 1 0.01
40 3 0.02
41 1 0.01
42 3 0.02
43 3 0.02
44 1 0.01
45 3 0.02
46 1 0.01
47 59 0.42
48 42 0.30
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (47 bp):
ATATGTAACCGTGGCATATCCACTTAGCACCACGTTAATATATCAAT
Found at i:46658192 original size:85 final size:85
Alignment explanation
Indices: 46658049--46658217 Score: 275
Period size: 85 Copynumber: 2.0 Consensus size: 85
46658039 TTAACATATA
* * * *
46658049 TAACCGTGGCATATCCGCTTAGCACCATGTTAATAAATCAATATATGTAATCGTGGCATATGCAC
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAACCGTGGCATATCCAC
46658114 TTAGCACCACATTACATGTT
66 TTAGCACCACATTACATGTT
* *
46658134 TAACCGTGGTATATCCACTTAGCACCACGTTAATAGATCAATATATGTAACCGTGGCATATCCAC
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAACCGTGGCATATCCAC
*
46658199 TTAGCACCACGTTACATGT
66 TTAGCACCACATTACATGT
46658218 ATCAATATGT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 77 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAACCGTGGCATATCCAC
TTAGCACCACATTACATGTT
Found at i:46658243 original size:48 final size:48
Alignment explanation
Indices: 46658129--46658267 Score: 210
Period size: 48 Copynumber: 2.9 Consensus size: 48
46658119 ACCACATTAC
*
46658129 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATAG-ATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACAT-GTATCAAT
* *
46658176 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
46658224 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
46658268 AACCGAGATT
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
47 35 0.42
48 48 0.58
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:46664288 original size:21 final size:23
Alignment explanation
Indices: 46664262--46664310 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
46664252 CTACAAGCAT
*
46664262 CAAATTCACAA-CATTTTA-TAC
1 CAAATTCACAACCATTTTACAAC
*
46664283 CAAATTCTCAACCATTTTACAAC
1 CAAATTCACAACCATTTTACAAC
46664306 CAAAT
1 CAAAT
46664311 CATACATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 7 0.29
23 7 0.29
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.31
Consensus pattern (23 bp):
CAAATTCACAACCATTTTACAAC
Found at i:46667408 original size:40 final size:40
Alignment explanation
Indices: 46667316--46667420 Score: 97
Period size: 40 Copynumber: 2.6 Consensus size: 40
46667306 ATTTGATGTC
* *
46667316 CCACACACTAAGTGCTGCACA--TAGCTGAAGCTATCTCAAA
1 CCACACACTAAGTGC--CAAATTTAGCTGAAGCTATATCAAA
* * * * *
46667356 TCGCACATTAAGTGCCAAATTTAGCTTAAGCTATATCGAA
1 CCACACACTAAGTGCCAAATTTAGCTGAAGCTATATCAAA
* *
46667396 CCACACACTAAGTGTCATATTTAGC
1 CCACACACTAAGTGCCAAATTTAGC
46667421 CGATATGTCA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
38 3 0.06
40 48 0.94
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (40 bp):
CCACACACTAAGTGCCAAATTTAGCTGAAGCTATATCAAA
Found at i:46670825 original size:43 final size:43
Alignment explanation
Indices: 46670777--46670913 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
46670767 TCCCGGACGT
* *
46670777 GGTCTTACATGTAACTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACATGTAACTCAATATCGATGCCTATGTCCCAGACAC
* * * * *
46670820 GGTCTTACATG-AAATCAGATA-CGATGTCAATGTGCCAGACAT
1 GGTCTTACATGTAACTCA-ATATCGATGCCTATGTCCCAGACAC
* * * *
46670862 GGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACATGT-AA-CTCAATATCGATGCCTATGTCCCAGACAC
*
46670905 AGTCTTACA
1 GGTCTTACA
46670914 CGATGTCTCA
Statistics
Matches: 72, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
42 31 0.43
43 37 0.51
44 2 0.03
45 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAACTCAATATCGATGCCTATGTCCCAGACAC
Found at i:46671865 original size:17 final size:19
Alignment explanation
Indices: 46671831--46671865 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46671821 ATTAAGTCCT
46671831 TTTTAGGAAAAATGATTAA
1 TTTTAGGAAAAATGATTAA
46671850 TTTT-GGAAAAAT-ATTA
1 TTTTAGGAAAAATGATTA
46671866 TCATTGTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (19 bp):
TTTTAGGAAAAATGATTAA
Found at i:46672503 original size:27 final size:27
Alignment explanation
Indices: 46672449--46672558 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
46672439 AGCATGGCTG
* * *
46672449 CCAGAACAGATAA-TGTGACAGTGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
46672475 CCAGAACAAATAATTGTGGTAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
46672502 CCAGAACAGAT-ATATGTGGCAGTGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
46672529 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
46672556 CCA
1 CCA
46672559 CGACGCTTCC
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 14 0.20
27 54 0.77
28 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:46672531 original size:54 final size:53
Alignment explanation
Indices: 46672449--46672558 Score: 157
Period size: 54 Copynumber: 2.1 Consensus size: 53
46672439 AGCATGGCTG
* *
46672449 CCAGAACAGATAATGTGACAGTGTCACCAGAACAAATAATTGTGGTAGAGCCA
1 CCAGAACAGATAATGTGACAGTGCCACCAGAACAAATAATTGTGGCAGAGCCA
* * * *
46672502 CCAGAACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGTGCCACCAGAACAAATAATTGTGGCAGAGCCA
46672556 CCA
1 CCA
46672559 CGACGCTTCC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 12 0.24
54 38 0.76
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGTGCCACCAGAACAAATAATTGTGGCAGAGCCA
Found at i:46673117 original size:17 final size:18
Alignment explanation
Indices: 46673078--46673119 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
46673068 TCCACGTACG
*
46673078 AACTACCTACATTTATAT
1 AACTACCTACATTAATAT
* *
46673096 TACTACC-ACATTAATCT
1 AACTACCTACATTAATAT
46673113 AACTACC
1 AACTACC
46673120 GAGACGAACT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.33
Consensus pattern (18 bp):
AACTACCTACATTAATAT
Found at i:46674026 original size:24 final size:24
Alignment explanation
Indices: 46673999--46674093 Score: 122
Period size: 24 Copynumber: 4.0 Consensus size: 24
46673989 GTTCTCCCTA
46673999 ATCAGCTCCTAAATCCTCTCCTGT
1 ATCAGCTCCTAAATCCTCTCCTGT
* * *
46674023 ATCAGCTCCTACATCCT-TTCTCAT
1 ATCAGCTCCTAAATCCTCTCCT-GT
46674047 ATCAGCTCCTAAATCCTCTCCCT-T
1 ATCAGCTCCTAAATCCTCT-CCTGT
*
46674071 ATCAGCTCCTAAATCTTCTCCTG
1 ATCAGCTCCTAAATCCTCTCCTG
46674094 GCAGCCTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
23 6 0.10
24 52 0.85
25 1 0.02
26 2 0.03
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.35
Consensus pattern (24 bp):
ATCAGCTCCTAAATCCTCTCCTGT
Found at i:46679590 original size:40 final size:40
Alignment explanation
Indices: 46679532--46679692 Score: 218
Period size: 40 Copynumber: 4.0 Consensus size: 40
46679522 TCTTTGGGAT
* *
46679532 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCAGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
46679571 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * *
46679611 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* * *
46679651 ATAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
46679691 TT
1 TT
46679693 TGTCCGGTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 6 0.06
