Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 192 of 332
Found at i:63970357 original size:54 final size:54
Alignment explanation
Indices: 63970283--63970386 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
63970273 AGATAAGTTG
* * *
63970283 TAGAATTATCGAAATACCCCTACAGGATAGAATTACTAAAATACCCTTGTAGGA
1 TAGAAATACCGAAATACCCCTACAGGATAGAATTACCAAAATACCCTTGTAGGA
** * * *
63970337 TAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGT
1 TAGAAATACCGAAATACCCCTACAGGATAGAATTACCAAAATACCCTTGT
63970387 GGGGTAAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (54 bp):
TAGAAATACCGAAATACCCCTACAGGATAGAATTACCAAAATACCCTTGTAGGA
Found at i:63971094 original size:27 final size:26
Alignment explanation
Indices: 63971050--63971101 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
63971040 CTCGCTGCAA
*
63971050 TCTGGTGGCCTTGCCACATATATCTGT
1 TCTGGTGACCTTGCCACA-ATATCTGT
* *
63971077 TCTGGTGACTTTGTCACAATATCTG
1 TCTGGTGACCTTGCCACAATATCTG
63971102 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
TCTGGTGACCTTGCCACAATATCTGT
Found at i:63972704 original size:20 final size:20
Alignment explanation
Indices: 63972665--63972704 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
63972655 TATGAACGTA
* *
63972665 AAATTTTTCTAAGTGTTCAG
1 AAATTTTTATAAGTGATCAG
*
63972685 AAATTTTTATATGTGATCAG
1 AAATTTTTATAAGTGATCAG
63972705 TTTAGTCTCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (20 bp):
AAATTTTTATAAGTGATCAG
Found at i:63974607 original size:45 final size:44
Alignment explanation
Indices: 63974558--63974642 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 44
63974548 TTTAATACGT
* *
63974558 TGGCATCAATATATGATTCCGATATGTGATGTGCGAGTAAGACCA
1 TGGCATCAATATATGATTCCAATATATG-TGTGCGAGTAAGACCA
* *
63974603 TGGCATCGATATATGATTCTAATATATGTGTGCGAGTAAG
1 TGGCATCAATATATGATTCCAATATATGTGTGCGAGTAAG
63974643 TCCACATTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 12 0.33
45 24 0.67
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.32
Consensus pattern (44 bp):
TGGCATCAATATATGATTCCAATATATGTGTGCGAGTAAGACCA
Found at i:63974657 original size:101 final size:101
Alignment explanation
Indices: 63974472--63974686 Score: 299
Period size: 101 Copynumber: 2.1 Consensus size: 101
63974462 CGACATGTGA
* * *
63974472 ATTCCGATATGTGATGTGCGAGTAAGACCCTGAAATCGATGTGTGATTCCTATATATGTGCACGA
1 ATTCCGATATGTGATGTGCGAGTAAGACCATGAAATCGATATATGATTCCTATATATGTGCACGA
* *
63974537 GTAAGACCACGTTTAATACGTTGGCATCAATATATG
66 GTAAGACCACATTTAATACGTTGGCATCAAAATATG
** **
63974573 ATTCCGATATGTGATGTGCGAGTAAGACCATGGCATCGATATATGATT-CTAATATATGTGTGCG
1 ATTCCGATATGTGATGTGCGAGTAAGACCATGAAATCGATATATGATTCCT-ATATATGTGCACG
* *
63974637 AGTAAGTCCACATTCT-ATACGTTGGCATCAAAATGTG
65 AGTAAGACCACATT-TAATACGTTGGCATCAAAATATG
63974674 ATTCCGATATGTG
1 ATTCCGATATGTG
63974687 TACGAGTAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
100 2 0.02
101 98 0.97
102 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (101 bp):
ATTCCGATATGTGATGTGCGAGTAAGACCATGAAATCGATATATGATTCCTATATATGTGCACGA
GTAAGACCACATTTAATACGTTGGCATCAAAATATG
Found at i:63978457 original size:68 final size:68
Alignment explanation
Indices: 63978290--63978465 Score: 159
Period size: 68 Copynumber: 2.6 Consensus size: 68
63978280 TAGTACCAGT
* * * *
63978290 CATGCGACCTAGC--CA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAAT
*
63978352 CACT
65 CACA
* * *
63978356 CATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGCGACCTAGCTACATATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGA
63978418 ATCACA
63 ATCACA
*
63978424 CATGTGACCTAGCTACTATATAGTATCTCGTAGC-CTTCTTGT
1 CATGCGACCTAGCTAC-ATATA-TATCTCGTAGCTC-TCTTGT
63978466 ACACATGATG
Statistics
Matches: 90, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
66 13 0.14
67 1 0.01
68 35 0.39
69 9 0.10
70 6 0.07
71 26 0.29
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (68 bp):
CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATC
ACA
Found at i:63988473 original size:28 final size:28
Alignment explanation
Indices: 63988433--63988490 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
63988423 CATAGTTAGC
63988433 CAGTCCATACCCTAAATCACATCAAACT
1 CAGTCCATACCCTAAATCACATCAAACT
63988461 CAGTCCATACCCTAAATCACATCAAACT
1 CAGTCCATACCCTAAATCACATCAAACT
63988489 CA
1 CA
63988491 TCGAATGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.36, G:0.03, T:0.21
Consensus pattern (28 bp):
CAGTCCATACCCTAAATCACATCAAACT
Found at i:63994011 original size:45 final size:45
Alignment explanation
Indices: 63993954--63994086 Score: 187
Period size: 45 Copynumber: 3.0 Consensus size: 45
63993944 CCTGATTATC
* * *
63993954 ATTTCACCGGCATTATAGCCTGCCAGGCTCGAAA-GCCCAAATAGT
1 ATTTCACCGGCATAATAGCCTGCTAGGCTC-AAAGGCCCGAATAGT
* *
63993999 ATTTCATCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
1 ATTTCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
* *
63994044 GTCTCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 ATTTCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
63994087 TAATACCAGC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 3 0.04
45 76 0.96
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (45 bp):
ATTTCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
Found at i:63994132 original size:38 final size:38
Alignment explanation
Indices: 63994079--63994433 Score: 444
Period size: 38 Copynumber: 9.3 Consensus size: 38
63994069 GGCTCAAAGG
* *
63994079 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* * *
63994117 CCTGGATATATTACCACCACGAAGCCAGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* * **
63994155 CCCGGATGTATTACCAGCACGAAGCCTACGAAATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* *
63994193 CCCGGATGTATTACCAGCACGAAGCTTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* ** *
63994231 CCCGAACGTATTACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
63994269 CCCGGATATATTACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* *
63994307 CCCGGATGTATTACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* *
63994345 CCTGGATATATTACCAGCACGAAGCTTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* * *
63994383 CCTGGATATAATT-CCAGCA-TATAGCCTGCGGGTCTTTAA
1 CCCGGATAT-ATTACCAGCACGA-AGCCTGCGGG-ATTTAA
*
63994422 GCCTGGATATAT
1 -CCCGGATATAT
63994434 ATCAAATATC
Statistics
Matches: 280, Mismatches: 33, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
37 1 0.00
38 260 0.93
39 10 0.04
40 9 0.03
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
Found at i:63996238 original size:657 final size:657
Alignment explanation
Indices: 63994984--63996301 Score: 2528
Period size: 657 Copynumber: 2.0 Consensus size: 657
63994974 GAAACCATTT
63994984 CTTATATGTTTGATTCACATCAATCATCAAATTCATTTAATTCACATGTACTTAATTAGGTTGTG
1 CTTATATGTTTGATTCACATCAATCATCAAATTCATTTAATTCACATGTACTTAATTAGGTTGTG
63995049 CGTACCTGAATAATTTACTTTACTGAACGAATCCACATACCGTATTAGCCCATAGTCTTATAGCA
66 CGTACCTGAATAATTTACTTTACTGAACGAATCCACATACCGTATTAGCCCATAGTCTTATAGCA
*
63995114 CCACACTTTCAATAGTTTACCGGCAATTTGCTTGCTAGGTAATAACCTGATTTCATCACCGGCCA
131 CCACACTTTCAATAGTTTACCGGCAATTTGCCTGCTAGGTAATAACCTGATTTCATCACCGGCCA
63995179 TAAGCCTGCTAGACCTTTAAGTCCGATGTCATTTCACCGGCATTACGCCTGCTAGGTTTGAGACC
196 TAAGCCTGCTAGACCTTTAAGTCCGATGTCATTTCACCGGCATTACGCCTGCTAGGTTTGAGACC
63995244 CGAATATATATTATAATGCATAACTTATATCATCGATCACTAACAGTTACCTCATCGAAGTTCAC
261 CGAATATATATTATAATGCATAACTTATATCATCGATCACTAACAGTTACCTCATCGAAGTTCAC
*
63995309 ATTTAATCACTTTAGTACCAAGCCACATTCGGCTACCACAAAGGACTAATAATAATAATTTTATA
326 ATTTAATCACTTTAGTACCAAGCCACATTCGGATACCACAAAGGACTAATAATAATAATTTTATA
*
63995374 CACATCATGGTTTCCTTTAGATATTTAAGAATCACAAATCGTGATATTTCCACCAGCACATATAC
391 CACATCATGGTTTCCTTTAGATATTTAAGAATCACAAATCATGATATTTCCACCAGCACATATAC
*
63995439 GGCATAGTTTATTCATTGTAACACTCATTTAGTGCACCAAATTTCCAAATCCAATTCAACTTAAG
456 AGCATAGTTTATTCATTGTAACACTCATTTAGTGCACCAAATTTCCAAATCCAATTCAACTTAAG
63995504 CATAATAGCCATAATCGGCTTATAGCCTTAAATCATTACATATTCGGCACATTAACTAAATAAAA
521 CATAATAGCCATAATCGGCTTATAGCCTTAAATCATTACATATTCGGCACATTAACTAAATAAAA
63995569 TTTACATTCCCTTTACCATATTAATTTAACTCTTAGGCATATAAAAAGGAATCAAGCTTAAACAC
586 TTTACATTCCCTTTACCATATTAATTTAACTCTTAGGCATATAAAAAGGAATCAAGCTTAAACAC
63995634 TTAAGAA
651 TTAAGAA
63995641 CTTATATGTTTGATTCACATCAATCATCAAATTCATTTAATTCACATGTACTTAATTAGGTTGTG
1 CTTATATGTTTGATTCACATCAATCATCAAATTCATTTAATTCACATGTACTTAATTAGGTTGTG
*
63995706 CGTACCTGAATAATTTACTTTACTGAACGAATCCACATATCGTATTAGCCCATAGTCTTATAGCA
66 CGTACCTGAATAATTTACTTTACTGAACGAATCCACATACCGTATTAGCCCATAGTCTTATAGCA
*
63995771 CCACACTTTCAATGGTTTACCGGCAATTTGCCTGCTAGGTAATAACCTGATTTCATCACCGGCCA
131 CCACACTTTCAATAGTTTACCGGCAATTTGCCTGCTAGGTAATAACCTGATTTCATCACCGGCCA
63995836 TAAGCCTGCTAGACCTTTAAGTCCGATGTCATTTCACCGGCATTACGCCTGCTAGGTTTGAGACC
196 TAAGCCTGCTAGACCTTTAAGTCCGATGTCATTTCACCGGCATTACGCCTGCTAGGTTTGAGACC
63995901 CGAATATATATTATAATGCATAACTTATATCATCGATCACTAACAGTTACCTCATCGAAGTTCAC
261 CGAATATATATTATAATGCATAACTTATATCATCGATCACTAACAGTTACCTCATCGAAGTTCAC
*
63995966 ATTTAATCCCTTTAGTACCAAGCCACATTCGGATACCACAAAGGACTAATAATAATAATTTTATA
326 ATTTAATCACTTTAGTACCAAGCCACATTCGGATACCACAAAGGACTAATAATAATAATTTTATA
* *
63996031 CACATCATGGTTTCCTTTAGATATTTAATAATCACAAATCATGATATTTCCGCCAGCACATATAC
391 CACATCATGGTTTCCTTTAGATATTTAAGAATCACAAATCATGATATTTCCACCAGCACATATAC
* *
63996096 AGCATAGTTTATTCATTGTAACACTTATTTAGTGCATCAAATTTCCAAATCCAATTCAACTTAAG
456 AGCATAGTTTATTCATTGTAACACTCATTTAGTGCACCAAATTTCCAAATCCAATTCAACTTAAG
63996161 CATAATAGCCATAATCGGCTTATAGCCTTAAATCATTACATATTCGGCACATTAACTAAATAAAA
521 CATAATAGCCATAATCGGCTTATAGCCTTAAATCATTACATATTCGGCACATTAACTAAATAAAA
*
63996226 TTTACATTCCCTTTACCATATTAATTTAACTCTTAGGCATATAAAAAGGTATCAAGCTTAAACAC
586 TTTACATTCCCTTTACCATATTAATTTAACTCTTAGGCATATAAAAAGGAATCAAGCTTAAACAC
63996291 TTAAGAA
651 TTAAGAA
63996298 CTTA
1 CTTA
63996302 CCTCGAATGT
Statistics
Matches: 649, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
657 649 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.33
Consensus pattern (657 bp):
CTTATATGTTTGATTCACATCAATCATCAAATTCATTTAATTCACATGTACTTAATTAGGTTGTG
CGTACCTGAATAATTTACTTTACTGAACGAATCCACATACCGTATTAGCCCATAGTCTTATAGCA
CCACACTTTCAATAGTTTACCGGCAATTTGCCTGCTAGGTAATAACCTGATTTCATCACCGGCCA
TAAGCCTGCTAGACCTTTAAGTCCGATGTCATTTCACCGGCATTACGCCTGCTAGGTTTGAGACC
CGAATATATATTATAATGCATAACTTATATCATCGATCACTAACAGTTACCTCATCGAAGTTCAC
ATTTAATCACTTTAGTACCAAGCCACATTCGGATACCACAAAGGACTAATAATAATAATTTTATA
CACATCATGGTTTCCTTTAGATATTTAAGAATCACAAATCATGATATTTCCACCAGCACATATAC
AGCATAGTTTATTCATTGTAACACTCATTTAGTGCACCAAATTTCCAAATCCAATTCAACTTAAG
CATAATAGCCATAATCGGCTTATAGCCTTAAATCATTACATATTCGGCACATTAACTAAATAAAA
TTTACATTCCCTTTACCATATTAATTTAACTCTTAGGCATATAAAAAGGAATCAAGCTTAAACAC
TTAAGAA
Found at i:64000657 original size:48 final size:48
Alignment explanation
Indices: 64000586--64001009 Score: 429
Period size: 48 Copynumber: 8.8 Consensus size: 48
64000576 CATCGATGTT
* *
64000586 GATGCCATG-TCCTAGACATGGTCTTACACTGGCTCACATAACAATACC
1 GATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATAACAATGCC
* *
64000634 GATGCCATGTTCCAAACATGGTCTTACACTGGCTTACATAACAATACC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATGCC
** * *** *
64000682 GATGCCATGTTCCAAACATCATCTTACACTGGCTCGCATATTGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATGCC
* * * * *
64000730 GATGCCATG-TCTTAGACATGGTCTTACACTAGCTCTCATAACAATGCT
