Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 191 of 295
Found at i:65486198 original size:4 final size:4
Alignment explanation
Indices: 65486189--65486215 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
65486179 AAGTTTTATT
65486189 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
65486216 TACTTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:65487407 original size:18 final size:17
Alignment explanation
Indices: 65487384--65487487 Score: 52
Period size: 18 Copynumber: 5.8 Consensus size: 17
65487374 AACAAGTGAG
65487384 GAAAAAGAAAAAGAGAAT
1 GAAAAAGAAAAAGA-AAT
*
65487402 GAAAAAGAGCAAAAAGAGATT
1 G-AAAA-AG-AAAAAGA-AAT
* **
65487423 GAGAGTGAAAAAGAAATT
1 GAAAAAGAAAAAGAAA-T
*
65487441 GAAGAAAG-AAGAGAAAAT
1 GAA-AAAGAAAAAG-AAAT
**
65487459 GAATTAGAAAAAGAAAT
1 GAAAAAGAAAAAGAAAT
65487476 --AAAAGAAAAAGA
1 GAAAAAGAAAAAGA
65487488 CGTGGAAAGG
Statistics
Matches: 65, Mismatches: 14, Indels: 17
0.68 0.15 0.18
Matches are distributed among these distances:
15 10 0.15
17 7 0.11
18 23 0.35
19 10 0.15
20 4 0.06
21 11 0.17
ACGTcount: A:0.66, C:0.01, G:0.23, T:0.10
Consensus pattern (17 bp):
GAAAAAGAAAAAGAAAT
Found at i:65490240 original size:17 final size:18
Alignment explanation
Indices: 65490218--65490255 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
65490208 GCTACAGCCG
65490218 AATTTA-TG-TTGTGTCTT
1 AATTTATTGTTTGTGT-TT
65490235 AATTTATTGTTTGTGTTT
1 AATTTATTGTTTGTGTTT
65490253 AAT
1 AAT
65490256 ATGTCTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.21, C:0.03, G:0.16, T:0.61
Consensus pattern (18 bp):
AATTTATTGTTTGTGTTT
Found at i:65494088 original size:21 final size:20
Alignment explanation
Indices: 65494047--65494089 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
65494037 GATTTTTTAA
*
65494047 TTTATTTCATTTAGATCTAT
1 TTTATTTCATTTAGATATAT
65494067 TTTATTTTCATTTA-ATGATAT
1 TTTA-TTTCATTTAGAT-ATAT
65494088 TT
1 TT
65494090 ACTCTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTATTTCATTTAGATATAT
Found at i:65498400 original size:19 final size:19
Alignment explanation
Indices: 65498378--65498416 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
65498368 ATAAATTGAT
65498378 AAACATATAAAAAATTTCA
1 AAACATATAAAAAATTTCA
* *
65498397 AAACTTATAGAAAATTTCA
1 AAACATATAAAAAATTTCA
65498416 A
1 A
65498417 TGTTTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (19 bp):
AAACATATAAAAAATTTCA
Found at i:65511835 original size:18 final size:18
Alignment explanation
Indices: 65511795--65511860 Score: 78
Period size: 18 Copynumber: 3.7 Consensus size: 18
65511785 CTTGGCCCAT
* * *
65511795 TGCAATAACAGTAAATAA
1 TGCAGTAACAGTAATTAG
*
65511813 AGCAGTAACAGTAATTAG
1 TGCAGTAACAGTAATTAG
* *
65511831 TGCAGTAATAGTAATCAG
1 TGCAGTAACAGTAATTAG
65511849 TGCAGTAACAGT
1 TGCAGTAACAGT
65511861 TTAAACAGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (18 bp):
TGCAGTAACAGTAATTAG
Found at i:65512327 original size:27 final size:27
Alignment explanation
Indices: 65512285--65512423 Score: 181
Period size: 27 Copynumber: 5.1 Consensus size: 27
65512275 AAAAGAATCA
65512285 TTTACCTCATAAGGGAAAAATTA-TCAT
1 TTTACCTCATAAGGGAAAAA-TAGTCAT
* * *
65512312 TTTACCGCATAGGGGAAAAATTGTCAT
1 TTTACCTCATAAGGGAAAAATAGTCAT
* *
65512339 TTTACCACATAAGGGCAAAATAGTCAT
1 TTTACCTCATAAGGGAAAAATAGTCAT
* *
65512366 TTCACCTCATAAGGGCAAAATAGTCAT
1 TTTACCTCATAAGGGAAAAATAGTCAT
* *
65512393 TTTACTTCATAAGGGAAAAATACTCAT
1 TTTACCTCATAAGGGAAAAATAGTCAT
65512420 TTTA
1 TTTA
65512424 TCGATTCAGG
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 97 0.99
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (27 bp):
TTTACCTCATAAGGGAAAAATAGTCAT
Found at i:65512409 original size:81 final size:80
Alignment explanation
Indices: 65512262--65512423 Score: 218
Period size: 81 Copynumber: 2.0 Consensus size: 80
65512252 TAGTCATTGA
*
65512262 ACCACATAAGAGCAAAAGAATCATTTACCTCATAAGGGAAAAATTATCATTTTACCGCATAGGGG
1 ACCACATAAGAGCAAAAGAATCATTTACCTCATAAGGGAAAAATTATCATTTTACCGCATAAGGG
**
65512327 AAAAATTGTCATTTT
66 AAAAATACTCATTTT
* * * * **
65512342 ACCACATAAGGGCAAAATAGTCATTTCACCTCATAAGGGCAAAA-TAGTCATTTTACTTCATAAG
1 ACCACATAAGAGCAAAAGAATCATTT-ACCTCATAAGGGAAAAATTA-TCATTTTACCGCATAAG
65512406 GGAAAAATACTCATTTT
64 GGAAAAATACTCATTTT
65512423 A
1 A
65512424 TCGATTCAGG
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
80 25 0.35
81 46 0.65
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (80 bp):
ACCACATAAGAGCAAAAGAATCATTTACCTCATAAGGGAAAAATTATCATTTTACCGCATAAGGG
AAAAATACTCATTTT
Found at i:65514494 original size:27 final size:27
Alignment explanation
Indices: 65514464--65514660 Score: 234
Period size: 27 Copynumber: 7.3 Consensus size: 27
65514454 ACTGAAATGT
** *
65514464 CCTCGATTTGTAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACCATTTTAC
* * *
65514491 CCTCGATTTACAGAATTACCGTTTCAC
1 CCTCGATTTACAAAATTACCATTTTAC
*
65514518 CCTCGATTTACAAAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACCATTTTAC
* * * * *
65514545 CCTCAATTTATAGAATTTCTATTTTAC
1 CCTCGATTTACAAAATTACCATTTTAC
* * * *
65514572 CCTTGATTTACAGAATTATCGTTTTAC
1 CCTCGATTTACAAAATTACCATTTTAC
65514599 CCTCGATTTACAAAATTACCATTTTAC
1 CCTCGATTTACAAAATTACCATTTTAC
65514626 CCTC-AGTTTACAAAATTACCATTTTAC
1 CCTCGA-TTTACAAAATTACCATTTTAC
65514653 CCTCGATT
1 CCTCGATT
65514661 GTGAAATTTC
Statistics
Matches: 143, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAAAATTACCATTTTAC
Found at i:65514580 original size:81 final size:81
Alignment explanation
Indices: 65514475--65514660 Score: 291
Period size: 81 Copynumber: 2.3 Consensus size: 81
65514465 CTCGATTTGT
*
65514475 AAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCGT
1 AAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCAT
*
65514540 TTTACCCTCAATTTAT
66 TTTACCCTCAATTTAC
* * * * *
65514556 AGAATTTCTATTTTACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACCAT
1 AAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCAT
*
65514621 TTTACCCTCAGTTTAC
66 TTTACCCTCAATTTAC
*
65514637 AAAATTACCATTTTACCCTCGATT
1 AAAATTACTATTTTACCCTCGATT
65514661 GTGAAATTTC
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 93 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.40
Consensus pattern (81 bp):
AAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCAT
TTTACCCTCAATTTAC
Found at i:65514722 original size:27 final size:27
Alignment explanation
Indices: 65514692--65514829 Score: 188
Period size: 27 Copynumber: 5.1 Consensus size: 27
65514682 TGTAGGATAG
*
65514692 AATTACCAAAATACCCCTAGTTTGCAA
1 AATTACCAAAATACCCCTAGTTTGTAA
65514719 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
65514746 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
65514773 AATTATCGAAATACCACTATTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
65514800 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
65514827 AAT
1 AAT
65514830 ACCCTTGACT
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 3 0.03
27 97 0.97
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:65517702 original size:27 final size:28
Alignment explanation
Indices: 65517627--65517703 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
65517617 ACCCCTAATA
* *
65517627 GGTAAAAAGATCGTAA-AGCCCTTGTAG
1 GGTAAAATGACCGTAATAGCCCTTGTAG
* *
65517654 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAATAGCCCTTGTAG
65517681 GGTAAAATGA-CG-AATATGCCCTT
1 GGTAAAATGACCGTAATA-GCCCTT
65517704 ATGTTCCGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
25 4 0.10
26 2 0.05
27 35 0.83
28 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (28 bp):
GGTAAAATGACCGTAATAGCCCTTGTAG
Found at i:65518459 original size:16 final size:16
Alignment explanation
Indices: 65518438--65518468 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65518428 CAAATATGGG
*
65518438 CATGACATTTTGCATA
1 CATGACATATTGCATA
65518454 CATGACATATTGCAT
1 CATGACATATTGCAT
65518469 GGGATATGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (16 bp):
CATGACATATTGCATA
Found at i:65518539 original size:25 final size:24
Alignment explanation
Indices: 65518501--65518606 Score: 97
Period size: 25 Copynumber: 4.2 Consensus size: 24
65518491 AGGAAGTGCT
*
65518501 AAAAGGGCTCTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
* *
65518526 AAAAGGGCTTTGCCCCAATTTATT
1 AAAAGGGCTTTGCCCCAGTTTATG
*
65518550 AGAAAGGGCTTTGCCCCAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATG
**
65518574 AAAAGAGGCTAGGCCTCCAGTTATATG
1 AAAAG-GGCTTTGCC-CCAGTT-TATG
65518601 ATAAAG
1 A-AAAG
65518607 CAGTTATGCT
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.06
24 15 0.22
25 40 0.59
26 1 0.01
27 4 0.06
28 4 0.06
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:65518788 original size:42 final size:42
Alignment explanation
Indices: 65518718--65518809 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
65518708 TAGTCTCCCC
* * *
65518718 AAATTGGCTTGCATACATTCATTAACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTAACATTACATGTGAGATTG
* *
65518760 AAATGGGCTTGTATACATCCATTGACATTACATGTGAGATTG
1 AAATGGGCTTGCATACATCCATTAACATTACATGTGAGATTG
65518802 AAATGGGC
1 AAATGGGC
65518810 CTAAGGGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTAACATTACATGTGAGATTG
Found at i:65518871 original size:31 final size:31
Alignment explanation
Indices: 65518833--65518947 Score: 205
Period size: 31 Copynumber: 3.7 Consensus size: 31
65518823 CGTTTACAGT
65518833 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
65518864 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
65518895 AAAGGCTTTGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
65518926 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
