Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 39 of 207
Found at i:11287443 original size:20 final size:20
Alignment explanation
Indices: 11287405--11287443 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11287395 TCAACCTTAA
*
11287405 AATCAAGTTAAAAAGATTTT
1 AATCAAGTTAAAAAAATTTT
11287425 AATCAAG-TAAAACAAATTT
1 AATCAAGTTAAAA-AAATTT
11287444 CAACTAGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (20 bp):
AATCAAGTTAAAAAAATTTT
Found at i:11288462 original size:16 final size:16
Alignment explanation
Indices: 11288432--11288466 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11288422 TCTTTTGAGC
11288432 TCACTAAGACATTTAT
1 TCACTAAGACATTTAT
11288448 TCACATAAGAC-TTTAT
1 TCAC-TAAGACATTTAT
11288464 TCA
1 TCA
11288467 TTCATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (16 bp):
TCACTAAGACATTTAT
Found at i:11290249 original size:18 final size:18
Alignment explanation
Indices: 11290200--11290242 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
11290190 TGTATATATA
11290200 GATTATGAAAATAATAAT
1 GATTATGAAAATAATAAT
*
11290218 GATTATAAAAATAATAAT
1 GATTATGAAAATAATAAT
11290236 GATTATG
1 GATTATG
11290243 TATATAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (18 bp):
GATTATGAAAATAATAAT
Found at i:11291141 original size:39 final size:39
Alignment explanation
Indices: 11291087--11291168 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
11291077 AAAATCTTGT
* *
11291087 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCCTTTGAGTTCTTTCCA
11291126 TTACATTGATTTGATTCTCAATCCTTTGAGTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCCTTTGAGTTCTTTCCA
11291165 TTAC
1 TTAC
11291169 TGTTTTGCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.21, C:0.20, G:0.09, T:0.51
Consensus pattern (39 bp):
TTACATTGATTTGATTCTCAATCCTTTGAGTTCTTTCCA
Found at i:11291799 original size:44 final size:44
Alignment explanation
Indices: 11291749--11291856 Score: 173
Period size: 44 Copynumber: 2.5 Consensus size: 44
11291739 TTTGTTTACT
*
11291749 TTCAACCTATTCCACTGCTGACCAA-GGAGATAGGATTCTCAATC
1 TTCAACCTATTCCACTGCTGA-CAAGGGAGATAGGATTCACAATC
*
11291793 TTCAACCTATTCCATTGCTGACAAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACAAGGGAGATAGGATTCACAATC
*
11291837 TTCAATCTATTCCACTGCTG
1 TTCAACCTATTCCACTGCTG
11291857 CCTAGGGAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
43 3 0.05
44 56 0.95
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACAAGGGAGATAGGATTCACAATC
Found at i:11292131 original size:132 final size:132
Alignment explanation
Indices: 11291816--11292489 Score: 1050
Period size: 132 Copynumber: 5.1 Consensus size: 132
11291806 ATTGCTGACA
* * *
11291816 AGGGAGATAGGAT-TCACAATCTTCAATCTATTCCACTGCTG-CCTAGGGAAGTAGAATTACTGG
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCC-AGGGAAGTAGAATTACTGG
* * * *
11291879 ATTCAATGTACTCCGCTGTAACCACAGGGAGGTAAAATCCACTATCTTC-ATCTGCTCCGCTACT
64 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCGCTACT
*
11291943 ACTT
129 GCTT
* * *
11291947 AGGGAGATAAGATCTGAAATTTTTAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* * *
11292012 TCAATGTACTCCACTGTAACTATAGGGAGGTAAAATCTACCATCTTCGATCTACTCCGCTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCGCTACTGC
11292077 TT
131 TT
* * *
11292079 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCATTGTTGCCCAGGAAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* * *
11292144 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCGCTACTGC
11292209 TT
131 TT
*
11292211 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGAAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* *
11292276 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCGCTACTGC
11292341 TT
131 TT
* *
11292343 AGGGAGATAAGATCTAAAATCTTAAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* *
11292408 TCAATGTACTCCACTGGAACCACAGGGAGGTAAAATC-AGCCATCTTCGATCTACTCCGCTACTG
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTA-CCATCTTCGATCTGCTCCGCTACTG
11292472 CTT
130 CTT
11292475 AGGGAGATAAGATCT
1 AGGGAGATAAGATCT
11292490 AGAGTCTTCG
Statistics
Matches: 502, Mismatches: 37, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
131 95 0.19
132 407 0.81
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCGCTACTGC
TT
Found at i:11299955 original size:39 final size:39
Alignment explanation
Indices: 11299901--11299979 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
11299891 ATCTTGTTTG
* * *
11299901 CATTGATTTGATTCTCAATCTTTTGATTTCTTTTCATTA
1 CATTGATTTGATTCTCAATCCTTTGAGTTCTTTCCATTA
11299940 CATTGATTTGATTCTCAATCCTTTGAGTTCTTTCCATTA
1 CATTGATTTGATTCTCAATCCTTTGAGTTCTTTCCATTA
11299979 C
1 C
11299980 TGTTTTGCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.20, C:0.19, G:0.09, T:0.52
Consensus pattern (39 bp):
CATTGATTTGATTCTCAATCCTTTGAGTTCTTTCCATTA
Found at i:11300502 original size:16 final size:15
Alignment explanation
Indices: 11300481--11300514 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
11300471 TAATCTTTCA
11300481 CTTTCCTTCCAACTTT
1 CTTTCCTTCCAA-TTT
*
11300497 CTTTCCTTCTAATTT
1 CTTTCCTTCCAATTT
11300512 CTT
1 CTT
11300515 ATCTCTTGCC
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:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (15 bp):
CTTTCCTTCCAATTT
Found at i:11301698 original size:22 final size:22
Alignment explanation
Indices: 11301673--11301718 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
11301663 ATTTAAAAAA
11301673 AATATTTTTTATTAAAATTTTG
1 AATATTTTTTATTAAAATTTTG
**
11301695 AATATTTTTTATTTGAATTTTG
1 AATATTTTTTATTAAAATTTTG
11301717 AA
1 AA
11301719 AAAAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (22 bp):
AATATTTTTTATTAAAATTTTG
Found at i:11307303 original size:39 final size:40
Alignment explanation
Indices: 11307244--11307325 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 40
11307234 GGTTATATAT
* * * *
11307244 TATTTTTATAATATTATATATTATGAATTTTATT-AATTCA
1 TATTTTAATAATAATATATATTAAGAATGTTATTGAATT-A
11307284 TATTTTAATAATAAT-TATATTAAGAATGTTATTGAATTA
1 TATTTTAATAATAATATATATTAAGAATGTTATTGAATTA
11307323 TAT
1 TAT
11307326 ATATTATTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 20 0.54
40 17 0.46
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (40 bp):
TATTTTAATAATAATATATATTAAGAATGTTATTGAATTA
Found at i:11308742 original size:156 final size:156
Alignment explanation
Indices: 11308566--11308864 Score: 422
Period size: 156 Copynumber: 1.9 Consensus size: 156
11308556 AACTAGACAC
* * **
11308566 TTTTTTGTACAGTTGGTTCTGAAAAAATAATTTTGAGAAGATGGTTCAGAAA-AGGTATCCTGAG
1 TTTTTTGTACAGTTGATTCTGAAAAAATAATTTTGAGAAGATGGTTCAGAAAGA-ATATCCCAAG
* * * * *
11308630 ATTTCCGA-GAAATCTAATAGTTGGGGTTGAAAAACGCTTCAAGCAGGATGCACAATCAGGAAAA
65 A-TTCAGAGGAAATCTAATAATTAGGGTTGAAAAACACTTCAAGCAGGATGCACAATCAGCAAAA
11308694 ATACTGAAAAAGCTCTCAATTGGACGTT
129 ATACTGAAAAAGCTCTCAATTGGACGTT
*
11308722 TTTTTTGTACAGTTGATTCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAGAATATCCCAAGA
1 TTTTTTGTACAGTTGATTCTGAAAAAATAATTTTGAGAAGATGGTTCAGAAAGAATATCCCAAGA
* * * ** *
11308787 TTCATAGGAAATCTGATAATTAGGGTTGAAAAATACTTCAAGCAGGATGCACTGTCAGCAAAAGT
66 TTCAGAGGAAATCTAATAATTAGGGTTGAAAAACACTTCAAGCAGGATGCACAATCAGCAAAAAT
11308852 ACTGAAAAAGCTC
131 ACTGAAAAAGCTC
11308865 CCAGCTGGAC
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
155 4 0.03
156 120 0.96
157 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (156 bp):
TTTTTTGTACAGTTGATTCTGAAAAAATAATTTTGAGAAGATGGTTCAGAAAGAATATCCCAAGA
TTCAGAGGAAATCTAATAATTAGGGTTGAAAAACACTTCAAGCAGGATGCACAATCAGCAAAAAT
ACTGAAAAAGCTCTCAATTGGACGTT
Found at i:11310597 original size:59 final size:60
Alignment explanation
Indices: 11310489--11310640 Score: 227
Period size: 59 Copynumber: 2.6 Consensus size: 60
11310479 AAATCGAAAT
* * * * **
11310489 AACTCCTAATTTATTAAATGAAACAAT-GAAAAAATAATTTGTATGAAAATATTCAAAAG
1 AACTTCTATTTTATTAAATGAAATAATATAAAAAATAATTTGTACAAAAATATTCAAAAG
*
11310548 AACTTCTATTTTAGTAAATGAAATAATATAAAAAAT-ATTTGTACAAAAATATTCAAAAG
1 AACTTCTATTTTATTAAATGAAATAATATAAAAAATAATTTGTACAAAAATATTCAAAAG
11310607 AACTTCTATTTTATTAAATGAAATAATATAAAAA
1 AACTTCTATTTTATTAAATGAAATAATATAAAAA
11310641 CAATATCTAT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
59 77 0.92
60 7 0.08
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.34
Consensus pattern (60 bp):
AACTTCTATTTTATTAAATGAAATAATATAAAAAATAATTTGTACAAAAATATTCAAAAG
Found at i:11310659 original size:59 final size:57
Alignment explanation
Indices: 11310489--11310663 Score: 217
Period size: 59 Copynumber: 3.0 Consensus size: 57
11310479 AAATCGAAAT
* * *
11310489 AACTCCTAATTTATTAAATGAAACAATGA-AAAAATAATTTGTATGAAAATATTCAAAAG
1 AACTTCTATTTTATTAAATGAAATAAT-ATAAAAA-AATTTGTAT-AAAATATTCAAAAG
* *
11310548 AACTTCTATTTTAGTAAATGAAATAATATAAAAAATATTTGTACAAAAATATTCAAAAG
1 AACTTCTATTTTATTAAATGAAATAATATAAAAAA-ATTTGTA-TAAAATATTCAAAAG
* *
11310607 AACTTCTATTTTATTAAATGAAATAATATAAAAACAATATCTATAAATATATTCAAA
1 AACTTCTATTTTATTAAATGAAATAATATAAAAA-AATTTGTATAAA-ATATTCAAA
11310664 TATAAATCAA
Statistics
Matches: 102, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
58 5 0.05
59 96 0.94
60 1 0.01
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.34
Consensus pattern (57 bp):
AACTTCTATTTTATTAAATGAAATAATATAAAAAAATTTGTATAAAATATTCAAAAG
Found at i:11314396 original size:7 final size:7
Alignment explanation
Indices: 11314386--11314422 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
11314376 AAAAGAAGAA
11314386 AAAAATC
1 AAAAATC
11314393 AAAAATC
1 AAAAATC
11314400 AAAAA-C
1 AAAAATC
11314406 -AAAATC
1 AAAAATC
11314412 AAAAA-C
1 AAAAATC
11314418 AAAAA
1 AAAAA
11314423 AAGAAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 4 0.14
6 8 0.29
7 16 0.57
ACGTcount: A:0.78, C:0.14, G:0.00, T:0.08
Consensus pattern (7 bp):
AAAAATC
Found at i:11314409 original size:12 final size:12
Alignment explanation
Indices: 11314394--11314421 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11314384 AAAAAAATCA
11314394 AAAATCAAAAAC
1 AAAATCAAAAAC
11314406 AAAATCAAAAAC
1 AAAATCAAAAAC
11314418 AAAA
1 AAAA
11314422 AAAGAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.14, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAATCAAAAAC
Found at i:11314464 original size:78 final size:77
Alignment explanation
Indices: 11314361--11314511 Score: 173
Period size: 77 Copynumber: 1.9 Consensus size: 77
11314351 TCGAAAGGGT
11314361 TCAAATTCAAAAAAAAAAAGAAGAAAAAAATCAAAAATCAAAA-ACAAA-ATCAAAAACAAAAAA
1 TCAAATTCAAAAAAAAAAAGAAGAAAAAAATC-AAAATCAAAATA-AAATAT-AAAAACAAAAAA
11314424 AGAAAAGAAAAAAAA
63 AGAAAAGAAAAAAAA
* * ** * * * *
11314439 TCAAATTCAAAAGCAAAATAG-AGAAATCAATCAAAGTCAAAATAAAATATGAAAAGAGAAAAAG
1 TCAAATTCAAAA-AAAAAAAGAAGAAAAAAATCAAAATCAAAATAAAATATAAAAACAAAAAAAG
11314503 AAAAGAAAA
65 AAAAGAAAA
11314512 GGAGAGGCCA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
77 32 0.52
78 24 0.39
79 6 0.10
ACGTcount: A:0.72, C:0.09, G:0.09, T:0.11
Consensus pattern (77 bp):
TCAAATTCAAAAAAAAAAAGAAGAAAAAAATCAAAATCAAAATAAAATATAAAAACAAAAAAAGA
AAAGAAAAAAAA
Found at i:11316281 original size:87 final size:87
Alignment explanation
Indices: 11316126--11316566 Score: 668
Period size: 87 Copynumber: 5.1 Consensus size: 87
