Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 143 of 172
Found at i:46949547 original size:13 final size:14
Alignment explanation
Indices: 46949526--46949554 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
46949516 TGAAAAATGG
46949526 ATTAGAAAATATTT
1 ATTAGAAAATATTT
46949540 ATTA-AAAATATTT
1 ATTAGAAAATATTT
46949553 AT
1 AT
46949555 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:46950115 original size:31 final size:32
Alignment explanation
Indices: 46950066--46950129 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
46950056 ATATTAAATA
*
46950066 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
46950097 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
46950129 A
1 A
46950130 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:46951080 original size:15 final size:15
Alignment explanation
Indices: 46951057--46951104 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
46951047 TATCAAATTT
46951057 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
46951072 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
46951087 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
46951101 ATAT
1 ATAT
46951105 AATATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:46951633 original size:18 final size:19
Alignment explanation
Indices: 46951610--46951683 Score: 63
Period size: 19 Copynumber: 4.2 Consensus size: 19
46951600 AATGAAACGA
46951610 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
46951628 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
* * *
46951647 GAAA---ACATA-CA-CTT
1 GAAATTGAGATATGAGATT
46951661 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
46951680 GAAA
1 GAAA
46951684 ACATACACCA
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
14 6 0.14
15 1 0.02
16 4 0.09
17 4 0.09
18 9 0.21
19 15 0.35
20 4 0.09
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:46951664 original size:33 final size:33
Alignment explanation
Indices: 46951626--46951691 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
46951616 GAATTGAGAA
46951626 TTGAAATTGAGATATGAGATTGAAAACATACAC
1 TTGAAATTGAGATATGAGATTGAAAACATACAC
46951659 TTGAAATTGAGATATGAGATTGAAAACATACAC
1 TTGAAATTGAGATATGAGATTGAAAACATACAC
46951692 CAAAAGGTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.27
Consensus pattern (33 bp):
TTGAAATTGAGATATGAGATTGAAAACATACAC
Found at i:46952952 original size:60 final size:60
Alignment explanation
Indices: 46952883--46953012 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 60
46952873 AACTGGGCAT
*
46952883 TAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTGTCAGAGTATATTGGGCC
1 TAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACAAGT-TCAGA-TATATTGGGCC
* * *
46952943 TAGCCCATATCAGTATTAATCTGGGCCGTAGCCCTATTACAAGTTGAGATATATTGGGCC
1 TAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACAAGTTCAGATATATTGGGCC
*
46953003 TTGCCCATAT
1 TAGCCCATAT
46953013 TAACACAGTT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
60 52 0.83
61 8 0.13
62 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (60 bp):
TAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACAAGTTCAGATATATTGGGCC
Found at i:46960124 original size:15 final size:17
Alignment explanation
Indices: 46960092--46960127 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
46960082 GTTTCGTGAC
46960092 CACACGGGCGTGTGCCA
1 CACACGGGCGTGTGCCA
46960109 CACACGGGCG-GT-CCA
1 CACACGGGCGTGTGCCA
46960124 CACA
1 CACA
46960128 ATTATATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 2 0.11
17 10 0.53
ACGTcount: A:0.22, C:0.39, G:0.31, T:0.08
Consensus pattern (17 bp):
CACACGGGCGTGTGCCA
Found at i:46964069 original size:15 final size:16
Alignment explanation
Indices: 46964051--46964081 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46964041 TTTTTTAATA
46964051 TATTTTT-CTTTTCTT
1 TATTTTTCCTTTTCTT
46964066 TATTTTTCCTTTTCTT
1 TATTTTTCCTTTTCTT
46964082 GTAAATAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTTCCTTTTCTT
Found at i:46969590 original size:21 final size:21
Alignment explanation
Indices: 46969561--46969648 Score: 86
Period size: 21 Copynumber: 4.0 Consensus size: 21
46969551 GCCATGTCCC
46969561 TAGTCCACACGGGCGTGTGCCT
1 TAGT-CACACGGGCGTGTGCCT
* *
46969583 TAGTCACACGGTCGTGTACCT
1 TAGTCACACGGGCGTGTGCCT
* *
46969604 CACTTCACACGGGCGTGTGCCT
1 TA-GTCACACGGGCGTGTGCCT
* * *
46969626 CAGTCACATGGTCGTGTGTCCT
1 TAGTCACACGGGCGTGTG-CCT
46969648 T
1 T
46969649 CTTTACGCGG
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
21 29 0.54
22 25 0.46
ACGTcount: A:0.15, C:0.31, G:0.27, T:0.27
Consensus pattern (21 bp):
TAGTCACACGGGCGTGTGCCT
Found at i:46974536 original size:30 final size:30
Alignment explanation
Indices: 46974487--46974545 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
46974477 AATTTTTTAT
*
46974487 TTTCCCTCTAAAATTTTAC-TCCCTCCCAC
1 TTTCCCCCTAAAATTTTACTTCCCTCCCAC
*
46974516 TTTCCCCCTAAAACTTTTACTTCCTTCCCA
1 TTTCCCCCTAAAA-TTTTACTTCCCTCCCA
46974546 TCCCACCCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 6 0.23
31 8 0.31
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTCCCCCTAAAATTTTACTTCCCTCCCAC
Found at i:46974645 original size:18 final size:18
Alignment explanation
Indices: 46974622--46974681 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
46974612 ACTCTCCTTA
46974622 TTTACTTTCCCTCAAACT
1 TTTACTTTCCCTCAAACT
* *
46974640 TTTAC--TCTCTAAAACTT
1 TTTACTTTCCCTCAAAC-T
*
46974657 TTTATTTTCCC-CTAAACT
1 TTTACTTTCCCTC-AAACT
46974675 TTTACTT
1 TTTACTT
46974682 CTCACTCTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 8 0.25
17 5 0.16
18 12 0.38
19 7 0.22
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTACTTTCCCTCAAACT
Found at i:46979885 original size:131 final size:130
Alignment explanation
Indices: 46979719--46980110 Score: 536
Period size: 131 Copynumber: 3.0 Consensus size: 130
46979709 AAATTTGGAG
* * * *
46979719 AACATGAGTGAAATTCTAAAGGAATACTT-GATTATTTGGAACAAACAGGAGATCGTAACCCAGC
1 AACATGAGTGAAATTCCAAAGGAATA-TTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGC
* * *
46979783 ACGATAGGGCACGATTCCCCGAATTGCAAAACATCGAACATTCCCTTCGTGTTGAAGAATTTTTA
65 ACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
46979848 A
130 A
* * * *
46979849 AGACATGAATGAAATTCCAAAGGAATGTTCAATTATTTTGAACAAACAGGAAATCGCAACCTAGC
1 A-ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGC
*
46979914 ACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCATTTTGAAGAATTTTTA
65 ACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
46979979 A
130 A
* * * *
46979980 AAGCATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAATAAGAAATCACAACCCAGC
1 AA-CATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGC
* * ** * * *
46980045 ACGATAGGGCACGATT-CCTGAATTGCCAAACACCGAGTATTGCCTTCGTTTTAAAGAATTCTTA
65 ACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
46980109 A
130 A
46980110 A
1 A
46980111 TGAATAATTA
Statistics
Matches: 231, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
130 46 0.20
131 185 0.80
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (130 bp):
AACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCA
CGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTAA
Found at i:46989587 original size:4 final size:4
Alignment explanation
Indices: 46989578--46989603 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
46989568 AGCTGTTGAT
46989578 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
46989604 GTCAAAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:46991061 original size:36 final size:36
Alignment explanation
Indices: 46991014--46991085 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
46991004 AGGTCCATAT
46991014 TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
1 TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
46991050 TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
1 TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
46991086 GATATAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (36 bp):
TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
Found at i:46997077 original size:19 final size:18
Alignment explanation
Indices: 46997053--46997109 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
46997043 AAATTATAAA
46997053 AAAAATCAATAAAATTTAT
1 AAAAAT-AATAAAATTTAT
* *
46997072 AAAAATTATTAAATTTTAAT
1 AAAAA-TAATAAAATTT-AT
*
46997092 AAAAAT-ATAAAATATAT
1 AAAAATAATAAAATTTAT
46997109 A
1 A
46997110 TTAAAAATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 3 0.10
18 6 0.19
19 14 0.45
20 8 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATAATAAAATTTAT
Found at i:46997093 original size:20 final size:20
Alignment explanation
Indices: 46997042--46997119 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
46997032 GTATGACAAA
* *
46997042 TAAATTATAAAAAAAATCAAT
1 TAAATTATAATAAAAAT-TAT
*
46997063 AAAATT-T-ATAAAAATTAT
1 TAAATTATAATAAAAATTAT
*
46997081 TAAATTTTAATAAAAA-TAT
1 TAAATTATAATAAAAATTAT
* *
46997100 AAAATATATATTAAAAATTA
1 TAAAT-TATAATAAAAATTA
46997120 GAAAAAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
18 7 0.15
19 15 0.33
20 17 0.37
21 7 0.15
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATTATAATAAAAATTAT
Found at i:46997289 original size:11 final size:10
Alignment explanation
Indices: 46997264--46997298 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
46997254 GATATATGGC
*
46997264 AAAAAATGAT
1 AAAAAATTAT
46997274 AAAAAATTAT
1 AAAAAATTAT
46997284 AGAAAAATTAT
1 A-AAAAATTAT
46997295 AAAA
1 AAAA
46997299 TGCTTCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:46997453 original size:28 final size:28
Alignment explanation
Indices: 46997319--46997514 Score: 89
Period size: 28 Copynumber: 6.9 Consensus size: 28
46997309 GGTACAATAA
*
46997319 ATTTTATATATTTTTTATGAATTTTATATTTC
1 ATTTTATATA-TTTTTAT-AATTTT-T-TTAC
* * *
46997351 --TTTACAT-TTTTTATAATTTTCTTATG
1 ATTTTATATATTTTTATAATTTTTTTA-C
* * * * *
46997377 ACTTTATAAAATTTTATAGTTTTTTTTC
1 ATTTTATATATTTTTATAATTTTTTTAC
* *
46997405 TATATTTCTATATATTCTATAATTTTTTTAC
1 -AT-TTTATATAT-TTTTATAATTTTTTTAC
* *
46997436 ATTTTATATATTTTTAT-ATTTTTAATAA
1 ATTTTATATATTTTTATAATTTTT-TTAC
* * * *
46997464 ATTTTAAATATTTTAAT-ATTTTATTAA
1 ATTTTATATATTTTTATAATTTTTTTAC
* *
46997491 AATTTA-ATAATTTTTATAACTTTT
1 ATTTTATAT-ATTTTTATAATTTTT
46997515 ATTGTTTATA
Statistics
Matches: 124, Mismatches: 30, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
25 2 0.02
26 2 0.02
27 27 0.22
28 43 0.35
29 22 0.18
30 14 0.11
31 14 0.11
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
ATTTTATATATTTTTATAATTTTTTTAC
Found at i:46997458 original size:9 final size:9
Alignment explanation
Indices: 46997319--46997541 Score: 51
Period size: 9 Copynumber: 23.8 Consensus size: 9
46997309 GGTACAATAA
*
46997319 ATTTTATAT
1 ATTTTTTAT
46997328 ATTTTTTAT
1 ATTTTTTAT
*
46997337 GA-ATTTTAT
1 -ATTTTTTAT
*
46997346 ATTTCTTTAC
1 ATTT-TTTAT
46997356 ATTTTTTAT
1 ATTTTTTAT
46997365 AATTTTCTTAT
1 -ATTTT-TTAT
* * *
46997376 GACTTTATAAA
1 -A-TTTTTTAT
*
46997387 ATTTTATAGT
1 ATTTTTTA-T
* *
46997397 TTTTTTTCT
1 ATTTTTTAT
*
46997406 ATATTTCTAT
1 AT-TTTTTAT
* *
46997416 ATATTCTAT
1 ATTTTTTAT
46997425 AATTTTTT-T
1 -ATTTTTTAT
**
46997434 ACATTTTAT
1 ATTTTTTAT
46997443 ATATTTTTAT
1 AT-TTTTTAT
*
46997453 ATTTTTAAT
1 ATTTTTTAT
** *
46997462 AAATTTTAA
1 ATTTTTTAT
*
46997471 ATATTTTAAT
1 AT-TTTTTAT
46997481 ATTTTATTA-
1 ATTTT-TTAT
** *
46997490 AAATTTAAT
1 ATTTTTTAT
*
46997499 AATTTTTAT
1 ATTTTTTAT
**
46997508 A-ACTTT-T
1 ATTTTTTAT
*
46997515 ATTGTTTAT
1 ATTTTTTAT
46997524 ATTTGTTTAT
1 ATTT-TTTAT
46997534 CATTTTTT
1 -ATTTTTT
46997542 GCCACATGTC
Statistics
Matches: 150, Mismatches: 46, Indels: 35
0.65 0.20 0.15
Matches are distributed among these distances:
7 2 0.01
8 14 0.09
9 64 0.43
10 56 0.37
11 11 0.07
12 3 0.02
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:46997515 original size:19 final size:19
Alignment explanation
Indices: 46997423--46997515 Score: 70
Period size: 19 Copynumber: 5.0 Consensus size: 19
46997413 TATATATTCT
* *
46997423 ATAATTTTTTTACATTTT-
1 ATAATTTTTATAAATTTTA
*
46997441 ATATATTTTTAT-ATTTTTA
1 ATA-ATTTTTATAAATTTTA
*
46997460 ATAAATTTTA-AATATTTTA
1 ATAATTTTTATAA-ATTTTA
*
46997479 AT-A-TTTTATTAAAATTTA
1 ATAATTTTTA-TAAATTTTA
*
46997497 ATAATTTTTATAACTTTTA
1 ATAATTTTTATAAATTTTA
46997516 TTGTTTATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
17 5 0.08
18 22 0.37
19 27 0.46
20 5 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATAATTTTTATAAATTTTA
Found at i:47006598 original size:20 final size:21
Alignment explanation
Indices: 47006569--47006620 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
47006559 TGTTATACTT
* * *
47006569 TGATTGATTAA-GTAAAAATA
1 TGATTAATTAAGGAAAAAACA
47006589 TGATTAATTAAGGAAAAAACA
1 TGATTAATTAAGGAAAAAACA
*
47006610 TCATTAATTAA
1 TGATTAATTAA
47006621 ATTAGAGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.33
Consensus pattern (21 bp):
TGATTAATTAAGGAAAAAACA
Found at i:47011850 original size:21 final size:21
Alignment explanation
Indices: 47011811--47011856 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
47011801 ATATGTCAAA
47011811 ATTTAAAAGAAAATAAATA-T
1 ATTTAAAAGAAAATAAATATT
* *
47011831 ATTTATAAATAAATTAAATATT
1 ATTTA-AAAGAAAATAAATATT
47011853 ATTT
1 ATTT
47011857 TTTATAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 12 0.55
22 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTTAAAAGAAAATAAATATT
Found at i:47012264 original size:26 final size:25
Alignment explanation
Indices: 47012213--47012264 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
47012203 AATTAATTTT
* *
47012213 ATTATTTTTAATTAATTATCATTTA
1 ATTATTTTTAATTAATTACCAATTA
47012238 ATTATTGTTTAA-TAATATACCAATTA
1 ATTATT-TTTAATTAAT-TACCAATTA
47012264 A
1 A
47012265 AACTAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTATTTTTAATTAATTACCAATTA
Found at i:47012467 original size:16 final size:16
Alignment explanation
Indices: 47012448--47012481 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
47012438 TGATATTCAA
*
47012448 TAATTTTAATATTATT
1 TAATTTTAATAATATT
47012464 TAATTTTAATAATATT
1 TAATTTTAATAATATT
47012480 TA
1 TA
47012482 CATAATTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTTAATAATATT
Found at i:47013501 original size:11 final size:11
Alignment explanation
Indices: 47013485--47013514 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
47013475 TTATAGGCAT
47013485 AAGAAGTATAA
1 AAGAAGTATAA
47013496 AAGAAGTATAA
1 AAGAAGTATAA
47013507 AAGAAGTA
1 AAGAAGTA
47013515 GAGATCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (11 bp):
AAGAAGTATAA
Found at i:47025093 original size:19 final size:19
Alignment explanation
Indices: 47025069--47025107 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
47025059 AAGCAAAGAA
47025069 ATTCAAAACTTCGAAGTTT
1 ATTCAAAACTTCGAAGTTT
47025088 ATTCAAAACTTCGAAGTTT
1 ATTCAAAACTTCGAAGTTT
47025107 A
1 A
47025108 GTAATACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (19 bp):
ATTCAAAACTTCGAAGTTT
Found at i:47026435 original size:78 final size:78
Alignment explanation
Indices: 47026346--47026502 Score: 242
Period size: 78 Copynumber: 2.0 Consensus size: 78
47026336 ATTCATGGCT
* *
47026346 AATCACATCTTTATAAGTATGAATTATTGTAATTTAGGCAAATGATTACAACTCTCAATAGAAGG
1 AATCACATCTTTATAAGTATGAATCATTCTAATTTAGGCAAATGATTACAACTCTCAATAGAAGG
*
47026411 AGCTAATTAAAGG
66 AGCTAATCAAAGG
* * * * *
47026424 AATCACATCTTTATAAGTGTGAATCATTCTAGTTTAGGCAAATGATTACCACTCTCAATAGGATG
1 AATCACATCTTTATAAGTATGAATCATTCTAATTTAGGCAAATGATTACAACTCTCAATAGAAGG
47026489 AGCTAATCAAAGG
66 AGCTAATCAAAGG
47026502 A
1 A
47026503 GAGGATTCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (78 bp):
AATCACATCTTTATAAGTATGAATCATTCTAATTTAGGCAAATGATTACAACTCTCAATAGAAGG
AGCTAATCAAAGG
Found at i:47034974 original size:31 final size:31
Alignment explanation
Indices: 47034934--47034996 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
47034924 ATTTCAAGTA
47034934 TGATCAGGTAGCCGAAGCTACCACTTTTCAC
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAC
* *
47034965 TGATTAGGTAGCTGAAGCTACCACTTTTCAC
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAC
47034996 T
1 T
47034997 TGTCATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAC
Found at i:47035071 original size:50 final size:51
Alignment explanation
Indices: 47034972--47035100 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
47034962 CACTGATTAG
* * *
47034972 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
47035023 GTAGCCTAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
47035073 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
47035101 TTCCATGGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 48 0.68
51 23 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:47037696 original size:27 final size:26
Alignment explanation
Indices: 47037642--47037810 Score: 90
Period size: 27 Copynumber: 6.3 Consensus size: 26
47037632 TTAGTTTACC
* * *
47037642 AAATTACTGAAATACCCCC-AGTTGTA
1 AAATTAC-CAAATACCCCCGATTTATA
*
47037668 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAA-TACCCCCGATTTATA
* * *
47037695 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCCCGATTTATA
* * **