65518948 TCAAGACTAA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.06
31 76 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:65521081 original size:43 final size:45
Alignment explanation
Indices: 65520993--65521129 Score: 151
Period size: 43 Copynumber: 3.2 Consensus size: 45
65520983 TGTGATTAAA
* * *
65520993 TGTAAGACCATATCTGGGACATTGGCA--GTGTATTGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTGTAATGCGATTACG
*
65521036 TGTAAGACCATGTCTGGGACATTGGCATCGT-TAAT-CGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTGTAATGCGATTACG
* * * * *
65521079 TGTAAGACCTTGTCTGGGACAGTGGCATCG-GT-ATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTGTAATGCGATTACG
65521122 TGTAAGAC
1 TGTAAGAC
65521130 AACATCTGGG
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.03
43 73 0.91
44 3 0.04
45 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTGTAATGCGATTACG
Found at i:65524580 original size:85 final size:86
Alignment explanation
Indices: 65524385--65524601 Score: 276
Period size: 85 Copynumber: 2.5 Consensus size: 86
65524375 ATATGGTACA
* * ** * * *
65524385 ATGCCAACGTCCCTGACGTGGTCTTACATGTAATCTTATATCAATGCCACTGTTCTAGACAGGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCAATGCCACAGTCCCAGACAGGGT
65524450 CTTACTCGTAAACACATATAG
66 CTTACTCGTAAACACATATAG
* * * * *
65524471 ATGGCAACATCCCAGACGTAGTCTTAGACGTAATCACATATCAATGCCA-AGTCCCAGACATGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCAATGCCACAGTCCCAGACAGGGT
* *
65524535 CTTACAT-GTAATCACATATCG
66 CTTAC-TCGTAAACACATATAG
*
65524556 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCAATG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCAATG
65524602 TCTATATACA
Statistics
Matches: 111, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
85 69 0.62
86 42 0.38
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCAATGCCACAGTCCCAGACAGGGT
CTTACTCGTAAACACATATAG
Found at i:65524597 original size:43 final size:43
Alignment explanation
Indices: 65524383--65524601 Score: 246
Period size: 43 Copynumber: 5.1 Consensus size: 43
65524373 ATATATGGTA
* * * **
65524383 CAATGCCAACGTCCCTGACGTGGTCTTACATGTAATCTTATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATAT
* * * * *
65524426 CAATGCC-ACTGTTCTAGACAGGGTCTTACTCGTAAACACATAT
1 CAATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCACATAT
* * * * *
65524469 -AGATGGCAACATCCCAGACGTAGTCTTAGACGTAATCACATAT
1 CA-ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATAT
*
65524512 CAATGCCAA-GTCCCAGACATGGTCTTACATGTAATCACATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATAT
*
65524554 CGATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATAT
65524597 CAATG
1 CAATG
65524602 TCTATATACA
Statistics
Matches: 142, Mismatches: 29, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
42 39 0.27
43 100 0.70
44 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATAT
Found at i:65529300 original size:76 final size:76
Alignment explanation
Indices: 65529174--65529328 Score: 301
Period size: 76 Copynumber: 2.0 Consensus size: 76
65529164 CTGTTGAATG
*
65529174 TTTAAAAAGTCTACATATTTATCTCTACGTACAGGTTTCTTTTTTAATAGACTTGTTGAGTTGTA
1 TTTAAAAAGTCTACATATTTATCTATACGTACAGGTTTCTTTTTTAATAGACTTGTTGAGTTGTA
65529239 CATTTCAGAGT
66 CATTTCAGAGT
65529250 TTTAAAAAGTCTACATATTTATCTATACGTACAGGTTTCTTTTTTAATAGACTTGTTGAGTTGTA
1 TTTAAAAAGTCTACATATTTATCTATACGTACAGGTTTCTTTTTTAATAGACTTGTTGAGTTGTA
65529315 CATTTCAGAGT
66 CATTTCAGAGT
65529326 TTT
1 TTT
65529329 TTAGATTATA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (76 bp):
TTTAAAAAGTCTACATATTTATCTATACGTACAGGTTTCTTTTTTAATAGACTTGTTGAGTTGTA
CATTTCAGAGT
Found at i:65530049 original size:19 final size:20
Alignment explanation
Indices: 65530025--65530066 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
65530015 ATTGAAAAGT
65530025 TGAGAAATT-A-GAGGCTATG
1 TGAGAAATTGATGAGGCTA-G
65530044 TGAGAAATTGATGAGGCTAG
1 TGAGAAATTGATGAGGCTAG
65530064 TGA
1 TGA
65530067 AAGTAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 5 0.24
21 7 0.33
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.26
Consensus pattern (20 bp):
TGAGAAATTGATGAGGCTAG
Found at i:65540031 original size:28 final size:28
Alignment explanation
Indices: 65539995--65540059 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
65539985 ATTTACTAGA
* *
65539995 ATACCCCTATGTATGTAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
65540023 ATATCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
65540051 ATACCCCTA
1 ATACCCCTA
65540060 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.34
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:65540206 original size:28 final size:27
Alignment explanation
Indices: 65540165--65540254 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
65540155 AGGAAGCGTC
65540165 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* ** *
65540193 CTGGTGGCCCTGCCACGTATATCTATT
1 CTGGTGGCACTGCCACAAATATCTGTT
65540220 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
65540249 CTGGTG
1 CTGGTG
65540255 ACTCTATCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:65543312 original size:18 final size:18
Alignment explanation
Indices: 65543285--65543324 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
65543275 CATCTAAGTA
*
65543285 CTTACGATTTCAATACTT
1 CTTACCATTTCAATACTT
65543303 CTTACCATTTCAATACTT
1 CTTACCATTTCAATACTT
65543321 CTTA
1 CTTA
65543325 TAATTAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.45
Consensus pattern (18 bp):
CTTACCATTTCAATACTT
Found at i:65543949 original size:46 final size:46
Alignment explanation
Indices: 65543889--65544208 Score: 435
Period size: 46 Copynumber: 7.0 Consensus size: 46
65543879 TTTGACATGA
* * * * * *
65543889 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
65543935 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* ** * * *
65543981 TGCTATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
65544027 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
65544073 TGCCATGGCATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
65544119 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
65544165 TGTCATAGTATCTTTCAACCATGGTTTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
65544209 AGAGCACACT
Statistics
Matches: 252, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 248 0.98
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:65548774 original size:43 final size:43
Alignment explanation
Indices: 65548661--65548807 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
65548651 ACCGAGATGT
* * * *
65548661 GATTACATGTAAGGCCATGTCTGGGACATTGGCATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
* *
65548704 GATTACATGTAAGACCAAGTCTAGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAATGC
* * * *
65548747 GATTTCGTGTAAGACCCTGTCTGGGACAGTT-GCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACA-TTGGCATCGTA-ATGC
* *
65548790 GATAACATGGAAGACCAT
1 GATTACATGTAAGACCAT
65548808 ATCTAGGATA
Statistics
Matches: 83, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 75 0.90
44 5 0.06
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
Found at i:65555878 original size:45 final size:45
Alignment explanation
Indices: 65555814--65555925 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 45
65555804 GATGTCCTAG
* * *
65555814 GGTCTTACATGTAACCACATATATCGATGCCAACGTTCCAGACGT
1 GGTCTTACATGAAAACACATATATCGATGCCAACGTCCCAGACGT
* * *
65555859 GGTCTTACATGAAAACACATATCTCGATGCCAATGTCCCAGATGT
1 GGTCTTACATGAAAACACATATATCGATGCCAACGTCCCAGACGT
*
65555904 GGTCTTACACGAAAACACATAT
1 GGTCTTACATGAAAACACATAT
65555926 TGGAATCCTA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (45 bp):
GGTCTTACATGAAAACACATATATCGATGCCAACGTCCCAGACGT
Found at i:65575797 original size:41 final size:40
Alignment explanation
Indices: 65575598--65575787 Score: 202
Period size: 41 Copynumber: 4.7 Consensus size: 40
65575588 TCTCCCTATT
* * * *
65575598 TTGCACATATGTGCCATTGTTTGTACTTAGGTACCCCTGAA
1 TTGCACATACGTGCC-CTGTTTGTACTTCGATACCCCTGAA
* ** * *
65575639 TTGCACATAAGTGCCCCTGTTTGTACTTTAATACCCTTAAA
1 TTGCACATACGTG-CCCTGTTTGTACTTCGATACCCCTGAA
* **
65575680 TTGCACATACGTGCCCCTATTTGTACTTCGATACATCTGAA
1 TTGCACATACGTG-CCCTGTTTGTACTTCGATACCCCTGAA
* *
65575721 TTACACATACGTGCCCT-TTTGTACTTCAATACCCCTGAA
1 TTGCACATACGTGCCCTGTTTGTACTTCGATACCCCTGAA
*
65575760 TTGCACATATGTGACCCTGTTTGTACTT
1 TTGCACATACGTG-CCCTGTTTGTACTT
65575788 TGGCACCCCT
Statistics
Matches: 125, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 30 0.24
40 8 0.06
41 85 0.68
42 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (40 bp):
TTGCACATACGTGCCCTGTTTGTACTTCGATACCCCTGAA
Found at i:65575811 original size:80 final size:79
Alignment explanation
Indices: 65575598--65575821 Score: 225
Period size: 80 Copynumber: 2.8 Consensus size: 79
65575588 TCTCCCTATT
* * * *
65575598 TTGCACATATGTGCCATTGTTTGTACTTAGGTACCCCTGAATTGCACATAAGTGCCCCTGTTTGT
1 TTGCACATATGTGCC-CTGTTTGTACTTAGGTACCCCTAAATAGCACATACGTG-CCCT-TTTGT
* *
65575663 ACTTTAATACCCTTAAA
63 ACTTCAATACCCCTAAA
* * * * ** *
65575680 TTGCACATACGTGCCCCTATTTGTACTTCGATACATCTGAATTA-CACATACGTGCCCTTTTGTA
1 TTGCACATATGTG-CCCTGTTTGTACTTAGGTACCCCT-AAATAGCACATACGTGCCCTTTTGTA
*
65575744 CTTCAATACCCCTGAA
64 CTTCAATACCCCTAAA
* * *
65575760 TTGCACATATGTGACCCTGTTTGTACTTTGGCACCCCTAAATAGCATATACGTCGCCCTTTT
1 TTGCACATATGTG-CCCTGTTTGTACTTAGGTACCCCTAAATAGCACATACGT-GCCCTTTT
65575822 TACATTCTGG
Statistics
Matches: 114, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
79 4 0.04
80 57 0.50
81 12 0.11
82 37 0.32
83 4 0.04
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (79 bp):
TTGCACATATGTGCCCTGTTTGTACTTAGGTACCCCTAAATAGCACATACGTGCCCTTTTGTACT
TCAATACCCCTAAA