11316116 ATCAGTGAAA
* * * * *
11316126 ATCGGAAACAAAGCCTTGCCTCTATCGGTTGTAGTTGGAGCTGATTAAAGATAACAGATTTTGCC
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAG-TGGAGCTGGTTAAAGATAGCAGATCTTGCC
*
11316191 TTCCTGCGTTAGCAGCGAAGCAG
65 TTCCTGCGTTAACAGCGAAGCAG
* *
11316214 ACCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
11316279 TCCTGCGTTAACAGCGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
* * *
11316301 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAATGCAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
* *
11316366 TCCTACGTTAACAGCAAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
** * * *
11316388 ATTAAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTTCCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
11316453 TCCTGCGTTAA-AGCGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
** *
11316474 ATAAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
*
11316539 TCCTGCGTTAACAGTGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
11316561 ATCGAA
1 ATCGAA
11316567 GATTATAAGT
Statistics
Matches: 321, Mismatches: 31, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
86 82 0.26
87 208 0.65
88 31 0.10
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (87 bp):
ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
TCCTGCGTTAACAGCGAAGCAG
Found at i:11316709 original size:44 final size:43
Alignment explanation
Indices: 11316656--11316783 Score: 123
Period size: 44 Copynumber: 2.9 Consensus size: 43
11316646 TAGATCACAT
*
11316656 CAAGCCTTATCACCCTGAGGTTGCAGTGGAGCAGACTG-AGAAAA
1 CAAGTCTTATC-CCCTGAGGTTGCAGTGGAGCAGACTGAAG-AAA
* ** * *
11316700 CAAGTCTTATCCCCTTGAAGTCACAGTGGGGCAGACTGAAGAAG
1 CAAGTCTTATCCCC-TGAGGTTGCAGTGGAGCAGACTGAAGAAA
* * * *
11316744 CAAATCTTATCTCCCTAAGGTTGCAGTAGAGCAGATTGAA
1 CAAGTCTTATC-CCCTGAGGTTGCAGTGGAGCAGACTGAA
11316784 TTTGAATCCT
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
43 3 0.04
44 59 0.88
45 5 0.07
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (43 bp):
CAAGTCTTATCCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAA
Found at i:11318382 original size:24 final size:23
Alignment explanation
Indices: 11318350--11318394 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
11318340 ATGAATGTTG
11318350 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTATCACA-ATTATTAT
*
11318374 TTTAAATTTATCATAATTATT
1 TTTAAATTTATCACAATTATT
11318395 TTAAGTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTAAATTTATCACAATTATTAT
Found at i:11321520 original size:22 final size:21
Alignment explanation
Indices: 11321473--11321539 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 21
11321463 ACCGACTGTT
*
11321473 ATAAAAAATTATAAAAA--AA
1 ATAATAAATTATAAAAATGAA
11321492 TATTAATTAAATTATAAAAATGAA
1 -A-TAA-TAAATTATAAAAATGAA
11321516 ATAATAATATTA-AAAAATTGAA
1 ATAATAA-ATTATAAAAA-TGAA
11321538 AT
1 AT
11321540 TAATCCTTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
20 1 0.03
21 11 0.28
22 25 0.62
23 1 0.03
24 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (21 bp):
ATAATAAATTATAAAAATGAA
Found at i:11323183 original size:19 final size:20
Alignment explanation
Indices: 11323159--11323196 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11323149 GGTTAAAAAT
11323159 ATTATAAA-AATTATTAAAG
1 ATTATAAATAATTATTAAAG
*
11323178 ATTATAAATACTTATTAAA
1 ATTATAAATAATTATTAAA
11323197 ATTTGGAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTATAAATAATTATTAAAG
Found at i:11326151 original size:4 final size:4
Alignment explanation
Indices: 11326144--11326170 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
11326134 GAGATAGCCA
11326144 GCCT GCCT GCCT GCCT GCCT GCCT GCC
1 GCCT GCCT GCCT GCCT GCCT GCCT GCC
11326171 CCCCCCCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.26, T:0.22
Consensus pattern (4 bp):
GCCT
Found at i:11332261 original size:25 final size:23
Alignment explanation
Indices: 11332233--11332278 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
11332223 TTAATATAGA
11332233 GGTTACAAATTACAATTATATCAAC
1 GGTTA-AAATTACAA-TATATCAAC
* *
11332258 GGTTAACATTAGAATATATCA
1 GGTTAAAATTACAATATATCA
11332279 TTACAAGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 7 0.37
25 5 0.26
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (23 bp):
GGTTAAAATTACAATATATCAAC
Found at i:11336132 original size:10 final size:9
Alignment explanation
Indices: 11336115--11336146 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
11336105 ATATAATAAA
11336115 TATTTTTTT
1 TATTTTTTT
11336124 TATTTTTTT
1 TATTTTTTT
11336133 TA-TTTTTT
1 TATTTTTTT
11336141 TATTTT
1 TATTTT
11336147 AAAAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TATTTTTTT
Found at i:11348527 original size:19 final size:19
Alignment explanation
Indices: 11348503--11348546 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11348493 CAATTCATGG
* *
11348503 TATCATTGATATACTATCA
1 TATCATTAAAATACTATCA
*
11348522 TATCATTAAAATATTATCA
1 TATCATTAAAATACTATCA
11348541 TATCAT
1 TATCAT
11348547 CCATTCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (19 bp):
TATCATTAAAATACTATCA
Found at i:11356549 original size:14 final size:14
Alignment explanation
Indices: 11356530--11356569 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
11356520 TTGATTGACA
11356530 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
11356544 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
11356558 GAAAAATGTTTT
1 GTAAAATGTTTT
11356570 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:11356582 original size:34 final size:35
Alignment explanation
Indices: 11356538--11356604 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
11356528 CAGTAAAATG
* *
11356538 TTTTCCGTAAAATGA-TTTCTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGAAAAATATTTTAC
* *
11356572 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGAAAAATATTTT
11356605 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGAAAAATATTTTAC
Found at i:11356591 original size:20 final size:20
Alignment explanation
Indices: 11356553--11356592 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11356543 CGTAAAATGA
**
11356553 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGACTTACT
*
11356573 TTTCTGTAAAATGACTTACT
1 TTTCTGAAAAATGACTTACT
11356593 GGAAAATATT
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:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (20 bp):
TTTCTGAAAAATGACTTACT
Found at i:11358139 original size:13 final size:13
Alignment explanation
Indices: 11358121--11358146 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11358111 CCAGAAACTG
11358121 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
11358134 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
11358147 TACCCATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ATTTGCAGAAAAC
Found at i:11364177 original size:8 final size:8
Alignment explanation
Indices: 11364164--11364205 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
11364154 AACCTACGAA
11364164 ATTTTTTT
1 ATTTTTTT
11364172 A-TTTTTT
1 ATTTTTTT
11364179 ATTTTTTT
1 ATTTTTTT
* *
11364187 CGTATTTTT
1 -ATTTTTTT
11364196 ATTTTTTT
1 ATTTTTTT
11364204 AT
1 AT
11364206 ACTTTTTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 7 0.25
8 15 0.54
9 6 0.21
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (8 bp):
ATTTTTTT
Found at i:11364211 original size:17 final size:16
Alignment explanation
Indices: 11364164--11364212 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
11364154 AACCTACGAA
11364164 ATTTTTTTAT-TTTTT
1 ATTTTTTTATATTTTT
*
11364179 ATTTTTTTCGTATTTTT
1 ATTTTTTT-ATATTTTT
11364196 ATTTTTTTATACTTTTT
1 ATTTTTTTATA-TTTTT
11364213 TGATCACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 8 0.28
16 3 0.10
17 18 0.62
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (16 bp):
ATTTTTTTATATTTTT
Found at i:11367795 original size:25 final size:23
Alignment explanation
Indices: 11367737--11367802 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
11367727 ACAACTACTT
11367737 TTTTATATTAAAATA-TTTTTTTA
1 TTTT-TATTAAAATATTTTTTTTA
* * *
11367760 CTTTAAATAAAATATTATTATTTTA
1 TTTTTATTAAAATATT-TT-TTTTA
11367785 TTTTTATTAAAAATATTT
1 TTTTTATT-AAAATATTT
11367803 AAATATATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
22 8 0.24
23 4 0.12
24 2 0.06
25 11 0.33
26 8 0.24
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTATTAAAATATTTTTTTTA
Found at i:11368375 original size:60 final size:60
Alignment explanation
Indices: 11368276--11368394 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
11368266 TAAATTTTTT
* * * *
11368276 TAATTATTTTAAATTTAATTTGTTAGTAATTTAAGATTATGTTACAAATTGTTGTGTTTG
1 TAATAATTTAAAAATTAATTTATTAGTAATTTAAGATTATGTTACAAATTGTTGTGTTTG
* *
11368336 TAATAATTTAAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
1 TAATAATTTAAAAATTAATTTATTAGTAATTTAAGATTATGTTACAAATTGTTGTGTTT
11368395 AGTTTAGTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (60 bp):
TAATAATTTAAAAATTAATTTATTAGTAATTTAAGATTATGTTACAAATTGTTGTGTTTG
Found at i:11368760 original size:23 final size:23
Alignment explanation
Indices: 11368734--11368781 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
11368724 GTTATATAAA
* *
11368734 TTGTTAGTGTTTAGTTATGTATT
1 TTGTGAGTGTTTAGTAATGTATT
* *
11368757 TTGTGATTTTTTAGTAATGTATT
1 TTGTGAGTGTTTAGTAATGTATT
11368780 TT
1 TT
11368782 TTTAAATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (23 bp):
TTGTGAGTGTTTAGTAATGTATT
Found at i:11368825 original size:101 final size:103
Alignment explanation
Indices: 11368593--11368977 Score: 523
Period size: 101 Copynumber: 3.7 Consensus size: 103
11368583 TTATAGTTAT
* * **
11368593 TTATTTTGTTAGTAATTTATGGGATTAGG-T-TACACATTGTTAGTGTTTAG-TATAGGGTTTTG
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTATTTTG
*
11368655 TGATTTTTTTAGTAATTTAATTTTTTTTAAAATAATTTTATAG
64 TGATTTTTTTAGTAATGT-A-TTTTTTT-AAATAATTTTATAG
*
11368698 TTATTTTGTTAGTAATTTATGCTTAGGTTATATAAATTGTTAGTGTTTAGTTAT-GTATTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTATTTTGTG
11368762 A-TTTTTTAGTAATGTATTTTTTTAAATAATTTTATAG
66 ATTTTTTTAGTAATGTATTTTTTTAAATAATTTTATAG
*
11368799 TTATTTTGTTAGTAATTTATTATTAGGTTATATAAATTGTTAGTGTTTAGTTAT-GTATTTTTGT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTA-TTTTGT
* ***
11368863 AATTTTTTTAGTAATGTATTTTAAAAAAAAATAATTTTATAG
65 GATTTTTTTAGTAATGTATTTT---TTTAAATAATTTTATAG
* *
11368905 TTATTTTGTTAGTAATTTATGATTAGATTATATAAATTGTTAGTGTTTAGTT-TAGTGTTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTATTTTGTG
11368969 ATTTTTTTA
66 ATTTTTTTA
11368978 ATGTAATTTT
Statistics
Matches: 255, Mismatches: 16, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
101 69 0.27
102 14 0.05
103 26 0.10
104 14 0.05
105 63 0.25
106 69 0.27
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.56
Consensus pattern (103 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTATTTTGTG
ATTTTTTTAGTAATGTATTTTTTTAAATAATTTTATAG
Found at i:11368947 original size:207 final size:203
Alignment explanation
Indices: 11368593--11368988 Score: 548
Period size: 207 Copynumber: 1.9 Consensus size: 203
11368583 TTATAGTTAT
* * *