40 97 0.92
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:46686918 original size:39 final size:40
Alignment explanation
Indices: 46686844--46687019 Score: 171
Period size: 40 Copynumber: 4.5 Consensus size: 40
46686834 ACCCAAGTAT
* * * *
46686844 CTTCGGGAT-TTAG-CCGGATATAACAAATCGTACAAATAC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
46686883 CTTCGGGTCTTAGCCCGGGT-TAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
46686922 CTTCGGGTCTTAGCCCGTATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
46686962 CTTCGGGACATAGCCCGGATATAGCAACTCACACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
46687002 CTTCGGATCTTTGCCCGG
1 CTTCGGGTCTTAGCCCGG
46687020 TTATCATCCG
Statistics
Matches: 110, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
38 1 0.01
39 46 0.42
40 61 0.55
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:46690197 original size:27 final size:27
Alignment explanation
Indices: 46690143--46690253 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
46690133 AGCATGGCTG
* * *
46690143 CCAGAACAGATAA-TGTGACAGTGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
46690169 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
46690196 CCAGAACAGAT-ATATGTGGCAGTGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
46690223 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
46690250 CCAG
1 CCAG
46690254 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:46690227 original size:54 final size:53
Alignment explanation
Indices: 46690143--46690253 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 53
46690133 AGCATGGCTG
*
46690143 CCAGAACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
* * *
46690196 CCAGAACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
46690250 CCAG
1 CCAG
46690254 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 12 0.23
54 41 0.77
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
Found at i:46690808 original size:17 final size:18
Alignment explanation
Indices: 46690769--46690810 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
46690759 TCCACGCACG
*
46690769 AACTACCTACATTTATAT
1 AACTACCTACATTAATAT
* *
46690787 TACTACC-ACATTAATCT
1 AACTACCTACATTAATAT
46690804 AACTACC
1 AACTACC
46690811 GAAACGAACT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.33
Consensus pattern (18 bp):
AACTACCTACATTAATAT
Found at i:46691719 original size:24 final size:24
Alignment explanation
Indices: 46691684--46691784 Score: 166
Period size: 24 Copynumber: 4.2 Consensus size: 24
46691674 CCAACACCGT
*
46691684 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
46691708 TCTCCCTTATCAGCTCCTACATCC
1 TCTCCCTTATCAGCTCCTAAATCC
46691732 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
46691756 TCTCCCTTATCAGTTCCTAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
46691780 TCTCC
1 TCTCC
46691785 TGACAGCCTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.20, C:0.42, G:0.04, T:0.35
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:46701300 original size:34 final size:34
Alignment explanation
Indices: 46701257--46701323 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
46701247 GAGTAATTTA
*
46701257 GCATTTTCGTATGAGAACATTCGAAATTCTTCTG
1 GCATTTTCGTATGAGAACATTCAAAATTCTTCTG
46701291 GCATTTTCGTATGAGAACATTCAAAATTCTTCT
1 GCATTTTCGTATGAGAACATTCAAAATTCTTCT
46701324 AACTCATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (34 bp):
GCATTTTCGTATGAGAACATTCAAAATTCTTCTG
Found at i:46703393 original size:43 final size:42
Alignment explanation
Indices: 46703315--46703417 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 42
46703305 TATGATTTAT
*
46703315 GTGTAAGACCATGTCTGGGACATCAGCATCGTATTTGATTTC
1 GTGTAAGACCATGTCTGGGACATCAGCATCGTATTTGATTAC
* * * *
46703357 GTGTAAGACCCTGTCTTGGACAGT-GGCATTGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGACA-TCAGCATCG-TATTTGATTAC
* *
46703400 ATGTAAGACCACGTCTGG
1 GTGTAAGACCATGTCTGG
46703418 AACGTTGGCA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
42 25 0.50
43 25 0.50
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATCAGCATCGTATTTGATTAC
Found at i:46703430 original size:43 final size:43
Alignment explanation
Indices: 46703270--46703428 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 43
46703260 TATGTGTTTT
* * *
46703270 CGTGTAAGACCACATCTAGAACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGAACGTTGGCATCGA-TATTTGA-TTA
* * * * ** *
46703314 TGTGTAAGACCATGTCTGGGACATCAGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGAACGTTGGCATCGATATTTGATTA
*
46703356 CGTGTAAGACC-CTGTCTTGG-ACAG-TGGCATTGATATTTGATTA
1 CGTGTAAGACCAC-GTC-TGGAAC-GTTGGCATCGATATTTGATTA
*
46703399 CATGTAAGACCACGTCTGGAACGTTGGCAT
1 CGTGTAAGACCACGTCTGGAACGTTGGCAT
46703429 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 18, Indels: 17
0.72 0.15 0.14
Matches are distributed among these distances:
42 27 0.30
43 37 0.42
44 25 0.28
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGAACGTTGGCATCGATATTTGATTA
Found at i:46704816 original size:26 final size:23
Alignment explanation
Indices: 46704670--46704809 Score: 86
Period size: 24 Copynumber: 5.9 Consensus size: 23
46704660 TTATCAACCG
* * *
46704670 AATTCGCACACATAGTGCTAATT
1 AATTTGCACACATAGTGCCATTT
* *
46704693 AAGCTTGCACACATAGTGCCATACT
1 AA-TTTGCACACATAGTGCCAT-TT
*** *
46704718 AAACCGCACACATAGTGCC-TGT
1 AATTTGCACACATAGTGCCATTT
* * * *
46704740 AATTTTCACTCAT-GCATCGACATTCA
1 AATTTGCACACATAG--T-GCCATT-T
46704766 AATTTGCACACATAGTGCCATTT
1 AATTTGCACACATAGTGCCATTT
46704789 AATTCTGCACACATAGTGCCA
1 AATT-TGCACACATAGTGCCA
46704810 ATGTTAACTC
Statistics
Matches: 87, Mismatches: 21, Indels: 17
0.70 0.17 0.14
Matches are distributed among these distances:
21 1 0.01
22 9 0.10
23 8 0.09
24 52 0.60
25 5 0.06
26 11 0.13
27 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (23 bp):
AATTTGCACACATAGTGCCATTT
Found at i:46706910 original size:23 final size:24
Alignment explanation
Indices: 46706884--46706929 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
46706874 AGCTATGTGA
*
46706884 TATGGCTTGGTTTTGGT-TATGAT
1 TATGGCTTGATTTTGGTATATGAT
*
46706907 TATGGTTTGATTTTGGTATATGA
1 TATGGCTTGATTTTGGTATATGA
46706930 AATGTGATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.52
Consensus pattern (24 bp):
TATGGCTTGATTTTGGTATATGAT
Found at i:46711169 original size:85 final size:85
Alignment explanation
Indices: 46711011--46711169 Score: 189
Period size: 85 Copynumber: 1.9 Consensus size: 85
46711001 GTCAGAGACA
* * * *
46711011 TCGTATAAGACCGTGTCTGGGACATAGGCCTTAATTGAGATTTACGTATAAAACCATGTCTGGGA
1 TCGTATAAGACCGTGTCTGGGACAGAGGCATTAATTGAGATTTACATATAAAACCACGTCTGGGA
*
46711076 CATTGGCATCGTATCTGATT
66 CATCGGCATCGTATCTGATT
* * *
46711096 TCGTGTAAGATCC-TGTCTGGGACAGAGGCATTGATATTGA-A-TTACATGTAAGACCACGTCTG
1 TCGTATAAGA-CCGTGTCTGGGACAGAGGCATT-A-ATTGAGATTTACATATAAAACCACGTCTG
*
46711158 GGACGTCGGCAT
63 GGACATCGGCAT
46711170 TGTACTTGGT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