Found at i:65578555 original size:37 final size:37
Alignment explanation
Indices: 65578502--65578601 Score: 191
Period size: 37 Copynumber: 2.7 Consensus size: 37
65578492 CGAATAGTCC
*
65578502 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
65578539 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
65578576 CCACACGTAGTCATCGGGTCTTACCC
1 CCACACGTAGTCATCGGGTCTTACCC
65578602 AGAATACATT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:65578709 original size:48 final size:48
Alignment explanation
Indices: 65578648--65579022 Score: 579
Period size: 48 Copynumber: 7.8 Consensus size: 48
65578638 TGTTACAACA
* * * *
65578648 TTCACATTAGCCATTCGGCATTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
65578696 TTCACATTCGCCATTCTGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
65578744 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
65578792 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
65578840 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
65578888 TTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
65578936 TTCACATTAGCCATTCGGCTTTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
65578984 TTCACATTAGCCATTTGGCTTCACTACACATATATATAT
1 TTCACATTAGCCATTCGGCTTTAC--CACATATACATAT
65579023 TTATCTTGTA
Statistics
Matches: 302, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
48 291 0.96
50 11 0.04
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:65599485 original size:27 final size:27
Alignment explanation
Indices: 65599455--65599515 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
65599445 ATCGACTTGT
65599455 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
**** *
65599482 AAAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
65599509 AAAATTA
1 AAAATTA
65599516 TTGAAATACC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCCCGATTTAC
Found at i:65599525 original size:27 final size:27
Alignment explanation
Indices: 65599455--65599527 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
65599445 ATCGACTTGT
65599455 AAAATTACC-AAAGTACCCCCGATTTAC
1 AAAATTACCGAAA-TACCCCCGATTTAC
*** *
65599482 AAAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCGAAATACCCCCGATTTAC
**
65599509 AAAATTATTGAAATACCCC
1 AAAATTACCGAAATACCCC
65599528 TGTAAGGTAG
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCCGATTTAC
Found at i:65599541 original size:27 final size:27
Alignment explanation
Indices: 65599518--65599624 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
65599508 CAAAATTATT
*
65599518 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
65599545 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
65599572 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
65599599 GAGATA-CCTTGTAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
65599625 ATTTTTCCCC
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
26 17 0.24
27 53 0.76
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:65599635 original size:53 final size:54
Alignment explanation
Indices: 65599518--65599620 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
65599508 CAAAATTATT
65599518 GAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACC
* * *
65599572 GAAATACCCCTGTAGGGTAGAATTATCGAGATA-CCTTGTAGGGTA-AAAT
1 GAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAAT
65599621 TACCATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 4 0.09
53 12 0.26
54 30 0.65
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (54 bp):
GAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACC
Found at i:65599787 original size:16 final size:16
Alignment explanation
Indices: 65599766--65599796 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65599756 CAAATAAGGG
*
65599766 CATGACATTTTGCATA
1 CATGACATGTTGCATA
65599782 CATGACATGTTGCAT
1 CATGACATGTTGCAT
65599797 GGGTTGGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:65600050 original size:22 final size:22
Alignment explanation
Indices: 65600017--65600081 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
65600007 GCCAATTATT
*
65600017 CTGATTATGGCTTTGTGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
65600039 CT-ATATATGGCTCTGTGCCAAC
1 CTGAT-TATGGCTCTGTGCCAAC
*
65600061 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
65600082 ACGTATTTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.05
22 35 0.90
23 2 0.05
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:65600459 original size:38 final size:38
Alignment explanation
Indices: 65600416--65600541 Score: 130
Period size: 38 Copynumber: 3.2 Consensus size: 38
65600406 TCTGATTCTG
*
65600416 ATTCTGTTACCTGATATTGATTCTGATTCTGTCATCTA
1 ATTCTGTTACCTGATATTGATTCTGATTCTGTCACCTA
* *
65600454 ATTCTGTTACCTGATACTAATTCTGA-TCTTGTCACCTA
1 ATTCTGTTACCTGATATTGATTCTGATTC-TGTCACCTA
*
65600492 ATTCTGATTCTGTCACCTGAT-TCTGATTCTGATTCTGTCACCTG
1 ATTCTG----T-T-ACCTGATAT-TGATTCTGATTCTGTCACCTA
65600536 ATTCTG
1 ATTCTG
65600542 ATTCTGATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
37 2 0.03
38 38 0.52
42 1 0.01
43 1 0.01
44 29 0.40
45 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (38 bp):
ATTCTGTTACCTGATATTGATTCTGATTCTGTCACCTA
Found at i:65600473 original size:19 final size:19
Alignment explanation
Indices: 65600416--65600478 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
65600406 TCTGATTCTG
* *
65600416 ATTCTGTTACCTGATATTG
1 ATTCTGTTACCTGATACTA
65600435 ATTCTGATT--CTG-TCATCTA
1 ATTCTG-TTACCTGAT-A-CTA
65600454 ATTCTGTTACCTGATACTA
1 ATTCTGTTACCTGATACTA
65600473 ATTCTG
1 ATTCTG
65600479 ATCTTGTCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
17 1 0.03
18 6 0.17
19 22 0.61
20 6 0.17
21 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (19 bp):
ATTCTGTTACCTGATACTA
Found at i:65600501 original size:25 final size:25
Alignment explanation
Indices: 65600462--65600549 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 25
65600452 TAATTCTGTT
* *
65600462 ACCTGATACTAATTCTGATCTTGTC
1 ACCTGATTCTGATTCTGATCTTGTC
*
65600487 ACCTAATTCTGA---T--TC-TGTC
1 ACCTGATTCTGATTCTGATCTTGTC
65600506 ACCTGATTCTGATTCTGAT-TCTGTC
1 ACCTGATTCTGATTCTGATCT-TGTC
65600531 ACCTGATTCTGATTCTGAT
1 ACCTGATTCTGATTCTGAT
65600550 TCTCATTTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
19 15 0.29
20 2 0.04
22 2 0.04
24 1 0.02
25 32 0.62
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (25 bp):
ACCTGATTCTGATTCTGATCTTGTC
Found at i:65600517 original size:6 final size:6
Alignment explanation
Indices: 65600508--65600573 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
65600498 ATTCTGTCAC
* *
65600508 CTGATT CTGATT CTGATT CTG-TCAC CTGATT CTGATT CTGATT CTCATT
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
*
65600557 TTGATT CT-AGTT CTGAT
1 CTGATT CTGA-TT CTGAT
65600574 AATGTTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
5 2 0.04
6 42 0.86
7 4 0.08
8 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:65600547 original size:19 final size:19
Alignment explanation
Indices: 65600435--65600522 Score: 94
Period size: 19 Copynumber: 4.6 Consensus size: 19
65600425 CCTGATATTG
*
65600435 ATTCTGATTCTGTCATCTA
1 ATTCTGATTCTGTCACCTA
65600454 ATTCTG-TTACCTGAT-A-CTA
1 ATTCTGATT--CTG-TCACCTA
65600473 ATTCTGA-TCTTGTCACCTA
1 ATTCTGATTC-TGTCACCTA
*
65600492 ATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGTCACCTA
65600511 ATTCTGATTCTG
1 ATTCTGATTCTG
65600523 ATTCTGTCAC
Statistics
Matches: 60, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
17 2 0.03
18 5 0.08
19 46 0.77
20 6 0.10
21 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.44
Consensus pattern (19 bp):
ATTCTGATTCTGTCACCTA
Found at i:65600550 original size:25 final size:25
Alignment explanation
Indices: 65600492--65600552 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
65600482 TTGTCACCTA
65600492 ATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGTCACCTGATTCTG
65600517 ATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGTCACCTGATTCTG
65600542 ATTCTGATTCT
1 ATTCTGATTCT
65600553 CATTTTGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGTCACCTGATTCTG
Found at i:65602762 original size:46 final size:46
Alignment explanation
Indices: 65602710--65602802 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
65602700 AGGTCTTGTG
65602710 TTGAATAGTTCTTTTCATTTGGCTTTAACTGTTTGGAAGCATAAGC
1 TTGAATAGTTCTTTTCATTTGGCTTTAACTGTTTGGAAGCATAAGC
65602756 TTGAATAGTTCTTTTCATTTGGCTTTAACTGTTTGGAAGCATAAGC
1 TTGAATAGTTCTTTTCATTTGGCTTTAACTGTTTGGAAGCATAAGC
65602802 T
1 T
65602803 ATCAATTTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (46 bp):
TTGAATAGTTCTTTTCATTTGGCTTTAACTGTTTGGAAGCATAAGC
Found at i:65606820 original size:42 final size:42
Alignment explanation
Indices: 65606773--65606857 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
65606763 CAACAAGTTA
65606773 TAAAACATATACGACATGCACATTCAACTATCACTTCACCTT
1 TAAAACATATACGACATGCACATTCAACTATCACTTCACCTT
65606815 TAAAACATATACGACATGCACATTCAACTATCACTTCACCTT
1 TAAAACATATACGACATGCACATTCAACTATCACTTCACCTT
65606857 T
1 T
65606858 CATCATCCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.29
Consensus pattern (42 bp):
TAAAACATATACGACATGCACATTCAACTATCACTTCACCTT
Found at i:65607091 original size:25 final size:25
Alignment explanation
Indices: 65607056--65607129 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 25
65607046 ACTCGACCTG
*
65607056 TAAATTAGTATGCTCTCACGAGCTA
1 TAAATCAGTATGCTCTCACGAGCTA
* ** * * * *
65607081 TAATTTGGTATTCTCACATGTGCTA
1 TAAATCAGTATGCTCTCACGAGCTA
*
65607106 TAAATCAGTATGCTCTCACAAGCT
1 TAAATCAGTATGCTCTCACGAGCT
65607130 CTAGAGTATT
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (25 bp):
TAAATCAGTATGCTCTCACGAGCTA