11368593 TTATTTTGTTAGTAATTTATGGGATTAGGTTACACATTGTTAGTGTTTAGTATAGGGTTTTGTGA
1 TTATTTTGTTAGTAATTTAT-GGATTAGGTTACAAATTGTTAGTGTTTAGTATAGAGTTTTGTAA
* **** *
11368658 TTTTTTTAGTAATTTAATTTTTTTTAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGCTTA
65 TTTTTTTAGTAATGTAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTA
* *
11368723 GGTTATATAAATTGTTAGTGTTTAG-TTATGTATTTTGTGATTTTTTAGTAATGTATTTTTTTAA
130 GATTATATAAATTGTTAGTGTTTAGTTTA-GTATTTTGTGATTTTTT--TAATGTAATTTTTTAA
11368787 ATAATTTTATAG
192 ATAATTTTATAG
* * *
11368799 TTATTTTGTTAGTAATTTAT-TATTAGGTTATATAAATTGTTAGTGTTTAGT-TATGTATTTTTG
1 TTATTTTGTTAGTAATTTATGGATTAGG-T-TACAAATTGTTAGTGTTTAGTATA-G-AGTTTTG
11368862 TAATTTTTTTAGTAATGT-ATTTTAAAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATG
62 TAATTTTTTTAGTAATGTAATTTT-AAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATG
*
11368926 ATTAGATTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTTAATGTAATTTTT
126 ATTAGATTATATAAATTGTTAGTGTTTAGTTTAGTATTTTGTGATTTTTTTAATGTAATTTTT
11368989 ATATAATGTA
Statistics
Matches: 169, Mismatches: 15, Indels: 13
0.86 0.08 0.07
Matches are distributed among these distances:
204 6 0.04
205 15 0.09
206 45 0.27
207 100 0.59
208 3 0.02
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.56
Consensus pattern (203 bp):
TTATTTTGTTAGTAATTTATGGATTAGGTTACAAATTGTTAGTGTTTAGTATAGAGTTTTGTAAT
TTTTTTAGTAATGTAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAG
ATTATATAAATTGTTAGTGTTTAGTTTAGTATTTTGTGATTTTTTTAATGTAATTTTTTAAATAA
TTTTATAG
Found at i:11369022 original size:18 final size:18
Alignment explanation
Indices: 11369001--11369043 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
11368991 ATAATGTAAT
*
11369001 TTTATTTGATAATTTTTA
1 TTTATTTGACAATTTTTA
11369019 TTTATTTGACAATTTTTA
1 TTTATTTGACAATTTTTA
*
11369037 TTGATTT
1 TTTATTT
11369044 ATTAAAACGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (18 bp):
TTTATTTGACAATTTTTA
Found at i:11370548 original size:132 final size:132
Alignment explanation
Indices: 11370311--11370572 Score: 497
Period size: 132 Copynumber: 2.0 Consensus size: 132
11370301 ATATACCGTT
11370311 TGATGATCGAGAATCATGTTGGAGAGGGGGTAAGTTTTTCCAATATCAACTTAATTTTATTATTT
1 TGATGATCGAGAATCATGTTGGAGAGGGGGTAAGTTTTTCCAATATCAACTTAATTTTATTATTT
*
11370376 TATCTCACTCAATCCGTGTTAATATAACAATGTTATTAACTGTGCAGTTCATTTGAATGTCGTAT
66 TATCTCACTCAACCCGTGTTAATATAACAATGTTATTAACTGTGCAGTTCATTTGAATGTCGTAT
11370441 CA
131 CA
*
11370443 TGATGATTGAGAATCATGTTGGAGAGGGGGTAAGTTTTTCCAATATCAACTTAATTTTATTATTT
1 TGATGATCGAGAATCATGTTGGAGAGGGGGTAAGTTTTTCCAATATCAACTTAATTTTATTATTT
*
11370508 TATCTCACTCAACCCGTGTTAATATAACAATGTTATTAACTGTGCAGTTCATTTGGATGTCGTAT
66 TATCTCACTCAACCCGTGTTAATATAACAATGTTATTAACTGTGCAGTTCATTTGAATGTCGTAT
11370573 TTTGTTTCAG
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 127 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (132 bp):
TGATGATCGAGAATCATGTTGGAGAGGGGGTAAGTTTTTCCAATATCAACTTAATTTTATTATTT
TATCTCACTCAACCCGTGTTAATATAACAATGTTATTAACTGTGCAGTTCATTTGAATGTCGTAT
CA
Found at i:11371240 original size:32 final size:33
Alignment explanation
Indices: 11371178--11371255 Score: 113
Period size: 32 Copynumber: 2.4 Consensus size: 33
11371168 ATCCACCTTA
* * *
11371178 GTACTTCAATCCTTCCGGCCCGTATACACTGCC
1 GTACTCCACTCCTCCCGGCCCGTATACACTGCC
*
11371211 GTACTCCACTCCTCCCGG-CCGTATCCACTGCC
1 GTACTCCACTCCTCCCGGCCCGTATACACTGCC
11371243 GTACTCCACTCCT
1 GTACTCCACTCCT
11371256 ATCGGCTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 26 0.63
33 15 0.37
ACGTcount: A:0.15, C:0.45, G:0.14, T:0.26
Consensus pattern (33 bp):
GTACTCCACTCCTCCCGGCCCGTATACACTGCC
Found at i:11371622 original size:78 final size:78
Alignment explanation
Indices: 11371453--11371830 Score: 543
Period size: 77 Copynumber: 4.9 Consensus size: 78
11371443 AATAACTTCA
* *
11371453 TATTTATGTAATAAATTTTTTGTCATTTTATTTATCAATTTTATGGGTTTTTTTTTTGCAATTTA
1 TATTTATGTAATGAATTTTTTGCCATTTTATTTATCAATTTTATGGG-TTTTTTTTTGCAATTTA
11371518 AATAGTCAACGTCA--
65 AATAGTCAAC-T-ATG
*
11371532 TATTTATGTAATGAATTTGTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTTGCAATTTAA
1 TATTTATGTAATGAATTTTTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTTGCAATTTAA
11371597 ATAGTCAACTATG
66 ATAGTCAACTATG
* * *
11371610 TATTTATGTAATGACTTTTTTTTCCATTTT-TTTATCAATTTTATGGG-TTTTTTTTCCAATTTA
1 TATTTATGTAATGA-ATTTTTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTTGCAATTTA
*
11371673 AATAGTCAACTTTG
65 AATAGTCAACTATG
* * * ** *
11371687 TATTTATGTAATGACTTTTTTGTCATTTTATTTATCAATTTGATGGG-GGTTTTTTACAATTTAA
1 TATTTATGTAATGAATTTTTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTTGCAATTTAA
*
11371751 ATAGTCAACTTTG
66 ATAGTCAACTATG
*
11371764 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTAT-GGTTTTTTTTTGCAATTTAA
1 TATTTATGTAATGAATTTTTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTTGCAATTTAA
11371828 ATA
66 ATA
11371831 AATAAACTTT
Statistics
Matches: 274, Mismatches: 20, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
76 15 0.05
77 145 0.53
78 58 0.21
79 56 0.20
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (78 bp):
TATTTATGTAATGAATTTTTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTTGCAATTTAA
ATAGTCAACTATG
Found at i:11371707 original size:43 final size:44
Alignment explanation
Indices: 11371658--11371793 Score: 105
Period size: 44 Copynumber: 3.3 Consensus size: 44
11371648 TTTTATGGGT
*
11371658 TTTTTTTCCAATTTAAATAGTCAACTTTGTATTTATGTAATGAC
1 TTTTTTGCCAATTTAAATAGTCAACTTTGTATTTATGTAATGAC
* * ** * **
11371702 TTTTTTGTCATTTTATTTA-TCAA-TTTG-----ATG---GGGG
1 TTTTTTGCCAATTTAAATAGTCAACTTTGTATTTATGTAATGAC
*
11371736 TTTTTT-ACAATTTAAATAGTCAACTTTGTATTTATGTAATGAC
1 TTTTTTGCCAATTTAAATAGTCAACTTTGTATTTATGTAATGAC
*
11371779 TTTTTTGCCATTTTA
1 TTTTTTGCCAATTTA
11371794 TTTATCAATT
Statistics
Matches: 64, Mismatches: 17, Indels: 22
0.62 0.17 0.21
Matches are distributed among these distances:
33 8 0.12
34 11 0.17
35 4 0.06
37 3 0.05
40 3 0.05
42 4 0.06
43 11 0.17
44 20 0.31
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.53
Consensus pattern (44 bp):
TTTTTTGCCAATTTAAATAGTCAACTTTGTATTTATGTAATGAC
Found at i:11373515 original size:106 final size:106
Alignment explanation
Indices: 11373324--11373861 Score: 814
Period size: 106 Copynumber: 5.1 Consensus size: 106
11373314 GTAACATGGA
* *
11373324 TTGAAA-TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCA-AAACCCAGCACGTTAGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAT-AGAAACCCAGCACGTTAGG
* * *
11373387 GCACGTTTTCTCAAATTTCCAAACGCAAAATATTACCTTGCT
65 GCACATTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
11373429 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
* * * *
11373494 CACATTTTCTCGATTTTCCAAACGTAAAATATTGTCTTACT
66 CACATTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
** * *
11373535 TTGAAATTTTAAAACAATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
* *
11373600 CAC-GTTTCTCAAATTTCCAAACGCAAAATATTGCCTTGCT
66 CACATTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
* * *
11373640 TTGAAATTTTAAAAGGATATTTGGCTATTTCGTCGAACGAAAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
* *
11373705 CACGTTTTCTCGAATTTACAAACGCAAAATATTGCCTTGCT
66 CACATTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
11373746 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCA-AAACCCAGCACGTTAGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAT-AGAAACCCAGCACGTTAGG
* * * *
11373810 GAACATTTTCTCGATTTTCCAAACGCAAAATATTGTCTTACT
65 GCACATTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
11373852 TTGAAATTTT
1 TTGAAATTTT
11373862 TGAATTAGAA
Statistics
Matches: 393, Mismatches: 36, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
105 101 0.26
106 292 0.74
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (106 bp):
TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
CACATTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
Found at i:11373692 original size:211 final size:211
Alignment explanation
Indices: 11373339--11373861 Score: 848
Period size: 211 Copynumber: 2.5 Consensus size: 211
11373329 ATTTAAGAGG
11373339 ATATTTGGCTATTTGGTCAAACGAGAAATCAAAACCCAGCACGTTAGGGCACGTTTTCTCAAATT
1 ATATTTGGCTATTTGGTCAAACGAGAAATCAAAACCCAGCACGTTAGGGCACG-TTTCTCAAATT
* *
11373404 TCCAAACGCAAAATATTACCTTGCTTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGA
65 TCCAAACGCAAAATATTGCCTTGCTTTGAAATTTTAAAAGGATATTTGGCTATTTCGTCGAACGA
* * * * *
11373469 GAAATAGAAACCCAGCACGTTAGGGCACATTTTCTCGATTTTCCAAACGTAAAATATTGTCTTAC
130 AAAATAGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTACAAACGCAAAATATTGCCTTAC
11373534 TTTGAAATTTTAAAACA
195 TTTGAAATTTTAAAACA
*
11373551 ATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCTCAAATTT
1 ATATTTGGCTATTTGGTCAAACGAGAAATCAAAACCCAGCACGTTAGGGCACGTTTCTCAAATTT
11373616 CCAAACGCAAAATATTGCCTTGCTTTGAAATTTTAAAAGGATATTTGGCTATTTCGTCGAACGAA
66 CCAAACGCAAAATATTGCCTTGCTTTGAAATTTTAAAAGGATATTTGGCTATTTCGTCGAACGAA
* * *
11373681 AAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAATTTACAAACGCAAAATATTGCCTTGCT
131 AAATAGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTACAAACGCAAAATATTGCCTTACT
**
11373746 TTGAAATTTTAAAAGG
196 TTGAAATTTTAAAACA
* * * * *
11373762 ATATTTGGCTATTTGGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGAACATTTTCTCGATTT
1 ATATTTGGCTATTTGGTCAAACGAGAAATCAAAACCCAGCACGTTAGGGCAC-GTTTCTCAAATT
* *
11373827 TCCAAACGCAAAATATTGTCTTACTTTGAAATTTT
65 TCCAAACGCAAAATATTGCCTTGCTTTGAAATTTT
11373862 TGAATTAGAA
Statistics
Matches: 289, Mismatches: 21, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
211 195 0.67
212 94 0.33
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (211 bp):
ATATTTGGCTATTTGGTCAAACGAGAAATCAAAACCCAGCACGTTAGGGCACGTTTCTCAAATTT
CCAAACGCAAAATATTGCCTTGCTTTGAAATTTTAAAAGGATATTTGGCTATTTCGTCGAACGAA
AAATAGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTACAAACGCAAAATATTGCCTTACT
TTGAAATTTTAAAACA
Found at i:11375300 original size:19 final size:18
Alignment explanation
Indices: 11375272--11375311 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
11375262 CATTATTTTT
11375272 TTTGTCGTTTTGTTATTTG
1 TTTGTCGTTTT-TTATTTG
* *
11375291 TTTGTTGTTTTTTTTTTG
1 TTTGTCGTTTTTTATTTG
11375309 TTT
1 TTT
11375312 CTATTGTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.03, C:0.03, G:0.17, T:0.78
Consensus pattern (18 bp):
TTTGTCGTTTTTTATTTG
Found at i:11376032 original size:44 final size:45
Alignment explanation
Indices: 11375960--11376077 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 45
11375950 TCATCATTTT
* * * *
11375960 AATCCGCTCCATTGCAGCTTCAGGGAGATATG-ATTAATAGCTTA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGAATTAATAGCTTA
* ** * *
11376004 AATCTGCTCCACTGCAACTTCAGAGAGAT-GGAATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGAATTAATAGCTTA
*
11376048 AACCTGCTCCACTGCAACTTCAGGGAGATA
1 AATCTGCTCCACTGCAACTTCAGGGAGATA
11376078 AGGCTTGATG
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.02
44 60 0.98
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAGGAATTAATAGCTTA
Found at i:11376152 original size:44 final size:44
Alignment explanation
Indices: 11376004--11376778 Score: 339