47037722 AAATTACTGAAATACCCTC-AGTTTGCA
1 AAATTAC-CAAATACCCCCGA-TTTATA
* * **
47037749 AAATTACTGAAATACCCTCGACATATA
1 AAATTAC-CAAATACCCCCGATTTATA
* * *
47037776 AAATTATCAAAGTACCCTCGAATTATAA
1 AAATTACCAAA-TACCCCCGATTTAT-A
47037804 AAATTAC
1 AAATTAC
47037811 TATTTTACCC
Statistics
Matches: 115, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
25 3 0.03
26 19 0.17
27 80 0.70
28 13 0.11
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATTACCAAATACCCCCGATTTATA
Found at i:47037793 original size:54 final size:54
Alignment explanation
Indices: 47037634--47037811 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
47037624 AGAATACTTT
* * * * *
47037634 AGTTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCC
1 AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTC
* * ** * * *
47037687 GGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACTGAAA-TACCCTC
1 AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTA-TCAAAGTACCCTC
* * *
47037741 AGTTTGCAAAATTACTGAAATACCCTCGACATATAAAATTATCAAAGTACCCTC
1 AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTC
*
47037795 GAATTATA-AAAATTACT
1 -AGTT-TACAAAATTACT
47037812 ATTTTACCCT
Statistics
Matches: 97, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
53 23 0.24
54 58 0.60
55 15 0.15
56 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (54 bp):
AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTC
Found at i:47037795 original size:81 final size:81
Alignment explanation
Indices: 47037642--47037811 Score: 193
Period size: 81 Copynumber: 2.1 Consensus size: 81
47037632 TTAGTTTACC
* ***
47037642 AAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCCAAA
1 AAATTACTGAAATACCCCCAGTTGCAAAATTACCAAAGTACCCCCGACATATAAAATTACCCAAA
* * *
47037707 TATCCTCGATTTGT-A
66 TACCCTCGAATTATAA
* * * *
47037722 AAATTACTGAAATACCCTCAGTTTGCAAAATTACTGAAA-TACCCTCGACATATAAAATTA-TCA
1 AAATTACTGAAATACCCCCAG-TTGCAAAATTAC-CAAAGTACCCCCGACATATAAAATTACCCA
47037785 AAGTACCCTCGAATTATAA
64 AA-TACCCTCGAATTATAA
47037804 AAATTACT
1 AAATTACT
47037812 ATTTTACCCT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
80 24 0.32
81 39 0.52
82 12 0.16
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (81 bp):
AAATTACTGAAATACCCCCAGTTGCAAAATTACCAAAGTACCCCCGACATATAAAATTACCCAAA
TACCCTCGAATTATAA
Found at i:47037823 original size:55 final size:54
Alignment explanation
Indices: 47037761--47037878 Score: 139
Period size: 55 Copynumber: 2.2 Consensus size: 54
47037751 ATTACTGAAA
*
47037761 TACCCTCGACATATAAAATTATCAAAGTACCCTCGAATTATA-AAAATTACTATTT
1 TACCCTCGACATACAAAATTATCAAAGTACCCTCG-ATT-TACAAAATTACTATTT
** * * ***
47037816 TACCCTCGATTTACAGAATTATTATTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGACATACAAAATTATCAAAGTACCCTCGATTTACAAAATTACTATTT
47037870 TACCCTCGA
1 TACCCTCGA
47037879 TTTACAGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 2 0.04
54 25 0.46
55 27 0.50
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (54 bp):
TACCCTCGACATACAAAATTATCAAAGTACCCTCGATTTACAAAATTACTATTT
Found at i:47037841 original size:27 final size:27
Alignment explanation
Indices: 47037788--47037889 Score: 152
Period size: 27 Copynumber: 3.7 Consensus size: 27
47037778 ATTATCAAAG
47037788 TACCCTCGAATTATA-AAAATTACTATTT
1 TACCCTCG-ATT-TACAAAATTACTATTT
* *
47037816 TACCCTCGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTATTT
47037843 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
47037870 TACCCTCGATTTACAGAAAT
1 TACCCTCGATTTACA-AAAT
47037890 ACCGAAATAC
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
26 2 0.03
27 54 0.79
28 12 0.18
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:47037901 original size:54 final size:55
Alignment explanation
Indices: 47037788--47037902 Score: 146
Period size: 54 Copynumber: 2.1 Consensus size: 55
47037778 ATTATCAAAG
* ** **
47037788 TACCCTCGAATTATAAAAATTACTATTTTACCCTCGATTTACAGAATTATTATTT
1 TACCCTCGAATTATAAAAATTACTATTTTACCCTCGATTTACAGAAATACGATAA
47037843 TACCCTCG-ATT-TACAAAATTACTATTTTACCCTCGATTTACAGAAATACCGA-AA
1 TACCCTCGAATTATA-AAAATTACTATTTTACCCTCGATTTACAGAAATA-CGATAA
47037897 TACCCT
1 TACCCT
47037903 TATTGGGTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
53 2 0.04
54 42 0.79
55 9 0.17
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.37
Consensus pattern (55 bp):
TACCCTCGAATTATAAAAATTACTATTTTACCCTCGATTTACAGAAATACGATAA
Found at i:47037914 original size:27 final size:27
Alignment explanation
Indices: 47037884--47037960 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
47037874 CTCGATTTAC
* *
47037884 AGAAATACCGAAATACCCTTATTGGGT
1 AGAAATACCGAAATACCCCTATAGGGT
* *
47037911 AGAAATATCGAAATACCCCTGTAGGGT
1 AGAAATACCGAAATACCCCTATAGGGT
47037938 AGAAATACCGAAATACCCCTATA
1 AGAAATACCGAAATACCCCTATA
47037961 TTATATTGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (27 bp):
AGAAATACCGAAATACCCCTATAGGGT
Found at i:47038241 original size:6 final size:6
Alignment explanation
Indices: 47038226--47038359 Score: 114
Period size: 6 Copynumber: 21.8 Consensus size: 6
47038216 ATTCTCTTAC
* * *
47038226 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * *
47038275 TTGATT CTG-TT ACCTGATA CTGATT TTGATT CTGATT CTG-TCAC CTGATT
1 CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT
47038325 CTGATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
47038360 AATGTTTCTT
Statistics
Matches: 104, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
5 6 0.06
6 85 0.82
7 10 0.10
8 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:47038249 original size:31 final size:31
Alignment explanation
Indices: 47038203--47038345 Score: 223
Period size: 31 Copynumber: 4.6 Consensus size: 31
47038193 TTGCATTCAC
*
47038203 ATTCTGATTTTTGATTCTCTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
47038235 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
47038266 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
47038297 ATTTTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
47038328 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
47038346 ATTCTAGTTC
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 98 0.93
32 7 0.07
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:47044063 original size:13 final size:13
Alignment explanation
Indices: 47044045--47044070 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47044035 GTGCAGGGGA
47044045 CACACGGCCATGG
1 CACACGGCCATGG
47044058 CACACGGCCATGG
1 CACACGGCCATGG
47044071 GAGGGAACCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (13 bp):
CACACGGCCATGG
Found at i:47045066 original size:54 final size:54
Alignment explanation
Indices: 47044988--47045118 Score: 262
Period size: 54 Copynumber: 2.4 Consensus size: 54
47044978 TCATATGGTA
47044988 GGATTACCAGTCCAGGCTAAATCCCCCATTTTATGAACTCATAAGGTGATGTAG
1 GGATTACCAGTCCAGGCTAAATCCCCCATTTTATGAACTCATAAGGTGATGTAG
47045042 GGATTACCAGTCCAGGCTAAATCCCCCATTTTATGAACTCATAAGGTGATGTAG
1 GGATTACCAGTCCAGGCTAAATCCCCCATTTTATGAACTCATAAGGTGATGTAG
47045096 GGATTACCAGTCCAGGCTAAATC
1 GGATTACCAGTCCAGGCTAAATC
47045119 TCTTATAATG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCCATTTTATGAACTCATAAGGTGATGTAG
Found at i:47064342 original size:21 final size:21
Alignment explanation
Indices: 47064316--47064356 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
47064306 GTGACATGAT
47064316 AAACTCGCAAGAAGAAAATAC
1 AAACTCGCAAGAAGAAAATAC
47064337 AAACTCGCAAGAAGAAAATA
1 AAACTCGCAAGAAGAAAATA
47064357 AAAAAAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.17, G:0.15, T:0.10
Consensus pattern (21 bp):
AAACTCGCAAGAAGAAAATAC
Found at i:47065821 original size:3 final size:3
Alignment explanation
Indices: 47065807--47065845 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
47065797 AAATAGGCAT
*
47065807 TGA TGC TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
47065846 AGAAGAAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.03, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:47081424 original size:29 final size:29
Alignment explanation
Indices: 47081389--47081466 Score: 156
Period size: 29 Copynumber: 2.7 Consensus size: 29
47081379 TGAGTTATAC
47081389 TGATTTGGCTTCGGGCCATGCATATCGAA
1 TGATTTGGCTTCGGGCCATGCATATCGAA
47081418 TGATTTGGCTTCGGGCCATGCATATCGAA
1 TGATTTGGCTTCGGGCCATGCATATCGAA
47081447 TGATTTGGCTTCGGGCCATG
1 TGATTTGGCTTCGGGCCATG
47081467 ATAATTATTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (29 bp):
TGATTTGGCTTCGGGCCATGCATATCGAA
Found at i:47091401 original size:20 final size:20
Alignment explanation
Indices: 47091336--47091400 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
47091326 CTCCCATGTT
*