Found at i:65608361 original size:41 final size:40
Alignment explanation
Indices: 65608300--65608434 Score: 164
Period size: 41 Copynumber: 3.3 Consensus size: 40
65608290 GGCTGTTACA
*
65608300 ATCGAATTACAAATAAGGGCACATATGTGCAATTTAGGGGT
1 ATCGAAGTACAAA-AAGGGCACATATGTGCAATTTAGGGGT
** * *
65608341 ATCGAAGTACAGGCAGGGGCACATATGTGCAATTCAGGGGT
1 ATCGAAGTACA-AAAAGGGCACATATGTGCAATTTAGGGGT
* * *
65608382 ACCGGAGTACAAAAAGGGCACATATGTGTAATTTAGGGGT
1 ATCGAAGTACAAAAAGGGCACATATGTGCAATTTAGGGGT
65608422 ACTC-AAGTACAAA
1 A-TCGAAGTACAAA
65608435 CAGACGGATG
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
40 33 0.42
41 45 0.58
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (40 bp):
ATCGAAGTACAAAAAGGGCACATATGTGCAATTTAGGGGT
Found at i:65609494 original size:11 final size:11
Alignment explanation
Indices: 65609478--65609502 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
65609468 CCATAGATAT
65609478 TAAAATAATAA
1 TAAAATAATAA
65609489 TAAAATAATAA
1 TAAAATAATAA
65609500 TAA
1 TAA
65609503 TTTACTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:65614294 original size:27 final size:27
Alignment explanation
Indices: 65614264--65614440 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
65614254 ATATTGAGCC
* *
65614264 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
65614291 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
65614318 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
65614345 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
65614372 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
65614399 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
65614426 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65614441 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 127 0.98
28 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65614346 original size:54 final size:54
Alignment explanation
Indices: 65614264--65614440 Score: 212
Period size: 54 Copynumber: 3.3 Consensus size: 54
65614254 ATATTGAGCC
* * * * *
65614264 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
65614318 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
65614372 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
65614426 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65614441 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 103 0.99
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:65614402 original size:81 final size:81
Alignment explanation
Indices: 65614285--65614439 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
65614275 TGCTATATAA
* *
65614285 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTC-AACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAA-TCGCA
65614349 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65614366 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
65614430 CACTTAGTGC
65 CACTTAGTGC
65614440 TGTACAATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.02
81 63 0.95
82 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65622390 original size:27 final size:27
Alignment explanation
Indices: 65622360--65622536 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
65622350 ATATTGAGCC
* *
65622360 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
65622387 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
65622414 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
65622441 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
65622468 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
65622495 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
65622522 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65622537 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 127 0.98
28 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65622442 original size:54 final size:54
Alignment explanation
Indices: 65622360--65622536 Score: 212
Period size: 54 Copynumber: 3.3 Consensus size: 54
65622350 ATATTGAGCC
* * * * *
65622360 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
65622414 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
65622468 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
65622522 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65622537 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 103 0.99
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:65622498 original size:81 final size:81
Alignment explanation
Indices: 65622381--65622535 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
65622371 TGCTATATAA
* *
65622381 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTC-AACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAA-TCGCA
65622445 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65622462 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
65622526 CACTTAGTGC
65 CACTTAGTGC
65622536 TGTACAATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.02
81 63 0.95
82 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65627337 original size:27 final size:27
Alignment explanation
Indices: 65627307--65627461 Score: 202
Period size: 27 Copynumber: 5.7 Consensus size: 27
65627297 TTACCAAAGA
* **
65627307 ACCCTCGATTTACAGAAGTATTATTTT
1 ACCCTCGATTTACAGAATTATCGTTTT
* *
65627334 ACCCTCGATTTATAGAATTACCGTTTT
1 ACCCTCGATTTACAGAATTATCGTTTT
*
65627361 ACCCTCGATTTATAGAATTATCGTTTT
1 ACCCTCGATTTACAGAATTATCGTTTT
* * *
65627388 ACCCTCGATTTATAGAATTACCATTTT
1 ACCCTCGATTTACAGAATTATCGTTTT
*
65627415 ACCCTTGATTTACAGAATTATCGTTTT
1 ACCCTCGATTTACAGAATTATCGTTTT
* *
65627442 ACCCTTGATTTACAAAATTA
1 ACCCTCGATTTACAGAATTA
65627462 CTAAAATACC
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 115 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (27 bp):
ACCCTCGATTTACAGAATTATCGTTTT
Found at i:65627471 original size:27 final size:27
Alignment explanation
Indices: 65627441--65627499 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
65627431 ATTATCGTTT
* *
65627441 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAACTACCAAAA
* *
65627468 TACCATTGGTTTACAAAACTACCAAAA
1 TACCCTTGATTTACAAAACTACCAAAA
65627495 TACCC
1 TACCC
65627500 CGATCAGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (27 bp):
TACCCTTGATTTACAAAACTACCAAAA
Found at i:65627481 original size:54 final size:54
Alignment explanation
Indices: 65627293--65627482 Score: 157
Period size: 54 Copynumber: 3.5 Consensus size: 54
65627283 CTCAATTTGT
* * * ** *
65627293 AAAATTACCAAAGA-ACCCTCGATTTACAGAAGTATTATTTTACCCTCGATTTAT
1 AAAATTACCAAA-ATACCATTGATTTACAGAATTATCGTTTTACCCTCGATTTAC
* **** * * * *
65627347 AGAATTACCGTTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCATTGATTTACAGAATTATCGTTTTACCCTCGATTTAC
* *** * *
65627401 AGAATTACCATTTTACCCTTGATTTACAGAATTATCGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCATTGATTTACAGAATTATCGTTTTACCCTCGATTTAC
* *
65627455 AAAATTACTAAAATACCATTGGTTTACA
1 AAAATTACCAAAATACCATTGATTTACA
65627483 AAACTACCAA
Statistics
Matches: 114, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
54 114 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.38
Consensus pattern (54 bp):
AAAATTACCAAAATACCATTGATTTACAGAATTATCGTTTTACCCTCGATTTAC
Found at i:65627545 original size:27 final size:27
Alignment explanation
Indices: 65627455--65627557 Score: 109
Period size: 27 Copynumber: 3.9 Consensus size: 27
65627445 CTTGATTTAC
* ** **
65627455 AAAATTACTAAAATACCATTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
65627482 AAAACTACCAAAATACCCC-GATCAGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
65627508 AAAATTTCCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
65627535 AAAATTACCAAAATACCCCTGGT
1 AAAATTACCAAAATACCCCTGGT
65627558 GTAACACCCC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 19 0.32
27 41 0.68
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:65629013 original size:40 final size:40
Alignment explanation
Indices: 65628939--65629158 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
65628929 AACCCAAGTA
* * *
65628939 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
65628978 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
65629018 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
65629058 CCTTCGGGACTTAGCCCGG-TATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
65629097 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
65629136 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
65629159 CATCCGAATA
Statistics
Matches: 161, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 70 0.43
40 90 0.56
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:65629101 original size:79 final size:80
Alignment explanation
Indices: 65628939--65629158 Score: 322
Period size: 79 Copynumber: 2.8 Consensus size: 80
65628929 AACCCAAGTA
* * *
65628939 CCTTTGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
65629003 TCACTAGCACAAAAG
66 TCAATAGCACAAAAG
*
65629018 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAACGCCTTCGGGACTTAGCCCGG-TATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
65629082 TCAATAGCACAACTG
66 TCAATAGCACAAAAG
* *
65629097 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCAC-CATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
65629159 CATCCGAATA
Statistics
Matches: 128, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
78 21 0.16
79 64 0.50
80 43 0.34
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:65631390 original size:27 final size:27
Alignment explanation
Indices: 65631309--65631396 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
65631299 CTCTCGATTT
*
65631309 GTAAAA-TATCGAAATACCCCTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
*
65631335 GTAAAAATACCGAAATACCCCTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