Period size: 44 Copynumber: 18.0 Consensus size: 44
11375994 TAATAGCTTA
* *
11376004 AATCTGCTCCACTGCAACTTCAGAGAGAT-GGA-AT-TGGTATCTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGT-T-TT
* * * * **
11376047 CAACCTGCTCCACTGCAACTTCAGGGAGATAAG-GCT-T-GATGC
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * *
11376089 GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
** * *
11376133 AATCCCCTCCACTGCAACTTCAG-GCAGATAGGAT-TG-GTTTCTT
1 AATCTGCTCCACTGCAACTTCAGAG-AGATAAGATCTGTGGTT-TT
** ** * * **
11376176 CTGTCTGCTCCACTATAACTTCAGGGAGATAAGA-C--TGGATAC
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * * * * *
11376218 GATCTACTCTACTGTAACTTCAGAGAGATAATATTTGTGGTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * * * *
11376262 AATCTGCTCCACTGTAACTTTAGGGAGATAGGAT-TG-GTTTCTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT
** * * *
11376305 CTGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGATGT
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * *
11376347 GATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * * *
11376391 AATCCGCTCCACCGCAACTTCAGAGAGATAGGAT-TG-GTTTCTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT
** * * **
11376434 CTGTCTACTCCACTGCAACTTCA-AGGAGATAAGA-C--TGGATGC
1 -AATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCTGTGGTTTT
* * * *
11376476 GATCTACTCTACTGCAACTTCAGAGGGATAAGATCTGTGGTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * *
11376520 AATCCGCTCCACTGTAACTTCA-AGGAGATAGGA--T-TGGTTTCT
1 AATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCTGTGGTTT-T
* * * **
11376562 --TCTGTTCACTCTACTGCAACTTCAGGGAGATAAGA--T-TGGATGC
1 AATCTG----CTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * * * * *
11376605 GATTTGCTCTACTGCAACTTAAGAGAGATAAGATTTATGGTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * * * **
11376649 AATCCGCTCCACTGCAATTTCAGGGAGATAGGAT-TG-ACTTCTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT
* * * * **
11376692 -CTGCCTGTTCCACTGCAACTTCAGGGAGATAAGA-C--TGGATAC
1 AAT--CTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * *
11376734 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAGTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
11376778 A
1 A
11376779 CCGATCTATT
Statistics
Matches: 538, Mismatches: 142, Indels: 102
0.69 0.18 0.13
Matches are distributed among these distances:
40 3 0.01
41 166 0.31
42 21 0.04
43 29 0.05
44 312 0.58
45 7 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
Found at i:11376207 original size:129 final size:128
Alignment explanation
Indices: 11376004--11376778 Score: 1095
Period size: 129 Copynumber: 6.0 Consensus size: 128
11375994 TAATAGCTTA
* * ***
11376004 AATCTGCTCCACTGCAACTTCAGAGAGAT-GGAATTGGTATCTTCAACCTGCTCCACTGCAACTT
1 AATCCGCTCCACTGCAACTTCAG-GAGATAGG-ATTGGTTTCTTCTGTCTGCTCCACTGCAACTT
* *
11376068 CAGGGAGATAAGGCTTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
64 CAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* **
11376133 AATCCCCTCCACTGCAACTTCAGGCAGATAGGATTGGTTTCTTCTGTCTGCTCCACTATAACTTC
1 AATCCGCTCCACTGCAACTTCAGG-AGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* * * *
11376198 AGGGAGATAAGACTGGATACGATCTACTCTACTGTAACTTCAGAGAGATAATATTTGTGGTTTT
65 AGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * *
11376262 AATCTGCTCCACTGTAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
1 AATCCGCTCCACTGCAACTTCA-GGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* * *
11376327 AGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTT
65 AGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* *
11376391 AATCCGCTCCACCGCAACTTCAGAGAGATAGGATTGGTTTCTTCTGTCTACTCCACTGCAACTTC
1 AATCCGCTCCACTGCAACTTCAG-GAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* *
11376456 AAGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGGGATAAGATCTGTGGTTTT
65 AGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * *
11376520 AATCCGCTCCACTGTAACTTCAAGGAGATAGGATTGGTTTCTTCTGT-TCACTCTACTGCAACTT
1 AATCCGCTCCACTGCAACTTC-AGGAGATAGGATTGGTTTCTTCTGTCT-GCTCCACTGCAACTT
* * * * * *
11376584 CAGGGAGATAAGATTGGATGCGATTTGCTCTACTGCAACTTAAGAGAGATAAGATTTATGGTTTT
64 CAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* ** * *
11376649 AATCCGCTCCACTGCAATTTCAGGGAGATAGGATTGACTTCTTCTGCCTGTTCCACTGCAACTTC
1 AATCCGCTCCACTGCAACTTCA-GGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* * *
11376714 AGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAGTTTT
65 AGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
11376778 A
1 A
11376779 CCGATCTATT
Statistics
Matches: 575, Mismatches: 63, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
128 4 0.01
129 564 0.98
130 7 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (128 bp):
AATCCGCTCCACTGCAACTTCAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCA
GGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
Found at i:11376352 original size:85 final size:85
Alignment explanation
Indices: 11376005--11376639 Score: 278
Period size: 85 Copynumber: 7.4 Consensus size: 85
11375995 AATAGCTTAA
* * * *** *
11376005 ATCTGCTCCACTGCAACTTCAGAGAGAT-GGAATTGGTATCTTCAACCTGCTCCACTGCAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTGGTTTCTTCTGTCTACTCCACTGCAACTTC
* * *
11376069 AGGGAGATAAGGCTTGATGCG
65 AGGGAGATAAGACTGGATGTG
* * * * ** **
11376090 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATCCCCTCCACTGCAACTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GTTTCTTCTGTCTACTCCACTGCAACTT
* * * * *
11376153 CAGGCAGATAGGATTGGTTTCTTCTG
64 CAGGGAGATAAGACTGG----ATGTG
** * * * * *
11376179 -TCTGCTCCACTATAACTTCAGGGAGATAAGACTGG---ATAC-GATCTACTCTACTGTAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTG-TCTACTCCACTGCAACTTC
* * * * * *
11376239 AGAGAGATAATATTTGTGGTTTTA
65 AGGGAGATAAGA---CTGGATGTG
* * * *
11376263 ATCTGCTCCACTGTAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTGTCTACTCCACTGCAACTTCA
11376328 GGGAGATAAGACTGGATGTG
66 GGGAGATAAGACTGGATGTG
* * * * ** ** *
11376348 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTT-TT-AATCCGCTCCACCGCAACTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GTTTCTTCTGTCTACTCCACTGCAACTT
* * * * *
11376411 CAGAGAGATAGGATTGGTTTCTTCTG
64 CAGGGAGATAAGACTGG----ATGTG
* * * * * *
11376437 -TCTACTCCACTGCAACTTCAAGGAGATAAGACTGG---ATGC-GATCTACTCTACTGCAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTG-TCTACTCCACTGCAACTTC
* * *
11376497 AGAGG-GATAAGATCTGTGGTTTTA
65 AG-GGAGATAAGA-C--TGGATGTG
* * * * *
11376521 ATCCGCTCCACTGTAACTTCAAGGAGATAGGATTGGTTTCTTCTGT-TCACTCTACTGCAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTGTCT-ACTCCACTGCAACTTC
* *
11376585 AGGGAGATAAGATTGGATGCG
65 AGGGAGATAAGACTGGATGTG
* * * *
11376606 ATTTGCTCTACTGCAACTTAAGAGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
11376640 TATGGTTTTA
Statistics
Matches: 411, Mismatches: 101, Indels: 76
0.70 0.17 0.13
Matches are distributed among these distances:
84 8 0.02
85 258 0.63
86 12 0.03
87 12 0.03
88 114 0.28
89 7 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (85 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTGTCTACTCCACTGCAACTTCA
GGGAGATAAGACTGGATGTG
Found at i:11383194 original size:22 final size:22
Alignment explanation
Indices: 11383169--11383213 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11383159 TTTAATAAAA
11383169 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
11383191 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
11383213 A
1 A
11383214 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:11387790 original size:22 final size:22
Alignment explanation
Indices: 11387765--11387809 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11387755 TTTAATAAAA
11387765 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
11387787 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
11387809 A
1 A
11387810 CAAGACCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:11392131 original size:15 final size:15
Alignment explanation
Indices: 11392113--11392144 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11392103 AAATAACGTA
*
11392113 GACATATAAAACGAT
1 GACATACAAAACGAT
11392128 GACATACAAAACGAT
1 GACATACAAAACGAT
11392143 GA
1 GA
11392145 AGACTATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (15 bp):
GACATACAAAACGAT
Found at i:11392877 original size:106 final size:106
Alignment explanation
Indices: 11392686--11393224 Score: 846
Period size: 106 Copynumber: 5.1 Consensus size: 106
11392676 ATAACATGGA
* * *
11392686 TTGAAA-TTTAATAGGATATTTGGCTATTTGGTCGAACGAGAAATCAAAACCCAACACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
** *
11392750 CACGTTTTCTCGAATTTCCAAACATAAAATATTACCTTGCT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
*
11392791 TTGAAATTTTAAAAGGATATTTGGCTATTTCGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
* * *
11392856 CACGTTTTCTCGATTTTCCAAAGGCAAAATATTGCCTTACT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
* *
11392897 TTGAAATTTTAAAACGATATTTGACTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
* *
11392962 CACGTTATCTCGAATTTCCAAACGTAAAATATTGCCTTGCT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
* * *
11393003 TTGAAATTTTGAAAGGATATTTGGCTATTTGGTCGAATGAGAAATCGAAACCCAGCACATTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
*
11393068 CACGTTTTCTCGAATTTCTAAACGCAAAATATTGCCTTGCT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
* *
11393109 TTGAAATTTTAAAATGATATTTGACTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
* * * * *
11393174 CATGTTTTCTCGATTTTACAAACGCAAAATATTGTCTTACT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
11393215 TTGAAATTTT
1 TTGAAATTTT
11393225 TGAATTAGAA
Statistics
Matches: 396, Mismatches: 37, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
105 6 0.02
106 390 0.98
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (106 bp):
TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
Found at i:11402948 original size:17 final size:17
Alignment explanation
Indices: 11402926--11402964 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
11402916 TATAATTAAT
11402926 TTTAAAATTTTAATATA
1 TTTAAAATTTTAATATA
11402943 TTTAAAATTTTAATATA
1 TTTAAAATTTTAATATA
*
11402960 CTTAA
1 TTTAA
11402965 TATATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTAAAATTTTAATATA
Found at i:11403177 original size:76 final size:74
Alignment explanation
Indices: 11402961--11403177 Score: 168
Period size: 76 Copynumber: 2.8 Consensus size: 74
11402951 TTTAATATAC
**
11402961 TTAATATATATTTTTAATAGGTAAAGACAAAAAAAAATTCGTAATATATTTAAAATTTTAAAAAA
1 TTAATA-A-ATTTTTAATAGGTAAAG---AAAAAAAATTTTTAATATATTTAAAATTTTAAAAAA
11403026 TATATTTTAAAAAA
61 TATATTTTAAAAAA
* * * * * * * * * * *
11403040 TTAA-ATATATTAAAAATGTTAAGTATAACAAA-TTTTAATATATTCAATATCTTTTTTAAAAAT
1 TTAATAAATTTTTAATAGGTAAAG-AAAAAAAATTTTTAATATATTTAA-A--ATTTTAAAAAAT
* ***
11403103 GTATTTTAAATTT
62 ATATTTTAAAAAA
11403116 TTAATAAATTTTTAATAGGTAAAGAGAAAAAAGATTTTTAATATATTTAAAATTTTAAAAAA
1 TTAATAAATTTTTAATAGGTAAAGA-AAAAAA-ATTTTTAATATATTTAAAATTTTAAAAAA
11403178 CACAAAAAAA
Statistics
Matches: 102, Mismatches: 29, Indels: 17
0.69 0.20 0.11
Matches are distributed among these distances:
73 12 0.12