47091336 TTAATTATATTTTTAAATTA
1 TTAATTATATTATTAAATTA
* * *
47091356 TCAA-TATAATATTAATAATA
1 TTAATTATATTATTAA-ATTA
*
47091376 TT-ATTTTATTATTAAATTA
1 TTAATTATATTATTAAATTA
47091395 TTAATT
1 TTAATT
47091401 TAACTATTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAATTATATTATTAAATTA
Found at i:47091408 original size:20 final size:19
Alignment explanation
Indices: 47091348--47091412 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
47091338 AATTATATTT
* *
47091348 TTAAATTATCAATATAATA
1 TTAAATTATTAATTTAATA
* * *
47091367 TTAATAATATTATTTTATTA
1 TTAA-ATTATTAATTTAATA
47091387 TTAAATTATTAATTTAACTA
1 TTAAATTATTAATTTAA-TA
47091407 TTAAAT
1 TTAAAT
47091413 GACATGTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 14 0.39
20 22 0.61
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAATTATTAATTTAATA
Found at i:47091501 original size:17 final size:17
Alignment explanation
Indices: 47091443--47091503 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
47091433 ATTAAATTGA
47091443 AAATAAAAATTTTAAAG
1 AAATAAAAATTTTAAAG
**
47091460 AAATATACAACTAAATT-AA-
1 AAATA-A-AA--ATTTTAAAG
47091479 AAATAAAAATTTTAAAG
1 AAATAAAAATTTTAAAG
47091496 AAATAAAA
1 AAATAAAA
47091504 TGTTGTCGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 3 0.09
16 2 0.06
17 15 0.44
18 2 0.06
19 7 0.21
20 2 0.06
21 3 0.09
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AAATAAAAATTTTAAAG
Found at i:47095997 original size:45 final size:45
Alignment explanation
Indices: 47095933--47096026 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
47095923 TTGGTATTCT
*
47095933 TCTTTAATACGAAAATGATTTGTCAAAGCCTCAAGAGATATTTCC
1 TCTTCAATACGAAAATGATTTGTCAAAGCCTCAAGAGATATTTCC
*
47095978 TCTTCAATACGAAGATGATTTGTCAAAGCCTCAAGAGATATTTCC
1 TCTTCAATACGAAAATGATTTGTCAAAGCCTCAAGAGATATTTCC
47096023 TCTT
1 TCTT
47096027 TCTTATGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (45 bp):
TCTTCAATACGAAAATGATTTGTCAAAGCCTCAAGAGATATTTCC
Found at i:47097580 original size:23 final size:24
Alignment explanation
Indices: 47097550--47097594 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
47097540 ATCATGATGT
47097550 TTTTATAAATATAT-AATTATTTA
1 TTTTATAAATATATAAATTATTTA
* *
47097573 TTTTATAATTATTTAAATTATT
1 TTTTATAAATATATAAATTATT
47097595 GATAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTATAAATATATAAATTATTTA
Found at i:47097593 original size:15 final size:15
Alignment explanation
Indices: 47097555--47097593 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
47097545 GATGTTTTTA
47097555 TAAATATATAATTATT
1 TAAAT-TATAATTATT
**
47097571 TATTTTATAATTATT
1 TAAATTATAATTATT
47097586 TAAATTAT
1 TAAATTAT
47097594 TGATAAATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 16 0.84
16 3 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAAATTATAATTATT
Found at i:47098140 original size:31 final size:31
Alignment explanation
Indices: 47098095--47098168 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
47098085 AATTTTTAAC
*
47098095 AGTTTATATATTTATAAATTTTTAAAGAAATAA
1 AGTTTA-ATTTTTAT-AATTTTTAAAGAAATAA
* * *
47098128 A-TTTAATTTTTATTATTTTTAAATAGATAA
1 AGTTTAATTTTTATAATTTTTAAAGAAATAA
47098158 AGTTTAATTTT
1 AGTTTAATTTT
47098169 ACTTTTATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 15 0.42
31 16 0.44
32 4 0.11
33 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (31 bp):
AGTTTAATTTTTATAATTTTTAAAGAAATAA
Found at i:47100250 original size:33 final size:33
Alignment explanation
Indices: 47100203--47100269 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
47100193 CAAAATGTTA
47100203 GGATTTTTCAATGGATGAATATAGTTGAATTAT
1 GGATTTTTCAATGGATGAATATAGTTGAATTAT
*
47100236 GGATTTTTCCATGGATGAATATAGTTGAATTAT
1 GGATTTTTCAATGGATGAATATAGTTGAATTAT
47100269 G
1 G
47100270 AAATTTTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.42
Consensus pattern (33 bp):
GGATTTTTCAATGGATGAATATAGTTGAATTAT
Found at i:47101090 original size:26 final size:26
Alignment explanation
Indices: 47101061--47101130 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
47101051 CCTGATATAT
47101061 GGCTCTTCATGAGCTT-CTCAATTAAA
1 GGCTCTTCATGAGCTTCCT-AATTAAA
* *
47101087 GGCTCTTTATGAGCTTCCTAATTAAT
1 GGCTCTTCATGAGCTTCCTAATTAAA
47101113 GGCTCTTCA-GAGCTTCCT
1 GGCTCTTCATGAGCTTCCT
47101131 GATATGGCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
25 9 0.22
26 29 0.73
27 2 0.05
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCTAATTAAA
Found at i:47101141 original size:23 final size:23
Alignment explanation
Indices: 47101087--47101163 Score: 100
Period size: 23 Copynumber: 3.2 Consensus size: 23
47101077 CTCAATTAAA
* *
47101087 GGCTCTTTATGAGCTTCCTAATTAAT
1 GGCTCTTCA-GAGCTTCCTGA-T-AT
47101113 GGCTCTTCAGAGCTTCCTGATAT
1 GGCTCTTCAGAGCTTCCTGATAT
*
47101136 GGCTCTTCGGAGCTTCCTGATAT
1 GGCTCTTCAGAGCTTCCTGATAT
47101159 GGCTC
1 GGCTC
47101164 ACTTGAACTT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
23 29 0.60
24 1 0.02
25 10 0.21
26 8 0.17
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (23 bp):
GGCTCTTCAGAGCTTCCTGATAT
Found at i:47101174 original size:23 final size:22
Alignment explanation
Indices: 47101111--47101181 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 22
47101101 TTCCTAATTA
*
47101111 ATGGCTCTTCAGAGCTTCCTGAT
1 ATGGCTCTTC-GAACTTCCTGAT
*
47101134 ATGGCTCTTCGGAGCTTCCTGAT
1 ATGGCTCTTC-GAACTTCCTGAT
*
47101157 ATGGCTCACTT-GAACTTCCCGAT
1 ATGGCT--CTTCGAACTTCCTGAT
47101180 AT
1 AT
47101182 ACGGCTATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 40 0.93
25 3 0.07
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (22 bp):
ATGGCTCTTCGAACTTCCTGAT
Found at i:47101317 original size:25 final size:25
Alignment explanation
Indices: 47101289--47101336 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
47101279 TACAGCCCGG
47101289 ATAAGCTT-CTCATTATATAGCTCAC
1 ATAAGCTTCCT-ATTATATAGCTCAC
*
47101314 ATAAGCTTCCTATTATATTGCTC
1 ATAAGCTTCCTATTATATAGCTC
47101337 GAGAGAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (25 bp):
ATAAGCTTCCTATTATATAGCTCAC
Found at i:47104267 original size:37 final size:37
Alignment explanation
Indices: 47104206--47104351 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
47104196 TACGTATGAT
* *
47104206 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
47104241 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47104278 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
47104315 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47104352 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:47104368 original size:46 final size:46
Alignment explanation
Indices: 47104315--47104583 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
47104305 TAAGTGTAGC
* **
47104315 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
47104361 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
47104407 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
47104459 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
47104505 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
47104557 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
47104584 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:47104434 original size:52 final size:52
Alignment explanation
Indices: 47104358--47104577 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
47104348 TAGCTAAAGC
* *
47104358 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
47104411 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
47104463 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
47104509 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
47104561 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
47104578 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:47104480 original size:98 final size:98
Alignment explanation
Indices: 47104315--47104583 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
47104305 TAAGTGTAGC
* * *
47104315 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
47104380 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
47104414 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
47104479 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
47104512 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
47104577 GATCAGA
66 GATCAGA
47104584 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:47109574 original size:21 final size:21
Alignment explanation
Indices: 47109550--47109590 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47109540 AGCTAATGTC
* *
47109550 CTTAATTTTCAACAATAAACT
1 CTTAATTTCCAAAAATAAACT
47109571 CTTAATTTCCAAAAATAAAC
1 CTTAATTTCCAAAAATAAAC