* * * * *
65631362 GTAGAATTACTGAAATACCCTTATGGG
1 GTAAAATTACCGAAATACCCCTGTAGG
65631389 GTAAAATT
1 GTAAAATT
65631397 GCCATTTTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 6 0.11
27 47 0.89
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTGTAGG
Found at i:65631709 original size:24 final size:25
Alignment explanation
Indices: 65631603--65631696 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
65631593 AGGAAGTGCT
65631603 AAAAGGGCTTT-CCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
65631627 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
65631652 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
65631677 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
65631697 ATTAAAAAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
24 11 0.17
25 53 0.83
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:65633964 original size:27 final size:27
Alignment explanation
Indices: 65633934--65634087 Score: 218
Period size: 27 Copynumber: 5.7 Consensus size: 27
65633924 ACCAAAGAAT
65633934 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
65633961 CCTCAATTTATAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
65633988 CCTCAATTTATAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
65634015 CCTTGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* * *
65634042 CCTCGATTTATAAAATTATCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
65634069 CCTCGATTTACAAAATTAC
1 CCTCGATTTACAGAATTAC
65634088 TAAAATACCC
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACCGTTTTAC
Found at i:65634096 original size:27 final size:27
Alignment explanation
Indices: 65634012--65634212 Score: 104
Period size: 27 Copynumber: 7.4 Consensus size: 27
65634002 ATTACCGTTT
* * ***
65634012 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ****
65634039 TACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
*
65634066 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * **
65634093 TACCCTTGGTTTACAAAATTATGAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
** ** *
65634120 TACCCTTAATCAATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
65634147 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* *
65634174 TACCCCTGGCTTGT--AAAATTACCAAAA
1 TA-CCCTCGATT-TACAAAATTACCAAAA
65634201 TAACCCT-GATTT
1 T-ACCCTCGATTT
65634213 GTGAAATTAT
Statistics
Matches: 137, Mismatches: 32, Indels: 12
0.76 0.18 0.07
Matches are distributed among these distances:
25 1 0.01
26 4 0.03
27 125 0.91
28 6 0.04
29 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:65634097 original size:81 final size:81
Alignment explanation
Indices: 65633906--65634113 Score: 238
Period size: 81 Copynumber: 2.6 Consensus size: 81
65633896 TACTGAAATG
** * * *
65633906 CCCTCAATTTGTAAAATTACCAAAGA-ATCCTCGATTTACAGAATTACCGTTTTACCCTCAATTT
1 CCCTCAATTTACAAAATTACCAAA-ATACCCTTGATTTACAGAATTACCATTTTACCCTCAATTT
*
65633970 ATAGAATTACCGTTTTA
65 ATAAAATTACCGTTTTA
* * **** *
65633987 CCCTCAATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTA
1 CCCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAGAATTACCATTTTACCCTCAATTTA
*
65634052 TAAAATTATCGTTTTA
66 TAAAATTACCGTTTTA
* * * *
65634068 CCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTA
1 CCCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAGAATTA
65634114 TGAAAATACC
Statistics
Matches: 104, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
81 104 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.38
Consensus pattern (81 bp):
CCCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAGAATTACCATTTTACCCTCAATTTA
TAAAATTACCGTTTTA
Found at i:65634111 original size:54 final size:54
Alignment explanation
Indices: 65633918--65634114 Score: 171
Period size: 54 Copynumber: 3.6 Consensus size: 54
65633908 CTCAATTTGT
* * * * *
65633918 AAAATTACCAAAGA-ATCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTAT
1 AAAATTACCAAA-ATACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTAC
* **** * * * * *
65633972 AGAATTACCGTTTTACCCTCAATTTATAGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTAC
* *** *
65634026 AGAATTACCATTTTACCCTCGATTTATAAAATTATCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTAC
* * *
65634080 AAAATTACTAAAATACCCTTGGTTTACAAAATTAT
1 AAAATTACCAAAATACCCTCGATTTACAAAATTAT
65634115 GAAAATACCC
Statistics
Matches: 118, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
54 118 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.38
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTAC
Found at i:65634124 original size:81 final size:81
Alignment explanation
Indices: 65633906--65634142 Score: 188
Period size: 81 Copynumber: 2.9 Consensus size: 81
65633896 TACTGAAATG
** * * * ****
65633906 CCCTCAATTTGTAAAATTACCAAAGA-ATCCTCGATTTACAGAATTACCGTTTTACCCTCAATTT
1 CCCTCAATTTACAAAATTACCAAA-ATACCCTTGATTTACAAAATTACCAAAATACCCTCAATTT
*
65633970 ATAGAATTACCGTTTTA
65 ATAAAATTACCGTTTTA
* * **** * *** *
65633987 CCCTCAATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTA
1 CCCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCTCAATTTA
*
65634052 TAAAATTATCGTTTTA
66 TAAAATTACCGTTTTA
* * * ** * **
65634068 CCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTATGAAAATACCCTTAATCAA
1 CCCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCTCAATTTA
65634133 TAAAATTACC
66 TAAAATTACC
65634143 AAAATACCCC
Statistics
Matches: 123, Mismatches: 32, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
81 123 1.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (81 bp):
CCCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCTCAATTTA
TAAAATTACCGTTTTA
Found at i:65634214 original size:27 final size:27
Alignment explanation
Indices: 65634133--65634246 Score: 124
Period size: 27 Copynumber: 4.2 Consensus size: 27
65634123 CCTTAATCAA
*
65634133 TAAAATTACCAAAATACCCCT-AGTTTG
1 TAAAATTACCAAAATAACCCTGA-TTTG
* **
65634160 TAAAATTACCAAAATACCCCTGGCTTG
1 TAAAATTACCAAAATAACCCTGATTTG
65634187 TAAAATTACCAAAATAACCCTGATTTG
1 TAAAATTACCAAAATAACCCTGATTTG
* * * *
65634214 TGAAATTATCGAAAT-ACTCTTGATTTG
1 TAAAATTACCAAAATAAC-CCTGATTTG
65634241 TAAAAT
1 TAAAAT
65634247 ATCGAAATAC
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
26 2 0.03
27 73 0.97
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACCAAAATAACCCTGATTTG
Found at i:65634242 original size:54 final size:54
Alignment explanation
Indices: 65634133--65634246 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
65634123 CCTTAATCAA
* *
65634133 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGCTTG
1 TAAAATTACCAAAATAACCCTAGTTTGTAAAATTACCAAAATACCCCTGACTTG
* * * * * *
65634187 TAAAATTACCAAAATAACCCT-GATTTGTGAAATTATCGAAATACTCTTGATTTG
1 TAAAATTACCAAAATAACCCTAG-TTTGTAAAATTACCAAAATACCCCTGACTTG
65634241 TAAAAT
1 TAAAAT
65634247 ATCGAAATAC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 50 0.98
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (54 bp):
TAAAATTACCAAAATAACCCTAGTTTGTAAAATTACCAAAATACCCCTGACTTG
Found at i:65636346 original size:27 final size:27
Alignment explanation
Indices: 65636316--65636469 Score: 200
Period size: 27 Copynumber: 5.7 Consensus size: 27
65636306 ACCAAAGAAT
65636316 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* * *
65636343 CCTCAATTTATAGAATTATCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* * * *
65636370 CCTCAATTTATAGAATTATCGTCTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
65636397 CCTTGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
65636424 CCTCGATTTACAAAATTATCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
65636451 CCTCGATTTACAAAATTAC
1 CCTCGATTTACAGAATTAC
65636470 TAAAATACCC
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACCGTTTTAC
Found at i:65636468 original size:81 final size:81
Alignment explanation
Indices: 65636320--65636468 Score: 235
Period size: 81 Copynumber: 1.8 Consensus size: 81
65636310 AAGAATCCTC
* * * * *
65636320 GATTTACAGAATTACCGTTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCAATTTATAGAA
1 GATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTATCGTTTTACCCTCAATTTACAAAA
65636385 TTATCGTCTTACCCTT
66 TTATCGTCTTACCCTT
* *
65636401 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAAAA
1 GATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTATCGTTTTACCCTCAATTTACAAAA
65636466 TTA
66 TTA
65636469 CTAAAATACC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (81 bp):
GATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTATCGTTTTACCCTCAATTTACAAAA
TTATCGTCTTACCCTT
Found at i:65636478 original size:27 final size:27
Alignment explanation
Indices: 65636394--65636594 Score: 113
Period size: 27 Copynumber: 7.4 Consensus size: 27
65636384 ATTATCGTCT
* * ***
65636394 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* ****
65636421 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
*
65636448 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * **
65636475 TACCCTTGGTTTACAAAATTATGAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
** ** *
65636502 TACCCTTAATCAATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
65636529 TA-CCTCTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* *
65636556 TACCCCTGGCTTGT--AAAATTACCAAAA
1 TA-CCCTCGATT-TACAAAATTACCAAAA
65636583 TAACCCT-GATTT
1 T-ACCCTCGATTT
65636595 GTGAAATTAT
Statistics
Matches: 139, Mismatches: 30, Indels: 12
0.77 0.17 0.07
Matches are distributed among these distances:
25 1 0.01
26 7 0.05
27 124 0.89
28 3 0.02
29 4 0.03
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:65636479 original size:54 final size:53
Alignment explanation
Indices: 65636316--65636496 Score: 184