85 53 0.85
86 4 0.06
87 5 0.08
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (85 bp):
TCGTATAAGACCGTGTCTGGGACAGAGGCATTAATTGAGATTTACATATAAAACCACGTCTGGGA
CATCGGCATCGTATCTGATT
Found at i:46713714 original size:75 final size:74
Alignment explanation
Indices: 46713591--46713739 Score: 210
Period size: 75 Copynumber: 2.0 Consensus size: 74
46713581 TCTGAACCTG
* * *
46713591 CTGAATAAGAGAATCTACAGAATTTGAGGCTGAATAACACCTCAGCTAGAGG-AAGACCTTCCAA
1 CTGAACAAGAGAATCTACAGAATTTGAGACCGAATAACACCTCAGCTAGAGGTAA-ACCTTCCAA
46713655 AAATACGGGA
65 AAATACGGGA
* * * *
46713665 NCTGAACAAGAGAATGTGCAGAATTTGAGACCGAGTAACACCTCAGCTAGAGGTAAACCTTCCAG
1 -CTGAACAAGAGAATCTACAGAATTTGAGACCGAATAACACCTCAGCTAGAGGTAAACCTTCCAA
46713730 AAATACGGGA
65 AAATACGGGA
46713740 AATGTTAGCG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 64 0.97
76 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.18
Consensus pattern (74 bp):
CTGAACAAGAGAATCTACAGAATTTGAGACCGAATAACACCTCAGCTAGAGGTAAACCTTCCAAA
AATACGGGA
Found at i:46717952 original size:47 final size:47
Alignment explanation
Indices: 46717889--46718049 Score: 196
Period size: 47 Copynumber: 3.4 Consensus size: 47
46717879 TGAAACTTGG
* *
46717889 AAGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
*
46717936 AAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
* * * ** * * *
46717983 AAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGA
1 AAGTGTATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
* * *
46718030 AAGTGCATAAATGTGATAAG
1 AAGTGTATATACGTGATAAG
46718050 TCCCGAAGGG
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 98 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
AAGTGTATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
Found at i:46718223 original size:37 final size:37
Alignment explanation
Indices: 46718167--46718245 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
46718157 TCGAGCTCTA
* * *
46718167 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
46718204 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
46718241 AAGAC
1 AAGAC
46718246 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:46722552 original size:28 final size:28
Alignment explanation
Indices: 46722489--46722642 Score: 274
Period size: 28 Copynumber: 5.5 Consensus size: 28
46722479 ATATTAAGTC
* *
46722489 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
46722516 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
46722544 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
46722572 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
46722600 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
46722628 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46722643 GTACAATTTA
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 22 0.18
28 102 0.82
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:46730269 original size:28 final size:28
Alignment explanation
Indices: 46730152--46730263 Score: 190
Period size: 28 Copynumber: 4.0 Consensus size: 28
46730142 ATATTAAGTC
* *
46730152 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
46730179 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
46730207 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
46730235 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
46730263 C
1 C
46730264 TAACACCACC
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
27 22 0.27
28 60 0.73
ACGTcount: A:0.35, C:0.29, G:0.11, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:46730809 original size:86 final size:85
Alignment explanation
Indices: 46730664--46730839 Score: 327
Period size: 86 Copynumber: 2.1 Consensus size: 85
46730654 ATTTAGGCCA
46730664 ATTTTGCTAGCACACAAGCCTTTGACCGAATGTCCTTGACCTCTAGTCACCTAAATTTTTATTCT
1 ATTTTGCTAGCACACAAGCCTTTGACCGAATGTCCTTGACCTCTAGTCACCTAAATTTTTATTCT
46730729 TTAAAACTCATCCAACTCAT
66 TTAAAACTCATCCAACTCAT
46730749 GATTTTGCTAGCACACAAGCCTTTGACCGAAT-TCCCTTGACCTCTAGTCACCTAAATTTTTATT
1 -ATTTTGCTAGCACACAAGCCTTTGACCGAATGT-CCTTGACCTCTAGTCACCTAAATTTTTATT
46730813 CTTTAAAACTCATCCAACTCAT
64 CTTTAAAACTCATCCAACTCAT
46730835 ATTTT
1 ATTTT
46730840 TCATTGACAA
Statistics
Matches: 89, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
85 6 0.07
86 83 0.93
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (85 bp):
ATTTTGCTAGCACACAAGCCTTTGACCGAATGTCCTTGACCTCTAGTCACCTAAATTTTTATTCT
TTAAAACTCATCCAACTCAT
Found at i:46735904 original size:27 final size:27
Alignment explanation
Indices: 46735874--46735962 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
46735864 CAAAACAGTT
* *
46735874 ATTTTACCCTACAAGGGTATGTTGGTC
1 ATTTTACACTACAAGGGTATGTTGGTA
* *
46735901 ATTTTACATTACAAGGGTATTTTGGTA
1 ATTTTACACTACAAGGGTATGTTGGTA
*
46735928 ATTTTACACTACAAGGGTAT-TTCGATA
1 ATTTTACACTACAAGGGTATGTT-GGTA
46735955 ATTTTACA
1 ATTTTACA
46735963 AATCAGGGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATGTTGGTA
Found at i:46736102 original size:26 final size:27
Alignment explanation
Indices: 46735885--46736404 Score: 320
Period size: 27 Copynumber: 19.6 Consensus size: 27
46735875 TTTTACCCTA
* *
46735885 CAAGGGTATGTT-GGTCATTTTAC-ATT
1 CAAGGGTAT-TTCGGTAATTTTACAAAT
* *
46735911 ACAAGGGTATTTTGGTAATTTTAC-ACT
1 -CAAGGGTATTTCGGTAATTTTACAAAT
*
46735938 ACAAGGGTATTTCGATAATTTTACAAAT
1 -CAAGGGTATTTCGGTAATTTTACAAAT
* * *
46735966 C-AGGG---GT-GTTAAATTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
** * * *
46735988 TGAGAGTATTTTGGTAATTTTACAAAA
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * **
46736015 CGAGGGTATTTCGATAATTTTATGAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
46736042 CGAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * * *
46736069 CAAAGGTATTTCAGTACTTTCAC-AAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
46736095 CGAGGGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * * *
46736122 CAAGGGTATTTTGATAATTTCAC-AGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
** *
46736148 TGAGGTTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * * *
46736175 -TAGGGATATTTTGATAATTTTATAAAT
1 CAAGGG-TATTTCGGTAATTTTACAAAT
* **
46736202 CGAGGGTATTTTAGTAATTTTAC-AAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* ** *** *
46736228 CGACAGTATTTTAATAATTTTACAAAA
1 CAAGGGTATTTCGGTAATTTTACAAAT
* ** *
46736255 CGAGGGTATTTTAGTAATTTTGCAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
46736281 CTGAGGGTATTTCGGTAATTTTACAAA-
1 C-AAGGGTATTTCGGTAATTTTACAAAT
** *
46736308 CCGGGGATATTTCAGTAATTTTACAAA-
1 CAAGGG-TATTTCGGTAATTTTACAAAT
* *
46736335 CATGGGGTACTTT-GGTAATTTTACAACT
1 CA-AGGGTA-TTTCGGTAATTTTACAAAT
*
46736363 -AGGGGTATTTCGGTAATTTTAC-AAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
46736388 CAGGGGTATTTTGGTAA
1 CAAGGGTATTTCGGTAA
46736405 ATTCCCTTTA
Statistics
Matches: 398, Mismatches: 76, Indels: 39
0.78 0.15 0.08
Matches are distributed among these distances:
22 13 0.03
23 4 0.01
25 5 0.01
26 109 0.27
27 254 0.64
28 13 0.03