1 GATGCCATGTTC-CAAACATGGTCTTACACTGGCTCACATAACAATGCC
* * *
64000778 GATGTCATGTTCTAAACATGGTCTTACACTGGCTCACATAACAATGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATGCC
* ** * *** *
64000826 GATGCCATGTTCCAAAAATGGTCTTACACTATCTCGCATATTGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATGCC
* *** *
64000874 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATGCC
* * * * * * * *
64000922 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAGAATAATACA
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATGCC
* * *
64000970 GATGCCATGTTTCAAACATGATCTTACACTAGCTCACATA
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
64001010 TAACCTTAGT
Statistics
Matches: 315, Mismatches: 58, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
47 2 0.01
48 308 0.98
49 5 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATGCC
Found at i:64000851 original size:144 final size:143
Alignment explanation
Indices: 64000586--64001010 Score: 546
Period size: 144 Copynumber: 3.0 Consensus size: 143
64000576 CATCGATGTT
* *
64000586 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATAACAATACCGATGCCATGTTCCAAAC
1 GATGCCATGTCTTAGACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATGTTCCAAAC
* * *
64000651 ATGGTCTTACACTGGCTTACATAACAATACCGATGCCATGTTCCAAACATCATCTTACACTGGCT
66 ATGGTCTTACACTGGCTCACATAACAATA-CGATGCCATGTTCCAAACATGATCTTACACTAGCT
64000716 CGCATATTGAGGCC
130 CGCATATTGAGGCC
* * * * *
64000730 GATGCCATGTCTTAGACATGGTCTTACACTAGCTCTCATAACAATGCTGATGTCATGTTCTAAAC
1 GATGCCATGTCTTAGACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATGTTCCAAAC
* * * *
64000795 ATGGTCTTACACTGGCTCACATAACAATGTCGATGCCATGTTCCAAAAATGGTCTTACACTATCT
66 ATGGTCTTACACTGGCTCACATAACAAT-ACGATGCCATGTTCCAAACATGATCTTACACTAGCT
64000860 CGCATATTGAGGCC
130 CGCATATTGAGGCC
* * * *** * * *
64000874 GATGCCATGT-TCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCCGATGCCATGTCCCAGA
1 GATGCCATGTCT-TAGACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATGTTCCAAA
* * * * *
64000938 CATGGTCTTACACTAGCTCTCAGAATAATACAGATGCCATGTTTCAAACATGATCTTACACTAGC
65 CATGGTCTTACACTGGCTCACATAACAATAC-GATGCCATGTTCCAAACATGATCTTACACTAGC
*
64001003 TCACATAT
129 TCGCATAT
64001011 AACCTTAGTA
Statistics
Matches: 241, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
143 2 0.01
144 239 0.99
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (143 bp):
GATGCCATGTCTTAGACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATGTTCCAAAC
ATGGTCTTACACTGGCTCACATAACAATACGATGCCATGTTCCAAACATGATCTTACACTAGCTC
GCATATTGAGGCC
Found at i:64005104 original size:26 final size:25
Alignment explanation
Indices: 64005061--64005117 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
64005051 TCACTTTTTC
*
64005061 GAGCT-ATGAATAGTAAGCT-TATCCT
1 GAGCTGATGAATAATAAGCTCTAT--T
*
64005086 GAGCTGATGGATAATAAGCTCTATT
1 GAGCTGATGAATAATAAGCTCTATT
64005111 GAGCTGA
1 GAGCTGA
64005118 AACGGTAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 13 0.46
26 12 0.43
27 3 0.11
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (25 bp):
GAGCTGATGAATAATAAGCTCTATT
Found at i:64011191 original size:65 final size:66
Alignment explanation
Indices: 64011108--64011235 Score: 188
Period size: 65 Copynumber: 2.0 Consensus size: 66
64011098 AAACTTAGTA
* * *
64011108 AGAAGTATCTACTATCTTCAAACTCTTACA-AGTGATCCTAAATCTATCACAAAGTTGTGACACT
1 AGAAGTATCTACTATCTTCAAACTCTTACACAGTGATCCTAAATCTATAACAAACTCGTGACACT
64011172 G
66 G
**
64011173 AGAAGTATAC-ACTATCTTCAAACTCTTACACCTTGATCCTAAATCTATAACAAACTCGTGACA
1 AGAAGTAT-CTACTATCTTCAAACTCTTACACAGTGATCCTAAATCTATAACAAACTCGTGACA
64011236 ATTTCCTCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
65 28 0.50
66 28 0.50
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (66 bp):
AGAAGTATCTACTATCTTCAAACTCTTACACAGTGATCCTAAATCTATAACAAACTCGTGACACT
G
Found at i:64014738 original size:49 final size:49
Alignment explanation
Indices: 64014670--64014913 Score: 319
Period size: 49 Copynumber: 4.9 Consensus size: 49
64014660 TAGCCAAAGG
* *
64014670 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACAC-CTGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAC-GTGACCAAT
* * *
64014719 TATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
64014769 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* ** * *
64014820 TATCGGGTACACACAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
64014869 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
64014914 GTCACAATAG
Statistics
Matches: 166, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
49 80 0.48
50 48 0.29
51 38 0.23
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:64014906 original size:100 final size:99
Alignment explanation
Indices: 64014671--64014913 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 99
64014661 AGCCAAAGGT
* * **
64014671 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACAC-CTGTGACCAATTATCCGGTACACGTAG
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAC-GTGACCAATTATCCGGTACACACAG
* * *
64014735 TAGCTTGCACTTAGTACTACACACGTGACCTAACC
65 TAGCCTGCACTTAGTACTACACACGCGACCTAACA
* * *
64014770 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACACACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACACA
* *
64014835 GTAGCCTGCACTTAGTACTACACATGCGACC-AATA
64 GTAGCCTGCACTTAGTACTACACACGCGACCTAACA
64014870 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
64014914 GTCACAATAG
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
99 39 0.30
100 48 0.38
101 41 0.32
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACACAGT
AGCCTGCACTTAGTACTACACACGCGACCTAACA
Found at i:64018713 original size:27 final size:28
Alignment explanation
Indices: 64018629--64018726 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
64018619 CATGAGATTG
* * * *
64018629 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
64018658 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
64018686 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
64018713 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
64018727 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:64018737 original size:27 final size:27
Alignment explanation
Indices: 64018657--64018739 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
64018647 TAAATTGTAC
* *
64018657 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
64018685 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
64018712 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
64018739 A
1 A
64018740 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:64018740 original size:29 final size:27
Alignment explanation
Indices: 64018629--64018740 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
64018619 CATGAGATTG
** * *
64018629 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
64018658 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
64018686 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
64018713 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
64018741 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:64031088 original size:49 final size:48
Alignment explanation
Indices: 64031014--64031240 Score: 231
Period size: 49 Copynumber: 4.6 Consensus size: 48
64031004 ATCTGGTATG
64031014 CATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATG-AACCAATTATCCGGTACA
* ** * *
64031063 CGTAGTAGCCTGCACTTAGTACTACACACGTG-ACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACA--TGAACC-AATTATCCGGTACA
* * * * * * *
64031113 CGTAGTAGCTTGCATTTAGTACTACACATGTGATCGAAGTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACA--TGAACCAA-TTATCCGGTACA
* *
64031164 CACAGTAGCCTGCACTTAGTACTACACATGAGACCAATAATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGA-ACCAATTATCCGGTACA
* *
64031213 AAAAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
64031241 CGTGACCTCA
Statistics
Matches: 146, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
49 68 0.47
50 44 0.30
51 34 0.23
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (48 bp):
CATAGTAGCCTGCACTTAGTACTACACATGAACCAATTATCCGGTACA
Found at i:64032566 original size:39 final size:39
Alignment explanation
Indices: 64032521--64032596 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
64032511 GAACAAAAAA
64032521 AAGAGAAATGAGAAACATTCAAGAATGATTATAGTTTAT
1 AAGAGAAATGAGAAACATTCAAGAATGATTATAGTTTAT
64032560 AAGAGAAATGAGAAACATTCAAGAATGATTATAGTTT
1 AAGAGAAATGAGAAACATTCAAGAATGATTATAGTTT
64032597 TCTCCGAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.49, C:0.05, G:0.18, T:0.28
Consensus pattern (39 bp):
AAGAGAAATGAGAAACATTCAAGAATGATTATAGTTTAT
Found at i:64035222 original size:23 final size:26
Alignment explanation
Indices: 64035176--64035222 Score: 64
Period size: 23 Copynumber: 1.9 Consensus size: 26
64035166 CATACATTCC
*
64035176 TCATGTCATATAATCACCAACCAATT
1 TCATGTCATATAATCACAAACCAATT
64035202 TCATG-CATAT-ATC-CAAACCAA
1 TCATGTCATATAATCACAAACCAA
64035223 AGCATACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 3 0.15
25 5 0.25
26 5 0.25
ACGTcount: A:0.40, C:0.28, G:0.04, T:0.28
Consensus pattern (26 bp):
TCATGTCATATAATCACAAACCAATT
Found at i:64035255 original size:23 final size:22
Alignment explanation
Indices: 64035216--64035261 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
64035206 GCATATATCC
*
64035216 AAACCAAAGCATACCAAATCAT
1 AAACCAAAGCATACCAAAACAT
64035238 AAACCAAAGTCATACCAAAACAT
1 AAACCAAAG-CATACCAAAACAT
64035261 A
1 A
64035262 TGATTCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.57, C:0.26, G:0.04, T:0.13
Consensus pattern (22 bp):
AAACCAAAGCATACCAAAACAT
Found at i:64039207 original size:46 final size:46
Alignment explanation
Indices: 64039032--64039207 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
64039022 TGTAACTTGC
*
64039032 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCAGG-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* ** * *
64039078 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGACGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-ATTCGCAT
*
64039124 ACAT--GTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT---GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
64039171 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
64039208 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
44 2 0.02
45 2 0.02
46 68 0.62
47 35 0.32
49 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:64043159 original size:29 final size:29
Alignment explanation
Indices: 64043120--64043218 Score: 144
Period size: 29 Copynumber: 3.4 Consensus size: 29
64043110 TGGTCCATCT
64043120 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
64043149 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * * *
64043178 TATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* *
64043207 CCTTTATATGGC
1 CATTCATATGGC
64043219 ATGTTAGGCC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:64043225 original size:29 final size:28
Alignment explanation
Indices: 64043137--64043243 Score: 88
Period size: 29 Copynumber: 3.7 Consensus size: 28
64043127 ATGGCCCATC
* * ** *
64043137 AGGCCCAATTCACATTCATATGGCCCATC
1 AGGCCCAAATCACCTT-ATATGGCATATT
* ** *
64043166 AGGCCCAATTCATATTCATATGGCCTATT
1 AGGCCCAAATCACCTT-ATATGGCATATT
*
64043195 AGGCCCAAATCACCTTTATATGGCATGTT