Period size: 54 Copynumber: 3.4 Consensus size: 53
65636306 ACCAAAGAAT
* * * *
65636316 CCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAGAATTATCGT-TTTAC
1 CCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTA-C-TATTTAC
* * * * * *
65636370 CCTCAATTTATAGAATTATCGTCTTACCCTTGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACTA-TTTAC
* **
65636424 CCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAAAATTACTAAAATAC
1 CCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACT-ATTTAC
* *
65636478 CCTTGGTTTACAAAATTAT
1 CCTCGATTTACAAAATTAT
65636497 GAAAATACCC
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
53 1 0.01
54 103 0.98
55 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (53 bp):
CCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACTATTTAC
Found at i:65636479 original size:81 final size:81
Alignment explanation
Indices: 65636320--65636495 Score: 221
Period size: 81 Copynumber: 2.2 Consensus size: 81
65636310 AAGAATCCTC
* * * * *
65636320 GATTTACAGAATTACCGTTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCAATTTATAGAA
1 GATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTATCGTTTTACCCTCAATTTACAAAA
**
65636385 TTATCGTCTTACCCTT
66 TTATCGTAATACCCTT
* *
65636401 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAAAA
1 GATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTATCGTTTTACCCTCAATTTACAAAA
65636466 TTA-C-TAAAATACCCTT
66 TTATCGT--AATACCCTT
* *
65636482 GGTTTACAAAATTA
1 GATTTACAGAATTA
65636496 TGAAAATACC
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 80 0.98
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.39
Consensus pattern (81 bp):
GATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTATCGTTTTACCCTCAATTTACAAAA
TTATCGTAATACCCTT
Found at i:65636596 original size:27 final size:26
Alignment explanation
Indices: 65636515--65636628 Score: 122
Period size: 27 Copynumber: 4.2 Consensus size: 26
65636505 CCTTAATCAA
65636515 TAAAATTACCAAAATACCTCT-AGTTTG
1 TAAAATTACCAAAATACC-CTGA-TTTG
**
65636542 TAAAATTACCAAAATACCCCTGGCTTG
1 TAAAATTACCAAAATA-CCCTGATTTG
65636569 TAAAATTACCAAAATAACCCTGATTTG
1 TAAAATTACCAAAAT-ACCCTGATTTG
* * * *
65636596 TGAAATTATCGAAATACTCTTGATTTG
1 TAAAATTACCAAAATAC-CCTGATTTG
65636623 TAAAAT
1 TAAAAT
65636629 ATCGAAATAC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 2 0.03
27 69 0.93
28 3 0.04
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCTGATTTG
Found at i:65640462 original size:27 final size:27
Alignment explanation
Indices: 65640432--65640587 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
65640422 TGCTATTCAC
* *
65640432 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
65640459 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
65640486 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
65640514 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
65640541 TCTTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
65640568 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
65640588 TGTACAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.78
28 22 0.21
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:65640503 original size:55 final size:55
Alignment explanation
Indices: 65640437--65640588 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
65640427 TTCACTCAAC
* *
65640437 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTAGAT
* ** * ***
65640492 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCTTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
* *
65640546 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
65640589 GTACAATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.50
55 40 0.50
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
Found at i:65648373 original size:27 final size:27
Alignment explanation
Indices: 65648343--65648497 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
65648333 TGCTATTCAC
* *
65648343 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * *
65648370 TCAAATCGCAC-CTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
65648396 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
65648424 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
65648451 TCTTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
65648478 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
65648498 TGTACAATTT
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
26 15 0.14
27 74 0.71
28 15 0.14
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:65648406 original size:54 final size:55
Alignment explanation
Indices: 65648348--65648498 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
65648338 TTCACTCAAC
*
65648348 TCGCACACTTAGTGCCACGTAATCAAATCGCAC-CTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTAGAT
* ** * ***
65648402 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCTTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
* *
65648456 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
65648499 GTACAATTTA
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
54 68 0.85
55 12 0.15
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
Found at i:65663857 original size:29 final size:29
Alignment explanation
Indices: 65663810--65663892 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 29
65663800 ATCAGTCTCA
*
65663810 ACATATACTGGGTCGAAGCCTTTCATTAA-
1 ACATATACTGGGCCGAAGCCTTTCA-TAAT
65663839 ACGAT-TACTGGGCCGAAGCCTTATCATAAT
1 AC-ATATACTGGGCCGAAGCCTT-TCATAAT
*
65663869 TCATATCACTGGGCCGAAGCCTTT
1 ACATAT-ACTGGGCCGAAGCCTTT
65663893 ACTATAAACG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
29 23 0.49
30 8 0.17
31 16 0.34
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (29 bp):
ACATATACTGGGCCGAAGCCTTTCATAAT
Found at i:65664308 original size:25 final size:25
Alignment explanation
Indices: 65664262--65664310 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
65664252 ATAATTAAAC
* * * *
65664262 CCTAGGGGTATAACGGTTATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
65664287 CCTAGGGGCAAAACAGTCATTTTT
1 CCTAGGGGCAAAACAGTCATTTTT
65664311 CATATTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:65679756 original size:41 final size:41
Alignment explanation
Indices: 65679695--65679996 Score: 302
Period size: 41 Copynumber: 7.4 Consensus size: 41
65679685 GGCATGCATA
* * * * * *
65679695 TGCAATTTAGGGGTATTGAAGTACAAACATGGGAATGTATG
1 TGCAATTCAAGGGTACTGAAGTACAAACAGGGGCACGTATG
* * *
65679736 TGCAATTCAGGGGTACTGAAGTACAAACAGGGGCACATATT
1 TGCAATTCAAGGGTACTGAAGTACAAACAGGGGCACGTATG
* * *
65679777 TGTAATTC-AGGTGTACCGAAGTACAAACAGGGGCATGTATG
1 TGCAATTCAAGG-GTACTGAAGTACAAACAGGGGCACGTATG
* *
65679818 TGCAATTCAATGGTACCGAAGTACAAACAGGGGCACGTATG
1 TGCAATTCAAGGGTACTGAAGTACAAACAGGGGCACGTATG
* ** * * *
65679859 TGGAATT-AAGGGTACCAAAGTATAAATAGGGGCACGTATA
1 TGCAATTCAAGGGTACTGAAGTACAAACAGGGGCACGTATG
* * *
65679899 TGCAATTGAAGGGTACTGAAGTACAAATAGGGGCACGTTTG
1 TGCAATTCAAGGGTACTGAAGTACAAACAGGGGCACGTATG
* * * * * * *
65679940 TGTAATTCAAGGGTTCTAAAGTACAAATAGGGGAACATATA
1 TGCAATTCAAGGGTACTGAAGTACAAACAGGGGCACGTATG
*
65679981 TGCAATTTAAGGGTAC
1 TGCAATTCAAGGGTAC
65679997 GTATATGAAA
Statistics
Matches: 219, Mismatches: 39, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
40 36 0.16
41 181 0.83
42 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (41 bp):
TGCAATTCAAGGGTACTGAAGTACAAACAGGGGCACGTATG
Found at i:65679768 original size:20 final size:20
Alignment explanation
Indices: 65679703--65679768 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
65679693 TATGCAATTT
*
65679703 AGGGGTATTGAAGTACAAAC
1 AGGGGTAATGAAGTACAAAC
* * * *
65679723 ATGGG-AATGTATGTGCAATTC
1 AGGGGTAATG-AAGTACAA-AC
*
65679744 AGGGGTACTGAAGTACAAAC
1 AGGGGTAATGAAGTACAAAC
65679764 AGGGG
1 AGGGG
65679769 CACATATTTG
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
19 3 0.09
20 16 0.48
21 11 0.33
22 3 0.09
ACGTcount: A:0.35, C:0.11, G:0.33, T:0.21
Consensus pattern (20 bp):
AGGGGTAATGAAGTACAAAC
Found at i:65680015 original size:21 final size:22
Alignment explanation
Indices: 65679968--65680017 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
65679958 AAGTACAAAT
* *
65679968 AGGGGAACATATATGCAATTTA
1 AGGGGTACATATATGCAAATTA
*
65679990 A-GGGTACGTATATG-AAATTA
1 AGGGGTACATATATGCAAATTA
65680010 AGGGGTAC
1 AGGGGTAC
65680018 CGAAGTACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 17 0.71
22 1 0.04
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.26
Consensus pattern (22 bp):
AGGGGTACATATATGCAAATTA
Found at i:65685658 original size:23 final size:23
Alignment explanation
Indices: 65685624--65685668 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
65685614 GGGTCACACG
65685624 GCCAAGACACACACCCGTGTGCA
1 GCCAAGACACACACCCGTGTGCA
* *
65685647 GCCAAGATACACATCCGTGTGC
1 GCCAAGACACACACCCGTGTGC
65685669 TTAGGCCGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.36, G:0.22, T:0.13
Consensus pattern (23 bp):
GCCAAGACACACACCCGTGTGCA
Found at i:65687003 original size:48 final size:48
Alignment explanation
Indices: 65686856--65687082 Score: 124
Period size: 48 Copynumber: 4.8 Consensus size: 48
65686846 ACATGGTAGG
** * * * ** * * *
65686856 ATGCCAATGCCACATCCCAGATATCGTCTTACATGATATGACACATCG
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCA
* * * * * ** ** *
65686904 ATACCAATGCTATGTCCCAAATATTGTTTTACATGGGATCGTAGGTTA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCA
65686952 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCA
* * * * ** *
65687000 ATGCCGAT---A-G-CCC-AGCTATGGTCATACACGAAATTACATATCA
1 ATGCCAATGCCATGTCCCAAAC-ATGGTCTTACATGGGATCACATATCA
* ** *
65687043 ATTCCAAACCCATGTCCCAGACATGGTCTTACATGGGATC