47109591 GAAGGCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (21 bp):
CTTAATTTCCAAAAATAAACT
Found at i:47113648 original size:30 final size:30
Alignment explanation
Indices: 47113604--47113673 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
47113594 CAATCTTTAT
*
47113604 TTTTA-TTT-TTATTTATTATTTTCCTTTC-
1 TTTTATTTTATTATTTATTATTTT-ATTTCA
*
47113632 TTTTCTTTTATTATTTATTATTTTATTTCA
1 TTTTATTTTATTATTTATTATTTTATTTCA
47113662 TTTTATTTTATT
1 TTTTATTTTATT
47113674 TTAGTTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 4 0.11
29 7 0.19
30 25 0.69
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (30 bp):
TTTTATTTTATTATTTATTATTTTATTTCA
Found at i:47113657 original size:5 final size:5
Alignment explanation
Indices: 47113599--47113676 Score: 50
Period size: 5 Copynumber: 14.8 Consensus size: 5
47113589 CAACCCAATC
** * *
47113599 TTTATT TTTATT TTTATT TATTAT TTTCC TTTCT TTTCT TTTAT TATT-T
1 TTTA-T TTTA-T TTTA-T T-TTAT TTTAT TTTAT TTTAT TTTAT T-TTAT
* *
47113648 ATTAT TTTAT TTCAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
47113677 GTTAAATATT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
4 2 0.03
5 39 0.64
6 17 0.28
7 3 0.05
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:47113828 original size:42 final size:42
Alignment explanation
Indices: 47113782--47113893 Score: 154
Period size: 42 Copynumber: 2.6 Consensus size: 42
47113772 ATCCATGGTA
*
47113782 CCAAACAGTTCTATTCCAGCCCA-AAGTGCCATATCCCTACTG
1 CCAAACAGTTCTATTCCAGCCCAGAA-TGCCATATCCCTACAG
* * *
47113824 CCAAACAGTTCTATTCCAGTCCAGAATGCCATATCTCTGCAG
1 CCAAACAGTTCTATTCCAGCCCAGAATGCCATATCCCTACAG
*
47113866 CCAAACAGTCCTATTCCAGCCCTAGAAT
1 CCAAACAGTTCTATTCCAGCCC-AGAAT
47113894 CCCCAAAACC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
42 55 0.89
43 7 0.11
ACGTcount: A:0.29, C:0.34, G:0.12, T:0.24
Consensus pattern (42 bp):
CCAAACAGTTCTATTCCAGCCCAGAATGCCATATCCCTACAG
Found at i:47113908 original size:43 final size:42
Alignment explanation
Indices: 47113782--47113915 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 42
47113772 ATCCATGGTA
* * * * * * *
47113782 CCAAACAGTTCTATTCCAGCCCA-AAGTGCCATATCCCTACTG
1 CCAAACAGTCCTATTCCAGCCCAGAA-TCCCAAAACTCTGCAG
* * * * *
47113824 CCAAACAGTTCTATTCCAGTCCAGAATGCCATATCTCTGCAG
1 CCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCAG
47113866 CCAAACAGTCCTATTCCAGCCCTAGAATCCCCAAAAC-CTGCAG
1 CCAAACAGTCCTATTCCAGCCC-AGAAT-CCCAAAACTCTGCAG
47113909 CCAAACA
1 CCAAACA
47113916 CCCATTTTCA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 55 0.69
43 20 0.25
44 5 0.06
ACGTcount: A:0.31, C:0.36, G:0.12, T:0.21
Consensus pattern (42 bp):
CCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCAG
Found at i:47114898 original size:118 final size:118
Alignment explanation
Indices: 47114673--47114885 Score: 399
Period size: 118 Copynumber: 1.8 Consensus size: 118
47114663 TGTTTTCCAT
*
47114673 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
47114738 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
**
47114791 GGTTATGAGTATGGCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
47114856 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
47114886 TTGGGTAAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 92 1.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (118 bp):
GGTTATGAGTACAGCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
Found at i:47115044 original size:9 final size:9
Alignment explanation
Indices: 47115032--47115065 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
47115022 AAAATTTTAA
47115032 AAAAAAAAG
1 AAAAAAAAG
47115041 -AAAAAAAG
1 AAAAAAAAG
47115049 AAAAAAAAG
1 AAAAAAAAG
47115058 AAAAAAAA
1 AAAAAAAA
47115066 ATGAAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:47115044 original size:11 final size:11
Alignment explanation
Indices: 47115030--47115102 Score: 62
Period size: 12 Copynumber: 6.6 Consensus size: 11
47115020 ATAAAATTTT
47115030 AAAAAAAA-AA
1 AAAAAAAAGAA
*
47115040 GAAAAAAAG--
1 AAAAAAAAGAA
47115049 AAAAAAAAGAA
1 AAAAAAAAGAA
*
47115060 AAAAAAATGAA
1 AAAAAAAAGAA
* *
47115071 GAAAAAATGAGTA
1 -AAAAAA-AAGAA
47115084 AAAAAAAAGAA
1 AAAAAAAAGAA
47115095 GAAAAAAA
1 -AAAAAAA
47115103 TGAATACTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
9 8 0.16
10 7 0.14
11 13 0.27
12 19 0.39
13 2 0.04
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:47115054 original size:17 final size:17
Alignment explanation
Indices: 47115032--47115064 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
47115022 AAAATTTTAA
47115032 AAAAAAAAGAAAAAAAG
1 AAAAAAAAGAAAAAAAG
47115049 AAAAAAAAGAAAAAAA
1 AAAAAAAAGAAAAAAA
47115065 AATGAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAG
Found at i:47116907 original size:32 final size:32
Alignment explanation
Indices: 47116866--47116930 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
47116856 TCCCCTTTTC
47116866 TTTGTTGCTTAAAATAGAAAACATTAATTACA
1 TTTGTTGCTTAAAATAGAAAACATTAATTACA
47116898 TTTGTTGCTTAAAATAGAAAACATTAATTACA
1 TTTGTTGCTTAAAATAGAAAACATTAATTACA
47116930 T
1 T
47116931 AGTAAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.38
Consensus pattern (32 bp):
TTTGTTGCTTAAAATAGAAAACATTAATTACA
Found at i:47118586 original size:46 final size:45
Alignment explanation
Indices: 47118526--47118753 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 45
47118516 TTTGACATGA
* * * * * *
47118526 TGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA-TCA-TTTCATATCAGGT
* * *
47118572 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCAAATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTT-ATCATTTCATATCAGGT
*
47118618 TGCCATGGTATCTTTCAACGATGGTCTTATACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAT-CATTTCATATCAGGT
47118664 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAT-CATTTCATATCAGGT
*
47118710 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTA-TCATTTCATATCAG
47118754 AGAGCACACT
Statistics
Matches: 164, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
45 5 0.03
46 159 0.97
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATCATTTCATATCAGGT
Found at i:47122017 original size:3 final size:3
Alignment explanation
Indices: 47122009--47122043 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
47121999 AACAAGAATC
47122009 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
47122044 GGGTTGGGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:47143596 original size:6 final size:6
Alignment explanation
Indices: 47143585--47143613 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
47143575 GGAGGGTCGT
47143585 GTGGGA GTGGGA GTGGGA GTGGGA GTGGG
1 GTGGGA GTGGGA GTGGGA GTGGGA GTGGG
47143614 TTAAAAACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.69, T:0.17
Consensus pattern (6 bp):
GTGGGA
Found at i:47144085 original size:14 final size:14
Alignment explanation
Indices: 47144066--47144103 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
47144056 TGTTTAACTC
47144066 AAAATGACTTCT-G
1 AAAATGACTTCTAG
*
47144079 AAAAATGATTTCTAG
1 -AAAATGACTTCTAG
47144094 AAAATGACTT
1 AAAATGACTT
47144104 ACGCTGCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (14 bp):
AAAATGACTTCTAG
Found at i:47157096 original size:17 final size:17
Alignment explanation
Indices: 47157074--47157110 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
47157064 TAAGAAGGAA
47157074 TAATTAAAAATTTTAAT
1 TAATTAAAAATTTTAAT
*
47157091 TAATTAAAATTTTTAAT
1 TAATTAAAAATTTTAAT
47157108 TAA
1 TAA
47157111 AAATCTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATTAAAAATTTTAAT
Found at i:47171588 original size:12 final size:12
Alignment explanation
Indices: 47171571--47171595 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47171561 CAAATATACC
47171571 ACCAGATTTATT
1 ACCAGATTTATT
47171583 ACCAGATTTATT
1 ACCAGATTTATT
47171595 A
1 A
47171596 AGAATAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (12 bp):
ACCAGATTTATT
Found at i:47173564 original size:13 final size:14
Alignment explanation
Indices: 47173541--47173569 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
47173531 CATACCAGAG
47173541 TTATCTATTTATTA
1 TTATCTATTTATTA
47173555 TTAT-TATTTATTA
1 TTATCTATTTATTA
47173568 TT
1 TT
47173570 CTTCTGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATCTATTTATTA
Found at i:47178843 original size:5 final size:5
Alignment explanation
Indices: 47178835--47178869 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
47178825 TGGAAGACTC
47178835 TATTT TATTT TATTT TATTT TATTT TATTT ATATT
1 TATTT TATTT TATTT TATTT TATTT TATTT -TATT
