Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 345 of 362
Found at i:114625141 original size:23 final size:23
Alignment explanation
Indices: 114625116--114625189 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
114625106 ATAAGTGCAA
114625116 CACTGATATGTAGCCGAAGCCTA-
1 CACTGATATGTAGCCGAAG-CTAC
114625139 CACTGA-ATGTAGCCG-AGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
114625160 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
114625183 CACTGAT
1 CACTGAT
114625190 CAATAACACG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.07
21 8 0.17
22 17 0.37
23 18 0.39
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:114625151 original size:22 final size:22
Alignment explanation
Indices: 114625116--114625188 Score: 96
Period size: 22 Copynumber: 3.3 Consensus size: 22
114625106 ATAAGTGCAA
114625116 CACTGATATGTAGCCGAAGCCTA-
1 CACTGA-ATGTAGCCGAAG-CTAC
114625139 CACTGAATGTAGCCG-AGCTAC
1 CACTGAATGTAGCCGAAGCTAC
*
114625160 CACTGAAACGTAGCCGAAGCTAC
1 CACTG-AATGTAGCCGAAGCTAC
114625183 CACTGA
1 CACTGA
114625189 TCAATAACAC
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
20 3 0.07
21 7 0.15
22 19 0.41
23 17 0.37
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.18
Consensus pattern (22 bp):
CACTGAATGTAGCCGAAGCTAC
Found at i:114632438 original size:23 final size:23
Alignment explanation
Indices: 114632412--114632486 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
114632402 CATAAGTGCA
114632412 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
114632435 CACTGA-ATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
114632457 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
114632480 CACTGAT
1 CACTGAT
114632487 CAATAACACT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 22 0.45
23 27 0.55
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:114632729 original size:17 final size:17
Alignment explanation
Indices: 114632709--114632746 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
114632699 AATTTCCTTC
*
114632709 CACAT-TCAATATTAATT
1 CACATATCAA-ATAAATT
114632726 CACATATCAAATAAATT
1 CACATATCAAATAAATT
114632743 CACA
1 CACA
114632747 ATTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (17 bp):
CACATATCAAATAAATT
Found at i:114639810 original size:23 final size:23
Alignment explanation
Indices: 114639784--114639858 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
114639774 ATAAGTGCAA
*
114639784 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
114639807 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
114639830 CACTGAAACGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
114639853 CACTGA
1 CACTGA
114639859 TCAATAACAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.17
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:114651244 original size:12 final size:12
Alignment explanation
Indices: 114651223--114651252 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
114651213 ATTTAATTAA
114651223 ATAAAAATAAAC
1 ATAAAAATAAAC
*
114651235 ATAAACATAAAC
1 ATAAAAATAAAC
114651247 ATAAAA
1 ATAAAA
114651253 GACTTTACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (12 bp):
ATAAAAATAAAC
Found at i:114651584 original size:19 final size:17
Alignment explanation
Indices: 114651546--114651585 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
114651536 AGCTGCGAAG
*
114651546 AAGAAGAGAAGAAGATA
1 AAGAAGAGAAGAAGAGA
114651563 AAGAAGAGAGAGAGAGAGA
1 AAGAAGAGA-AGA-AGAGA
114651582 AAGA
1 AAGA
114651586 GTCTCGCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 3 0.15
19 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (17 bp):
AAGAAGAGAAGAAGAGA
Found at i:114652834 original size:25 final size:25
Alignment explanation
Indices: 114652806--114652857 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
114652796 CTATTAATAT
114652806 TTATATTAATATCAAA-TAAATAAAA
1 TTATATTAATATCAAATTAAA-AAAA
* *
114652831 TTATATTTATATTAAATTAAAAAAA
1 TTATATTAATATCAAATTAAAAAAA
114652856 TT
1 TT
114652858 CCCTCCATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
TTATATTAATATCAAATTAAAAAAA
Found at i:114653939 original size:15 final size:15
Alignment explanation
Indices: 114653919--114653950 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