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:46736113 original size:80 final size:80
Alignment explanation
Indices: 46736001--46736398 Score: 321
Period size: 80 Copynumber: 5.0 Consensus size: 80
46735991 GAGTATTTTG
* *
46736001 GTAATTTTACAAAACGAGGGTATTTCGATAATTTTATGAATCGAGGGTATTTTGGTAATTTTACA
1 GTAATTTTACAAATCGAGGGTATTTCGATAATTTTATAAATCGAGGGTATTTTGGTAATTTTAC-
46736066 AATCAAAGGTATTTCA
65 AATCAAAGGTATTTCA
* * * * * * *
46736082 GTACTTTCAC-AATCGAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGATAATTTCACA
1 GTAATTTTACAAATCGAGGGTATTTCGATAATTTTATAAATCGAGGGTATTTTGGTAATTTTACA
* ** *
46736146 GT-TGAGGTTATTTCG
66 ATCAAAGG-TATTTCA
* * *
46736161 GTAATTTTACAAAT-TAGGGATATTTTGATAATTTTATAAATCGAGGGTATTTTAGTAATTTTAC
1 GTAATTTTACAAATCGAGGG-TATTTCGATAATTTTATAAATCGAGGGTATTTTGGTAATTTTAC
* *
46736225 AATCGACA-GTATTTTA
65 AATC-AAAGGTATTTCA
* * * ** *
46736241 ATAATTTTACAAAACGAGGGTATTT-TAGTAATTTTGCAAA-CTGAGGGTATTTCGGTAATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTATAAATC-GAGGGTATTTTGGTAATTTTA
* ***
46736304 CAAACCGGGGATATTTCA
64 CAATCAAAGG-TATTTCA
* * * * *
46736322 GTAATTTTACAAA-C-ATGGGGTACTTT-GGTAATTTTACAACTAG-GGGTATTTCGGTAATTTT
1 GTAATTTTACAAATCGA--GGGTA-TTTCGATAATTTTATAAATCGAGGGTATTTTGGTAATTTT
**
46736383 ACAATCAGGGGTATTT
63 ACAATCAAAGGTATTT
46736399 TGGTAAATTC
Statistics
Matches: 254, Mismatches: 49, Indels: 30
0.76 0.15 0.09
Matches are distributed among these distances:
78 3 0.01
79 28 0.11
80 172 0.68
81 47 0.19
82 4 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (80 bp):
GTAATTTTACAAATCGAGGGTATTTCGATAATTTTATAAATCGAGGGTATTTTGGTAATTTTACA
ATCAAAGGTATTTCA
Found at i:46736119 original size:53 final size:53
Alignment explanation
Indices: 46735887--46736398 Score: 327
Period size: 53 Copynumber: 9.7 Consensus size: 53
46735877 TTACCCTACA
* * * * * * *
46735887 AGGGTATGTT-GGTCATTTTAC-ATTACAAGGGTATTTTGGTAATTTTACACTACA
1 AGGGTAT-TTCGGTAATTTTACAAAT-CAAGGGTATTTCGATAATTTCACAAT-CG
* * * *
46735941 AGGGTATTTCGATAATTTTACAAATCAGGGGT-GTT--A-AATTT-ACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTCAC-AATCG
* * * * * *
46735990 AGAGTATTTTGGTAATTTTACAAAACGAGGGTATTTCGATAATTTTATGAATCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTCA-CAATCG
* * *
46736044 AGGGTATTTTGGTAATTTTACAAATCAAAGGTATTTC-AGTACTTTCACAATCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGA-TAATTTCACAATCG
* * *
46736097 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGATAATTTCACAGTTG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTCACAATCG
* * * * *
46736150 AGGTTATTTCGGTAATTTTACAAAT-TAGGGATATTTTGATAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGG-TATTTCGATAATTTCA-CAATCG
** * ** ** * *
46736204 AGGGTATTTTAGTAATTTTAC-AATCGACAGTATTTTAATAATTTTACAAAACG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTCAC-AATCG
** * * * * *
46736257 AGGGTATTTTAGTAATTTTGCAAA-CTGAGGGTATTTCGGTAATTTTACAAACCG
1 AGGGTATTTCGGTAATTTTACAAATC-AAGGGTATTTCGATAATTTCAC-AATCG
* * * * *
46736311 -GGGATATTTCAGTAATTTTACAAA-CATGGGGTACTTT-GGTAATTTTACAA-CT
1 AGGG-TATTTCGGTAATTTTACAAATCA-AGGGTA-TTTCGATAATTTCACAATCG
*
46736363 AGGGGTATTTCGGTAATTTTAC-AATCAGGGGTATTT
1 A-GGGTATTTCGGTAATTTTACAAATCAAGGGTATTT
46736399 TGGTAAATTC
Statistics
Matches: 376, Mismatches: 59, Indels: 49
0.78 0.12 0.10
Matches are distributed among these distances:
49 28 0.07
50 9 0.02
51 3 0.01
52 14 0.04
53 165 0.44
54 152 0.40
55 5 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTCACAATCG
Found at i:46741823 original size:43 final size:43
Alignment explanation
Indices: 46741762--46741876 Score: 176
Period size: 43 Copynumber: 2.7 Consensus size: 43
46741752 ACGGTATTTC
* *
46741762 GCCTGCTAGGCTTGAAGCCCGATATTATTTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATTATTTCACCGGAATTATA
* * *
46741805 GCCTGCTAGGCCCGAAGCCCGATATTATCTCACTGGAATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATTATTTCACCGGAATTATA
*
46741848 GCCTGCTAGGCTCGAAGCCCGATAATATT
1 GCCTGCTAGGCTCGAAGCCCGATATTATT
46741877 ATTCACCAGC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (43 bp):
GCCTGCTAGGCTCGAAGCCCGATATTATTTCACCGGAATTATA
Found at i:46743611 original size:14 final size:15
Alignment explanation
Indices: 46743582--46743611 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46743572 CAAAATTTAG
46743582 ACATGATACTTTCAC
1 ACATGATACTTTCAC
46743597 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
46743611 A
1 A
46743612 TATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:46752723 original size:21 final size:22
Alignment explanation
Indices: 46752690--46752739 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
46752680 ACATGCTTAT
* *
46752690 AAACACAACTC-AATTGTGTCA
1 AAACATAACTCAAATTGTATCA
* *
46752711 AAACATAAGTCAAATTTTATCA
1 AAACATAACTCAAATTGTATCA
46752733 AAACATA
1 AAACATA
46752740 TGGTTTCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.50, C:0.18, G:0.06, T:0.26
Consensus pattern (22 bp):
AAACATAACTCAAATTGTATCA
Found at i:46761553 original size:40 final size:40
Alignment explanation
Indices: 46761523--46761692 Score: 200
Period size: 40 Copynumber: 4.3 Consensus size: 40
46761513 GGACTAAGAT
* *
46761523 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
46761563 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
46761603 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
46761643 CCGAAGGCATT-GTGTGAGTTACTAAAAT-CGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACT-AAATCCGGGTTAAGTC
46761682 CCGAAGGCATT
1 CCGAAGGCATT
46761693 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 29 0.25
40 87 0.75
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:46761619 original size:80 final size:79
Alignment explanation
Indices: 46761470--46761692 Score: 223
Period size: 80 Copynumber: 2.8 Consensus size: 79
46761460 TTGAATGCTG
* * * ** * * * * *
46761470 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
46761534 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* * *
46761550 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
46761615 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
46761630 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAATCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
46761693 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 34 0.29
80 81 0.68
81 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:46770705 original size:22 final size:23
Alignment explanation
Indices: 46770680--46770722 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
46770670 TATCCCCACA
*
46770680 TGGAGTATAG-GGCTGGATGGAG
1 TGGAGTATAGAGGATGGATGGAG
46770702 TGGAGTATAGAGGATGGATGG
1 TGGAGTATAGAGGATGGATGG
46770723 GTAGGATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.26, C:0.02, G:0.49, T:0.23
Consensus pattern (23 bp):
TGGAGTATAGAGGATGGATGGAG
Found at i:46774703 original size:18 final size:18
Alignment explanation
Indices: 46774661--46774703 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
46774651 GCCCATTCCG
*