47178870 AGGATAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:47185543 original size:43 final size:42
Alignment explanation
Indices: 47185454--47185546 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
47185444 TATCCATACT
* * *
47185454 GCCAAACAGTCCTATTCCAGCCCAGAATGCCATATCTCTGCA
1 GCCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCA
* *
47185496 GCCAAACAGTCCTATTCCAGCCTTAGAATCCCCAAAAC-CTGTA
1 GCCAAACAGTCCTATTCCAGCC-CAGAAT-CCCAAAACTCTGCA
47185539 GCCAAACA
1 GCCAAACA
47185547 CCCATTTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
42 22 0.50
43 17 0.39
44 5 0.11
ACGTcount: A:0.32, C:0.35, G:0.13, T:0.19
Consensus pattern (42 bp):
GCCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCA
Found at i:47187242 original size:10 final size:10
Alignment explanation
Indices: 47187222--47187254 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
47187212 ATTTTAGGAT
47187222 ATTAT-TTTA
1 ATTATCTTTA
47187231 ATTATCTTTA
1 ATTATCTTTA
47187241 ATTATCTTTA
1 ATTATCTTTA
47187251 ATTA
1 ATTA
47187255 AATGTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.22
10 18 0.78
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTATCTTTA
Found at i:47190573 original size:54 final size:54
Alignment explanation
Indices: 47190508--47190847 Score: 502
Period size: 54 Copynumber: 6.3 Consensus size: 54
47190498 TTAGTTTACC
*
47190508 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
47190562 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
** *
47190616 AAATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
47190670 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
47190724 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * *
47190778 AAATTATCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
**
47190831 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
47190848 TCGACCTGTA
Statistics
Matches: 260, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
53 47 0.18
54 213 0.82
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:47190848 original size:27 final size:27
Alignment explanation
Indices: 47190508--47190920 Score: 450
Period size: 27 Copynumber: 15.3 Consensus size: 27
47190498 TTAGTTTACC
*
47190508 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
47190535 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
47190562 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* **
47190589 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
47190616 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
** * *
47190643 AAATTATTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
47190670 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
**
47190697 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
47190724 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
47190751 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
47190778 AAATTATCAAAATACCC-TAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
47190804 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTA
** * ***
47190831 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*** * **
47190858 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * * *
47190885 AAATTACCAAAGTACCATTGATTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
47190912 GAATTACCA
1 AAATTACCA
47190921 TTTTACCCTC
Statistics
Matches: 326, Mismatches: 59, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 24 0.07
27 302 0.93
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:47190970 original size:27 final size:27
Alignment explanation
Indices: 47190940--47191108 Score: 221
Period size: 27 Copynumber: 6.3 Consensus size: 27
47190930 CGATTTACAA
* *
47190940 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
47190967 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
47190994 AATTACCGAAATACTCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47191021 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
47191048 AATTACTGAAATACTCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
47191075 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
47191102 AATTACC
1 AATTACC
47191109 ATTTTACCCC
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:47190998 original size:54 final size:54
Alignment explanation
Indices: 47190940--47191107 Score: 246
Period size: 54 Copynumber: 3.1 Consensus size: 54
47190930 CGATTTACAA
*
47190940 AATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACTCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
47190994 AATTACCGAAATACTCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACTCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * * *
47191048 AATTACTGAAATACTCCTATAAGGTAGAATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACTCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
47191102 AATTAC
1 AATTAC
47191108 CATTTTACCC
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 100 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACTCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:47191630 original size:6 final size:6
Alignment explanation
Indices: 47191621--47191741 Score: 79
Period size: 6 Copynumber: 19.8 Consensus size: 6
47191611 TTGCATTCAC
* * * *
47191621 ATTCTG ATTCTG ATTCTG -TTACTTC ATACTG ATTCTA ATTCTG GTTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
47191670 ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG A-TCTG -TTACCTA ATTCTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * *
47191719 ATTTTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
47191742 AGTTTTGATA
Statistics
Matches: 87, Mismatches: 18, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
5 9 0.10
6 67 0.77
7 7 0.08
8 4 0.05
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:47191717 original size:43 final size:43
Alignment explanation
Indices: 47191622--47191721 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
47191612 TGCATTCACA
* *
47191622 TTCTGATTCTGATTCTGTTACTTCATACTGATTCTAATTCTGG
1 TTCTAATTCTGATTCTGTTACCTCATACTGATTCTAATTCTGG
* * *
47191665 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGA-TCT-G
1 TTCTAATTCTGATTCTGTTACCTCATACTGATTCTAATTCTGG
47191706 TTACCTAATTCTGATT
1 TT--CTAATTCTGATT
47191722 TTGATTCTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 3 0.06
42 3 0.06
43 45 0.88
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (43 bp):
TTCTAATTCTGATTCTGTTACCTCATACTGATTCTAATTCTGG
Found at i:47191747 original size:12 final size:12
Alignment explanation
Indices: 47191713--47191750 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
47191703 CTGTTACCTA
*
47191713 ATTCTGATTTTG
1 ATTCTCATTTTG
47191725 ATTCTCATTTTG
1 ATTCTCATTTTG
47191737 ATTCT-AGTTTTG
1 ATTCTCA-TTTTG
47191749 AT
1 AT
47191751 AATGTTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 1 0.04
12 23 0.96
ACGTcount: A:0.18, C:0.11, G:0.13, T:0.58
Consensus pattern (12 bp):
ATTCTCATTTTG
Found at i:47193112 original size:56 final size:56
Alignment explanation
Indices: 47193046--47193155 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 56
47193036 GAGTGTGGAC
* **
47193046 TGTCGTGTTCTCCAAGGAATTTATTTTCATTGGTTGCTATTCTTGAAGGTAAGGTG
1 TGTCATGTTCTCCAAGGAATTTATTGCCATTGGTTGCTATTCTTGAAGGTAAGGTG
* *
47193102 TGTCATGTTCTCCAAGGAATTTATTGCCGTTGGTTGCTATTTTTGAAGGTAAGG
1 TGTCATGTTCTCCAAGGAATTTATTGCCATTGGTTGCTATTCTTGAAGGTAAGG
47193156 AGTTAATTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.20, C:0.13, G:0.25, T:0.42
Consensus pattern (56 bp):
TGTCATGTTCTCCAAGGAATTTATTGCCATTGGTTGCTATTCTTGAAGGTAAGGTG
Found at i:47194377 original size:16 final size:16
Alignment explanation
Indices: 47194356--47194387 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47194346 TAGGATACCC
47194356 TATAAGAATCTATCCT
1 TATAAGAATCTATCCT
47194372 TATAAGAATCTATCCT
1 TATAAGAATCTATCCT
47194388 AAAAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
TATAAGAATCTATCCT
Found at i:47195234 original size:26 final size:26
Alignment explanation
Indices: 47195205--47195260 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
47195195 TGATAAAAAT
*
47195205 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47195231 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47195257 TGAT
1 TGAT
47195261 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:47200476 original size:20 final size:20
Alignment explanation
Indices: 47200451--47200509 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
47200441 TTTAGAAATG
47200451 GGAGCATTACCGGAATTTAC
1 GGAGCATTACCGGAATTTAC
* *
47200471 GGAGCATTACCGGGACTTAC
1 GGAGCATTACCGGAATTTAC
*
47200491 -GAGCATTACCGAAATTTAC
1 GGAGCATTACCGGAATTTAC