1 AGGCCCAAATCACC-TTATATGGCATATT
*
64043224 AGGCCCAGATCACCTTATAT
1 AGGCCCAAATCACCTTATAT
64043244 TTATGCTCAC
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.09
29 60 0.88
30 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (28 bp):
AGGCCCAAATCACCTTATATGGCATATT
Found at i:64049353 original size:25 final size:25
Alignment explanation
Indices: 64049325--64049379 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
64049315 TAAAGATTAT
* *
64049325 TCATCATTCAAACATTTATACTTAC
1 TCATCATACAAACATATATACTTAC
** *
64049350 TCATCATACGCACATATATACTTGC
1 TCATCATACAAACATATATACTTAC
64049375 TCATC
1 TCATC
64049380 GTAAATCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (25 bp):
TCATCATACAAACATATATACTTAC
Found at i:64052425 original size:55 final size:53
Alignment explanation
Indices: 64052283--64052465 Score: 147
Period size: 55 Copynumber: 3.4 Consensus size: 53
64052273 TTACCATTGT
* * *
64052283 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGC
1 CATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGC
* * ** * *
64052336 TATGCCTT-AGCATGGTCTTACATGGGATAT--TTGCCTTATCGTAGTTTATCAATGC
1 CATGTCTTGA-CATGGTCTTACAT--GATATCCTTGCCTTAT-G-AACTCACCAATGC
* * * *
64052391 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGC
1 CATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAATGC
* * *
64052445 CATGCCTTGGCATGGTATTAC
1 CATGTCTTGACATGGTCTTAC
64052466 TTGGTTTCCT
Statistics
Matches: 101, Mismatches: 21, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
52 1 0.01
53 31 0.31
54 29 0.29
55 39 0.39
56 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGC
Found at i:64053772 original size:44 final size:41
Alignment explanation
Indices: 64053683--64053782 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 41
64053673 GATGTTACAA
64053683 GGTCTTACACGAAATCAAATACGATGCCAATGTCCCATGCAT
1 GGTCTTACACGAAATCAAATACGATGCCAATGTCCCATG-AT
*
64053725 GGTCTTACACGTAAATCTCAAAT-TGATGCCAATGTCCCA-GATGT
1 GGTCTTACACG-AAA--TCAAATACGATGCCAATGTCCCATGA--T
*
64053769 GGTCTTACATGAAA
1 GGTCTTACACGAAA
64053783 ACACATATCG
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
42 12 0.24
43 7 0.14
44 26 0.51
45 6 0.12
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (41 bp):
GGTCTTACACGAAATCAAATACGATGCCAATGTCCCATGAT
Found at i:64062059 original size:40 final size:40
Alignment explanation
Indices: 64061996--64062199 Score: 297
Period size: 40 Copynumber: 5.1 Consensus size: 40
64061986 TGGGATTAAG
* *
64061996 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGTCTTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
64062036 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
64062076 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64062116 CCGGAGATAGTAACTCGCACAAATGCCTTTTGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCC-TTCGGGACTTAGC
* *
64062156 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
64062196 CCGG
1 CCGG
64062200 TTATCATCCG
Statistics
Matches: 151, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
39 7 0.05
40 139 0.92
41 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:64064118 original size:23 final size:22
Alignment explanation
Indices: 64064079--64064124 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
64064069 GCATATATCC
*
64064079 AAACCAAAACATACCAAATCAT
1 AAACCAAAACATACCAAAACAT
*
64064101 AAACCAAATTCATACCAAAACAT
1 AAACCAAA-ACATACCAAAACAT
64064124 A
1 A
64064125 TGATTCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (22 bp):
AAACCAAAACATACCAAAACAT
Found at i:64064923 original size:42 final size:42
Alignment explanation
Indices: 64064833--64064969 Score: 132
Period size: 42 Copynumber: 3.2 Consensus size: 42
64064823 GTCTCAGATG
* * * * * *
64064833 TGGTCTTACATGTAATCAAGTATCGATGCCACTATCCTATACA
1 TGGTCTTACACGAAATCAAATAT-GATGCCAATGTCCTACACA
*
64064876 GGGTCTTACACGAAATCAAATATGATGCCAATGTCCTACACA
1 TGGTCTTACACGAAATCAAATATGATGCCAATGTCCTACACA
* * * *
64064918 TGGTCTTACACGTAAATATCAAAT-CGATGCCAATGTCCCAGACG
1 TGGTCTTACACG--AA-ATCAAATATGATGCCAATGTCCTACACA
64064962 TGGTCTTA
1 TGGTCTTA
64064970 GACCAAAACA
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
42 27 0.34
43 19 0.24
44 26 0.33
45 7 0.09
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (42 bp):
TGGTCTTACACGAAATCAAATATGATGCCAATGTCCTACACA
Found at i:64072487 original size:15 final size:16
Alignment explanation
Indices: 64072469--64072502 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
64072459 AAATTAAATT
*
64072469 AATTAA-CTAGATGCA
1 AATTAACCTAAATGCA
64072484 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
64072500 AAT
1 AAT
64072503 AAGATGACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:64075259 original size:20 final size:20
Alignment explanation
Indices: 64075236--64075287 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
64075226 AAAGTAGTTT
64075236 TAAAAAGATAAAA-ATAAAAA
1 TAAAAA-ATAAAACATAAAAA
64075256 T-AAAAATAAAACCATAAAAA
1 TAAAAAATAAAA-CATAAAAA
*
64075276 TAATAAATAAAA
1 TAAAAAATAAAA
64075288 GTCTTTAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 6 0.21
19 4 0.14
20 9 0.32
21 9 0.32
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (20 bp):
TAAAAAATAAAACATAAAAA
Found at i:64075260 original size:5 final size:6
Alignment explanation
Indices: 64075238--64075287 Score: 64
Period size: 6 Copynumber: 7.7 Consensus size: 6
64075228 AGTAGTTTTA
64075238 AAAAGAT AAAAAT AAAAAT AAAAAT AAAACCAT AAAAAT AATAAAT AAAA
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAA--AT AAAAAT AA-AAAT AAAA
64075288 GTCTTTAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
6 24 0.60
7 10 0.25
8 6 0.15
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:64075265 original size:26 final size:27
Alignment explanation
Indices: 64075236--64075287 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
64075226 AAAGTAGTTT
*
64075236 TAAAAAGATAAAAATAA-AAATAAAAA
1 TAAAAACATAAAAATAATAAATAAAAA
*
64075262 TAAAACCATAAAAATAATAAATAAAA
1 TAAAAACATAAAAATAATAAATAAAA
64075288 GTCTTTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (27 bp):
TAAAAACATAAAAATAATAAATAAAAA
Found at i:64076848 original size:10 final size:10
Alignment explanation
Indices: 64076830--64076859 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
64076820 AAAAACATTC
64076830 AAATAAACAAT
1 AAAT-AACAAT
64076841 AAATAACAAT
1 AAATAACAAT
64076851 AAATAACAA
1 AAATAACAA
64076860 GGGAATAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (10 bp):
AAATAACAAT
Found at i:64102927 original size:46 final size:46
Alignment explanation
Indices: 64102877--64103052 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
64102867 TGGTTGAGCA
64102877 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
64102923 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
64102968 CATCCGAACTCGTTGAGTTGAGTCCGAGTTTAGTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
64103016 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64103053 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 27 0.25
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:64103011 original size:93 final size:93
Alignment explanation
Indices: 64102874--64103045 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
64102864 GGATGGTTGA
* *
64102874 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
64102939 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* * *
64102967 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTAGTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
64103032 TGAGTCCGAGTTCG
66 TGAGTCCAAGTTCG
64103046 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:64107105 original size:48 final size:48
Alignment explanation
Indices: 64106928--64107108 Score: 195
Period size: 48 Copynumber: 3.8 Consensus size: 48
64106918 CTCACACACT
* * * *
64106928 AAGTGCCAATATCATGGCCCGAAGCCAACTCAATA-TATCTCACACGCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAA-AGTAACTCGCACCCG
* * ** * *
64106976 AAGTGCTAATATCATGGCCCGTAGCCAAATCATTG-AAGCTCGCACTCA
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTAA-CTCGCACCCG
* * *
64107024 AAGTGTCGATATCATGACCCGAAGCCAAATCAAAGTAACTCGCACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCACCCG
* *
64107072 AAGTGCCGATATCATGGCCGGAAGCCAAATCAAAGTA
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTA
64107109 TCCCCTAATG
Statistics
Matches: 109, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
47 1 0.01
48 106 0.97
49 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCACCCG
Found at i:64111795 original size:40 final size:40
Alignment explanation
Indices: 64111751--64111899 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
64111741 GCTACTTGCT
64111751 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
64111791 CAAATGCCTTCGGGACTTAACCAGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
64111831 CAAATGCCTTCGGGACTTAGCCCGG-AATTGGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
64111871 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
64111900 CATCCAAATA
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 96 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:64116034 original size:46 final size:46
Alignment explanation
Indices: 64115984--64116159 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
64115974 TGGTTGAGCA
*
64115984 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
64116030 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
64116077 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
64116123 CCCGAGCTCGTTGAGCTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64116160 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:64116143 original size:93 final size:93
Alignment explanation
Indices: 64115981--64116151 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
64115971 GGATGGTTGA
* * * *
64115981 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGC
64116046 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
64116074 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGC
64116139 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
64116152 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGC
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:64122333 original size:40 final size:40
Alignment explanation
Indices: 64122283--64122468 Score: 248
Period size: 40 Copynumber: 4.7 Consensus size: 40
64122273 GCTACTTGCT
*
64122283 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** *
64122323 CAAACACCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
64122363 CAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * * *
64122403 CAAATGCCTTCGGGACTTAGCCC-GAAATTGGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
64122443 CAAATGCCTTTGAGACTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGT
64122469 AATCATCCGA
Statistics
Matches: 129, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.02
40 126 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:64122381 original size:80 final size:79
Alignment explanation
Indices: 64122249--64122468 Score: 264
Period size: 80 Copynumber: 2.8 Consensus size: 79
64122239 CAAACCAAGT
* * * *
64122249 ACCTTTGGAATTTAG-CCGGATATAGCTACTTGCTCAAATGCCTTTGGGACTTAGCCCGGTTATA
1 ACCTTTGGGACTTAGCCCGGATATAG-TACTAGCACAAATGCCTTTGGGACTTAGCCCGGTTATA