114653909 AGTTGTTCCC
*
114653919 TTTTTCTTTTTTTCT
1 TTTTTCTTTCTTTCT
114653934 TTTTTCTTTCTTTCT
1 TTTTTCTTTCTTTCT
114653949 TT
1 TT
114653951 CTTCATTCCT
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTCTTTCTTTCT
Found at i:114653945 original size:4 final size:4
Alignment explanation
Indices: 114653921--114653953 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
114653911 TTGTTCCCTT
*
114653921 TTTC TTTT TTTC TTT- TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
114653954 CATTCCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (4 bp):
TTTC
Found at i:114654099 original size:13 final size:13
Alignment explanation
Indices: 114654081--114654113 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
114654071 TATTATATTG
*
114654081 TTTGTTTGAATTA
1 TTTGTTTCAATTA
114654094 TTTG-TTCAATTA
1 TTTGTTTCAATTA
114654106 TTTGTTTC
1 TTTGTTTC
114654114 TATTTTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.64
Consensus pattern (13 bp):
TTTGTTTCAATTA
Found at i:114656716 original size:43 final size:43
Alignment explanation
Indices: 114656668--114656780 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
114656658 TGACAATTTT
* * *
114656668 AATATTTCGTAAGATGGTAAGCAAATAGCATACGAATAAAACA
1 AATATTTCGTAACATGGTAAACAAATAGCATACAAATAAAACA
** * **
114656711 AATATTTTTTAACATGGTAAATAAATATTATACAAATAAAACA
1 AATATTTCGTAACATGGTAAACAAATAGCATACAAATAAAACA
* *
114656754 AATA-TTCTTTAACACGGTAAACAAATA
1 AATATTTC-GTAACATGGTAAACAAATA
114656781 TTATATCAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 2 0.03
43 56 0.97
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (43 bp):
AATATTTCGTAACATGGTAAACAAATAGCATACAAATAAAACA
Found at i:114656781 original size:43 final size:43
Alignment explanation
Indices: 114656683--114656804 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 43
114656673 TTCGTAAGAT
* ** * * *
114656683 GGTAAGCAAATAGCATACGAATAAAACAAATATTTTTTAACAT
1 GGTAAACAAATATTATACAAATAAAACAAATATTCTTTAACAC
*
114656726 GGTAAATAAATATTATACAAATAAAACAAATATTCTTTAACAC
1 GGTAAACAAATATTATACAAATAAAACAAATATTCTTTAACAC
* *
114656769 GGTAAACAAATATTATATCAATATTATACAAATATT
1 GGTAAACAAATATTATA-CAA-ATAAAACAAATATT
114656805 GAAGCAATAT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
43 52 0.78
44 3 0.04
45 12 0.18
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (43 bp):
GGTAAACAAATATTATACAAATAAAACAAATATTCTTTAACAC
Found at i:114656812 original size:22 final size:22
Alignment explanation
Indices: 114656774--114656815 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
114656764 AACACGGTAA
*
114656774 ACAAATATTATATCAATATTAT
1 ACAAATATTATAGCAATATTAT
114656796 ACAAATATTGA-AGCAATATT
1 ACAAATATT-ATAGCAATATT
114656816 TTATCAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (22 bp):
ACAAATATTATAGCAATATTAT
Found at i:114658397 original size:42 final size:43
Alignment explanation
Indices: 114658347--114658449 Score: 145
Period size: 42 Copynumber: 2.4 Consensus size: 43
114658337 CCTGATCAAT
114658347 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
** * * *
114658389 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
114658433 ATACGACACATAAAGTG
1 ATACGACACATAAAGTG
114658450 TCTGATCGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 37 0.73
44 14 0.27
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:114658399 original size:23 final size:21
Alignment explanation
Indices: 114658347--114658442 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
114658337 CCTGATCAAT
** * *
114658347 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
114658368 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
114658389 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
114658410 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
114658431 AAATACGACACA
1 --ATACGACACA
114658443 TAAAGTGTCT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 57 0.85
23 10 0.15
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:114658853 original size:15 final size:15
Alignment explanation
Indices: 114658827--114658883 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
114658817 CATATATATT
114658827 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
*