74 7 0.07
76 45 0.44
77 17 0.17
78 3 0.03
79 18 0.18
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (74 bp):
TTAATAAATTTTTAATAGGTAAAGAAAAAAAATTTTTAATATATTTAAAATTTTAAAAAATATAT
TTTAAAAAA
Found at i:11403209 original size:17 final size:17
Alignment explanation
Indices: 11403184--11403220 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11403174 AAAACACAAA
11403184 AAAAATTTAAATATATT
1 AAAAATTTAAATATATT
* *
11403201 AAAATTTTAAATATGTT
1 AAAAATTTAAATATATT
11403218 AAA
1 AAA
11403221 GAAAATGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAAAATTTAAATATATT
Found at i:11403272 original size:70 final size:65
Alignment explanation
Indices: 11403193--11403324 Score: 174
Period size: 70 Copynumber: 2.0 Consensus size: 65
11403183 AAAAAATTTA
* * *
11403193 AATATATTAAAATTTTAAATATGTTAAAGAAAATGTTGAGTATAACATATTTTAAAATTTTAATA
1 AATATATTAAAATTTTAAACATATTAAA-AAAATGTTAAGTATAA-A-A-TTT-AAATTTTAATA
11403258 TACTT
61 TACTT
* *
11403263 AATATATTAAAATTTTGAACATATTAAAAAAATTTTAAGTATAAAATTTAAATTTTAATATA
1 AATATATTAAAATTTTAAACATATTAAAAAAATGTTAAGTATAAAATTTAAATTTTAATATA
11403325 TTTTTTAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
65 13 0.23
66 3 0.05
67 1 0.02
68 1 0.02
69 14 0.25
70 25 0.44
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.42
Consensus pattern (65 bp):
AATATATTAAAATTTTAAACATATTAAAAAAATGTTAAGTATAAAATTTAAATTTTAATATACTT
Found at i:11403289 original size:25 final size:25
Alignment explanation
Indices: 11403239--11403289 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
11403229 TGAGTATAAC
* *
11403239 ATATTTTAAAATTTTAATATACTTA
1 ATATATTAAAATTTTAACATACTTA
11403264 ATATATTAAAATTTTGAACATA-TTA
1 ATATATTAAAATTTT-AACATACTTA
11403289 A
1 A
11403290 AAAAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
ATATATTAAAATTTTAACATACTTA
Found at i:11403497 original size:19 final size:19
Alignment explanation
Indices: 11403473--11403513 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
11403463 ACATTTTTTT
* * *
11403473 AATATATTTAATTTCTTAA
1 AATATATTAAATATATTAA
11403492 AATATATTAAATATATTAA
1 AATATATTAAATATATTAA
11403511 AAT
1 AAT
11403514 TTTAAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AATATATTAAATATATTAA
Found at i:11403590 original size:71 final size:71
Alignment explanation
Indices: 11403417--11403556 Score: 210
Period size: 71 Copynumber: 2.0 Consensus size: 71
11403407 AAAATATATT
* * * * *
11403417 TTAAAAAATATTGAATATATTAAAAAATTAAAATTGGTTATACTTAACATTTTTTTAATATATTT
1 TTAAAATATATTAAATATATTAAAATATTAAAATTAGTTATACTTAACATTTTTCTAATATATTT
11403482 AATTTC
66 AATTTC
* *
11403488 TTAAAATATATTAAATATATTAAAATTTTAAAATTAGTTATATTTAACA-TTTTCTAATATATTT
1 TTAAAATATATTAAATATATTAAAATATTAAAATTAGTTATACTTAACATTTTTCTAATATATTT
11403552 AATTT
66 AATTT
11403557 TTTTTTAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
70 19 0.31
71 43 0.69
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (71 bp):
TTAAAATATATTAAATATATTAAAATATTAAAATTAGTTATACTTAACATTTTTCTAATATATTT
AATTTC
Found at i:11411559 original size:2 final size:2
Alignment explanation
Indices: 11411552--11411578 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11411542 GGAACCCCGG
11411552 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
11411579 CAGACGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11412668 original size:18 final size:19
Alignment explanation
Indices: 11412629--11412666 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11412619 ATTTAAAAAA
11412629 TAAATATTATCAATTTTTT
1 TAAATATTATCAATTTTTT
*
11412648 TAAATGTTATCAATTTTTT
1 TAAATATTATCAATTTTTT
11412667 AAGTTGCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (19 bp):
TAAATATTATCAATTTTTT
Found at i:11413244 original size:24 final size:24
Alignment explanation
Indices: 11413181--11413232 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11413171 TTTCTAGAAG
* * *
11413181 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11413205 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11413229 ATTT
1 ATTT
11413233 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:11420839 original size:24 final size:24
Alignment explanation
Indices: 11420776--11420827 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11420766 TTTTTAGAAG
* * *
11420776 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11420800 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11420824 ATTT
1 ATTT
11420828 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:11421460 original size:22 final size:23
Alignment explanation
Indices: 11421435--11421477 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11421425 ATTATGATCT
*
11421435 TTTAA-TTTTATAATATATTTAG
1 TTTAATTTTTATAAAATATTTAG
11421457 TTTAATTTTTATAAAATATTT
1 TTTAATTTTTATAAAATATTT
11421478 GAAACAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTAATTTTTATAAAATATTTAG
Found at i:11421747 original size:3 final size:3
Alignment explanation
Indices: 11421739--11421764 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11421729 ATCTCAAGTA
11421739 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
11421765 ATTTCATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11423684 original size:75 final size:73
Alignment explanation
Indices: 11423542--11423691 Score: 185
Period size: 73 Copynumber: 2.0 Consensus size: 73
11423532 TTTTAAGAAT
* * * * **
11423542 TAACACTATTATGCCAAAGTACCAAAGTGATGTACAGAAAAAAATATAAGTATCAAAATGAACAA
1 TAACACCATTAGGCCAAAGTACCAAAGTGATATACAGAAAAAAATATAAGTACCAAAACAAACAA
11423607 ATTAAAAG
66 ATTAAAAG
*
11423615 TAACACCATTAGGCCAGAA-TACCAAAGTGATATACGAGAAATAAAGTATAAGTACCAAAACAAA
1 TAACACCATTAGGCCA-AAGTACCAAAGTGATATAC-AGAAA-AAAATATAAGTACCAAAACAAA
* *
11423679 TAAATTGAAAG
63 CAAATTAAAAG
11423690 TA
1 TA
11423692 CAAATATCAT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
73 29 0.45
74 7 0.11
75 29 0.45
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (73 bp):
TAACACCATTAGGCCAAAGTACCAAAGTGATATACAGAAAAAAATATAAGTACCAAAACAAACAA
ATTAAAAG
Found at i:11425556 original size:33 final size:33
Alignment explanation
Indices: 11425515--11425583 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
11425505 ATAAAAATGG
*
11425515 TATTTAAATAACCTAATATAATGATACATGAAA
1 TATTTAAATAACCTAATATAATGATACATAAAA
**** *
11425548 TATTTAAATGGTTTGATATAATGATACATAAAA
1 TATTTAAATAACCTAATATAATGATACATAAAA
11425581 TAT
1 TAT
11425584 AAATTAATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.38
Consensus pattern (33 bp):
TATTTAAATAACCTAATATAATGATACATAAAA
Found at i:11426229 original size:23 final size:23
Alignment explanation
Indices: 11426202--11426252 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
11426192 TTTTTTTATC
11426202 AAAATATTACAAAA-AA-ATAAAAA
1 AAAATA-T-CAAAATAATATAAAAA
*
11426225 AAAATATCAAAATAATATACAAA
1 AAAATATCAAAATAATATAAAAA
11426248 AAAAT
1 AAAAT
11426253 TTAATTACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 5 0.20
22 3 0.12
23 17 0.68
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.20
Consensus pattern (23 bp):
AAAATATCAAAATAATATAAAAA
Found at i:11426235 original size:21 final size:25
Alignment explanation
Indices: 11426202--11426278 Score: 72
Period size: 29 Copynumber: 3.1 Consensus size: 25
11426192 TTTTTTTATC
11426202 AAAATATTACAAAA-AA-ATAAAAA
1 AAAATATTACAAAATAATATAAAAA
11426225 AAAATA-T-CAAAATAATATACAAAA
1 AAAATATTACAAAATAATATA-AAAA
* *
11426249 AAATTTAATTACCAAAATAATACAAAAA
1 AAA-AT-ATTA-CAAAATAATATAAAAA
11426277 AA
1 AA
11426279 GACGGCTGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
21 5 0.11
22 3 0.07
23 9 0.20
24 7 0.16
25 1 0.02
26 1 0.02
27 1 0.02
28 6 0.14
29 11 0.25
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (25 bp):
AAAATATTACAAAATAATATAAAAA
Found at i:11427489 original size:22 final size:21
Alignment explanation
Indices: 11427464--11427807 Score: 253
Period size: 22 Copynumber: 16.0 Consensus size: 21
11427454 TAGATTAGAA
*
11427464 TTTTGTATGAATATTTTAACTT
1 TTTTGTATGAATATTGTAA-TT
*
11427486 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGTAATT
11427507 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
11427525 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* *
11427546 ATTTTATAATTAA-ATTTGT-ATT
1 -TTTTGT-ATGAATA-TTGTAATT
* * * * *
11427568 TATAGTTTTGGAT-TAGTAATT
1 TTTTG-TATGAATATTGTAATT
11427589 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
11427608 TTTTGTATGAATATTATAATTT
1 TTTTGTATGAATATTGTAA-TT
11427630 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
*
11427655 AGTTTTGTATGAATATTGCAATTT
1 --TTTTGTATGAATATTGTAA-TT
11427679 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
* *
11427698 TTTTGTATGAATATTATATTTT
1 TTTTGTATGAATATTGTA-ATT
11427720 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
**
11427745 AATTTTGTATGAATATTACAATTT
1 --TTTTGTATGAATATTGTAA-TT
11427769 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
* *
11427788 TTTTGTATGAGTACTGTAAT
1 TTTTGTATGAATATTGTAAT
11427808 GTGGGGATAT
Statistics
Matches: 263, Mismatches: 32, Indels: 56
0.75 0.09 0.16
Matches are distributed among these distances:
18 3 0.01
19 66 0.25
20 21 0.08
21 21 0.08
22 94 0.36
23 11 0.04
24 6 0.02
25 8 0.03
26 2 0.01
27 31 0.12
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:11427535 original size:19 final size:19
Alignment explanation
Indices: 11427488--11427544 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
11427478 TTTAACTTTT
* *
11427488 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
11427508 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
11427527 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
11427545 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:11427547 original size:122 final size:123
Alignment explanation
Indices: 11427419--11427649 Score: 294
Period size: 122 Copynumber: 1.9 Consensus size: 123
11427409 TATTAATTAT
* * * *
11427419 TAATTA-TAAATTATCTATATTTAGTGTTTATA-ATTTAGATTAG-AA-TTTTGTATGAATATTT
1 TAATTATTAAATAAT-TAAATTT-GTATTTATAGATTTAGATTAGTAATTTTTGTATGAATATTG
11427480 TAACTTTTTTGTATGAATATTATAA-TTTTTT-TATGAATATTGTAATGTTGTATGAATATTG
64 TAA---TTTTGTATGAATATTATAATTTTTTTGTATGAATATTGTAATGTTGTATGAATATTG
** * *
11427541 TAATTATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGT
1 TAATTATTAAATAATTAAATTTGTATTTATAGATTTAGATTAGTAA-TTTTTGTATGAATATTGT
11427606 AATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGTAAT
65 AATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGTAAT
11427650 ATTATAGTTT
Statistics
Matches: 94, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
121 8 0.09
122 40 0.43
123 13 0.14
124 15 0.16
125 18 0.19
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.55
Consensus pattern (123 bp):
TAATTATTAAATAATTAAATTTGTATTTATAGATTTAGATTAGTAATTTTTGTATGAATATTGTA
ATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGTAATGTTGTATGAATATTG
Found at i:11427651 original size:49 final size:49
Alignment explanation
Indices: 11427598--11427794 Score: 266
Period size: 49 Copynumber: 4.2 Consensus size: 49
11427588 TTTTTGTATG
*
11427598 AATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* * *
11427647 AATATTATAGTTTTGTATGAATATTGCAA--TTTTT-T-TG--TA-TG-