64122313 GTAACTCGCACAAAC
65 GTAACTCGCACAAAC
* * * *
64122328 ACCTTTGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTATA
1 ACCTTTGGGACTTAGCCCGGATATAGT-ACTAGCACAAATGCCTTTGGGACTTAGCCCGGTTATA
*
64122393 GTAACTCGCACAAAT
65 GTAACTCGCACAAAC
* * * * *
64122408 GCCTTCGGGACTTAGCCC-GAAATTGGTCACTAGCACAAATGCCTTTGAGACTTAGCCCGGT
1 ACCTTTGGGACTTAGCCCGGATA-TAGT-ACTAGCACAAATGCCTTTGGGACTTAGCCCGGT
64122469 AATCATCCGA
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
79 16 0.13
80 104 0.87
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (79 bp):
ACCTTTGGGACTTAGCCCGGATATAGTACTAGCACAAATGCCTTTGGGACTTAGCCCGGTTATAG
TAACTCGCACAAAC
Found at i:64124394 original size:65 final size:65
Alignment explanation
Indices: 64124313--64124465 Score: 191
Period size: 65 Copynumber: 2.4 Consensus size: 65
64124303 CGAGCCATAT
* * *
64124313 CAAGACACTGACAAAGAGCTACATTTGTGTCTACAACATAT-CTAGGATCACAACTGATCATATA
1 CAAGACACTCACAAAGAGCTACATTTGTGTCCACAACATATAC-AGGATCACAACCGATCATATA
64124377 A
65 A
* * * * * *
64124378 TAAGACGCTCACAAAGAGCTGCGTTTGTGTCCGCAATATATACAGGATCACAACCGATCATATAA
1 CAAGACACTCACAAAGAGCTACATTTGTGTCCACAACATATACAGGATCACAACCGATCATATAA
* *
64124443 CAGGACACTCAGAAAGAGCTACA
1 CAAGACACTCACAAAGAGCTACA
64124466 GTAGTCTGCA
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
65 71 0.99
66 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.22
Consensus pattern (65 bp):
CAAGACACTCACAAAGAGCTACATTTGTGTCCACAACATATACAGGATCACAACCGATCATATAA
Found at i:64126751 original size:30 final size:29
Alignment explanation
Indices: 64126708--64126771 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
64126698 CAAGTAACCG
*
64126708 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAATGCCA
*
64126737 AAGCTAGTTTAAATCGTACACTTAATGCCA
1 AAGCTAG-TTAAATCGCACACTTAATGCCA
64126767 AAGCT
1 AAGCT
64126772 TCCAATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAATGCCA
Found at i:64130473 original size:40 final size:40
Alignment explanation
Indices: 64130406--64130615 Score: 214
Period size: 40 Copynumber: 5.3 Consensus size: 40
64130396 CCTTCGGGGT
* *
64130406 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGAGAC
1 TTAGCCCGGTTATAG-TAACTCGCACAAATGCCTTCGAGAC
* *
64130445 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGGC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAC
* *
64130485 TTAGCCCGGTTATAATAACTCACACAAATGCCTTC-AGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGA-GAC
* * * *
64130525 TTAGCCCGGATATAATAACTCGCACAATTGCCTTCG-GGC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAC
* * * * * *
64130564 TTAGCCCAG-AATTCGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGAGAC
64130604 TTAGCCCGGTTA
1 TTAGCCCGGTTA
64130616 CCATCCGAAT
Statistics
Matches: 142, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 34 0.24
40 106 0.75
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAC
Found at i:64130609 original size:79 final size:80
Alignment explanation
Indices: 64130429--64130612 Score: 239
Period size: 80 Copynumber: 2.3 Consensus size: 80
64130419 GCTACTCGCT
* * * *
64130429 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGGCTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGGCTTAGCCCGA
*
64130494 TTATAATAACTCACA
66 ATATAATAACTCACA
* *
64130509 CAAATGCCTTCAGGACTTAGCCCGGATATAATAACTCGCACAATTGCCTTC-GGGCTTAGCCCAG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGGCTTAGCCC-G
** *
64130573 AAT-TCGTCACT-AGCA
65 AATATAATAACTCA-CA
64130588 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
64130613 TTACCATCCG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 42 0.46
80 48 0.53
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGGCTTAGCCCGA
ATATAATAACTCACA
Found at i:64138604 original size:40 final size:40
Alignment explanation
Indices: 64138560--64138754 Score: 268
Period size: 40 Copynumber: 4.9 Consensus size: 40
64138550 GGATATAGCT
* * *
64138560 ACTCGCTCAAATGCCTTCGGGACTTAACCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
64138600 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
*
64138640 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* * * * *
64138680 ACTCACACAATTGCCTTCGGG-CTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAATA
* *
64138719 ACTAGCATAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
64138755 CATCCGAATT
Statistics
Matches: 138, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 30 0.22
40 106 0.77
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
Found at i:64151331 original size:64 final size:64
Alignment explanation
Indices: 64151224--64151353 Score: 242
Period size: 64 Copynumber: 2.0 Consensus size: 64
64151214 GTGATTCCTC
* *
64151224 CGTCTGAAATAGAGATTCAGTCTGATATGACTTATGAAGAAAAGCCAATCCGTATTTTAGCTTG
1 CGTCTGAAATAGAGATTCAGTCTGATATGACTTACGAACAAAAGCCAATCCGTATTTTAGCTTG
64151288 CGTCTGAAATAGAGATTCAGTCTGATATGACTTACGAACAAAAGCCAATCCGTATTTTAGCTTG
1 CGTCTGAAATAGAGATTCAGTCTGATATGACTTACGAACAAAAGCCAATCCGTATTTTAGCTTG
64151352 CG
1 CG
64151354 AGGTTAAAGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (64 bp):
CGTCTGAAATAGAGATTCAGTCTGATATGACTTACGAACAAAAGCCAATCCGTATTTTAGCTTG
Found at i:64154943 original size:46 final size:46
Alignment explanation
Indices: 64154890--64155065 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
64154880 TTTTTGGGCA
*
64154890 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGTTGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAACG
* * ** * * *
64154936 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAAT-GTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGTTGCGA-ACG
** * *
64154983 TTTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATTGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAACG
* * * *
64155029 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64155066 GCTGGTTACA
Statistics
Matches: 100, Mismatches: 25, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
45 1 0.01
46 65 0.65
47 33 0.33
48 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAACG
Found at i:64158057 original size:30 final size:30
Alignment explanation
Indices: 64158021--64158080 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
64158011 TATCGTATCT
** *
64158021 TGGGTTTCTTTATTTTGAATTTCTTTATTC
1 TGGGTTTCTCAATCTTGAATTTCTTTATTC
*
64158051 TGGGTTTCTCAATCTTGGATTTCTTTATTC
1 TGGGTTTCTCAATCTTGAATTTCTTTATTC
64158081 AGTTTTCTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.13, C:0.13, G:0.15, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTCAATCTTGAATTTCTTTATTC
Found at i:64158058 original size:15 final size:15
Alignment explanation
Indices: 64158021--64158059 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
64158011 TATCGTATCT
*
64158021 TGGGTTTCTTTATTT
1 TGGGTTTCTTTATTC
**
64158036 TGAATTTCTTTATTC
1 TGGGTTTCTTTATTC
64158051 TGGGTTTCT
1 TGGGTTTCT
64158060 CAATCTTGGA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.10, C:0.10, G:0.18, T:0.62
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:64158495 original size:18 final size:18
Alignment explanation
Indices: 64158472--64158515 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
64158462 GTCATTCAAC
*
64158472 GGTGTTTAGATCAGCTTG
1 GGTGTTTAGATCAGCTCG
64158490 GGTGTTTAGATCAGCTCG
1 GGTGTTTAGATCAGCTCG
64158508 GGTGTTTA
1 GGTGTTTA
64158516 ATCTGTGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.11, G:0.34, T:0.39
Consensus pattern (18 bp):
GGTGTTTAGATCAGCTCG
Found at i:64165523 original size:43 final size:43
Alignment explanation
Indices: 64165353--64165524 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
64165343 CATAGGATTC
* *
64165353 CGATATGTG-TTATCGTGAAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * * *
64165396 CGACT-TATGATTTACGTGTAAGACAACGTTTGGGACATTGGCAC
1 CGA-TATTTGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
*
64165440 CG-TATTTGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATTTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* * *
64165482 CGATATTTGATTACATGTAAAACCACGTCTAGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
64165525 TGTATGAGCT
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 29 0.28
43 42 0.40
44 29 0.28
45 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:64165870 original size:45 final size:46
Alignment explanation
Indices: 64165821--64165912 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
64165811 TCATGTTTTG
64165821 AATGTTAAGTTTATTTGTATAT-GCTTACTAAGCTTTTGAAAGCTT
1 AATGTTAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTT
64165866 AATGTTAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTT
1 AATGTTAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTT
64165912 A
1 A
64165913 CTTTGTGTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 22 0.48
46 24 0.52
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (46 bp):
AATGTTAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTT
Found at i:64170131 original size:43 final size:43
Alignment explanation
Indices: 64170083--64170186 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 43
64170073 TTCGAGATGA
* * *
64170083 GATTATGTGTAAGACCATGTCTGGGACATTGGGATCATTATGT
1 GATTATGTGTAAGACCATGTCTAGGACATTGGCATCATTATAT
*
64170126 GATTATGTGTAAGACCATGTCTAGGACATTGGCATCGTTATAT
1 GATTATGTGTAAGACCATGTCTAGGACATTGGCATCATTATAT
64170169 GATT-TCGTGTAAGACCAT
1 GATTAT-GTGTAAGACCAT
64170187 AGCTGGGCTA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
42 1 0.02
43 55 0.98
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (43 bp):
GATTATGTGTAAGACCATGTCTAGGACATTGGCATCATTATAT
Found at i:64170203 original size:43 final size:42
Alignment explanation
Indices: 64170089--64170229 Score: 133
Period size: 43 Copynumber: 3.3 Consensus size: 42
64170079 ATGAGATTAT
* *
64170089 GTGTAAGACCATGTCTGGGACATTGGGATCATTATGTGATTAT-
1 GTGTAAGACCATGTCTGGG-CATTGGCATCGTTATGTGATT-TC
* *
64170132 GTGTAAGACCATGTCTAGGACATTGGCATCGTTATATGATTTC
1 GTGTAAGACCATGTCT-GGGCATTGGCATCGTTATGTGATTTC
* * * **
64170175 GTGTAAGACCATAG-CTGGGCTATCGGCATTGATATGTGATAAC
1 GTGTAAGACCAT-GTCTGGGC-ATTGGCATCGTTATGTGATTTC
*
64170218 ATGTAAGACCAT
1 GTGTAAGACCAT
64170230 ATTTGGGAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
42 4 0.05
43 75 0.91
44 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGCATTGGCATCGTTATGTGATTTC
Found at i:64172192 original size:55 final size:55
Alignment explanation
Indices: 64172097--64172203 Score: 155
Period size: 55 Copynumber: 1.9 Consensus size: 55
64172087 GATTTGATCA
*
64172097 GTAATGCCTCGTAACCCTATTCTGACGTAGGATTCAGGTTAGGGGTGTTACACCG
1 GTAATGCCTCGTAACCCTATTCTGACGTAGGATACAGGTTAGGGGTGTTACACCG
* *
64172152 GTAATGCCTCGTAACCCTATT-TCGGCG-ATGGATACGGGTTAGGGGTGTTACA
1 GTAATGCCTCGTAACCCTATTCT-GACGTA-GGATACAGGTTAGGGGTGTTACA
64172204 ACTTATCGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
54 2 0.04
55 45 0.96
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (55 bp):
GTAATGCCTCGTAACCCTATTCTGACGTAGGATACAGGTTAGGGGTGTTACACCG
Found at i:64174614 original size:27 final size:27
Alignment explanation
Indices: 64174575--64174743 Score: 207
Period size: 27 Copynumber: 6.3 Consensus size: 27
64174565 CTTTCCCTAT
*
64174575 ATTAGATAGTCTTGATAGACTT-CCAC
1 ATTAGATAGTCTTGATGGACTTCCCAC
*
64174601 ATTAAGATGGTCTTGATGGACTTCCCAC