46774661 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
46774679 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
46774697 AAGTATG
1 AAGTATG
46774704 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:46775225 original size:27 final size:28
Alignment explanation
Indices: 46775169--46775238 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
46775159 TAAATTGTTC
46775169 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
46775197 AGCACTAAGTTTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
46775224 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46775239 GACTTAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:46775252 original size:29 final size:27
Alignment explanation
Indices: 46775169--46775252 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
46775159 TAAATTGTTC
* *
46775169 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* * *
46775197 AGCACTAAGTTTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
46775224 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
46775253 TTTTGAATCA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 22 0.46
28 21 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.35
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:46779150 original size:12 final size:12
Alignment explanation
Indices: 46779134--46779173 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
46779124 CCTTAATTTC
*
46779134 CTCCTCAAATCC
1 CTCCTCAAATCA
46779146 CTCCTCAAATCA
1 CTCCTCAAATCA
46779158 CTCCTCAAATCA
1 CTCCTCAAATCA
46779170 CTCC
1 CTCC
46779174 AATTGATCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.28, C:0.47, G:0.00, T:0.25
Consensus pattern (12 bp):
CTCCTCAAATCA
Found at i:46781060 original size:37 final size:37
Alignment explanation
Indices: 46781010--46781088 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
46781000 TTATTACGAA
* * *
46781010 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
46781047 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
46781084 GTCTT
1 GTCTT
46781089 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:46781285 original size:47 final size:47
Alignment explanation
Indices: 46781207--46781617 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
46781197 CCCTTCGGGA
* * * * * *
46781207 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46781254 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46781301 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46781348 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46781395 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46781442 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46781489 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46781536 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46781583 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
46781618 AGAATTACAG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46806051 original size:22 final size:22
Alignment explanation
Indices: 46806025--46806067 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
46806015 GACATGGTTT
46806025 AAAACATAATCA-ATATATAATA
1 AAAACA-AATCACATATATAATA
*
46806047 AAAACAAATTACATATATAAT
1 AAAACAAATCACATATATAAT
46806068 GTAACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAACAAATCACATATATAATA
Found at i:46810949 original size:93 final size:93
Alignment explanation
Indices: 46810836--46811007 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
46810826 CGCCCATAAG
* * * *
46810836 CGAACTCGGTCTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACACAACTCA
46810901 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * * *
46810929 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTTGGACACAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACACAACTCA
*
46810994 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
46811008 TCAACCATCC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACACAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:46811822 original size:273 final size:274
Alignment explanation
Indices: 46811329--46811875 Score: 1069
Period size: 273 Copynumber: 2.0 Consensus size: 274
46811319 ATCTTTTATT
46811329 TTCCTCGATTGAGGTCGATTCCACGTCTTTCTTGATCTAAAATAACACATTTAGCTTATTTAATA
1 TTCCTCGATTGAGGTCGATTCCACGTCTTTCTTGATCTAAAATAACACATTTAGCTTATTTAATA
46811394 CTCACATTATCAAATTAATCCTTAACTCAAATTTTGGCAAAATTACAATTTTACCCCTAAACTTT
66 CTCACATTATCAAATTAATCCTTAACTCAAATTTTGGCAAAATTACAATTTTACCCCTAAACTTT
46811459 TGCATATTTACATTTTTGCCCCTAGGCTCGGGATTAAACTTTATTCCTTATTCTTATGTTTTACA
131 TGCATATTTACATTTTTGCCCCTAGGCTCGGGATTAAACTTTATTCCTTATTCTTATGTTTTACA
46811524 ACATGCTGATCACTTTTCTCTTCTATGGCAACATCAAATTCTCACTCTAACATGTACTTGTGACT
196 ACATGCTGATCACTTTTCTCTTCTATGGCAACATCAAATTCTCACTCTAACATGTACTTGTGACT
46811589 A-TAGGTATTTTTA
261 ATTAGGTATTTTTA
*
46811602 TTCCTTGATTGAGGTCGATTCCACGTCTTTCTTGATCTAAAATAACACATTTAGCTTATTTAATA
1 TTCCTCGATTGAGGTCGATTCCACGTCTTTCTTGATCTAAAATAACACATTTAGCTTATTTAATA
46811667 CTCACATTATCAAATTAATCCTTAACTCAAATTTTGGCAAAATTACAATTTTACCCCTAAACTTT
66 CTCACATTATCAAATTAATCCTTAACTCAAATTTTGGCAAAATTACAATTTTACCCCTAAACTTT
46811732 TGCATATTTACATTTTTGCCCCTAGGCTCGGGATTAAACTTTATTCCTTATTCTTATGTTTTACA
131 TGCATATTTACATTTTTGCCCCTAGGCTCGGGATTAAACTTTATTCCTTATTCTTATGTTTTACA
*
46811797 ACATGCTGATCACTTTTCTCTTCTATGGCAACATCAAATTCTCACTCTAACATGTAGTTGTGACT
196 ACATGCTGATCACTTTTCTCTTCTATGGCAACATCAAATTCTCACTCTAACATGTACTTGTGACT
46811862 ATTAGGTATTTTTA
261 ATTAGGTATTTTTA
46811876 CCGATTAAGC
Statistics
Matches: 271, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
273 259 0.96
274 12 0.04
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (274 bp):
TTCCTCGATTGAGGTCGATTCCACGTCTTTCTTGATCTAAAATAACACATTTAGCTTATTTAATA
CTCACATTATCAAATTAATCCTTAACTCAAATTTTGGCAAAATTACAATTTTACCCCTAAACTTT
TGCATATTTACATTTTTGCCCCTAGGCTCGGGATTAAACTTTATTCCTTATTCTTATGTTTTACA
ACATGCTGATCACTTTTCTCTTCTATGGCAACATCAAATTCTCACTCTAACATGTACTTGTGACT
ATTAGGTATTTTTA
Found at i:46816462 original size:59 final size:59
Alignment explanation
Indices: 46816367--46816484 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
46816357 CTGTGAAAAT
46816367 GAACCACTCATCGGTCTTTTCTTCCAATTTCAAGTCTCAGCCTCTACCTTTTTCTTTTC
1 GAACCACTCATCGGTCTTTTCTTCCAATTTCAAGTCTCAGCCTCTACCTTTTTCTTTTC
* *
46816426 GAACCGCTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAGCCTCTACCTTTTTCTTTTC
1 GAACCACTCATCGGTCTTTTCTTCCAATTTCAAGTCTCAGCCTCTACCTTTTTCTTTTC
46816485 TTTAAGTAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.15, C:0.32, G:0.09, T:0.43
Consensus pattern (59 bp):
GAACCACTCATCGGTCTTTTCTTCCAATTTCAAGTCTCAGCCTCTACCTTTTTCTTTTC
Found at i:46816870 original size:25 final size:25
Alignment explanation
Indices: 46816842--46816893 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
46816832 CTGAATCCCT
46816842 CAACAAAGATATAGCGCATTTTAAA
1 CAACAAAGATATAGCGCATTTTAAA
46816867 CAACAAAGATATAGCGCATTTTAAA
1 CAACAAAGATATAGCGCATTTTAAA
46816892 CA
1 CA
46816894 TTCTTCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (25 bp):