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATC
65687083 GTACATAACC
Statistics
Matches: 129, Mismatches: 43, Indels: 14
0.69 0.23 0.08
Matches are distributed among these distances:
42 2 0.02
43 29 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 93 0.72
49 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCA
Found at i:65690833 original size:30 final size:31
Alignment explanation
Indices: 65690757--65690845 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 31
65690747 TTCAACTCAC
* *
65690757 GAGCTAAACCTTAGCTCAACTTCAGCT-TAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTCAAG
* * *
65690787 GAGTTTAACCTCAGCTCAACTTTAGCTCAAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTCAAG
* *
65690818 G-GCTAAAGCTTAGCTC-ATTTTAGCTCAA
1 GAGCTAAACCTTAGCTCAACTTTAGCTCAA
65690846 ACCTGATTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 11 0.23
30 34 0.71
31 3 0.06
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTCAAG
Found at i:65693449 original size:5 final size:5
Alignment explanation
Indices: 65693439--65693500 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
65693429 ACGAGAAAAC
65693439 AAAGA AAAGA AAAGA AAA-A ACAA-A AGAAGAA AAAGA AAACGA AACA-A
1 AAAGA AAAGA AAAGA AAAGA A-AAGA A-AAG-A AAAGA AAA-GA AA-AGA
65693486 AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA
65693501 GAGGCAAAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
4 3 0.06
5 37 0.74
6 7 0.14
7 3 0.06
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:65693460 original size:21 final size:20
Alignment explanation
Indices: 65693434--65693498 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
65693424 TTGTAACGAG
65693434 AAAACAAAGAAAAGAAAAGAA
1 AAAACAAA-AAAAGAAAAGAA
*
65693455 AAAACAAAAGAAGAAAAAGAA
1 AAAACAAAAAAAG-AAAAGAA
*
65693476 AACGAA-ACAAAAAGAAAAGAA
1 AA--AACAAAAAAAGAAAAGAA
65693497 AA
1 AA
65693499 GAGAGGCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
20 4 0.11
21 26 0.68
22 6 0.16
23 2 0.05
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (20 bp):
AAAACAAAAAAAGAAAAGAA
Found at i:65693487 original size:16 final size:15
Alignment explanation
Indices: 65693439--65693497 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 15
65693429 ACGAGAAAAC
*
65693439 AAAGAAAAGAAAAGAAA
1 AAAGAAAAG-AAA-CAA
* *
65693456 AAACAAAAG-AAGAA
1 AAAGAAAAGAAACAA
65693470 AAAGAAAACGAAACAA
1 AAAGAAAA-GAAACAA
65693486 AAAGAAAAGAAA
1 AAAGAAAAGAAA
65693498 AGAGAGGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 9 0.25
15 7 0.19
16 12 0.33
17 8 0.22
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAACAA
Found at i:65693591 original size:12 final size:12
Alignment explanation
Indices: 65693569--65693593 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65693559 TTTGAAAAAC
65693569 AAAAAGAAAATG
1 AAAAAGAAAATG
65693581 AAAAAGAAAATG
1 AAAAAGAAAATG
65693593 A
1 A
65693594 GATTGAAGAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:65693600 original size:18 final size:18
Alignment explanation
Indices: 65693560--65693613 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
65693550 GAAAAAGCCT
* *
65693560 TTGAAAAACAAAAAGAAA
1 TTGAAAAAGAAAATGAAA
* *
65693578 ATGAAAAAGAAAATGAGA
1 TTGAAAAAGAAAATGAAA
* *
65693596 TTGAAGAAGAGAATGAAA
1 TTGAAAAAGAAAATGAAA
65693614 AAGAGTTTGA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.65, C:0.02, G:0.20, T:0.13
Consensus pattern (18 bp):
TTGAAAAAGAAAATGAAA
Found at i:65693613 original size:24 final size:22
Alignment explanation
Indices: 65693586--65693630 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
65693576 AAATGAAAAA
*
65693586 GAAAATGAGATTGAAGAAGAGAAT
1 GAAAAAGAGATTG-AG-AGAGAAT
*
65693610 GAAAAAGAGTTTGAGAGAGAA
1 GAAAAAGAGATTGAGAGAGAA
65693631 AAAGAATGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 2 0.11
24 11 0.58
ACGTcount: A:0.53, C:0.00, G:0.31, T:0.16
Consensus pattern (22 bp):
GAAAAAGAGATTGAGAGAGAAT
Found at i:65695729 original size:26 final size:26
Alignment explanation
Indices: 65695700--65695772 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
65695690 GAGGAAGTGC
*
65695700 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCA
*
65695726 AAAAGGGCTTATGCCTCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCA
65695752 AAAAGGGCTTATGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
65695773 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCA
Found at i:65696039 original size:32 final size:31
Alignment explanation
Indices: 65695994--65696085 Score: 87
Period size: 38 Copynumber: 2.7 Consensus size: 31
65695984 CGTTTACAGT
*
65695994 AAAGGCTTTGGCCCAGTAATATGAAATATTAA
1 AAAGGCTTCGGCCCAGTAATATGAAATA-TAA
*
65696026 AAAGGCTTCGGCCCATTGTTATGCAATATGAAATATGA
1 AAAGGCTTCGGCCCA--G---T--AATATGAAATATAA
65696064 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTAATATG
65696086 TTGAGATTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
30 5 0.10
32 14 0.27
33 1 0.02
34 1 0.02
36 1 0.02
37 1 0.02
38 17 0.33
39 11 0.22
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATAA
Found at i:65698909 original size:34 final size:29
Alignment explanation
Indices: 65698841--65698898 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
65698831 ATTACTCAAA
65698841 AATACAAAACTCATTTTATTAGTTTTGTC
1 AATACAAAACTCATTTTATTAGTTTTGTC
65698870 AATACAAAACTCATTTTATTAGTTTTGTC
1 AATACAAAACTCATTTTATTAGTTTTGTC
65698899 TATCCTATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (29 bp):
AATACAAAACTCATTTTATTAGTTTTGTC
Found at i:65699344 original size:28 final size:27
Alignment explanation
Indices: 65699326--65699457 Score: 133
Period size: 28 Copynumber: 4.7 Consensus size: 27
65699316 GCCTTACACC
65699326 CAATCTCGCACACATAGTGCTCGGTTAA
1 CAATCTCGCACACATAGTGCTC-GTTAA
* *
65699354 TAATTTCGCACACATAGTGCTCGGTTAA
1 CAATCTCGCACACATAGTGCTC-GTTAA
* * *
65699382 TAATTTCGTACACATAGTGC-C-TTACA
1 CAATCTCGCACACATAGTGCTCGTTA-A
65699408 CCCAATCTCGCACACATAGTGCTCGGTTAA
1 --CAATCTCGCACACATAGTGCTC-GTTAA
* *
65699438 TAATTTCGCACACATAGTGC
1 CAATCTCGCACACATAGTGC
65699458 ATATATTCAT
Statistics
Matches: 90, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
25 3 0.03
26 1 0.01
27 1 0.01
28 80 0.89
29 1 0.01
30 1 0.01
31 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (27 bp):
CAATCTCGCACACATAGTGCTCGTTAA
Found at i:65707021 original size:28 final size:28
Alignment explanation
Indices: 65706982--65707077 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 28
65706972 TAAATTTGCA
* * **
65706982 CACACACAGTGCCATACACCCGATCTCG
1 CACACATAGTGCCTTACACCTAATCTCG
*
65707010 CACACATAGTGCTCGGTTA-A--TAATTTCG
1 CACACATAGTGC-C--TTACACCTAATCTCG
65707038 CACACATAGTGCCTTACACCTAATCTCG
1 CACACATAGTGCCTTACACCTAATCTCG
65707066 CACACATAGTGC
1 CACACATAGTGC
65707078 TCGGTTAATA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 1 0.02
28 47 0.84
29 1 0.02
30 1 0.02
31 2 0.04
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (28 bp):
CACACATAGTGCCTTACACCTAATCTCG
Found at i:65707050 original size:56 final size:56
Alignment explanation
Indices: 65706982--65707105 Score: 212
Period size: 56 Copynumber: 2.2 Consensus size: 56
65706972 TAAATTTGCA
* *
65706982 CACACACAGTGCCATACACCCGATCTCGCACACATAGTGCTCGGTTAATAATTTCG
1 CACACATAGTGCCATACACCCAATCTCGCACACATAGTGCTCGGTTAATAATTTCG
* *
65707038 CACACATAGTGCCTTACACCTAATCTCGCACACATAGTGCTCGGTTAATAATTTCG
1 CACACATAGTGCCATACACCCAATCTCGCACACATAGTGCTCGGTTAATAATTTCG
65707094 CACACATAGTGC
1 CACACATAGTGC
65707106 ATATATTCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (56 bp):
CACACATAGTGCCATACACCCAATCTCGCACACATAGTGCTCGGTTAATAATTTCG
Found at i:65707089 original size:28 final size:28
Alignment explanation
Indices: 65707004--65707105 Score: 138
Period size: 28 Copynumber: 3.6 Consensus size: 28
65706994 CATACACCCG
65707004 ATCTCGCACACATAGTGCTCGGTTAATA
1 ATCTCGCACACATAGTGCTCGGTTAATA
*
65707032 ATTTCGCACACATAGTGC-C--TTACACCTA
1 ATCTCGCACACATAGTGCTCGGTTA-A--TA
65707060 ATCTCGCACACATAGTGCTCGGTTAATA
1 ATCTCGCACACATAGTGCTCGGTTAATA
*
65707088 ATTTCGCACACATAGTGC
1 ATCTCGCACACATAGTGC
65707106 ATATATTCAT
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 1 0.02
28 55 0.85
29 1 0.02
30 1 0.02
31 3 0.05
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (28 bp):
ATCTCGCACACATAGTGCTCGGTTAATA
Found at i:65711989 original size:9 final size:10
Alignment explanation
Indices: 65711982--65712038 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
65711972 ATGAGAAAAC
65711982 AAAGAAAAGA
1 AAAGAAAAGA
65711992 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
65712004 AAAGAAGA-A
1 AAAGAAAAGA
65712013 AAAGAAAATGA
1 AAAGAAAA-GA
65712024 AATA-AAAAGA
1 AA-AGAAAAGA
65712034 AAAGA
1 AAAGA
65712039 GAGGCAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:65712006 original size:6 final size:5
Alignment explanation
Indices: 65711982--65712038 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
65711972 ATGAGAAAAC
*
65711982 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
65712029 AAAGA AAAGA
1 AAAGA AAAGA
65712039 GAGGCAAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:65712013 original size:15 final size:14
Alignment explanation
Indices: 65711982--65712038 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
65711972 ATGAGAAAAC
65711982 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
65711998 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
65712013 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
65712029 AAAGAAAAGA
1 AAAGAAAAGA
65712039 GAGGCAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:65712139 original size:24 final size:24
Alignment explanation
Indices: 65712112--65712174 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