1 ATT-AGATAGTCTTGATGGACTTCCCAC
* *
64174629 ATTAGATAGTCCTGACGGACTTCCCAC
1 ATTAGATAGTCTTGATGGACTTCCCAC
* * *
64174656 ATTAGATAGTCTTGACGGGC-TCCTTAC
1 ATTAGATAGTCTTGATGGACTTCC-CAC
*
64174683 ATTAGATAGTCTTGACGGACTTCCCAC
1 ATTAGATAGTCTTGATGGACTTCCCAC
* * *
64174710 ATTAGATAATCCTGGTGGACTTCCCAC
1 ATTAGATAGTCTTGATGGACTTCCCAC
64174737 ATTAGAT
1 ATTAGAT
64174744 TTTACTGGCA
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
26 6 0.05
27 109 0.87
28 10 0.08
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (27 bp):
ATTAGATAGTCTTGATGGACTTCCCAC
Found at i:64174663 original size:81 final size:80
Alignment explanation
Indices: 64174575--64174774 Score: 233
Period size: 81 Copynumber: 2.5 Consensus size: 80
64174565 CTTTCCCTAT
* * * *
64174575 ATTAGATAGTCTTGATAGACTTCC-ACATTAAGATGGTCTTGATGGACTTCCCACATTAGATAGT
1 ATTAGATAGTCTTGACAGAC-TCCTACATT-AGATAGTCTTGACGGACTTCCCACATTAGATAAT
64174639 CCTGACGGACTTCCCAC
64 CCTGACGGACTTCCCAC
* *
64174656 ATTAGATAGTCTTGACGGGCTCCTTACATTAGATAGTCTTGACGGACTTCCCACATTAGATAATC
1 ATTAGATAGTCTTGACAGACTCC-TACATTAGATAGTCTTGACGGACTTCCCACATTAGATAATC
**
64174721 CTGGTGGACTTCCCAC
65 CTGACGGACTTCCCAC
** * *
64174737 ATTAGATTTTAC-TGGCAGACTTCCTACATTAGGTAGTC
1 ATTAGATAGT-CTTGACAGAC-TCCTACATTAGATAGTC
64174775 CTAGCGGACT
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
80 3 0.03
81 89 0.88
82 9 0.09
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (80 bp):
ATTAGATAGTCTTGACAGACTCCTACATTAGATAGTCTTGACGGACTTCCCACATTAGATAATCC
TGACGGACTTCCCAC
Found at i:64174751 original size:27 final size:27
Alignment explanation
Indices: 64174618--64174786 Score: 119
Period size: 27 Copynumber: 6.3 Consensus size: 27
64174608 TGGTCTTGAT
* * *
64174618 GGACTTCCCACATTAGATAGTCCTGAC
1 GGACTTCCCACATTAGATAATACTGGC
* *
64174645 GGACTTCCCACATTAGATAGT-CTTGAC
1 GGACTTCCCACATTAGATAATAC-TGGC
* * * *
64174672 GGGC-TCCTTACATTAGATAGT-CTTGAC
1 GGACTTCC-CACATTAGATAATAC-TGGC
* *
64174699 GGACTTCCCACATTAGATAATCCTGGT
1 GGACTTCCCACATTAGATAATACTGGC
**
64174726 GGACTTCCCACATTAGATTTTACTGGC
1 GGACTTCCCACATTAGATAATACTGGC
* * * * * *
64174753 AGACTTCCTACATTAGGTAGTCCTAGC
1 GGACTTCCCACATTAGATAATACTGGC
64174780 GGACTTC
1 GGACTTC
64174787 TGCCATTAGA
Statistics
Matches: 119, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.03
27 111 0.93
28 4 0.03
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (27 bp):
GGACTTCCCACATTAGATAATACTGGC
Found at i:64174758 original size:54 final size:54
Alignment explanation
Indices: 64174700--64174825 Score: 155
Period size: 54 Copynumber: 2.3 Consensus size: 54
64174690 AGTCTTGACG
* *
64174700 GACTTCCCACATTAGATAATCCTGGTGGACTTC-CCACATTAGATTTTACTGGCA
1 GACTTCCCACATTAGATAATCCTAGCGGACTTCTCC-CATTAGATTTTACTGGCA
* * * *
64174754 GACTTCCTACATTAGGTAGTCCTAGCGGACTTCTGCCATTAGATTTTACTGGCA
1 GACTTCCCACATTAGATAATCCTAGCGGACTTCTCCCATTAGATTTTACTGGCA
* * *
64174808 TACTTTCCATATTAGATA
1 GACTTCCCACATTAGATA
64174826 TTCTCAATTA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 59 0.98
55 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (54 bp):
GACTTCCCACATTAGATAATCCTAGCGGACTTCTCCCATTAGATTTTACTGGCA
Found at i:64178206 original size:47 final size:47
Alignment explanation
Indices: 64178130--64178352 Score: 313
Period size: 47 Copynumber: 4.7 Consensus size: 47
64178120 CTTCGGGACT
* * * * * *
64178130 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
64178177 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
64178223 TCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
64178271 TATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
64178318 TATCACATATATATACACTTTCACATTCATCACAT
1 TATCAC--ATATATACACTTTCACATTCATCACAT
64178353 TGGTTGTAAC
Statistics
Matches: 159, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
46 3 0.02
47 128 0.81
48 2 0.01
49 26 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:64179675 original size:26 final size:26
Alignment explanation
Indices: 64179640--64179690 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
64179630 AATGTGAAAG
*
64179640 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
64179666 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
64179691 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:64179702 original size:103 final size:104
Alignment explanation
Indices: 64179562--64179784 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
64179552 TGTATATAAA
** * *
64179562 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
64179626 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
64179665 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
64179730 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
64179769 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
64179785 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 90 0.80
104 22 0.20
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:64179836 original size:71 final size:72
Alignment explanation
Indices: 64179703--64179854 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
64179693 TCATTGGTGG
* *
64179703 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
64179768 GAGGGGT
66 GAGGGGT
***
64179775 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
64179839 GAGGGGT
66 GAGGGGT
64179846 TGCTAAGTG
1 TGCTAAGTG
64179855 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:64181244 original size:47 final size:47
Alignment explanation
Indices: 64181110--64181286 Score: 291
Period size: 47 Copynumber: 3.7 Consensus size: 47
64181100 TTACATTGGT
*
64181110 CATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
1 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
*
64181157 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGC
1 CATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGC
*
64181206 CATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
1 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
* *
64181253 CATTAGGCCTTATCACATATATATACATTCACAT
1 CATTAGGCCTTATCACATATATACACTTTCACAT
64181287 CACAATTATC
Statistics
Matches: 121, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
47 76 0.63
49 45 0.37
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
Found at i:64181266 original size:96 final size:94
Alignment explanation
Indices: 64181102--64181286 Score: 343
Period size: 96 Copynumber: 1.9 Consensus size: 94
64181092 AAGGGGTGTT
*
64181102 ACATTGGTCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
64181167 TATCACATATATATACACTTTCACATTCATC
66 TATCACATATATATACA--TTCACATTCATC
64181198 ACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
64181263 TATCACATATATATACATTCACAT
66 TATCACATATATATACATTCACAT
64181287 CACAATTATC
Statistics
Matches: 88, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
94 7 0.08
96 81 0.92
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (94 bp):
ACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
TATCACATATATATACATTCACATTCATC
Found at i:64184150 original size:46 final size:46
Alignment explanation
Indices: 64184092--64184182 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
64184082 TTGAGACGAG
* *
64184092 AGCTAGTGTAAGACATGTCTAGGACATGTATCAGCCT-CGAGATGTA
1 AGCTAGTATAAGACATGTCTAGGACATGCATCAG-CTACGAGATGTA
*
64184138 AGCTAGTATAAGACATGTCTGGGACATGCATCAGCTACGAGATGT
1 AGCTAGTATAAGACATGTCTAGGACATGCATCAGCTACGAGATGT
64184183 TTCAATGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 2 0.05
46 39 0.95
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (46 bp):
AGCTAGTATAAGACATGTCTAGGACATGCATCAGCTACGAGATGTA
Found at i:64194383 original size:55 final size:55
Alignment explanation
Indices: 64194279--64194393 Score: 142
Period size: 55 Copynumber: 2.1 Consensus size: 55
64194269 CAAAGTTGTA
* * *
64194279 CACGGGTAGGCCACACGGGCGTGTGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
1 CACGGGCAGGCCACACGGGCGTGTGCCATGGCCGTGTCAAAAAGACAGTGTCGCC
* * * * *
64194334 CACGGGCAGG-CAGCACGGGTGTGTGCCATGGCCGTGTCGATAAGTCAGTGTTGCC
1 CACGGGCAGGCCA-CACGGGCGTGTGCCATGGCCGTGTCAAAAAGACAGTGTCGCC
64194389 CACGG
1 CACGG
64194394 CTGAAGGGCA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 2 0.04
55 49 0.96
ACGTcount: A:0.19, C:0.26, G:0.37, T:0.18
Consensus pattern (55 bp):
CACGGGCAGGCCACACGGGCGTGTGCCATGGCCGTGTCAAAAAGACAGTGTCGCC
Found at i:64195961 original size:21 final size:20
Alignment explanation
Indices: 64195935--64195974 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
64195925 GTTAAAATGA
*
64195935 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCGTG-TGCCCTT
64195956 CCACACAGGCGTGTGCCCT
1 CCACACAGGCGTGTGCCCT
64195975 GTGTGACAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (20 bp):
CCACACAGGCGTGTGCCCTT
Found at i:64197802 original size:40 final size:40
Alignment explanation
Indices: 64197707--64197931 Score: 222
Period size: 40 Copynumber: 5.6 Consensus size: 40
64197697 TATTCGAATG
* *
64197707 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GCGACT
* * * * * * *
64197748 ATAACCGGACTAAGATCCGAAGCCATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-CGACT
* *
64197788 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
* *
64197828 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
* * *
64197868 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
* * *
64197908 ACATCTGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
64197932 CTTGTGCAAG
Statistics
Matches: 155, Mismatches: 24, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 125 0.81
41 28 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
Found at i:64197887 original size:80 final size:80
Alignment explanation
Indices: 64197707--64197967 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 80
64197697 TATTCGAATG
* * * * *
64197707 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
* *
64197772 ATTCGTGCGAGTTGTT
65 ATTCGTGCGAGTCGCT
* * * *
64197788 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
64197853 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * * *
64197868 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCTGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
64197933 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
64197947 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
64197968 ATTTCTTGAG
Statistics
Matches: 152, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 92 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:64197927 original size:120 final size:120
Alignment explanation
Indices: 64197707--64197967 Score: 298
Period size: 120 Copynumber: 2.2 Consensus size: 120
64197697 TATTCGAATG
* * *
64197707 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGCC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGCC
* ** * * *
64197772 ATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * * *
64197828 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGC
* * * *
64197891 CATTTATGCTAG-TGACCACATCTGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
64197947 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
64197968 ATTTCTTGAG
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
118 15 0.13
119 19 0.16
120 54 0.45
121 31 0.26
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGCC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:64205302 original size:40 final size:40