47200510 AAATCAGACA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (20 bp):
GGAGCATTACCGGAATTTAC
Found at i:47203484 original size:30 final size:30
Alignment explanation
Indices: 47203450--47203510 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47203440 TCCTTAACTC
47203450 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * * *
47203480 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
47203510 A
1 A
47203511 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:47207815 original size:11 final size:10
Alignment explanation
Indices: 47207801--47207840 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
47207791 TTCATTTAAT
47207801 AAATTATTAAA
1 AAATTA-TAAA
47207812 AAATTAT-AA
1 AAATTATAAA
47207821 AAATTAT-AA
1 AAATTATAAA
47207830 AAATTA-AAA
1 AAATTATAAA
47207839 AA
1 AA
47207841 TAAAAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 21 0.75
10 1 0.04
11 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAATTATAAA
Found at i:47207824 original size:9 final size:8
Alignment explanation
Indices: 47207806--47207848 Score: 61
Period size: 9 Copynumber: 5.2 Consensus size: 8
47207796 TTAATAAATT
47207806 ATTAAAAA
1 ATTAAAAA
47207814 ATTATAAAA
1 ATTA-AAAA
47207823 ATTATAAAA
1 ATTA-AAAA
47207832 ATTAAAAA
1 ATTAAAAA
47207840 A-TAAAAA
1 ATTAAAAA
47207847 AT
1 AT
47207849 AGTCCAATCG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.21
8 9 0.27
9 17 0.52
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
ATTAAAAA
Found at i:47214690 original size:41 final size:41
Alignment explanation
Indices: 47214624--47215026 Score: 299
Period size: 41 Copynumber: 9.9 Consensus size: 41
47214614 GTAAATATGT
* * * * *
47214624 AAACGCCGCAAAAAAAAGAGAAATAGCAGCGTTTTTGTCTA
1 AAACGCCACTAAAAACATAGAAATAGCGGCGTTTTTGTCTA
** * *
47214665 AAACGCCACTAAAAACATATCAATAGCGGCGGTTTTATCTA
1 AAACGCCACTAAAAACATAGAAATAGCGGCGTTTTTGTCTA
* **
47214706 AAACGCCACTAAAAAC-TA-ATCAATAGCGTCG-TTTTCACGT-
1 AAACGCCACTAAAAACATAGA--AATAGCGGCGTTTTTGTC-TA
* * * *
47214746 AAACGCCACTAAAAACTTGGGAAATAGTGACGTTTTTGTCCT-
1 AAACGCCACTAAAAACAT-AGAAATAGCGGCGTTTTTGT-CTA
** ** * ** *
47214788 AAACGCCACT-AAAAGTTATCAATAGCGGCATTTTCATCCA
1 AAACGCCACTAAAAACATAGAAATAGCGGCGTTTTTGTCTA
* *
47214828 AAACGCCACTAAAAAGCAGAGAAATAGCGGCGTTTTTGTC-C
1 AAACGCCACTAAAAA-CATAGAAATAGCGGCGTTTTTGTCTA
* *
47214869 AAACGCCACTAAAAAGCATAGAAATAGTGGCGTTTTTGTC-C
1 AAACGCCACTAAAAA-CATAGAAATAGCGGCGTTTTTGTCTA
* ** * *
47214910 AAACGCCAGTAAAAACAGGGAAAATAGCGGCGTTTTTATGTA
1 AAACGCCACTAAAAACATAG-AAATAGCGGCGTTTTTGTCTA
* * *
47214952 AAACACCACTAAAAATAGAGAAATAGCGGCGTTTTTGT-TA
1 AAACGCCACTAAAAACATAGAAATAGCGGCGTTTTTGTCTA
*
47214992 AAATGCCACT-AAAAC-TA-ATCAATAGCGGCGTTTTT
1 AAACGCCACTAAAAACATAGA--AATAGCGGCGTTTTT
47215027 AGAACCAAAC
Statistics
Matches: 292, Mismatches: 55, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 20 0.07
40 58 0.20
41 163 0.56
42 47 0.16
43 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (41 bp):
AAACGCCACTAAAAACATAGAAATAGCGGCGTTTTTGTCTA
Found at i:47214793 original size:123 final size:123
Alignment explanation
Indices: 47214653--47215005 Score: 357
Period size: 123 Copynumber: 2.9 Consensus size: 123
47214643 GAAATAGCAG
*
47214653 CGTTTTTGT-CTAAAACGCCACTAAAAACATATCAATAGCGGCGGTTTTATCTAAAACGCCACTA
1 CGTTTTTGTCCT-AAACGCCACTAAAAACATATCAATAGCGGCGATTTTATCTAAAACGCCACTA
** * * *
47214717 AAAA-CTA-ATCAATAGCGTCGTTTTCACGT-AAACGCCACTAAAAA-CTTGGGAAATAGTGA
65 AAAAGC-AGAGAAATAGCGGCGTTTT--CGTCAAACGCCACTAAAAAGCAT-AGAAATAGTGA
** *
47214776 CGTTTTTGTCCTAAACGCCACT-AAAAGTTATCAATAGCGGC-ATTTTCATCCAAAACGCCACTA
1 CGTTTTTGTCCTAAACGCCACTAAAAACATATCAATAGCGGCGATTTT-ATCTAAAACGCCACTA
* *
47214839 AAAAGCAGAGAAATAGCGGCGTTTTTGTCCAAACGCCACTAAAAAGCATAGAAATAGTGG
65 AAAAGCAGAGAAATAGCGGCGTTTTCGT-CAAACGCCACTAAAAAGCATAGAAATAGTGA
* * * * * *
47214899 CGTTTTTGTCC-AAACGCCAGTAAAAACAGGGA-AAATAGCGGCGTTTTTATGTAAAACACCACT
1 CGTTTTTGTCCTAAACGCCACTAAAAACA--TATCAATAGCGGCGATTTTATCTAAAACGCCACT
* * * *
47214962 AAAAA-TAGAGAAATAGCGGCGTTTTTGTTAAAATGCCACTAAAA
64 AAAAAGCAGAGAAATAGCGGCGTTTTCG-TCAAACGCCACTAAAA
47215006 CTAATCAATA
Statistics
Matches: 195, Mismatches: 23, Indels: 24
0.81 0.10 0.10
Matches are distributed among these distances:
121 6 0.03
122 46 0.24
123 107 0.55
124 31 0.16
125 5 0.03
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (123 bp):
CGTTTTTGTCCTAAACGCCACTAAAAACATATCAATAGCGGCGATTTTATCTAAAACGCCACTAA
AAAGCAGAGAAATAGCGGCGTTTTCGTCAAACGCCACTAAAAAGCATAGAAATAGTGA
Found at i:47216450 original size:41 final size:40
Alignment explanation
Indices: 47216405--47216499 Score: 145
Period size: 41 Copynumber: 2.4 Consensus size: 40
47216395 CATTTTTAAA
* *
47216405 AAAAGCGCCGCTAATTCCCTATTTTTAGCGTCGCTTTTTTT
1 AAAAGCGCCACTAATTCCCTATTTTTAGCGACGC-TTTTTT
*
47216446 AAAAGCGCCACTAATTCTCTATTTTTAGCGACGCTTTTTT
1 AAAAGCGCCACTAATTCCCTATTTTTAGCGACGCTTTTTT
*
47216486 AAAAACGCCACTAA
1 AAAAGCGCCACTAA
47216500 AAGTTTAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 19 0.38
41 31 0.62
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (40 bp):
AAAAGCGCCACTAATTCCCTATTTTTAGCGACGCTTTTTT
Found at i:47216816 original size:11 final size:11
Alignment explanation
Indices: 47216797--47216834 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
47216787 AACAGTTTAT
*
47216797 TTTCGATTTCA
1 TTTCCATTTCA
47216808 TTTCCATTTCA
1 TTTCCATTTCA
47216819 TTTCCATTTCGA
1 TTTCCATTTC-A
47216831 TTTC
1 TTTC
47216835 ACTTCTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.16, C:0.24, G:0.05, T:0.55
Consensus pattern (11 bp):
TTTCCATTTCA
Found at i:47216826 original size:17 final size:16
Alignment explanation
Indices: 47216797--47216835 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
47216787 AACAGTTTAT
47216797 TTTCGATTTCATTTCCA
1 TTTC-ATTTCATTTCCA
*
47216814 TTTCATTTCCATTTCGA
1 TTTCATTT-CATTTCCA
47216831 TTTCA
1 TTTCA
47216836 CTTCTGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.54
Consensus pattern (16 bp):
TTTCATTTCATTTCCA
Found at i:47218778 original size:27 final size:27
Alignment explanation
Indices: 47218729--47218781 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
47218719 ACATAACAAC
* *
47218729 TTACATAACTCACATATCTTACATAAT
1 TTACATAACTCACATAACGTACATAAT
*
47218756 TTACATAACTCACTTAACGTACATAA
1 TTACATAACTCACATAACGTACATAA
47218782 CAACTTACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.34
Consensus pattern (27 bp):
TTACATAACTCACATAACGTACATAAT
Found at i:47218795 original size:9 final size:9
Alignment explanation
Indices: 47218706--47218797 Score: 67
Period size: 9 Copynumber: 9.6 Consensus size: 9
47218696 ATTGATCATT
47218706 ACTTACATA
1 ACTTACATA
*
47218715 ATTTACATAACA
1 ACTTACAT---A
47218727 ACTTACATA
1 ACTTACATA
*
47218736 ACTCACATA
1 ACTTACATA
*
47218745 TCTTACATA
1 ACTTACATA
*
47218754 ATTTACATA
1 ACTTACATA
* *
47218763 ACTCACTTA
1 ACTTACATA
*
47218772 ACGTACATAACA
1 ACTTACAT---A
47218784 ACTTACATA
1 ACTTACATA
47218793 ACTTA
1 ACTTA
47218798 ACTAATACAT
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
9 47 0.75
12 16 0.25
ACGTcount: A:0.43, C:0.23, G:0.01, T:0.33
Consensus pattern (9 bp):
ACTTACATA
Found at i:47224305 original size:43 final size:43
Alignment explanation
Indices: 47224250--47224370 Score: 170
Period size: 43 Copynumber: 2.8 Consensus size: 43
47224240 TGGAAAAAGT
* *
47224250 GCCGCTACAAGCCGTGACTTTTAGCGGTGCTTTTCCCACAAAC
1 GCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTTCCCACAAAC
* *
47224293 GCCTCTAAAAGCCGTGACTTTTAGCGGCGTTTTTCCCACAAAC
1 GCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTTCCCACAAAC
** *
47224336 GCCGCTAAAAGTTGTGACTTTTTAGCGGCGTTTTT
1 GCCGCTAAAAGCCGTGAC-TTTTAGCGGCGCTTTT
47224371 TTTTTCAATA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 54 0.77
44 16 0.23
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (43 bp):
GCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTTCCCACAAAC
Found at i:47229352 original size:18 final size:16
Alignment explanation
Indices: 47229329--47229365 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
47229319 TATTATCCAT
47229329 AAAAATATATATAATTAA
1 AAAAATAT-TA-AATTAA
47229347 AAAAATATTAAATTAA
1 AAAAATATTAAATTAA
47229363 AAA
1 AAA
47229366 TAATGTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 2 0.11
18 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATATTAAATTAA
Found at i:47229374 original size:16 final size:16
Alignment explanation
Indices: 47229328--47229374 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
47229318 TTATTATCCA
47229328 TAAAAAT-ATATATAAT
1 TAAAAATAATATA-AAT
47229344 TAAAAA-AATATTAAAT
1 TAAAAATAATA-TAAAT
*
47229360 TAAAAATAATGTAAA
1 TAAAAATAATATAAA