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* *
11427688 AATATTGTAATTTTGTATGAATATTATATTTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
*
11427737 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
*
11427786 AATTTTGTA
1 AATATTGTA
11427795 TGAGTACTGT
Statistics
Matches: 126, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
41 24 0.19
42 2 0.02
43 7 0.06
44 1 0.01
45 4 0.03
46 1 0.01
47 7 0.06
48 2 0.02
49 78 0.62
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
Found at i:11427687 original size:90 final size:89
Alignment explanation
Indices: 11427486--11427797 Score: 426
Period size: 90 Copynumber: 3.6 Consensus size: 89
11427476 ATTTTAACTT
* * * *
11427486 TTTTGTATGAATATTATAATTTTTT-TATGAATATTGTAATGTTGTATGAATATTGTAATTATTT
1 TTTTGTATGAATATTACAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTTT
* *
11427550 TATAATTAA-ATTTGT-AT-TTATAG
66 TGT-ATGAATA-TTGTAATATTATAG
* *
11427573 TTTTG---GATTAGT--AATTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTTT
1 TTTTGTATGAATATTACAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTTT
11427633 TGTATGAATATTGTAATATTATAG
66 TGTATGAATATTGTAATATTATAG
* *
11427657 TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATTTTGTATGAATATTATATTTTTT
1 TTTTGTATGAATATTACAA-TTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTT
*
11427722 TTGTATGAATATTGTAATATTATAA
65 TTGTATGAATATTGTAATATTATAG
11427747 TTTTGTATGAATATTACAATTTTTTTGTATGAATATTGTAATTTTGTATGA
1 TTTTGTATGAATATTACAA-TTTTTTGTATGAATATTGTAATTTTGTATGA
11427798 GTACTGTAAT
Statistics
Matches: 203, Mismatches: 12, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
82 16 0.08
83 41 0.20
84 16 0.08
87 10 0.05
89 2 0.01
90 118 0.58
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (89 bp):
TTTTGTATGAATATTACAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTTT
TGTATGAATATTGTAATATTATAG
Found at i:11427929 original size:60 final size:60
Alignment explanation
Indices: 11427851--11427969 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
11427841 ATGAATATTA
* * * * * *
11427851 TAATTATTTTATAATTAATTTGTTAGTAATTTGGGATTATGTTATAAATTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTG
*
11427911 TAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGTTT
1 TAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTT
11427970 AGTTTAGTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 6 0.12
60 45 0.88
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTG
Found at i:11428048 original size:38 final size:38
Alignment explanation
Indices: 11428003--11428084 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
11427993 CATATAAAGT
11428003 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
11428041 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
11428079 TTATAA
1 TTATAA
11428085 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:11428162 original size:15 final size:15
Alignment explanation
Indices: 11428121--11428162 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
11428111 GTTAACTCAT
*
11428121 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
11428136 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
11428152 TTAAATTTTAT
1 TTAAATTTTAT
11428163 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:11433165 original size:22 final size:21
Alignment explanation
Indices: 11433130--11433174 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
11433120 TACCTAAATT
* *
11433130 TTTTCTTCTTTTCCTTCTTTC
1 TTTTCTTCTCTTCCTTCCTTC
11433151 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
11433173 TT
1 TT
11433175 ATTTCTTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:11434009 original size:22 final size:21
Alignment explanation
Indices: 11433974--11434018 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
11433964 TACCTAATTT
* *
11433974 TTTTCTTCTTTTCCTTCTTTC
1 TTTTCTTCTCTTCCTTCCTTC
11433995 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
11434017 TT
1 TT
11434019 ATTTCTTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:11434041 original size:844 final size:844
Alignment explanation
Indices: 11432416--11434102 Score: 3293
Period size: 844 Copynumber: 2.0 Consensus size: 844
11432406 CAACAGGAAA
*
11432416 ACTACTATAGTATACATCATCACCAACCACATCAGTCTCAGTTGCAGCATTAAGATCAATATTTA
1 ACTACTATAGTATACATCATCACCAACCACACCAGTCTCAGTTGCAGCATTAAGATCAATATTTA
11432481 TCCCATATATAGGTGATTGACTATCAACATACGATACCAGAACCACTATACACGGCGCTTCAACT
66 TCCCATATATAGGTGATTGACTATCAACATACGATACCAGAACCACTATACACGGCGCTTCAACT
11432546 CCATCTTCTTCACCTAATGGAGTGGGATCTTCAGTTGCCTCCACACTGGCTAACTCAGCAAATAA
131 CCATCTTCTTCACCTAATGGAGTGGGATCTTCAGTTGCCTCCACACTGGCTAACTCAGCAAATAA
*
11432611 CTGAATCGGTGCATTTTTTGTTACTCTCAGTCCCACAATAAAGAGCGACCATTGTCTCCACGTCT
196 CTGAATCGGTGCATTTTTTGTTACTCTCAGTCCCACAATAAAGAGCGACCATTGTCTCCACATCT
11432676 TCATCGTCTACAAGTTCCATTTCGGTAAATTTTATTGGATCTGTTGAAACTGAAAACTTGTAGAA
261 TCATCGTCTACAAGTTCCATTTCGGTAAATTTTATTGGATCTGTTGAAACTGAAAACTTGTAGAA
*
11432741 AACTTTTGATATCCTTCTCACACAATGTCTATAAATTTTTTCACTAATTTTTTCCTTCATGTCAT
326 AACTTTTGATATCCTTCTCACACAATGTCTATAAATTTTTTCACTAATTTTTTCCTTCATATCAT
11432806 CAAACGAGATATTTCTATCAAATCTCATTACTACTTGTTTGCGACATTCAAATATACATCCCACA
391 CAAACGAGATATTTCTATCAAATCTCATTACTACTTGTTTGCGACATTCAAATATACATCCCACA
11432871 GTTGTTGTCAAAATTTCTCCATCGAAATAAATGCATACAAAAAACTGATTCTCCATTTTCAATAC
456 GTTGTTGTCAAAATTTCTCCATCGAAATAAATGCATACAAAAAACTGATTCTCCATTTTCAATAC
11432936 TAGATCAGTAAAAAAGAATTTCAAATTTCTTAAAACAATTTCAAAATGTAAACAAATTACATAAA
521 TAGATCAGTAAAAAAGAATTTCAAATTTCTTAAAACAATTTCAAAATGTAAACAAATTACATAAA
*
11433001 AATTTTAATGTAAAATTTTTCATTCAGAAGCTAACAAAATTAATAACATGACAAAATAACTTTCA
586 AATTTTAATGCAAAATTTTTCATTCAGAAGCTAACAAAATTAATAACATGACAAAATAACTTTCA
11433066 AATAATAAAATTACTAACAATACTCTACATTCTATTTAAAAAGAAAAACCAAAATACCTAAATTT
651 AATAATAAAATTACTAACAATACTCTACATTCTATTTAAAAAGAAAAACCAAAATACCTAAATTT
11433131 TTTCTTCTTTTCCTTCTTTCTTTTCTTCTGCTTCCTTCCTTCTTATTTCTTTCGTTTCTGGAGTA
716 TTTCTTCTTTTCCTTCTTTCTTTTCTTCTGCTTCCTTCCTTCTTATTTCTTTCGTTTCTGGAGTA
11433196 AAATTTATGTCTGTGTTGGGGGTATTTATAGGGAAAAATAACAGCATTGGCGCCTCTCAGAATC
781 AAATTTATGTCTGTGTTGGGGGTATTTATAGGGAAAAATAACAGCATTGGCGCCTCTCAGAATC
11433260 ACTACTATAGTATACATCATCACCAACCACACCAGTCTCAGTTGCAGCATTAAGATCAATATTTA
1 ACTACTATAGTATACATCATCACCAACCACACCAGTCTCAGTTGCAGCATTAAGATCAATATTTA
*
11433325 TCCCATATATAGGTGATTGACTATCAACATACGATACCGGAACCACTATACACGGCGCTTCAACT
66 TCCCATATATAGGTGATTGACTATCAACATACGATACCAGAACCACTATACACGGCGCTTCAACT
*
11433390 CCATCTTCTTCACCTAATGGAGTGGGATTTTCAGTTGCCTCCACACTGGCTAACTCAGCAAATAA
131 CCATCTTCTTCACCTAATGGAGTGGGATCTTCAGTTGCCTCCACACTGGCTAACTCAGCAAATAA
*
11433455 TTGAATCGGTGCATTTTTTGTTACTCTCAGTCCCACAATAAAGAGCGACCATTGTCTCCACATCT
196 CTGAATCGGTGCATTTTTTGTTACTCTCAGTCCCACAATAAAGAGCGACCATTGTCTCCACATCT
11433520 TCATCGTCTACAAGTTCCATTTCGGTAAATTTTATTGGATCTGTTGAAACTGAAAACTTGTAGAA
261 TCATCGTCTACAAGTTCCATTTCGGTAAATTTTATTGGATCTGTTGAAACTGAAAACTTGTAGAA
*
11433585 AACTTTTGATATCCTTCTCCCACAATGTCTATAAATTTTTTCACTAATTTTTTCCTTCATATCAT
326 AACTTTTGATATCCTTCTCACACAATGTCTATAAATTTTTTCACTAATTTTTTCCTTCATATCAT
11433650 CAAACGAGATATTTCTATCAAATCTCATTACTACTTGTTTGCGACATTCAAATATACATCCCACA
391 CAAACGAGATATTTCTATCAAATCTCATTACTACTTGTTTGCGACATTCAAATATACATCCCACA
11433715 GTTGTTGTCAAAATTTCTCCATCGAAATAAATGCATACAAAAAACTGATTCTCCATTTTCAATAC
456 GTTGTTGTCAAAATTTCTCCATCGAAATAAATGCATACAAAAAACTGATTCTCCATTTTCAATAC
11433780 TAGATCAGTAAAAAAGAATTTCAAATTTCTTAAAACAATTTCAAAATGTAAACAAATTACATAAA
521 TAGATCAGTAAAAAAGAATTTCAAATTTCTTAAAACAATTTCAAAATGTAAACAAATTACATAAA
11433845 AATTTTAATGCAAAATTTTTCATTCAGAAGCTAACAAAATTAATAACATGACAAAATAACTTTCA
586 AATTTTAATGCAAAATTTTTCATTCAGAAGCTAACAAAATTAATAACATGACAAAATAACTTTCA
*
11433910 AATAATAAAATTACTAACAATACTCTACATTCTATTTAAAAAGAAAAACCAAAATACCTAATTTT
651 AATAATAAAATTACTAACAATACTCTACATTCTATTTAAAAAGAAAAACCAAAATACCTAAATTT
11433975 TTTCTTCTTTTCCTTCTTTCTTTTCTTCTGCTTCCTTCCTTCTTATTTCTTTCGTTTCTGGAGTA
716 TTTCTTCTTTTCCTTCTTTCTTTTCTTCTGCTTCCTTCCTTCTTATTTCTTTCGTTTCTGGAGTA
11434040 AAATTTATGTCTGTGTTGGGGGTATTTATAGGGAAAAATAACAGCATTGGCGCCTCTCAGAAT
781 AAATTTATGTCTGTGTTGGGGGTATTTATAGGGAAAAATAACAGCATTGGCGCCTCTCAGAAT
11434103 GGCACCACCA
Statistics
Matches: 834, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
844 834 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.35
Consensus pattern (844 bp):
ACTACTATAGTATACATCATCACCAACCACACCAGTCTCAGTTGCAGCATTAAGATCAATATTTA
TCCCATATATAGGTGATTGACTATCAACATACGATACCAGAACCACTATACACGGCGCTTCAACT
CCATCTTCTTCACCTAATGGAGTGGGATCTTCAGTTGCCTCCACACTGGCTAACTCAGCAAATAA
CTGAATCGGTGCATTTTTTGTTACTCTCAGTCCCACAATAAAGAGCGACCATTGTCTCCACATCT
TCATCGTCTACAAGTTCCATTTCGGTAAATTTTATTGGATCTGTTGAAACTGAAAACTTGTAGAA
AACTTTTGATATCCTTCTCACACAATGTCTATAAATTTTTTCACTAATTTTTTCCTTCATATCAT
CAAACGAGATATTTCTATCAAATCTCATTACTACTTGTTTGCGACATTCAAATATACATCCCACA
GTTGTTGTCAAAATTTCTCCATCGAAATAAATGCATACAAAAAACTGATTCTCCATTTTCAATAC
TAGATCAGTAAAAAAGAATTTCAAATTTCTTAAAACAATTTCAAAATGTAAACAAATTACATAAA
AATTTTAATGCAAAATTTTTCATTCAGAAGCTAACAAAATTAATAACATGACAAAATAACTTTCA
AATAATAAAATTACTAACAATACTCTACATTCTATTTAAAAAGAAAAACCAAAATACCTAAATTT
TTTCTTCTTTTCCTTCTTTCTTTTCTTCTGCTTCCTTCCTTCTTATTTCTTTCGTTTCTGGAGTA
AAATTTATGTCTGTGTTGGGGGTATTTATAGGGAAAAATAACAGCATTGGCGCCTCTCAGAATC
Found at i:11434133 original size:27 final size:27
Alignment explanation
Indices: 11434084--11434159 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
11434074 AAAATAACAG
* *
11434084 CATTGGCGCCTCTCAGA-ATGGCACCAC
1 CATTGGCACCTCCCAGATA-GGCACCAC
* * *
11434111 CATTGGCGCCTTCCAGGTAGGCACCAC
1 CATTGGCACCTCCCAGATAGGCACCAC
11434138 CATTGGCACCTCCCAGATAGGC
1 CATTGGCACCTCCCAGATAGGC
11434160 GCCAATACTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 41 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.24, T:0.18
Consensus pattern (27 bp):
CATTGGCACCTCCCAGATAGGCACCAC
Found at i:11435057 original size:20 final size:19
Alignment explanation
Indices: 11435034--11435076 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
11435024 AATAAAATTT
11435034 GGGGAAAAAATACGAACAAA
1 GGGG-AAAAATACGAACAAA
**
11435054 GGGGTGAAATACGAACAAA
1 GGGGAAAAATACGAACAAA
11435073 GGGG
1 GGGG
11435077 GGTGCTGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.49, C:0.09, G:0.35, T:0.07
Consensus pattern (19 bp):
GGGGAAAAATACGAACAAA
Found at i:11438618 original size:36 final size:35
Alignment explanation
Indices: 11438569--11438661 Score: 138
Period size: 36 Copynumber: 2.7 Consensus size: 35
11438559 CTTACATCGG
*
11438569 TGTAAGTCAATATTGATAAGGGACAAATGTTGTGT
1 TGTAAGTCAATATTGATAAGGGACAAATGATGTGT
11438604 TGTTAAGTCAATATTGATAAGGGACAAATGATGTGT
1 TG-TAAGTCAATATTGATAAGGGACAAATGATGTGT
11438640 TGT--G-CAAGTATTGATAAGGGAC
1 TGTAAGTCAA-TATTGATAAGGGAC
11438662 CAACTGAATA
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
32 3 0.05
33 15 0.27
35 3 0.05
36 34 0.62
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.32
Consensus pattern (35 bp):
TGTAAGTCAATATTGATAAGGGACAAATGATGTGT
Found at i:11438726 original size:20 final size:20
Alignment explanation
Indices: 11438698--11438812 Score: 79
Period size: 21 Copynumber: 5.7 Consensus size: 20
11438688 GTTGGAGTTT
11438698 GAATCGATTTAAACAAGAAA
1 GAATCGATTTAAACAAGAAA
* * * *
11438718 GAATTGATTCAAACAATAAT