CAACAAAGATATAGCGCATTTTAAA
Found at i:46818869 original size:93 final size:93
Alignment explanation
Indices: 46818741--46818911 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
46818731 GCCCATAAGC
* * *
46818741 GAACTCGGTCTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46818806 CGAGCTCGGATGCCTAGTTACATCTCAT
66 CGAGCTCGGATGCCTAGTTACATCTCAT
* * *
46818834 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGATTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
46818899 CGAGTTCGGATGC
66 CGAGCTCGGATGC
46818912 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAT
Found at i:46818908 original size:46 final size:46
Alignment explanation
Indices: 46818733--46818908 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
46818723 TGTAACCCGC
* * * * *
46818733 CCATAAGCGAACTCGGTCTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
46818779 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
46818829 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
46818872 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
46818909 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:46818927 original size:46 final size:44
Alignment explanation
Indices: 46818784--46818927 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
46818774 CGCATCCATA
*
46818784 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * *
46818831 CA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
*
46818877 AGTGAACTCGGATTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
46818923 AGTGA
1 AGTGA
46818928 CATGTCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:46834161 original size:24 final size:24
Alignment explanation
Indices: 46834134--46834218 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
46834124 TGTTTCCTTA
*
46834134 CACACATAGTGCTATATAATCTTG
1 CACACATAGTGCCATATAATCTTG
* * *
46834158 CACACATAGTGCCATGTAGTTTTTG
1 CACACATAGTGCCATATA-ATCTTG
** * *
46834183 CACACATAGTGCCGCATAACCTCG
1 CACACATAGTGCCATATAATCTTG
46834207 CACACATAGTGC
1 CACACATAGTGC
46834219 TGAAATTTCT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 30 0.61
25 19 0.39
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (24 bp):
CACACATAGTGCCATATAATCTTG
Found at i:46840722 original size:47 final size:47
Alignment explanation
Indices: 46840644--46840740 Score: 158
Period size: 47 Copynumber: 2.1 Consensus size: 47
46840634 CAGTTAGGGA
46840644 TTTTCGTCCCCAAAAATCTTACCGGTAAATAGGTTTAGATAACACTC
1 TTTTCGTCCCCAAAAATCTTACCGGTAAATAGGTTTAGATAACACTC
* * * *
46840691 TTTTTGTCCCCGAAAATCTTACCGGTGAATAGGTTTGGATAACACTC
1 TTTTCGTCCCCAAAAATCTTACCGGTAAATAGGTTTAGATAACACTC
46840738 TTT
1 TTT
46840741 CATTGTATCC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (47 bp):
TTTTCGTCCCCAAAAATCTTACCGGTAAATAGGTTTAGATAACACTC
Found at i:46848116 original size:46 final size:46
Alignment explanation
Indices: 46848066--46848974 Score: 1655
Period size: 46 Copynumber: 19.7 Consensus size: 46
46848056 TGGTTGAGCA
46848066 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848112 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848158 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848204 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848250 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848296 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848342 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848388 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848434 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848480 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848526 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848572 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848618 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848664 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848710 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848756 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
46848802 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
46848848 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
46848893 CATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
46848941 CCCGAGCTCATTAAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46848975 GGGGCGGGTT
Statistics
Matches: 839, Mismatches: 15, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
42 2 0.00
43 4 0.00
45 3 0.00
46 794 0.95
47 28 0.03
48 3 0.00
50 3 0.00
51 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46851202 original size:64 final size:64
Alignment explanation
Indices: 46851101--46851293 Score: 377
Period size: 64 Copynumber: 3.0 Consensus size: 64
46851091 TATGGATAAG
*
46851101 AAAGTCAAGTCAGAGGTCCTACAACCCCTCCCCCTTACCAAAGTGGTACTTATAATGGAATTTC
1 AAAGTCAAGTCAGAAGTCCTACAACCCCTCCCCCTTACCAAAGTGGTACTTATAATGGAATTTC
46851165 AAAGTCAAGTCAGAAGTCCTACAACCCCTCCCCCTTACCAAAGTGGTACTTATAATGGAATTTC
1 AAAGTCAAGTCAGAAGTCCTACAACCCCTCCCCCTTACCAAAGTGGTACTTATAATGGAATTTC
46851229 AAAGTCAAGTCAGAAGTCCTACAACCCCTCCCCCTTACCAAAGTGGTACTTATAATGGAATTTC
1 AAAGTCAAGTCAGAAGTCCTACAACCCCTCCCCCTTACCAAAGTGGTACTTATAATGGAATTTC
46851293 A
1 A
46851294 TGAGATTTGT
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 128 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (64 bp):
AAAGTCAAGTCAGAAGTCCTACAACCCCTCCCCCTTACCAAAGTGGTACTTATAATGGAATTTC
Found at i:46852096 original size:30 final size:28
Alignment explanation
Indices: 46852062--46852117 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 28
46852052 CATAGTATCG
46852062 TATCTTTGG-TTTCTTTATTCTGGATTTCTC
1 TATC-TTGGATTTCTTTATT-TGG-TTTCTC
46852092 TATCTTGGATTTCTTTATTTGGTTTC
1 TATCTTGGATTTCTTTATTTGGTTTC
46852118 CTTGTTATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 4 0.16
29 7 0.28
30 14 0.56
ACGTcount: A:0.11, C:0.14, G:0.14, T:0.61
Consensus pattern (28 bp):
TATCTTGGATTTCTTTATTTGGTTTCTC
Found at i:46852100 original size:15 final size:14
Alignment explanation
Indices: 46852066--46852117 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
46852056 GTATCGTATC
*
46852066 TTTGG-TTTCTTTA
1 TTTGGATTTCTCTA
46852079 TTCTGGATTTCTCTA
1 TT-TGGATTTCTCTA
*
46852094 TCTTGGATTTCTTTA
1 T-TTGGATTTCTCTA
46852109 TTTGG-TTTC
1 TTTGGATTTC
46852118 CTTGTTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 6 0.18
14 7 0.21
15 20 0.59
16 1 0.03
ACGTcount: A:0.10, C:0.13, G:0.15, T:0.62
Consensus pattern (14 bp):
TTTGGATTTCTCTA
Found at i:46854428 original size:46 final size:46
Alignment explanation
Indices: 46854361--46854716 Score: 567
Period size: 46 Copynumber: 7.7 Consensus size: 46
46854351 ATACAAATTC
46854361 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
46854407 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
46854453 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
46854499 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
46854545 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
* * * *
46854591 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--T