47229375 CATATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 22 0.81
17 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
TAAAAATAATATAAAT
Found at i:47235362 original size:13 final size:13
Alignment explanation
Indices: 47235344--47235373 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47235334 ATTTTTTTAA
*
47235344 TATAAAATATTTC
1 TATAAAATATTAC
47235357 TATAAAATATTAC
1 TATAAAATATTAC
47235370 TATA
1 TATA
47235374 GTGGAATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
TATAAAATATTAC
Found at i:47236098 original size:25 final size:24
Alignment explanation
Indices: 47236020--47236099 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
47236010 ACAAATAATT
*
47236020 TAAAATT-TTAAAATTTTC-AAAA
1 TAAAATTCTTAAAACTTTCAAAAA
* *
47236042 TAAAATGTCATAAAAACTAT-AAAAA
1 TAAAAT-TC-TTAAAACTTTCAAAAA
*
47236067 TAGAAATTCTTAAAAGTTTCAAACAA
1 TA-AAATTCTTAAAACTTTCAAA-AA
47236093 TAAAATT
1 TAAAATT
47236100 TTTTAAAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
22 6 0.13
23 1 0.02
24 7 0.16
25 23 0.51
26 8 0.18
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (24 bp):
TAAAATTCTTAAAACTTTCAAAAA
Found at i:47239917 original size:87 final size:87
Alignment explanation
Indices: 47239811--47239981 Score: 279
Period size: 87 Copynumber: 2.0 Consensus size: 87
47239801 ACCAAGGCAC
* * ** * *
47239811 GGTCAAGTTGTTGGTGTCGTTGCCAGGGAGGTTTAGGTGTTAATTTGATTTAGTAGTAAATTGTG
1 GGTCAAGTTGTTGGCGTCGTTGCCAGGGAAGTTTAGGTACTAATATGATTTAATAGTAAATTGTG
47239876 CAGGCTAGTTAGGATAAGTCAT
66 CAGGCTAGTTAGGATAAGTCAT
*
47239898 GGTCAAGTTGTTGGCGTCGTTGCTAGGGAAGTTTAGGTACTAATATGATTTAATAGTAAATTGTG
1 GGTCAAGTTGTTGGCGTCGTTGCCAGGGAAGTTTAGGTACTAATATGATTTAATAGTAAATTGTG
47239963 CAGGCTAGTTAGGATAAGT
66 CAGGCTAGTTAGGATAAGT
47239982 AGTGAATTCG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 77 1.00
ACGTcount: A:0.25, C:0.08, G:0.31, T:0.36
Consensus pattern (87 bp):
GGTCAAGTTGTTGGCGTCGTTGCCAGGGAAGTTTAGGTACTAATATGATTTAATAGTAAATTGTG
CAGGCTAGTTAGGATAAGTCAT
Found at i:47243176 original size:10 final size:10
Alignment explanation
Indices: 47243161--47243209 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
47243151 AACTTTAGCT
*
47243161 TTTATCTTCA
1 TTTATCTTTA
47243171 TTTATCTTTA
1 TTTATCTTTA
*
47243181 ATTATCTTTA
1 TTTATCTTTA
47243191 TTTAT-TTGTA
1 TTTATCTT-TA
47243201 TTTATCTTT
1 TTTATCTTT
47243210 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:47245190 original size:15 final size:17
Alignment explanation
Indices: 47245164--47245195 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
47245154 TATTCTCTTT
47245164 ATTATCTTTAGA-TGGA
1 ATTATCTTTAGACTGGA
47245180 ATTAT-TTTAGACTGGA
1 ATTATCTTTAGACTGGA
47245196 CTAGTACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (17 bp):
ATTATCTTTAGACTGGA
Found at i:47258049 original size:15 final size:15
Alignment explanation
Indices: 47258029--47258059 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47258019 CTACTAATTC
47258029 AAACAGGATTCTTCT
1 AAACAGGATTCTTCT
47258044 AAACAGGATTCTTCT
1 AAACAGGATTCTTCT
47258059 A
1 A
47258060 TCTCTCTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (15 bp):
AAACAGGATTCTTCT
Found at i:47267035 original size:95 final size:96
Alignment explanation
Indices: 47266923--47267096 Score: 224
Period size: 96 Copynumber: 1.8 Consensus size: 96
47266913 TCGTATATTC
* * *
47266923 TATTACTATATTAAAATG-TTTCATTAAATTTGTGTCACCCTTAATCAAATCACCAACTCATTAA
1 TATTACTATATTAAAATGTTTTCATTAAATTGGTGTCACCCTCAATCAAATCACCAACTCAATAA
*
47266987 TGAATTTACTAAAAGCGCCTCATTTTTAATT
66 TGAATTTACCAAAAGCGCCTCATTTTTAATT
* * * * * * * * *
47267018 TATTATTATATTTAAATGTTTTTATTGAGTTGGTGTGACCCTCAATTAAATTACCAATTCAATAA
1 TATTACTATATTAAAATGTTTTCATTAAATTGGTGTCACCCTCAATCAAATCACCAACTCAATAA
47267083 TGAATTTACCAAAA
66 TGAATTTACCAAAA
47267097 ACCCCTGTTT
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
95 16 0.25
96 49 0.75
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (96 bp):
TATTACTATATTAAAATGTTTTCATTAAATTGGTGTCACCCTCAATCAAATCACCAACTCAATAA
TGAATTTACCAAAAGCGCCTCATTTTTAATT
Found at i:47272107 original size:15 final size:16
Alignment explanation
Indices: 47272063--47272107 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
47272053 TTTATATTAT
47272063 AATATAATCATATTTTA
1 AATATAAT-ATATTTTA
* *
47272080 AATATAATGTATTTTC
1 AATATAATATATTTTA
47272096 AAT-TAATATATT
1 AATATAATATATT
47272108 AAATAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 8 0.32
16 9 0.36
17 8 0.32
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (16 bp):
AATATAATATATTTTA
Found at i:47272693 original size:7 final size:7
Alignment explanation
Indices: 47272681--47272710 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
47272671 TATGTAATTA
47272681 ATTTTTT
1 ATTTTTT
47272688 ATTTTTT
1 ATTTTTT
*
47272695 ATTGTTT
1 ATTTTTT
47272702 ATTTTTT
1 ATTTTTT
47272709 AT
1 AT
47272711 ACAATCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (7 bp):
ATTTTTT
Found at i:47275400 original size:34 final size:34
Alignment explanation
Indices: 47275362--47275430 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
47275352 TATAAAATAT
47275362 TATTAAACATACATAATTAATTATTTATATTTAG
1 TATTAAACATACATAATTAATTATTTATATTTAG
*
47275396 TATTAAACATACATAATTATTTATTTATATTTAG
1 TATTAAACATACATAATTAATTATTTATATTTAG
47275430 T
1 T
47275431 CATATAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (34 bp):
TATTAAACATACATAATTAATTATTTATATTTAG
Found at i:47275453 original size:13 final size:12
Alignment explanation
Indices: 47275435--47275464 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
47275425 TTTAGTCATA
47275435 TAATAAATTATAT
1 TAATAAATTAT-T
47275448 TAATAAATTATT
1 TAATAAATTATT
47275460 TAATA
1 TAATA
47275465 TTTCAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATAAATTATT
Found at i:47278211 original size:14 final size:14
Alignment explanation
Indices: 47278186--47278224 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
47278176 TTTTGGTTTT
47278186 TTTCTATTTCAACTG
1 TTTCT-TTTCAACTG
*
47278201 TTTCTTTTCAACTT
1 TTTCTTTTCAACTG
*
47278215 TTTTTTTTCA
1 TTTCTTTTCA
47278225 CTTTTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.15, C:0.18, G:0.03, T:0.64
Consensus pattern (14 bp):
TTTCTTTTCAACTG
Found at i:47278227 original size:13 final size:14
Alignment explanation
Indices: 47278192--47278232 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
47278182 TTTTTTTCTA
* *
47278192 TTTCAACTGTTTCT
1 TTTCAACTTTTTTT
47278206 TTTCAACTTTTTTT
1 TTTCAACTTTTTTT
47278220 TTTC-ACTTTTTTT
1 TTTCAACTTTTTTT
47278233 AAAAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTCAACTTTTTTT
Found at i:47278686 original size:18 final size:17
Alignment explanation
Indices: 47278641--47278706 Score: 50
Period size: 19 Copynumber: 3.9 Consensus size: 17
47278631 TTACTCCGGT
47278641 TTAAATAA-TTAATTTA
1 TTAAATAATTTAATTTA
*
47278657 TAAAAATAAATTTAATTATA
1 T-TAAAT-AATTTAATT-TA
47278677 TTAAATAA-TT-A-TTA
1 TTAAATAATTTAATTTA
*
47278691 TTAATATAATATAATT
1 TTAA-ATAATTTAATT
47278707 ATCATAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
14 6 0.15
15 5 0.13
16 3 0.08
17 7 0.18
18 5 0.13
19 10 0.26
20 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAATAATTTAATTTA
Found at i:47278687 original size:13 final size:15
Alignment explanation
Indices: 47278669--47278700 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
47278659 AAAATAAATT
47278669 TAATTA-TATTAA-A
1 TAATTATTATTAATA
47278682 TAATTATTATTAATA
1 TAATTATTATTAATA
47278697 TAAT
1 TAAT
47278701 ATAATTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 6 0.35
15 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATTATTAATA
Found at i:47278715 original size:33 final size:36
Alignment explanation
Indices: 47278641--47278708 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 36
47278631 TTACTCCGGT
*
47278641 TTAAATAATTAATTTATAAAAATAAATTTAATTATA
1 TTAAATAATTAATTTATAAAAATAAATATAATTATA
* *
47278677 TTAAATAATT-A-TTATTAATAT-AATATAATTAT
1 TTAAATAATTAATTTATAAAAATAAATATAATTAT
47278709 CATAAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 10 0.34
34 8 0.28
35 1 0.03
36 10 0.34
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (36 bp):
TTAAATAATTAATTTATAAAAATAAATATAATTATA
Found at i:47280554 original size:7 final size:7
Alignment explanation
Indices: 47280542--47280569 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
47280532 ATAAAATTGA
47280542 AATTTTT
1 AATTTTT
47280549 AATTTTT
1 AATTTTT
47280556 AATTTTT
1 AATTTTT
47280563 AATTTTT
1 AATTTTT
47280570 GAAAATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
AATTTTT
Done.