1 GAATCGATTTAAACAAGAAA
** * *
11438738 G-ATTTAATTAAAGAAGCAAA
1 GAATCGATTTAAACAAG-AAA
*
11438758 GAATCGATTTAAAACAACAAA
1 GAATCGATTT-AAACAAGAAA
* * *
11438779 CAATCGATTCAAATAAGTAAA
1 GAATCGATTTAAACAAG-AAA
*
11438800 GAATCAATTTAAA
1 GAATCGATTTAAA
11438813 ACAACAAATA
Statistics
Matches: 69, Mismatches: 22, Indels: 7
0.70 0.22 0.07
Matches are distributed among these distances:
19 10 0.14
20 25 0.36
21 29 0.42
22 5 0.07
ACGTcount: A:0.54, C:0.10, G:0.11, T:0.24
Consensus pattern (20 bp):
GAATCGATTTAAACAAGAAA
Found at i:11439044 original size:40 final size:41
Alignment explanation
Indices: 11438982--11439146 Score: 151
Period size: 41 Copynumber: 4.0 Consensus size: 41
11438972 TGTTGGAGTT
* * * * *
11438982 TGAATCGAGTTAAACAA-TAAAGAATCGATTCAAATAA-TAA
1 TGAATCGA-TTAAAGAAGCAAAGAATCGATTAAAACAACAAA
11439022 TGAATCGATTAAAGAAGCAAAGAATCGATTTAAAACAACAAA
1 TGAATCGATTAAAGAAGCAAAGAATCGA-TTAAAACAACAAA
11439064 T-AATCGATTAAAGTAAGCAAAGAATCGATTTAAAACAA-AAA
1 TGAATCGATTAAAG-AAGCAAAGAATCGA-TTAAAACAACAAA
* * * **
11439105 -AAATCGATTCAAAGACGAAAAGAATTAATTTAAAACAACAAA
1 TGAATCGATT-AAAGAAGCAAAGAATCGA-TTAAAACAACAAA
11439147 CAAACCTAAC
Statistics
Matches: 109, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
39 7 0.06
40 18 0.17
41 50 0.46
42 34 0.31
ACGTcount: A:0.56, C:0.11, G:0.12, T:0.21
Consensus pattern (41 bp):
TGAATCGATTAAAGAAGCAAAGAATCGATTAAAACAACAAA
Found at i:11439063 original size:21 final size:21
Alignment explanation
Indices: 11438983--11439146 Score: 117
Period size: 20 Copynumber: 8.0 Consensus size: 21
11438973 GTTGGAGTTT
* *
11438983 GAATCGAGTT-AAACAATAAA
1 GAATCGATTTAAAACAACAAA
* * * *
11439003 GAATCGA-TTCAAATAATAAT
1 GAATCGATTTAAAACAACAAA
*
11439023 GAATCGA-TTAAAGA-AGCAAA
1 GAATCGATTTAAA-ACAACAAA
11439043 GAATCGATTTAAAACAACAAA
1 GAATCGATTTAAAACAACAAA
* **
11439064 TAATCGA-TTAAAGTAAGCAAA
1 GAATCGATTTAAAACAA-CAAA
11439085 GAATCGATTTAAAACAA-AAA
1 GAATCGATTTAAAACAACAAA
* * *
11439105 AAATCGATTCAAAGACGA-AAA
1 GAATCGATTTAAA-ACAACAAA
**
11439126 GAATTAATTTAAAACAACAAA
1 GAATCGATTTAAAACAACAAA
11439147 CAAACCTAAC
Statistics
Matches: 115, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.02
20 61 0.53
21 45 0.39
22 7 0.06
ACGTcount: A:0.56, C:0.11, G:0.12, T:0.21
Consensus pattern (21 bp):
GAATCGATTTAAAACAACAAA
Found at i:11439089 original size:42 final size:41
Alignment explanation
Indices: 11439024--11439146 Score: 176
Period size: 41 Copynumber: 3.0 Consensus size: 41
11439014 AATAATAATG
*
11439024 AATCGATTAAAGAAGCAAAGAATCGATTTAAAACAACAAAT
1 AATCGATTAAAGAAGCAAAGAATCGATTTAAAACAACAAAA
11439065 AATCGATTAAAGTAAGCAAAGAATCGATTTAAAACAA-AAAA
1 AATCGATTAAAG-AAGCAAAGAATCGATTTAAAACAACAAAA
* * **
11439106 AATCGATTCAAAGACGAAAAGAATTAATTTAAAACAACAAA
1 AATCGATT-AAAGAAGCAAAGAATCGATTTAAAACAACAAA
11439147 CAAACCTAAC
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
41 43 0.58
42 31 0.42
ACGTcount: A:0.58, C:0.11, G:0.11, T:0.20
Consensus pattern (41 bp):
AATCGATTAAAGAAGCAAAGAATCGATTTAAAACAACAAAA
Found at i:11439428 original size:47 final size:47
Alignment explanation
Indices: 11439338--11439455 Score: 116
Period size: 47 Copynumber: 2.6 Consensus size: 47
11439328 AGTCATTACC
* * *
11439338 TGGTTTTCCATTTCAGCAACAACAACAATACCAACTATTACATAAAA
1 TGGTTTTCCATTTCAACAAAAACAACAATACCAACTATCACATAAAA
* * * * * **
11439385 TGGTTTTCCATTTCAATAAAAATAACAGTACTAGCTATCACATAACC
1 TGGTTTTCCATTTCAACAAAAACAACAATACCAACTATCACATAAAA
*
11439432 TGGTTTTTCATTT--A-AAAAACAACA
1 TGGTTTTCCATTTCAACAAAAACAACA
11439456 CTATTACAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
44 9 0.15
45 1 0.02
47 49 0.83
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (47 bp):
TGGTTTTCCATTTCAACAAAAACAACAATACCAACTATCACATAAAA
Found at i:11439746 original size:22 final size:22
Alignment explanation
Indices: 11439721--11439783 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
11439711 GACATCTTAA
*
11439721 TTTCTTTTCTTCTTTTTCCTC-T
1 TTTCTTTTCTT-TTTTTACTCTT
* *
11439743 TTTCTCTTCTTTTTCTTATTCTT
1 TTTCTTTTCTTTTT-TTACTCTT
11439766 TTTCTTTTCTTTTTTTAC
1 TTTCTTTTCTTTTTTTAC
11439784 CGCCCAGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.09
22 17 0.50
23 14 0.41
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTCTTTTCTTTTTTTACTCTT
Found at i:11439755 original size:10 final size:9
Alignment explanation
Indices: 11439725--11439781 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
11439715 TCTTAATTTC
11439725 TTTTCTTCT
1 TTTTCTTCT
*
11439734 TTTTCCTCT
1 TTTTCTTCT
11439743 TTTCTCTTCT
1 TTT-TCTTCT
*
11439753 TTTTCTTAT
1 TTTTCTTCT
11439762 TCTTT-TTC-
1 T-TTTCTTCT
11439770 TTTTCTT-T
1 TTTTCTTCT
11439778 TTTT
1 TTTT
11439782 ACCGCCCAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
7 3 0.08
8 7 0.17
9 19 0.47
10 11 0.28
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTTCT
Found at i:11439764 original size:6 final size:6
Alignment explanation
Indices: 11439730--11439779 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
11439720 ATTTCTTTTC
* *
11439730 TTCTTT TTCCTCTT TTC-TC TTCTTT TTCTTA TTCTTT TTC-TT TTCTTT
1 TTCTTT TT-CT-TT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
11439778 TT
1 TT
11439780 TTACCGCCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
5 9 0.25
6 20 0.56
7 3 0.08
8 4 0.11
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (6 bp):
TTCTTT
Found at i:11439766 original size:12 final size:11
Alignment explanation
Indices: 11439721--11439779 Score: 66
Period size: 11 Copynumber: 5.3 Consensus size: 11
11439711 GACATCTTAA
11439721 TTTCTTTTCTT
1 TTTCTTTTCTT
* *
11439732 CTT-TTTCCTCT
1 TTTCTTTTCT-T
*
11439743 TTTCTCTTCTT
1 TTTCTTTTCTT
11439754 TTTCTTATTCTT
1 TTTCTT-TTCTT
11439766 TTTCTTTTCTT
1 TTTCTTTTCTT
11439777 TTT
1 TTT
11439780 TTACCGCCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 5 0.13
11 19 0.49
12 15 0.38
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:11442503 original size:184 final size:184
Alignment explanation
Indices: 11442189--11442541 Score: 526
Period size: 184 Copynumber: 1.9 Consensus size: 184
11442179 GTTGTGGAAT
* ** * * * *
11442189 GATGCTACATTATGCAGAAGTCATATACGTGATTTACCAACTTTTAGTTTCTTATCTATTTAAAC
1 GATGCTACATTATGCAGAACTCATATACCCGATGTACCAACTTTCAGTTCCTTATATATTTAAAC
* * * * *
11442254 TCAGACTTTCATTTACATCAAAGTATATGAGTCACGCATGCATAGTTTATCATCCATTTAGGATT
66 TCAGACTTTCATTTACATCAAAGTATATGAGTCACACATACATAGTCTATCATCCACTCAGGATT
11442319 AAGGTATACCACATTATGAACATCACAAGTGAATAAATCCATAAACAAATATAG
131 AAGGTATACCACATTATGAACATCACAAGTGAATAAATCCATAAACAAATATAG
* * *
11442373 GATGCTACATTATGCAGAACTCGTATACCCGATGTATCAACTTTCAGTTCCTTATATATTTGAAC
1 GATGCTACATTATGCAGAACTCATATACCCGATGTACCAACTTTCAGTTCCTTATATATTTAAAC
* * *
11442438 TCGGGCTTTCATTTACATCAAAGTATATGAGTCACACATACATAGTCTGTCATCCACTCAGGATT
66 TCAGACTTTCATTTACATCAAAGTATATGAGTCACACATACATAGTCTATCATCCACTCAGGATT
**
11442503 AAGGTATGTCACATTATGAACATCACAAGTGAATAAATC
131 AAGGTATACCACATTATGAACATCACAAGTGAATAAATC
11442542 TTAAATCCAT
Statistics
Matches: 149, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
184 149 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (184 bp):
GATGCTACATTATGCAGAACTCATATACCCGATGTACCAACTTTCAGTTCCTTATATATTTAAAC
TCAGACTTTCATTTACATCAAAGTATATGAGTCACACATACATAGTCTATCATCCACTCAGGATT
AAGGTATACCACATTATGAACATCACAAGTGAATAAATCCATAAACAAATATAG
Found at i:11454962 original size:31 final size:31
Alignment explanation
Indices: 11454924--11454996 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
11454914 TGTTTGGTTT
* *
11454924 AGGTACCAAATTGAATATTGAAACCAAATTC
1 AGGTACCAAATTGAACATTGAAACCAAACTC
* * *
11454955 AGGTACCAATTTGAACATTGAATCTAAACTC
1 AGGTACCAAATTGAACATTGAAACCAAACTC
*
11454986 AAGTACCAAAT
1 AGGTACCAAAT
11454997 AGTATATTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (31 bp):
AGGTACCAAATTGAACATTGAAACCAAACTC
Found at i:11456602 original size:17 final size:18
Alignment explanation
Indices: 11456572--11456617 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
11456562 ATTTAAATTA
11456572 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
11456590 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
11456606 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
11456618 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:11464511 original size:15 final size:17
Alignment explanation
Indices: 11464483--11464514 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
11464473 CGCCGCTGCT
11464483 GCACACACAGCCGCCGC
1 GCACACACAGCCGCCGC
11464500 GCACAC-CA-CCGCCGC
1 GCACACACAGCCGCCGC
11464515 CCCTGCTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.22, C:0.56, G:0.22, T:0.00
Consensus pattern (17 bp):
GCACACACAGCCGCCGC
Found at i:11464513 original size:18 final size:18
Alignment explanation
Indices: 11464462--11464515 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
11464452 CATCCTGTGA
* *
11464462 CGCACCACCAGCGCCGCTG
1 CGCA-CACCACCGCCGCCG
*
11464481 CTGCACA-CACAGCCGCCG
1 C-GCACACCACCGCCGCCG
11464499 CGCACACCACCGCCGCC
1 CGCACACCACCGCCGCC
11464516 CCTGCTGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 5 0.17
18 18 0.62
19 3 0.10
20 3 0.10
ACGTcount: A:0.19, C:0.56, G:0.22, T:0.04
Consensus pattern (18 bp):
CGCACACCACCGCCGCCG
Found at i:11468736 original size:16 final size:18
Alignment explanation
Indices: 11468715--11468748 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
11468705 TTTTACATTT
11468715 ATCTTAA-AAT-TAATTA
1 ATCTTAATAATGTAATTA
11468731 ATCTTAATAATGTAATTA
1 ATCTTAATAATGTAATTA
11468749 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (18 bp):
ATCTTAATAATGTAATTA
Found at i:11482650 original size:46 final size:44
Alignment explanation
Indices: 11482597--11482894 Score: 242
Period size: 44 Copynumber: 6.9 Consensus size: 44
11482587 ATTATACAGG
* *
11482597 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAA--TCAGA
* *
11482643 TCTTATCTCCCTGAGATTACAGCGGAGCGGATCAAAG-AT-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATCAG--A
* * * * *
11482687 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATCAGA
* * * * *
11482726 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC--A-CATCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAATCAGA
* *
11482767 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAA--TCAGA
* ** * *
11482813 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-GAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-AATCAGA
*
11482857 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGA
11482895 CACTATCCTA
Statistics
Matches: 200, Mismatches: 37, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 24 0.12
41 28 0.14
42 3 0.01
43 2 0.01
44 70 0.35
45 1 0.00
46 69 0.34
47 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATCAGA
Found at i:11484357 original size:15 final size:15
Alignment explanation
Indices: 11484337--11484371 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
11484327 TATTTTAATA
11484337 TATTATCATCATTAT
1 TATTATCATCATTAT
*
11484352 TATTATCATTATTAT
1 TATTATCATCATTAT
11484367 TATTA
1 TATTA
11484372 ACCTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTATCATCATTAT
Found at i:11484367 original size:12 final size:12