* * *
46854638 CCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
*
46854684 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46854717 GGGGCGGGTT
Statistics
Matches: 288, Mismatches: 13, Indels: 18
0.90 0.04 0.06
Matches are distributed among these distances:
42 2 0.01
43 4 0.01
45 3 0.01
46 243 0.84
47 28 0.10
48 3 0.01
50 3 0.01
51 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
Found at i:46861265 original size:71 final size:70
Alignment explanation
Indices: 46861179--46861319 Score: 255
Period size: 71 Copynumber: 2.0 Consensus size: 70
46861169 CAATTTCATA
*
46861179 CTAGAAACTTGTAGAATGCAAGTTTTACAAATTATTCGATTTAGTCCCTAATTTCAATTTAAGCA
1 CTAGAAACTTCTAGAATGCAAGTTTTACAAATTATTCGA-TTAGTCCCTAATTTCAATTTAAGCA
*
46861244 CTTTAT
65 CCTTAT
46861250 CTAGAAACTTCTAGAATGCAAGTTTTACAAATTATTCGATTAGTCCCTAATTTCAATTTAAGCAC
1 CTAGAAACTTCTAGAATGCAAGTTTTACAAATTATTCGATTAGTCCCTAATTTCAATTTAAGCAC
46861315 CTTAT
66 CTTAT
46861320 GCATAAAATT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 30 0.44
71 38 0.56
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (70 bp):
CTAGAAACTTCTAGAATGCAAGTTTTACAAATTATTCGATTAGTCCCTAATTTCAATTTAAGCAC
CTTAT
Found at i:46865691 original size:46 final size:46
Alignment explanation
Indices: 46865516--46865691 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
46865506 TGTAACCCGC
* * * *
46865516 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * * *
46865562 CCATTAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
*
46865612 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * * *
46865655 CCATAAGTGAACTCGGGCTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
46865692 TGCCCAAACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 60 0.57
47 28 0.26
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:46865691 original size:93 final size:93
Alignment explanation
Indices: 46865523--46865695 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
46865513 CGCCCATAAG
* * * *
46865523 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATTAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46865588 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * *
46865616 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGGCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
46865681 ATGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
46865696 CAAACATCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:46876574 original size:43 final size:43
Alignment explanation
Indices: 46876507--46876675 Score: 173
Period size: 43 Copynumber: 4.0 Consensus size: 43
46876497 AAAGCTCGTA
* * * *
46876507 CAATGCC-ATATCCCAGATATGGTCTTATATGTTATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT
* * * * * *
46876549 CTATGCCACTGTCCCAGACAGGGTCTTACACGAAATCGA-ATAA
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATC-ACATAT
* *
46876592 CGATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCA-AT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT
* *
46876634 ACAATGCCAATGTTCCAGACATGGTTTTACATGTAATCACAT
1 -CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
46876676 CTTGGTAACC
Statistics
Matches: 101, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 7 0.07
43 93 0.92
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT
Found at i:46877212 original size:28 final size:29
Alignment explanation
Indices: 46877148--46877212 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
46877138 TTTTCATTTA
* *
46877148 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATTGACACT
* *
46877177 TTTCTCAATTTAATCCCT-AATTGACATT
1 TTTCTCAATTTAACCCCTCAATTGACACT
*
46877205 TTTGTCAA
1 TTTCTCAA
46877213 AAATCATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.29, C:0.25, G:0.03, T:0.43
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATTGACACT
Found at i:46877257 original size:21 final size:21
Alignment explanation
Indices: 46877229--46877278 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
46877219 TTTAACAAAA
*
46877229 CTTT-AAAATCTATCATCAAG
1 CTTTCAAAATCTATCAACAAG
* *
46877249 CTTTCAAAATTTATCAACAAT
1 CTTTCAAAATCTATCAACAAG
*
46877270 CATTCAAAA
1 CTTTCAAAA
46877279 GCTCAAGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (21 bp):
CTTTCAAAATCTATCAACAAG
Found at i:46883471 original size:20 final size:20
Alignment explanation
Indices: 46883432--46883471 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
46883422 TCATATTATC
* * *
46883432 CCTAATACAAGCCTTCGAAG
1 CCTAAAACAAGCATTAGAAG
46883452 CCTAAAACAAGCATTAGAAG
1 CCTAAAACAAGCATTAGAAG
46883472 TGGTTAGGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.17
Consensus pattern (20 bp):
CCTAAAACAAGCATTAGAAG
Found at i:46892450 original size:39 final size:40
Alignment explanation
Indices: 46892355--46892616 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
46892345 TTGAATGATG
*
46892355 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
46892393 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
46892434 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
46892473 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
46892512 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
46892551 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
46892590 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
46892617 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:46899953 original size:39 final size:40
Alignment explanation
Indices: 46899858--46900119 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
46899848 TTGAATGATG
*
46899858 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
46899896 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
46899937 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
46899976 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
46900015 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
46900054 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
46900093 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
46900120 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:46904591 original size:47 final size:47
Alignment explanation
Indices: 46904537--46904641 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
46904527 TAGTATTAAT
*
46904537 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
46904584 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
46904631 AATGTGATAAG
1 TATGTGATAAG
46904642 TCCCGAAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:46905624 original size:77 final size:77
Alignment explanation
Indices: 46905497--46905649 Score: 297
Period size: 77 Copynumber: 2.0 Consensus size: 77
46905487 GTGAAAAACT
46905497 TCATTGATCCAACAAAATTATTGTTTTGCTTAAAACTTACTAAGCTTACGAAAGCTTACTCTGTT
1 TCATTGATCCAACAAAATTATTGTTTTGCTTAAAACTTACTAAGCTTACGAAAGCTTACTCTGTT
46905562 CGTTCATGTTTG
66 CGTTCATGTTTG
*
46905574 TCATTGATTCAACAAAATTATTGTTTTGCTTAAAACTTACTAAGCTTACGAAAGCTTACTCTGTT
1 TCATTGATCCAACAAAATTATTGTTTTGCTTAAAACTTACTAAGCTTACGAAAGCTTACTCTGTT