Alignment explanation
Indices: 64205197--64205421 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
64205187 TATTCGAATG
* *
64205197 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
64205238 ATAACCGGACTAAGATCCGAAGGCATTCGTGCTAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * *
64205278 ATATACGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
64205318 ATATCCAGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
64205358 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
64205398 ACATCCGTGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
64205422 CTTGTGCAAG
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 125 0.80
41 30 0.19
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:64205367 original size:80 final size:80
Alignment explanation
Indices: 64205197--64205457 Score: 253
Period size: 80 Copynumber: 3.3 Consensus size: 80
64205187 TATTCGAATG
* * * *
64205197 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GCGACTATAACCGGACTAAAACCCGAAGGC
* *
64205262 ATTCGTGCTAGTTGTT
65 ATTCGTGCTAGTCGCT
* * * *
64205278 ATATACGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCAGG-CTAAAACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTATAACC-GGACTAAAACCCGAAGGC
*
64205342 ATTTGTGCTAG-CGACT
65 ATTCGTGCTAGTCG-CT
* * * * * *
64205358 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGTG-CTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTATAACCG-GACTAAAACCCGAAGGC
* * * *
64205422 CTT-GTGCAAGTAGTT
65 ATTCGTGCTAGTCGCT
*
64205437 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
64205458 ATTTCTTGAG
Statistics
Matches: 152, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
78 14 0.09
79 15 0.10
80 90 0.59
81 33 0.22
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTATAACCGGACTAAAACCCGAAGGCA
TTCGTGCTAGTCGCT
Found at i:64205411 original size:120 final size:119
Alignment explanation
Indices: 64205197--64205457 Score: 296
Period size: 120 Copynumber: 2.2 Consensus size: 119
64205187 TATTCGAATG
* * *
64205197 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCC-GGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* ** * * *
64205262 ATTCGTGCTAGTTGTTATATACGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
65 ATTCATGCTAGTTGCCACATACGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
64205318 ATATCCAGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCC-GGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * * *
64205381 CATTTATGCTAG-TGACCACATCCGTGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
64 CATTCATGCTAGTTG-CCACATACGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
64205437 ATATCCGGCTAAATCCCGAAG
1 ATATCCGGCTAAATCCCGAAG
64205458 ATTTCTTGAG
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
118 15 0.13
119 19 0.16
120 55 0.46
121 30 0.25
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (119 bp):
ATATCCGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCA
TTCATGCTAGTTGCCACATACGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:64210314 original size:43 final size:43
Alignment explanation
Indices: 64210267--64210414 Score: 160
Period size: 43 Copynumber: 3.4 Consensus size: 43
64210257 AATGTCAATG
*
64210267 TCCCATACGTGGTCTTACATGTAATCAAATATCAATGCC-ACTA
1 TCCCAGACGTGGTCTTACATGTAATCAAATATCAATGCCAAC-A
* * * *
64210310 TCCCAGACAG-GGTCTTACATGAAATCAAGTAT-GATGCCAACG
1 TCCCAGAC-GTGGTCTTACATGTAATCAAATATCAATGCCAACA
* *
64210352 TCCCAGACGTGGTCTTACACGTAAATCATAA-GTCAATGCCAACA
1 TCCCAGACGTGGTCTTACATGT-AATCA-AATATCAATGCCAACA
*
64210396 TCCAAGACGTGGTCTTACA
1 TCCCAGACGTGGTCTTACA
64210415 CAATAACACA
Statistics
Matches: 87, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 23 0.26
43 35 0.40
44 28 0.32
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACATGTAATCAAATATCAATGCCAACA
Found at i:64216360 original size:7 final size:7
Alignment explanation
Indices: 64216348--64216373 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
64216338 TAAATATTAG
64216348 ATTTTCA
1 ATTTTCA
64216355 ATTTTCA
1 ATTTTCA
64216362 ATTTTCA
1 ATTTTCA
64216369 ATTTT
1 ATTTT
64216374 TGAAACTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTCA
Found at i:64230079 original size:111 final size:111
Alignment explanation
Indices: 64229876--64230092 Score: 328
Period size: 111 Copynumber: 2.0 Consensus size: 111
64229866 TAGTCAAAGC
* * *
64229876 TGCTAGTTCTACACAGTAACCGTGAATGAAGACCACTAATTCCCCCACTCCCTGATGTGTACCCT
1 TGCTAGTTCCACACAGTAACCGCGAATGAAGACCACCAATTCCCCCACTCCCTGATGTGTACCCT
* * *
64229941 CATACACTAACTTATTATTGGTATACCAAAGAGTCTATAATACAAT
66 CATACACTAACTAATTATGGGTATACCAAAGAGTCCATAATACAAT
* **
64229987 TGCTAGTTCCACACAGTAACTGCGAATGAAGACCACCAATTTTCCCACTCCCT-AGTGTGTACCC
1 TGCTAGTTCCACACAGTAACCGCGAATGAAGACCACCAATTCCCCCACTCCCTGA-TGTGTACCC
*
64230051 TCATACACTAACTAATTATGGGTGTACCAAAGAGTCCATAAT
65 TCATACACTAACTAATTATGGGTATACCAAAGAGTCCATAAT
64230093 GTAACAGCAC
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
110 1 0.01
111 94 0.99
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.28
Consensus pattern (111 bp):
TGCTAGTTCCACACAGTAACCGCGAATGAAGACCACCAATTCCCCCACTCCCTGATGTGTACCCT
CATACACTAACTAATTATGGGTATACCAAAGAGTCCATAATACAAT
Found at i:64241399 original size:39 final size:39
Alignment explanation
Indices: 64241223--64241389 Score: 307
Period size: 39 Copynumber: 4.3 Consensus size: 39
64241213 GCTCTGATGA
64241223 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
64241262 GCTTCAGTTAGCCTCCGAGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
64241301 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
* *
64241340 GCTTCAGTTAGCCTTCGGGCTGCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
64241379 GCTTCAGTTAG
1 GCTTCAGTTAG
64241390 ATTTCGGGCT
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 124 1.00
ACGTcount: A:0.14, C:0.27, G:0.23, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:64242424 original size:15 final size:15
Alignment explanation
Indices: 64242406--64242450 Score: 90
Period size: 15 Copynumber: 3.0 Consensus size: 15
64242396 CCTAAAGAGA
64242406 TAATATATAAATAAG
1 TAATATATAAATAAG
64242421 TAATATATAAATAAG
1 TAATATATAAATAAG
64242436 TAATATATAAATAAG
1 TAATATATAAATAAG
64242451 CCCGAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
TAATATATAAATAAG
Found at i:64246329 original size:40 final size:40
Alignment explanation
Indices: 64246237--64246379 Score: 146
Period size: 40 Copynumber: 3.5 Consensus size: 40
64246227 CTCGAATGAT
* * *
64246237 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCT-AGCGACTAA
*
64246278 ATCCGGACTAAGAT-TCGAAGGCATTTGTGCTAGCGACTAA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAGCGACTAA
* * * *
64246318 ATCCAGG-CTAAGTCCCGAAGGCATTTATGCTAGTGACCAT
1 ATCC-GGACTAAGTCCCGAAGGCATTTGTGCTAGCGACTAA
** *
64246358 ATCCGGGTTAAGACCCGAAGGC
1 ATCCGGACTAAGTCCCGAAGGC
64246380 CTTGTGCGAG
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
39 3 0.03
40 55 0.63
41 28 0.32
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAGCGACTAA
Found at i:64247982 original size:23 final size:22
Alignment explanation
Indices: 64247931--64247982 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
64247921 TATTATCTTT
64247931 TATTTA-CATACAACTATCAAG
1 TATTTATCATACAACTATCAAG
* * *
64247952 TAAATTATCATATATCTATCAAG
1 T-ATTTATCATACAACTATCAAG
64247975 CTATTTAT
1 -TATTTAT
64247983 TTATTCTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 4 0.17
23 18 0.75
24 1 0.04
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.40
Consensus pattern (22 bp):
TATTTATCATACAACTATCAAG
Found at i:64256798 original size:22 final size:21
Alignment explanation
Indices: 64256737--64256798 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
64256727 CACACCAGCT
*
64256737 TGTGGACAAGCCACCAGTAAT
1 TGTGGACAAGCCACCAGTAAA
* * **
64256758 TGTAGTCAAGCTGCCAGTAAGA
1 TGTGGACAAGCCACCAGTAA-A
*
64256780 TGTGGACAAGCCACAAGTA
1 TGTGGACAAGCCACCAGTA
64256799 TTGCAGGCAA
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (21 bp):
TGTGGACAAGCCACCAGTAAA
Found at i:64256825 original size:42 final size:42
Alignment explanation
Indices: 64256737--64257003 Score: 205
Period size: 42 Copynumber: 6.6 Consensus size: 42
64256727 CACACCAGCT
* * * *
64256737 TGTGGACAAGCCACCAGTAATTGTAGTCAAGCTGCCAGTAAGA
1 TGTGGACAAGCCACCAGT-ATTGCAGTTAAGCTGCCAGAAATA
* ** *
64256780 TGTGGACAAGCCACAAGTATTGCAGGCAAGCTCCCAGAAATA
1 TGTGGACAAGCCACCAGTATTGCAGTTAAGCTGCCAGAAATA
* * * *
64256822 TGTGTACAA---ATC---ACT--AG-TAAGCTACCAGAAATA
1 TGTGGACAAGCCACCAGTATTGCAGTTAAGCTGCCAGAAATA
* *
64256855 TGTGGACAAACCACCAGTATTGCAGTTAAGCTGCTAGAAATA
1 TGTGGACAAGCCACCAGTATTGCAGTTAAGCTGCCAGAAATA
* * * *
64256897 TGTGGACAAGCCACCAGTATTGCAATTAAGCTGTCAGTAAGA
1 TGTGGACAAGCCACCAGTATTGCAGTTAAGCTGCCAGAAATA
* * * * * * * *
64256939 TGTGGACAAGTCACAAGTATTGTAGATAAACTACTAG-TAT-
1 TGTGGACAAGCCACCAGTATTGCAGTTAAGCTGCCAGAAATA
*
64256979 TGTGGACAAGCCACTAGTATTGCAG
1 TGTGGACAAGCCACCAGTATTGCAG
64257004 ATAAACAACC
Statistics
Matches: 178, Mismatches: 37, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
33 22 0.12
34 2 0.01
36 4 0.02
39 3 0.02
40 22 0.12
41 3 0.02
42 105 0.59
43 17 0.10
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (42 bp):
TGTGGACAAGCCACCAGTATTGCAGTTAAGCTGCCAGAAATA
Found at i:64256850 original size:33 final size:33
Alignment explanation
Indices: 64256807--64256873 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
64256797 TATTGCAGGC
* * * *
64256807 AAGCTCCCAGAAATATGTGTACAAATCACTAGT
1 AAGCTACCAGAAATATGTGGACAAACCACCAGT
64256840 AAGCTACCAGAAATATGTGGACAAACCACCAGT
1 AAGCTACCAGAAATATGTGGACAAACCACCAGT
64256873 A
1 A
64256874 TTGCAGTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.19
Consensus pattern (33 bp):
AAGCTACCAGAAATATGTGGACAAACCACCAGT
Found at i:64256894 original size:75 final size:76
Alignment explanation
Indices: 64256760--64256905 Score: 195
Period size: 75 Copynumber: 1.9 Consensus size: 76
64256750 CCAGTAATTG
* * *
64256760 TAGTCAAGCTGCCAGTAAGATGTGGACAAGCCACAAGTATTGCAGGCAAGCTCCCAGAAATATGT
1 TAGTCAAGCTACCAGAAAGATGTGGACAAACCACAAGTATTGCAGGCAAGCTCCCAGAAATATGT
*
64256825 GTACAAATCAC
66 GGACAAATCAC
* * ** * *
64256836 TAGT-AAGCTACCAGAAATATGTGGACAAACCACCAGTATTGCAGTTAAGCTGCTAGAAATATGT
1 TAGTCAAGCTACCAGAAAGATGTGGACAAACCACAAGTATTGCAGGCAAGCTCCCAGAAATATGT
64256900 GGACAA
66 GGACAA
64256906 GCCACCAGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
75 56 0.93
76 4 0.07
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (76 bp):
TAGTCAAGCTACCAGAAAGATGTGGACAAACCACAAGTATTGCAGGCAAGCTCCCAGAAATATGT
GGACAAATCAC
Found at i:64256979 original size:20 final size:20
Alignment explanation
Indices: 64256954--64257009 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
64256944 ACAAGTCACA
*
64256954 AGTATTGTAGATAAACTACT
1 AGTATTGTAGATAAACCACT
* * *
64256974 AGTATTGTGGACAAGCCACT
1 AGTATTGTAGATAAACCACT
*
64256994 AGTATTGCAGATAAAC
1 AGTATTGTAGATAAAC
64257010 AACCAGTACT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (20 bp):
AGTATTGTAGATAAACCACT
Found at i:64257671 original size:20 final size:21
Alignment explanation
Indices: 64257646--64257685 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
64257636 CCCTTGAAAC
64257646 AGGGC-ACACGTCCGTGTGGA
1 AGGGCAACACGTCCGTGTGGA
64257666 AGGGCAACACGTCCGTGTGG