Alignment explanation
Indices: 11484337--11484369 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
11484327 TATTTTAATA
*
11484337 TATTATCATCAT
1 TATTATTATCAT
11484349 TATTATTATCAT
1 TATTATTATCAT
11484361 TATTATTAT
1 TATTATTAT
11484370 TAACCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTATTATCAT
Found at i:11484378 original size:15 final size:15
Alignment explanation
Indices: 11484337--11484383 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
11484327 TATTTTAATA
* *
11484337 TATTATCATCATTAT
1 TATTAACATTATTAT
*
11484352 TATTATCATTATTAT
1 TATTAACATTATTAT
*
11484367 TATTAACCTTATTAT
1 TATTAACATTATTAT
11484382 TA
1 TA
11484384 CTAGTAACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTAACATTATTAT
Found at i:11497566 original size:2 final size:2
Alignment explanation
Indices: 11497559--11497583 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11497549 TCTTCTTCGA
11497559 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
11497584 TAGCCTGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11500691 original size:24 final size:24
Alignment explanation
Indices: 11500648--11500694 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
11500638 TAACCACATC
*
11500648 TTTAATTCTTTACATCAAATTTAG
1 TTTAATTCTTTAAATCAAATTTAG
11500672 TTTAATTCATTTAAAT-AAATTTA
1 TTTAATTC-TTTAAATCAAATTTA
11500695 TCGCTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTAATTCTTTAAATCAAATTTAG
Found at i:11513541 original size:21 final size:21
Alignment explanation
Indices: 11513517--11513569 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
11513507 CATTGTTTCT
*
11513517 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
11513538 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
11513559 AATCTCACCGC
1 AATCTCACCGC
11513570 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:11514477 original size:91 final size:91
Alignment explanation
Indices: 11514308--11514515 Score: 292
Period size: 91 Copynumber: 2.3 Consensus size: 91
11514298 CGGACACTCT
* * * * *
11514308 AATTTGTGGATGAACCACCAGTG-TTGCAAGTTAATATGTTGCCAGTAAGTTGTGAATGCACAAT
1 AATTTGTGGATAAACCACCAGTGTTTGCAAGTTAATACGCTGCCAGTAAGTTGTGAATACACAAA
*
11514372 GGGTTTACAAATAAAAGCTGCCAGTA
66 GGGTTTACAAATAAAAGCTGCCAATA
* *
11514398 AATTTGTGGATAAACCACCAGTGTTTGCAGGTTAATACGCTGCCAGTAGGTTGTGAATACACAAA
1 AATTTGTGGATAAACCACCAGTGTTTGCAAGTTAATACGCTGCCAGTAAGTTGTGAATACACAAA
* ** *
11514463 GTGTTTGTAGATAAAAGCTGCCAATA
66 GGGTTTACAAATAAAAGCTGCCAATA
*
11514489 AATTTGTGGGTAAACCACCAGTGTTTG
1 AATTTGTGGATAAACCACCAGTGTTTG
11514516 TAGATAAACT
Statistics
Matches: 104, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 22 0.21
91 82 0.79
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (91 bp):
AATTTGTGGATAAACCACCAGTGTTTGCAAGTTAATACGCTGCCAGTAAGTTGTGAATACACAAA
GGGTTTACAAATAAAAGCTGCCAATA
Found at i:11514514 original size:46 final size:46
Alignment explanation
Indices: 11514382--11514523 Score: 155
Period size: 46 Copynumber: 3.1 Consensus size: 46
11514372 GGGTTTACAA
*
11514382 ATAAAAGCTGCCAGTAAATTTGTGGATAAACCACCAGTGTTTGCAGG
1 ATAAAAGCTGCCAGTAAATTTGTGGATAAACCACCAGTGTTTGTA-G
* * ** * * *
11514429 TTAATACGCTGCCAGT-AGGTTGTGAATACA-CA-AAGTGTTTGTAG
1 ATAA-AAGCTGCCAGTAAATTTGTGGATAAACCACCAGTGTTTGTAG
* *
11514473 ATAAAAGCTGCCAATAAATTTGTGGGTAAACCACCAGTGTTTGTAG
1 ATAAAAGCTGCCAGTAAATTTGTGGATAAACCACCAGTGTTTGTAG
11514519 ATAAA
1 ATAAA
11514524 CTACATTACT
Statistics
Matches: 74, Mismatches: 17, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
43 9 0.12
44 13 0.18
45 11 0.15
46 18 0.24
47 13 0.18
48 10 0.14
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (46 bp):
ATAAAAGCTGCCAGTAAATTTGTGGATAAACCACCAGTGTTTGTAG
Found at i:11518360 original size:15 final size:15
Alignment explanation
Indices: 11518322--11518360 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
11518312 CAAGTTACAG
*
11518322 AAACCCAACTAGCCT
1 AAACCCAATTAGCCT
11518337 AAACCCAATTAGCCT
1 AAACCCAATTAGCCT
*
11518352 AAGCCCAAT
1 AAACCCAAT
11518361 ACCCTGGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.36, G:0.08, T:0.15
Consensus pattern (15 bp):
AAACCCAATTAGCCT
Found at i:11526064 original size:18 final size:18
Alignment explanation
Indices: 11526041--11526077 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11526031 GGGAGATAAG
11526041 TGATTCTTGTTTCAGCTT
1 TGATTCTTGTTTCAGCTT
*
11526059 TGATTCTTGTTTCGGCTT
1 TGATTCTTGTTTCAGCTT
11526077 T
1 T
11526078 ATTATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.16, G:0.19, T:0.57
Consensus pattern (18 bp):
TGATTCTTGTTTCAGCTT
Found at i:11531048 original size:31 final size:31
Alignment explanation
Indices: 11531002--11531063 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
11530992 AAATTTATGT
* *
11531002 TAGTCAATTTTTACCAAGTAGCATAATAGCC
1 TAGTCAATTTGTACCAAGTAGCATAACAGCC
* *
11531033 TAGTCGATTTGTACCAAGTCGCATAACAGCC
1 TAGTCAATTTGTACCAAGTAGCATAACAGCC
11531064 CATATTTATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (31 bp):
TAGTCAATTTGTACCAAGTAGCATAACAGCC
Found at i:11532161 original size:19 final size:19
Alignment explanation
Indices: 11532134--11532174 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
11532124 TGGCAAAAAG
*
11532134 AATGAGAAATGAAATTTGA
1 AATGAGAAATGAAATGTGA
*
11532153 AATGGGAAATGAAATGTGA
1 AATGAGAAATGAAATGTGA
11532172 AAT
1 AAT
11532175 TGTGGATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (19 bp):
AATGAGAAATGAAATGTGA
Found at i:11538246 original size:12 final size:12
Alignment explanation
Indices: 11538208--11538247 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
11538198 TCTTTACTCG
*
11538208 CTTACTTACTTA
1 CTTACTTGCTTA
* *
11538220 CTCACTTGTTTA
1 CTTACTTGCTTA
11538232 CTTACTTGCTTA
1 CTTACTTGCTTA
11538244 CTTA
1 CTTA
11538248 AATAACTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.20, C:0.25, G:0.05, T:0.50
Consensus pattern (12 bp):
CTTACTTGCTTA
Found at i:11538571 original size:50 final size:50
Alignment explanation
Indices: 11538496--11538688 Score: 224
Period size: 50 Copynumber: 3.7 Consensus size: 50
11538486 TTTTCTGTAC
* * * * **
11538496 TGCCAATGCTATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
11538546 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
11538596 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
11538652 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
11538689 TCTCATTCCC
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 81 0.68
53 2 0.02
56 37 0.31
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:11566308 original size:10 final size:10
Alignment explanation
Indices: 11566295--11566327 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
11566285 AAAAACGATT
11566295 AAAAATCATA
1 AAAAATCATA
11566305 AAAAATCAT-
1 AAAAATCATA
11566314 AAAAAT-ATA
1 AAAAATCATA
11566323 AAAAA
1 AAAAA
11566328 AATATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 11 0.50
10 9 0.41
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAATCATA
Found at i:11566316 original size:19 final size:19
Alignment explanation
Indices: 11566294--11566360 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
11566284 TAAAAACGAT
11566294 TAAAAATCAT-AAAAAATCA
1 TAAAAATCATAAAAAAAT-A
11566313 TAAAAAT-ATAAAAAAAATA
1 TAAAAATCAT-AAAAAAATA
* * *
11566332 TAAAATTTATCAAAAAATA
1 TAAAAATCATAAAAAAATA
11566351 TAAAAATCAT
1 TAAAAATCAT
11566361 TAAATATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.05
19 30 0.73
20 9 0.22
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (19 bp):
TAAAAATCATAAAAAAATA
Found at i:11566327 original size:9 final size:9
Alignment explanation
Indices: 11566295--11566356 Score: 61
Period size: 10 Copynumber: 6.4 Consensus size: 9
11566285 AAAAACGATT
11566295 AAAAATCATA
1 AAAAAT-ATA
11566305 AAAAATCATA
1 AAAAAT-ATA
*
11566315 AAAATATAAA
1 AAAA-ATATA
11566325 AAAAATATA
1 AAAAATATA
**
11566334 AAATTTATCA
1 AAAAATAT-A
11566344 AAAAATATA
1 AAAAATATA
11566353 AAAA
1 AAAA
11566357 TCATTAAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
9 15 0.34
10 27 0.61
11 2 0.05
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAAATATA
Found at i:11566426 original size:11 final size:10
Alignment explanation
Indices: 11566397--11566517 Score: 71
Period size: 9 Copynumber: 12.4 Consensus size: 10
11566387 TGATATAACC
11566397 TTAT-AAATA
1 TTATAAAATA
11566406 TTAT-AAATA
1 TTATAAAATA
11566415 TTATAAAAATA
1 TTAT-AAAATA
*
11566426 TAATAAAATA
1 TTATAAAATA
*
11566436 TGTGT-AAA-A
1 T-TATAAAATA
11566445 TTATAAAA-A
1 TTATAAAATA
*
11566454 TAATAAAATA
1 TTATAAAATA
* *
11566464 TGTGTAAAATT
1 T-TATAAAATA
11566475 TTATAAAA-A
1 TTATAAAATA
11566484 TTTATTAAAAT-
1 -TTA-TAAAATA
11566495 TCTATAAAA-A
1 T-TATAAAATA
*
11566505 TCATAAAAT-
1 TTATAAAATA
11566514 TTAT
1 TTAT
11566518 TTAAAAAATT
Statistics
Matches: 88, Mismatches: 12, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
8 2 0.02
9 35 0.40
10 28 0.32
11 23 0.26
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (10 bp):
TTATAAAATA
Found at i:11566435 original size:30 final size:31
Alignment explanation
Indices: 11566401--11566512 Score: 108
Period size: 30 Copynumber: 3.7 Consensus size: 31
11566391 ATAACCTTAT
11566401 AAATAT-TATAAATATTATAAAAATATAATA
1 AAATATGTATAAATATTATAAAAATATAATA
*
11566431 AAATATGTGTAAA-ATTAT-AAAA-ATAATA
1 AAATATGTATAAATATTATAAAAATATAATA
* * * *
11566459 AAATATGTGTAAAATTTTATAAAAATTTATTA
1 AAATATGTAT-AAATATTATAAAAATATAATA
* * *
11566491 AAAT-TCTATAAAAATCATAAAA
1 AAATATGTATAAATATTATAAAA
11566513 TTTATTTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
28 16 0.24
29 7 0.10
30 25 0.37
31 12 0.18
32 8 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (31 bp):
AAATATGTATAAATATTATAAAAATATAATA
Found at i:11566449 original size:22 final size:21
Alignment explanation
Indices: 11566401--11566510 Score: 63
Period size: 21 Copynumber: 5.4 Consensus size: 21
11566391 ATAACCTTAT
*
11566401 AAATATTAT-AAATATTATAA
1 AAATATAATAAAATATTATAA
*
11566421 AAATATAATAAAATATGTGT-A
1 AAATATAATAAAATAT-TATAA
*
11566442 AAAT-T-ATAAAA-ATAAT-A
1 AAATATAATAAAATATTATAA
** *
11566459 AAATATGTGTAAAATTTTATAA
1 AAATAT-AATAAAATATTATAA
* *
11566481 AAATTTATTAAAAT-TCTATAA
1 AAATATAATAAAATAT-TATAA
11566502 AAATCATAA
1 AAAT-ATAA
11566511 AATTTATTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
17 6 0.09
18 3 0.04
19 6 0.09
20 15 0.22
21 29 0.42
22 10 0.14
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (21 bp):
AAATATAATAAAATATTATAA
Found at i:11569621 original size:31 final size:29
Alignment explanation
Indices: 11569556--11569670 Score: 90
Period size: 28 Copynumber: 3.9 Consensus size: 29
11569546 ATTATGTACC
* * * * *
11569556 GGTGATTATATTTATCAGGTACTTTGTATC
1 GGTG-TTATATTTATCAAGCACTATGTGTT
*
11569586 GGTGTTCATGTTGTATC-AGACACTATGTGTT
1 GGTGTT-ATATT-TATCAAG-CACTATGTGTT
11569617 GGTGTTATATTTATCAAGCACTATGTG-T
1 GGTGTTATATTTATCAAGCACTATGTGTT
* * * *
11569645 CGTGTTATAATTATCAGGTACTATGT
1 GGTGTTATATTTATCAAGCACTATGT
11569671 ACCGATGGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
28 23 0.33
29 15 0.21
30 15 0.21
31 17 0.24
ACGTcount: A:0.23, C:0.11, G:0.22, T:0.43
Consensus pattern (29 bp):
GGTGTTATATTTATCAAGCACTATGTGTT
Done.