46905639 CGTTCATGTTT
66 CGTTCATGTTT
46905650 TGGTCTGTAG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (77 bp):
TCATTGATCCAACAAAATTATTGTTTTGCTTAAAACTTACTAAGCTTACGAAAGCTTACTCTGTT
CGTTCATGTTTG
Found at i:46906721 original size:38 final size:38
Alignment explanation
Indices: 46906619--46906723 Score: 106
Period size: 38 Copynumber: 2.8 Consensus size: 38
46906609 AATCCAAGTT
* * * * *
46906619 TAAAGACCCGCTGACTATATGTAGAGATTATGTCCGGG
1 TAAAGACCCGATGGCTATATATAGAGATTAAGTCCGGA
* *
46906657 TAAAGACCCGATGGCTATGTACAGAGATTAAGTCCGGA
1 TAAAGACCCGATGGCTATATATAGAGATTAAGTCCGGA
*
46906695 TTAAGACCC-ACTGGCT-TCATATAGAGATT
1 TAAAGACCCGA-TGGCTAT-ATATAGAGATT
46906724 TCACCCGAGC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
37 2 0.04
38 53 0.96
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (38 bp):
TAAAGACCCGATGGCTATATATAGAGATTAAGTCCGGA
Found at i:46906811 original size:40 final size:40
Alignment explanation
Indices: 46906751--46907026 Score: 417
Period size: 40 Copynumber: 6.9 Consensus size: 40
46906741 CTCGACGATG
* * *
46906751 ATCCGGGCTAAGTCCTGAAGGGCATTCATGCCGGTGTTAT
1 ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* *
46906791 ATCCAGGCTAAATCTCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
*
46906831 ATCCGGGCTAAATCCCGAAGGGCATTCATGCCGGTGTTAT
1 ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* * *
46906871 ATCCGGGCTAAATCCCGAAGGGTATTCATGCCGATGTTAT
1 ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
*
46906911 ATCCGGGCTAAATCCCAAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* * * *
46906951 ATCCGAGCTAAATCCCAAAGGGTATTCGTGCCGATGTTAT
1 ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
*
46906991 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTG
1 ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTG
46907027 ATGTGGATTC
Statistics
Matches: 214, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
Found at i:46910860 original size:47 final size:47
Alignment explanation
Indices: 46910809--46910913 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
46910799 TAGTATTAAT
*
46910809 TATGTGATAAGGCCGAATAGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTGTATA
*
46910856 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTGTATA
*
46910903 AATGTGATAAG
1 TATGTGATAAG
46910914 TCCCGAAGGG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:46919246 original size:38 final size:39
Alignment explanation
Indices: 46919180--46919258 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 39
46919170 GCCATGTGGT
46919180 CTGCCCGTGTAAGGAGGTCCAGGCCATTTTGATTTCGTA
1 CTGCCCGTGTAAGGAGGTCCAGGCCATTTTGATTTCGTA
46919219 CTGCCCGTGTAAGG-GGTCCAGGCCATTTTGATTTCGTA
1 CTGCCCGTGTAAGGAGGTCCAGGCCATTTTGATTTCGTA
46919257 CT
1 CT
46919259 TTGGCCAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 26 0.65
39 14 0.35
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (39 bp):
CTGCCCGTGTAAGGAGGTCCAGGCCATTTTGATTTCGTA
Found at i:46935357 original size:48 final size:48
Alignment explanation
Indices: 46935203--46935350 Score: 242
Period size: 48 Copynumber: 3.1 Consensus size: 48
46935193 ATATATACAC
* *
46935203 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGTAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** *
46935251 GGCTCATACATATTTCACATTAGCCATTGGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
46935299 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
46935347 ATCT
1 ATCT
46935351 TGTACATCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:46937648 original size:23 final size:23
Alignment explanation
Indices: 46937616--46937659 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
46937606 AAAATTTCAC
* *
46937616 ACATGTAATTTCACATATAATAG
1 ACATGAAATTTAACATATAATAG
*
46937639 ACATGAAATTTAACATTTAAT
1 ACATGAAATTTAACATATAAT
46937660 TATTTTTGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACATGAAATTTAACATATAATAG
Found at i:46947340 original size:37 final size:37
Alignment explanation
Indices: 46947290--46947368 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
46947280 TTATTACGAA
* * *
46947290 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
46947327 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
46947364 GTCTT
1 GTCTT
46947369 TAGAACTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:46947565 original size:47 final size:47
Alignment explanation
Indices: 46947491--46947652 Score: 234
Period size: 47 Copynumber: 3.4 Consensus size: 47
46947481 TCGGGACTTA
* * * * * * *
46947491 TCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
46947538 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
*
46947585 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
46947632 TCACATATATATACACTTTCA
1 TCAC--ATATATACACTTTCA
46947653 TCCATCACAT
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
47 90 0.86
49 15 0.14
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
Found at i:46947907 original size:173 final size:172
Alignment explanation
Indices: 46947618--46947963 Score: 642
Period size: 173 Copynumber: 2.0 Consensus size: 172
46947608 CATCACATCG
46947618 GCCATTAGGCCTTATCACATATATATACACTTTCATCCATCACATAGAATCCTAAATCAAAATAT
1 GCCATTAGGCCTTATCACA-ATATATACACTTTCATCCATCACATAGAATCCTAAATCAAAATAT
46947683 AGATTTTCATGTATTCACATCACAATTATCCAAATATACTTCACATACCACATATACTTTCACGT
65 AGATTTTCATGTATTCACATCACAATTATCCAAATATACTTCACATACCACATATACTTTCACGT
46947748 ATACACACTGTCTTGGCTGAATCTACATCTATCATTTTCCAAT
130 ATACACACTGTCTTGGCTGAATCTACATCTATCATTTTCCAAT
46947791 GCCATTAGGCCTTATCAC-ATATATACA-TGTTCACATCCATCACATAGAATCCTAAATCAAAAT
1 GCCATTAGGCCTTATCACAATATATACACT-TT--CATCCATCACATAGAATCCTAAATCAAAAT
46947854 ATAGATTTTCATGTATTCACATCACAATTATCCAAATATACTTCACATACCACATATACTTTCAC
63 ATAGATTTTCATGTATTCACATCACAATTATCCAAATATACTTCACATACCACATATACTTTCAC
46947919 GTATACACACTGTCTTGGCTGAATCTACATCTATCATTTTCCAAT
128 GTATACACACTGTCTTGGCTGAATCTACATCTATCATTTTCCAAT
46947964 ATCACAATTT
Statistics
Matches: 170, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
170 1 0.01
171 11 0.06
173 158 0.93
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.34
Consensus pattern (172 bp):
GCCATTAGGCCTTATCACAATATATACACTTTCATCCATCACATAGAATCCTAAATCAAAATATA
GATTTTCATGTATTCACATCACAATTATCCAAATATACTTCACATACCACATATACTTTCACGTA
TACACACTGTCTTGGCTGAATCTACATCTATCATTTTCCAAT
Found at i:46960047 original size:40 final size:40
Alignment explanation
Indices: 46959942--46960118 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
46959932 CGGATGATAA
* *
46959942 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
46959982 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46960021 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46960061 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
46960101 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46960119 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
39 51 0.40
40 76 0.60
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Done.