1 AGGGCAACACGTCCGTGTGG
64257686 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGTCCGTGTGGA
Found at i:64261634 original size:45 final size:44
Alignment explanation
Indices: 64261526--64261726 Score: 149
Period size: 45 Copynumber: 4.5 Consensus size: 44
64261516 CGAAATTAGA
* * *
64261526 AAGACCATAGTTGAAAGATACTGTGGCACTAAACTAGAATGAAT
1 AAGACCATAGTTGAAAGATACTATGGCACTAAACAAAAATGAAT
* ** * * **
64261570 AAGACCATAATTGGGAGATACAATGGTACTAAACCAAAAATGTGT
1 AAGACCATAGTTGAAAGATACTATGGCACTAAA-CAAAAATGAAT
* * * *
64261615 AAGACTATAGTTGAAAGATACTATGGCATTAAATCTAATA-GAAAT
1 AAGACCATAGTTGAAAGATACTATGGCACTAAA-CAAAAATG-AAT
* * * **
64261660 AAGACC--AGTTGAAAGATATTATGGCATTACATCAGTAAT-AAT
1 AAGACCATAGTTGAAAGATACTATGGCACTA-AACAAAAATGAAT
*
64261702 CAAGACTATAGTTGAAAGATACTAT
1 -AAGACCATAGTTGAAAGATACTAT
64261727 AACACTACCT
Statistics
Matches: 119, Mismatches: 31, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
42 3 0.03
43 29 0.24
44 29 0.24
45 58 0.49
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (44 bp):
AAGACCATAGTTGAAAGATACTATGGCACTAAACAAAAATGAAT
Found at i:64261707 original size:43 final size:44
Alignment explanation
Indices: 64261614--64261726 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 44
64261604 CAAAAATGTG
*
64261614 TAAGACTATAGTTGAAAGATACTATGGCATTAAATCTAATAGAAA
1 TAAGAC-ACAGTTGAAAGATACTATGGCATTAAATCTAATAGAAA
* * *
64261659 TAAGAC-CAGTTGAAAGATATTATGGCATTACATC-AGTA-ATAA
1 TAAGACACAGTTGAAAGATACTATGGCATTAAATCTAATAGA-AA
*
64261701 TCAAGACTATAGTTGAAAGATACTAT
1 T-AAGAC-ACAGTTGAAAGATACTAT
64261727 AACACTACCT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 6 0.10
43 30 0.52
45 21 0.36
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (44 bp):
TAAGACACAGTTGAAAGATACTATGGCATTAAATCTAATAGAAA
Found at i:64263820 original size:49 final size:49
Alignment explanation
Indices: 64263646--64264218 Score: 954
Period size: 49 Copynumber: 11.9 Consensus size: 49
64263636 CCCTTCGGGA
* * * * *
64263646 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64263693 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64263740 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64263787 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64263836 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64263885 CTTATCAC--ATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64263932 CTTATCAC--ATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64263979 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64264028 CTTATCAC--ATATATACACTTTCACATTCATCTCATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64264075 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64264124 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64264173 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
64264219 CGCCATACTA
Statistics
Matches: 502, Mismatches: 16, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 229 0.46
49 272 0.54
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:64263843 original size:96 final size:96
Alignment explanation
Indices: 64263646--64264218 Score: 965
Period size: 96 Copynumber: 6.0 Consensus size: 96
64263636 CCCTTCGGGA
* * * * * * * *
64263646 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
64263709 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
64263740 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
64263805 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
64263836 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATGTAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
64263899 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
64263932 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
64263997 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
64264028 CTTATCACATATATACACTTTCACATTCATCTCATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
64264093 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
64264124 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
64264189 ACACTTTCACATTCATCACATCAGCCATTA
64 ACACTTTCACATTCATCACATCGGCCATTA
64264219 CGCCATACTA
Statistics
Matches: 455, Mismatches: 16, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
94 93 0.20
96 233 0.51
98 129 0.28
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:64267941 original size:40 final size:40
Alignment explanation
Indices: 64267879--64268116 Score: 287
Period size: 40 Copynumber: 6.0 Consensus size: 40
64267869 AGGCCCGAAT
* * * * * *
64267879 ATACGTCACCAGCATGATTGCTCTTTGGGACCTAGCCCGG
1 ATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
* * * * ** *
64267919 ATATAACACCAGCACAAATGCTCTTCGGGGTTTAGCACGG
1 ATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
* * *
64267959 ATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
1 ATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
*
64267999 ATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGG
1 ATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
*
64268039 ATACATCACTAGCACGAATGCTCTTCGGGACTTAGCTCGG
1 ATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
* * *
64268079 ATACATCACTAGCATGAATGCTCTTCGAGATTTAGCCC
1 ATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCC
64268117 AGACATTTCA
Statistics
Matches: 169, Mismatches: 29, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 169 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
ATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
Found at i:64269676 original size:49 final size:49
Alignment explanation
Indices: 64269502--64270077 Score: 974
Period size: 49 Copynumber: 11.9 Consensus size: 49
64269492 CCCTTCGGGA
* * * * *
64269502 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64269549 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64269596 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64269643 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64269692 CTTATCAC--ATATATACACTTTCACATTCATCACATTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACA-TCGGCCATTAGGC
64269740 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64269789 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64269836 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64269885 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64269934 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64269983 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64270032 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
64270078 CGCCATACTA
Statistics
Matches: 504, Mismatches: 16, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 163 0.32
48 21 0.04
49 293 0.58
50 26 0.05
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:64285000 original size:46 final size:46
Alignment explanation
Indices: 64284947--64285113 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 46
64284937 TTTGTGTGCC
* *
64284947 AGTGTAAGATATGTATGGGACATGCATCGACCTCATTATAAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCATTATAAGAGCT
* *
64284993 AGTGTAAGACCATGTCTGGGACATGGCATC-A-GT-ATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCATT-ATA--AGAGCT
* * * *
64285041 AGTGTAAGACATGTCTGGGATATGCATCGGCCTCGA-GATGTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTC-ATTAT-AAGAGCT
*
64285087 AGTGTAAGACATGTCTGGGACCTGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
64285114 GGCTACGAGA
Statistics
Matches: 99, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
45 3 0.03
46 46 0.46
47 27 0.27
48 22 0.22
50 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTCATTATAAGAGCT
Found at i:64285039 original size:48 final size:47
Alignment explanation
Indices: 64284987--64285113 Score: 159
Period size: 46 Copynumber: 2.7 Consensus size: 47
64284977 CCTCATTATA
* *
64284987 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGTATTGAGACG-
1 AGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGAGACGT
* * * *
64285035 AGAGCTAGTGTAAGACATGTCTGGGATATGCATCGGCCTCGAGATGT
1 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACGT
*
64285082 A-AGCTAGTGTAAGACATGTCTGGGACCTGCAT
1 AGAGCTAGTGTAAGACATGTCTGGGACATGCAT
64285114 GGCTACGAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 41 0.59
47 14 0.20
48 15 0.21
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (47 bp):
AGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACGT
Found at i:64285190 original size:50 final size:49
Alignment explanation
Indices: 64285127--64285257 Score: 142
Period size: 50 Copynumber: 2.7 Consensus size: 49
64285117 TACGAGATGT
64285127 GTCAGTGTAAGACCATGTTTGGGACATGGCATTGG-CACGGATATGT-GAGA
1 GTCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACGG-T-T-TCGAGA
* * ** * *
64285177 GAT-AGTGTAAGACCATGTTTAGGACGTGGTTTTGGCCTCGGTTTCGATA
1 G-TCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACGGTTTCGAGA
*
64285226 GTCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GTCAGTGTAAGACCATGTTTGGGACATGGCAT
64285258 CGACTTGATG
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
48 2 0.03
49 29 0.44
50 30 0.45
51 5 0.08
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACGGTTTCGAGA
Found at i:64289754 original size:20 final size:21
Alignment explanation
Indices: 64289715--64289754 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
64289705 GTTATAATAA
* *
64289715 CCACACGGGCGTCTTGCCCTT
1 CCACACGGGCATCGTGCCCTT
64289736 CCACACGGGCAT-GTGCCCT
1 CCACACGGGCATCGTGCCCT
64289755 GTTTCAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.42, G:0.25, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATCGTGCCCTT
Found at i:64294405 original size:12 final size:12
Alignment explanation
Indices: 64294388--64294426 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
64294378 ATGTTTTGTT
64294388 ACACGGCCTGCC
1 ACACGGCCTGCC
* *
64294400 ACACGGGCGGCC
1 ACACGGCCTGCC
*
64294412 ACACAGCCTGCC
1 ACACGGCCTGCC
64294424 ACA
1 ACA
64294427 TGCCCGTGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.23, C:0.46, G:0.26, T:0.05
Consensus pattern (12 bp):
ACACGGCCTGCC
Found at i:64295708 original size:26 final size:26
Alignment explanation
Indices: 64295679--64295730 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
64295669 ATCCCCTGGG
64295679 CCAGTAGGCTCTTTGTTGTCATACTT
1 CCAGTAGGCTCTTTGTTGTCATACTT
64295705 CCAGTAGGCTCTTTGTTGTCATACTT
1 CCAGTAGGCTCTTTGTTGTCATACTT
64295731 TACCCAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.42
Consensus pattern (26 bp):
CCAGTAGGCTCTTTGTTGTCATACTT
Found at i:64299169 original size:46 final size:48
Alignment explanation
Indices: 64299116--64299475 Score: 198
Period size: 47 Copynumber: 7.6 Consensus size: 48
64299106 TTTGTGCGCT
*
64299116 AGTGTAAGA-CATGTCTGGGACAT-GCGTCAGCCACAGTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAGTATGAGAGCC
* * * * * *
64299162 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCATAGAGACGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAG-TATGAGAGCC
* * * *
64299210 AGTGTAAGA-CATGTTTGGGACAT-GTATCGGCCTCGAG-ATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC-AGTATG-AGAGCC
* * * *
64299256 AGTGTAAGA-CATGTCTGAGACAT-GCATCAGCTACGAGT-T--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC-AGTATGAGAGCC
* * * *
64299300 AGTGTAAGACCGTGTCTAGGACATGGCATC-GGCACGGATATGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAG-TA--TGAGAGCC