65712102 AAAACAAAAA
*
65712112 GAAAAAGAAAAAGAAAATGAGATT
1 GAAAAAGAAAAAGAAAAAGAGATT
* * *
65712136 GAAAAAGAGAATGAAAAAGAGTTT
1 GAAAAAGAAAAAGAAAAAGAGATT
* *
65712160 GAGAGAGAAAAAGAA
1 GAAAAAGAAAAAGAA
65712175 TGTGAACATG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.63, C:0.00, G:0.25, T:0.11
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAAAGAGATT
Found at i:65712141 original size:13 final size:12
Alignment explanation
Indices: 65712112--65712156 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
65712102 AAAACAAAAA
* *
65712112 GAAAAAGAAAAA
1 GAAAAAGAGAAT
* *
65712124 GAAAATGAGATT
1 GAAAAAGAGAAT
65712136 GAAAAAGAGAAT
1 GAAAAAGAGAAT
65712148 GAAAAAGAG
1 GAAAAAGAG
65712157 TTTGAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (12 bp):
GAAAAAGAGAAT
Found at i:65714621 original size:24 final size:24
Alignment explanation
Indices: 65714556--65714631 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 24
65714546 AGGCTGTCAA
* * * *
65714556 GAGAAGATTTGGGAGCTCATAAGA
1 GAGAGGATTTAGGAGCTGATAAGG
65714580 GAGAGGATTTAGGAGCTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
*
65714604 GAGAGGATTTAGGAGCTGATTAGG
1 GAGAGGATTTAGGAGCTGATAAGG
65714628 GAGA
1 GAGA
65714632 ACAGTGTTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.34, C:0.05, G:0.39, T:0.21
Consensus pattern (24 bp):
GAGAGGATTTAGGAGCTGATAAGG
Found at i:65722850 original size:27 final size:27
Alignment explanation
Indices: 65722820--65722930 Score: 143
Period size: 27 Copynumber: 4.1 Consensus size: 27
65722810 AGGAAGCGTC
* * *
65722820 CTGGTGGCTATTCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
65722847 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
65722874 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* **
65722901 CTGGTGACTCTATCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
65722927 CTGG
1 CTGG
65722931 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 13 0.17
27 62 0.83
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:65725421 original size:49 final size:50
Alignment explanation
Indices: 65725366--65725608 Score: 273
Period size: 49 Copynumber: 5.0 Consensus size: 50
65725356 AGCTATTGTG
* *
65725366 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* ** * *
65725416 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT
* * * * *
65725466 CGATCACA--TGT-GT-CTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
*
65725512 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * *
65725562 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTATCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
65725609 CTTCAGCTAC
Statistics
Matches: 159, Mismatches: 28, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
46 8 0.05
47 23 0.14
48 5 0.03
49 86 0.54
50 31 0.19
51 6 0.04
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:65725559 original size:97 final size:96
Alignment explanation
Indices: 65725383--65725559 Score: 282
Period size: 97 Copynumber: 1.8 Consensus size: 96
65725373 GTGTGTAGTA
* *
65725383 CTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCACATGTGTAGTACTAAGTGCAGGCTACT
1 CTAAGTGCAGGCTACTACGTGTACCAAATGGTTGGTCACATGTGTAGTACTAAGTGCAGGCTACT
* *
65725448 ATGCATACCTGATAACTTCGATCACATGTGT
66 ACGCATACCAGATAACTTCGATCACATGTGT
*
65725479 CTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTAC
1 CTAAGTGCAGGCTACTACGTGTACCAAATGGTT-GGTCACATGTGTAGTACTAAGTGCAGGCTAC
**
65725544 TACGTGTACCAGATAA
65 TACGCATACCAGATAA
65725560 TTGGTCGCAT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 30 0.41
97 43 0.59
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (96 bp):
CTAAGTGCAGGCTACTACGTGTACCAAATGGTTGGTCACATGTGTAGTACTAAGTGCAGGCTACT
ACGCATACCAGATAACTTCGATCACATGTGT
Found at i:65726054 original size:25 final size:25
Alignment explanation
Indices: 65726023--65726077 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
65726013 TGAGACAGTG
65726023 TCTGAATGAATTCGAGATCCCCTGT
1 TCTGAATGAATTCGAGATCCCCTGT
65726048 TCTGAATGAATTCGAGATCCCCTGT
1 TCTGAATGAATTCGAGATCCCCTGT
65726073 TCTGA
1 TCTGA
65726078 CTTGGAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (25 bp):
TCTGAATGAATTCGAGATCCCCTGT
Found at i:65751492 original size:23 final size:24
Alignment explanation
Indices: 65751466--65751515 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
65751456 CAAAATAAGT
65751466 CATCAAATCATTATAA-GTTAACA
1 CATCAAATCATTATAATGTTAACA
65751489 CATCAAATCATTATAATGTTAACA
1 CATCAAATCATTATAATGTTAACA
65751513 CAT
1 CAT
65751516 ATGCAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (24 bp):
CATCAAATCATTATAATGTTAACA
Found at i:65752088 original size:48 final size:48
Alignment explanation
Indices: 65752035--65752136 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 48
65752025 CACATGGTAG
* *
65752035 GATGCCAATGCCATATCCCAAATATGGTCTTTCATGGGATCACATATC
1 GATGCCAATGCCATATCCCAAACATGGTCTTACATGGGATCACATATC
* * *
65752083 GATGCCAATTCCATGTCCCAAACATGGTCTTACATGGGATTACATATC
1 GATGCCAATGCCATATCCCAAACATGGTCTTACATGGGATCACATATC
65752131 GATGCC
1 GATGCC
65752137 GATAGCCCAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAAACATGGTCTTACATGGGATCACATATC
Found at i:65756062 original size:15 final size:17
Alignment explanation
Indices: 65756042--65756077 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
65756032 CTCATTTTTC
65756042 TTTTCA-TTTCT-TCCT
1 TTTTCATTTTCTCTCCT
65756057 TTTTCATTTTCTCTCCT
1 TTTTCATTTTCTCTCCT
65756074 TTTT
1 TTTT
65756078 GAAAAACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTCATTTTCTCTCCT
Found at i:65757088 original size:15 final size:15
Alignment explanation
Indices: 65757068--65757101 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
65757058 CATGAAAAAT
65757068 ATGATTTATGATG-TG
1 ATGATTTATG-TGATG
65757083 ATGATTTATGTGATG
1 ATGATTTATGTGATG
65757098 ATGA
1 ATGA
65757102 CATATGTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.44
Consensus pattern (15 bp):
ATGATTTATGTGATG
Found at i:65766665 original size:28 final size:28
Alignment explanation
Indices: 65766610--65766722 Score: 140
Period size: 28 Copynumber: 4.1 Consensus size: 28
65766600 AGCATGGATG
* *
65766610 CCAG-AACAGAT-ATTGTGACAGAGTCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* *
65766636 CCAGATACAGATAATTGTGGCAGGGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* *
65766664 CCAGAAATAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* *
65766692 CCAGAAATAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
65766720 CCA
1 CCA
65766723 AAATGCTTCC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 4 0.05
27 6 0.08
28 67 0.87
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (28 bp):
CCAGAAACAGATAATTGTGGCAGAGCCA
Found at i:65768011 original size:18 final size:17
Alignment explanation
Indices: 65767960--65768014 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
65767950 ATTCAGCTAT
65767960 AGAGG-AAAAGAAGAAG
1 AGAGGAAAAAGAAGAAG
* * *
65767976 AAGATGAAATAGATGAAG
1 -AGAGGAAAAAGAAGAAG
65767994 AGAGGAAAAAAGAAGAAG
1 AGAGG-AAAAAGAAGAAG
65768012 AGA
1 AGA
65768015 AAAGAATTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05
Consensus pattern (17 bp):
AGAGGAAAAAGAAGAAG
Found at i:65774603 original size:22 final size:22
Alignment explanation
Indices: 65774576--65774698 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
65774566 ATGTGCATAT
65774576 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
65774598 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
*
65774622 TATGTGATAAGGCCAAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* *
65774645 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
65774667 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
65774692 ATGTGAT
1 ATGTGAT
65774699 GAATATGAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 32
0.62 0.10 0.27
Matches are distributed among these distances:
22 24 0.33
23 17 0.23
24 16 0.22
25 16 0.22
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:65774611 original size:47 final size:47
Alignment explanation
Indices: 65774560--65774744 Score: 289
Period size: 47 Copynumber: 3.9 Consensus size: 47
65774550 GATAATTGTG
**
65774560 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
65774607 ATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
65774654 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
65774701 ATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
65774745 AATATATGTA
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:65775087 original size:20 final size:20
Alignment explanation
Indices: 65775062--65775099 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65775052 AGCTTGTTTC
*
65775062 CAACTCACTCGAGCTCAAGT
1 CAACTCACTCAAGCTCAAGT
*
65775082 CAACTCATTCAAGCTCAA
1 CAACTCACTCAAGCTCAA
65775100 TTCAGCTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.21
Consensus pattern (20 bp):
CAACTCACTCAAGCTCAAGT
Found at i:65777807 original size:48 final size:48
Alignment explanation
Indices: 65777706--65777811 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
65777696 GAGTGTCATG
*
65777706 GAAAAAGAAATTGAGATTGAAAAAGGATGTGAAAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAAAAAGAGAAAGAAATC
* * *
65777754 AAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAA-AGAGA-AAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA--AAAAGAGAAAGAAATC
65777802 GAAAAAGAAA
1 GAAAAAGAAA
65777812 GAAAAGACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
48 38 0.76
49 8 0.16
50 4 0.08
ACGTcount: A:0.60, C:0.02, G:0.24, T:0.14
Consensus pattern (48 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAAAAAGAGAAAGAAATC
Done.