* * *** * * * *
64299350 AGT-TAAGACCATGTCTGAGACATGGCGTCAGCTTTGATTTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-CACAGTATGAGAGCC
* * * *
64299398 AGTATATGACCATGTCTGAGACATGGCATCA---ACTAG-ATGGCTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC-AGTAT-G-AGAGCC
*
64299445 AGTGTAAGACTATGTCTGGGACATGGCATCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCA
64299476 ACATCATACC
Statistics
Matches: 236, Mismatches: 56, Indels: 43
0.70 0.17 0.13
Matches are distributed among these distances:
44 12 0.05
45 16 0.07
46 57 0.24
47 65 0.28
48 31 0.13
49 47 0.20
50 8 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAGTATGAGAGCC
Found at i:64299372 original size:140 final size:139
Alignment explanation
Indices: 64299116--64299373 Score: 315
Period size: 140 Copynumber: 1.8 Consensus size: 139
64299106 TTTGTGCGCT
* * *
64299116 AGTGTAAGACATGTCTGGGACATGCGTCAGCCACAGTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGAGACATGCATCAGCCACAGTAT-AGAGCCAGTGTAAGACCATGTCTAG
* * * *
64299181 GACATGGCATCGGCATAGAGACGAAAGCTAGTGTAAGACATGTTTGGGACATGTATCGGCCTCGA
65 GACATGGCATCGGCACAGAGACGAAAGCCAGTGTAAGACATGTCTGAGACATGTATCGGCCTCGA
64299246 GATGTAAGCC
130 GATGTAAGCC
* * * *
64299256 AGTGTAAGACATGTCTGAGACATGCATCAGCTACGAGT-T-GTGTCAGTGTAAGACCGTGTCTAG
1 AGTGTAAGACATGTCTGAGACATGCATCAGCCAC-AGTATAGAGCCAGTGTAAGACCATGTCTAG
* * * *
64299319 GACATGGCATCGGCACGGATATGTGAGAGCCAGT-TAAGACCATGTCTGAGACATG
65 GACATGGCATCGGCACAGAGA--CGAAAGCCAGTGTAAGA-CATGTCTGAGACATG
64299374 GCGTCAGCTT
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
138 38 0.38
139 5 0.05
140 53 0.54
141 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (139 bp):
AGTGTAAGACATGTCTGAGACATGCATCAGCCACAGTATAGAGCCAGTGTAAGACCATGTCTAGG
ACATGGCATCGGCACAGAGACGAAAGCCAGTGTAAGACATGTCTGAGACATGTATCGGCCTCGAG
ATGTAAGCC
Found at i:64299427 original size:98 final size:94
Alignment explanation
Indices: 64299252--64299427 Score: 221
Period size: 98 Copynumber: 1.8 Consensus size: 94
64299242 TCGAGATGTA
* *
64299252 AGCCAGTGTAAGACATGTCTGAGACATGCATCAGCTACGAGTTGTGTCAGTGTAAGACCGTGTCT
1 AGCCAGTGTAAGACATGTCTGAGACATGCATCAGCTACGAGTTGTGTCAGTATAAGACCATGTCT
64299317 AGGACATGGCATCGGCACGGATATGTGAG
66 AGGACATGGCATCGGCACGGATATGTGAG
* ** * *
64299346 AGCCAGT-TAAGACCATGTCTGAGACATGGCGTCAGCTTTGATTTTGATAGTCAGTATATGACCA
1 AGCCAGTGTAAGA-CATGTCTGAGACAT-GCATCAGCTACGA-GTTG-T-GTCAGTATAAGACCA
64299410 TGTCT-GAGACATGGCATC
61 TGTCTAG-GACATGGCATC
64299428 AACTAGATGG
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
93 5 0.07
94 21 0.30
95 10 0.14
96 3 0.04
97 2 0.03
98 28 0.41
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (94 bp):
AGCCAGTGTAAGACATGTCTGAGACATGCATCAGCTACGAGTTGTGTCAGTATAAGACCATGTCT
AGGACATGGCATCGGCACGGATATGTGAG
Found at i:64303725 original size:42 final size:42
Alignment explanation
Indices: 64303679--64303832 Score: 211
Period size: 42 Copynumber: 3.6 Consensus size: 42
64303669 TGAGATTACT
* * *
64303679 TGTAAGACCATATCTGGGGTATGACATCTATATGAGACTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTTG
* *
64303721 TGTAAGACCATATCTAGGATATGGCATCGATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTTG
* * *
64303763 TGTAAGACCATAGCTGGGTTATTGGCATCGATACGAGA-TTATG
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACTT-TG
64303806 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
64303833 TGGTACAATA
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
42 63 0.64
43 35 0.36
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTTG
Found at i:64316053 original size:30 final size:30
Alignment explanation
Indices: 64315997--64316053 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
64315987 TACGATCATT
*
64315997 GGGGCAAAAGTGAAAATATGTGAAAGTTTA
1 GGGGCAAAAGTGAAAATATGTAAAAGTTTA
* *
64316027 GGGGTCAAAA-TGCAAATTTGTAAAAGT
1 GGGG-CAAAAGTGAAAATATGTAAAAGT
64316054 ATGATTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.25
Consensus pattern (30 bp):
GGGGCAAAAGTGAAAATATGTAAAAGTTTA
Found at i:64316585 original size:43 final size:42
Alignment explanation
Indices: 64316523--64316638 Score: 178
Period size: 43 Copynumber: 2.7 Consensus size: 42
64316513 GGAATTAAGA
*
64316523 AATCTGAGCTTGTTGAGTGGTCTAAGTTCATGATATATGTGAG
1 AATCTGAGCTTGTTGAGTGGTCCAAGTTCATGATATATGT-AG
* *
64316566 AATCTGAACTTGTTCAGTGGTCCAAGTTCATGATATATGTAG
1 AATCTGAGCTTGTTGAGTGGTCCAAGTTCATGATATATGTAG
* *
64316608 CATCCGAGCTTGTTGAGTGGTCCAAGTTCAT
1 AATCTGAGCTTGTTGAGTGGTCCAAGTTCAT
64316639 AACGGATGCG
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
42 29 0.44
43 37 0.56
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (42 bp):
AATCTGAGCTTGTTGAGTGGTCCAAGTTCATGATATATGTAG
Found at i:64316663 original size:51 final size:51
Alignment explanation
Indices: 64316597--64316707 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 51
64316587 CCAAGTTCAT
* * * *
64316597 GATATATGTAGCATCCGAGCTTGTTGAGTGGTCCAAGTTCATAACGGATGC
1 GATACATGTAACATCCGAGCTCGTTGAGAGGTCCAAGTTCATAACGGATGC
** * * *
64316648 GATACATGTAACATCCGAGCTCGTTGAGAGGTCTGAGTTCATCATGGATGT
1 GATACATGTAACATCCGAGCTCGTTGAGAGGTCCAAGTTCATAACGGATGC
*
64316699 GTTACATGT
1 GATACATGT
64316708 TATAAGGTAG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
GATACATGTAACATCCGAGCTCGTTGAGAGGTCCAAGTTCATAACGGATGC
Found at i:64319454 original size:27 final size:28
Alignment explanation
Indices: 64319370--64319467 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
64319360 CATGAGATTG
* * * *
64319370 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
64319399 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
64319427 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
64319454 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
64319468 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:64319478 original size:27 final size:27
Alignment explanation
Indices: 64319398--64319480 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
64319388 TAAATTGTAC
* *
64319398 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
64319426 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
64319453 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
64319480 A
1 A
64319481 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:64319481 original size:29 final size:27
Alignment explanation
Indices: 64319370--64319481 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
64319360 CATGAGATTG
** * *
64319370 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
64319399 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
64319427 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
64319454 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
64319482 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:64327257 original size:23 final size:25
Alignment explanation
Indices: 64327167--64327259 Score: 75
Period size: 29 Copynumber: 3.6 Consensus size: 25
64327157 CATGAGATTG
* *
64327167 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GGTTT-GA-T-TATA
64327196 GCACTAAGTGTGCGAGTTTGATTATA
1 GCACTAAGTGTGCG-GTTTGATTATA
*
64327222 TACACTAAG-GTGCGG-TT-ATTATA
1 -GCACTAAGTGTGCGGTTTGATTATA
*
64327245 GCACTGAGTGTGCGG
1 GCACTAAGTGTGCGG
64327260 ACTAATAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
22 6 0.11
23 12 0.21
24 2 0.04
25 1 0.02
26 8 0.14
27 8 0.14
28 2 0.04
29 17 0.30
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (25 bp):
GCACTAAGTGTGCGGTTTGATTATA
Found at i:64348120 original size:40 final size:40
Alignment explanation
Indices: 64348072--64348253 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
64348062 TGAATGATGT
* * *
64348072 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATC
* *
64348112 CGGACTAAGAT-CCGAA-GCATTTGTGCGAGATACTA-ATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TC
* *
64348151 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
64348190 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
64348230 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
64348254 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
38 6 0.05
39 44 0.36
40 70 0.58
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:64348275 original size:79 final size:79
Alignment explanation
Indices: 64348123--64348286 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
64348113 GGACTAAGAT
* ** *
64348123 CCGAA-GCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
*
64348187 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
64348201 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-C
* *
64348264 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
64348280 CCGAAGG
1 CCGAAGG
64348287 TACGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
78 7 0.10
79 41 0.57
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:64352266 original size:40 final size:40
Alignment explanation
Indices: 64352222--64352403 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
64352212 GCTCCTCGTT
*
64352222 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
64352262 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
64352302 CCAATGCCTTCGGG-CTTAGCCCGG-AATAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
64352340 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
64352381 CAAA-GCCTTC-GGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
64352404 ACATCATTCA
Statistics
Matches: 122, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
37 2 0.02
38 21 0.17
39 27 0.22
40 62 0.51
41 10 0.08
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:64352338 original size:78 final size:78
Alignment explanation
Indices: 64352224--64352404 Score: 213
Period size: 78 Copynumber: 2.3 Consensus size: 78
64352214 TCCTCGTTCA
* *
64352224 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGG-CTTAGCCCGG-AATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
64352288 TTTAGTAAC-TCGCACC
63 TATAGTAACTTAGCA-C
* **
64352304 AATGCCTTCGGGCTTAGCCCGGAATAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATAT
1 AATGCCTTCGGGCTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATAT
* *
64352369 GGTCACTTAGCAC
66 AGTAACTTAGCAC
* *
64352382 AAAGCCTTCGGACTTAGCCCGGA
1 AATGCCTTCGGGCTTAGCCCGGA
64352405 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
77 3 0.03
78 60 0.68
79 13 0.15
80 12 0.14
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (78 bp):
AATGCCTTCGGGCTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATAT
AGTAACTTAGCAC
Found at i:64354292 original size:39 final size:39
Alignment explanation
Indices: 64354238--64354455 Score: 303
Period size: 39 Copynumber: 5.5 Consensus size: 39
64354228 TAATGGAGAA
* *
64354238 TTATATCCGGGCTAAGTCCCAAACGCATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
64354277 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
* * *
64354316 TTATATCCGGGCCAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
*
64354355 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
* * * *
64354394 TTATATCCGGGCTAAAGTTCCATAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCAAAGGCATTCGTGCTGGTG
*
64354433 TTATATTCGGGCTTAAAGTCCCA
1 TTATATCCGGGC-T-AAGTCCCA
64354456 CATGCTTTGT
Statistics
Matches: 163, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 144 0.88
40 19 0.12
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
Done.