114658841 ATAGAATTTCAATCA
1 ATATAATTTCAATCA
*
114658856 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
114658871 ATATAAATTCAAT
1 ATATAATTTCAAT
114658884 AAATTCATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 5 0.14
15 32 0.86
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:114659179 original size:21 final size:20
Alignment explanation
Indices: 114659155--114659196 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
114659145 TCCCCTGCTC
*
114659155 TCTATTTCGTTTCATTCTGTT
1 TCTATTTCCTTTC-TTCTGTT
*
114659176 TCTATTTCCTTTCTTTTGTT
1 TCTATTTCCTTTCTTCTGTT
114659196 T
1 T
114659197 ATTTAGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.07, C:0.19, G:0.07, T:0.67
Consensus pattern (20 bp):
TCTATTTCCTTTCTTCTGTT
Found at i:114659214 original size:5 final size:5
Alignment explanation
Indices: 114659206--114659242 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
114659196 TATTTAGTTT
114659206 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
114659243 TAAAACATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:114660421 original size:42 final size:42
Alignment explanation
Indices: 114660371--114660482 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
114660361 CTTCATTTTC
** *
114660371 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
114660414 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
* *
114660455 TCGATGCCATAGCCTAGCTATGGTCTTA
1 TCGATGCCATAGCCCAACTATGGTCTTA
114660483 TACGAATCAC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
41 2 0.03
42 59 0.95
43 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:114660558 original size:47 final size:46
Alignment explanation
Indices: 114660456--114660579 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
114660446 ATTCATATAT
* * * * *
114660456 CGATGCCATAGCCTAGCTATGGTCTTATACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
** * *
114660502 TAATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
114660549 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
114660580 GAAATCACTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 26 0.39
47 40 0.61
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:114660640 original size:31 final size:31
Alignment explanation
Indices: 114660604--114660783 Score: 245
Period size: 31 Copynumber: 5.8 Consensus size: 31
114660594 CTTGTCACTT
*
114660604 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
114660635 ATAGCCGAAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
114660666 GTAGCCGGAGCTACCACTTTTCGCTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
114660697 GTAGCTAGAA-CTACCACTTTTCACTGATCAG
1 GTAGC-CGAAGCTACCACTTTTCACTGATCAG
*
114660728 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
114660759 GTAGCTGAAGCTATCACTTATCACT
1 GTAGCCGAAGCTACCACTTTTCACT
114660784 TTCACTTTTC
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
30 4 0.03
31 126 0.95
32 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:114669487 original size:30 final size:30
Alignment explanation
Indices: 114669441--114669511 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
114669431 TTTAATAGTC
* *
114669441 TAAATTTTTATAATTTTTAAAGA-ATTAAAT
1 TAAAATTTTATAA-TTTTAAAGAGATTAAAG
*
114669471 TAAAATTTTATTATTTTAAAGAGATTAAAG
1 TAAAATTTTATAATTTTAAAGAGATTAAAG
*
114669501 TATAATTTTAT
1 TAAAATTTTAT
114669512 CTTTATTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 9 0.25
30 27 0.75
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (30 bp):
TAAAATTTTATAATTTTAAAGAGATTAAAG
Found at i:114670282 original size:10 final size:11
Alignment explanation
Indices: 114670257--114670281 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
114670247 TGTTTGATAA
114670257 TTTTAATTATT
1 TTTTAATTATT
114670268 TTTTAATTATT
1 TTTTAATTATT
114670279 TTT
1 TTT
114670282 ATCCTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTAATTATT
Found at i:114679940 original size:31 final size:31
Alignment explanation
Indices: 114679878--114679941 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
114679868 AAAAACCAAC
* * * **
114679878 AAATTGACTCTTTTTTAAAGGTAGATGGTCA
1 AAATCGACTCTTTTTAAAAGATAGAAAGTCA
114679909 AAATCGACTCTTTTTAAAAGATAGAAAGTCA
1 AAATCGACTCTTTTTAAAAGATAGAAAGTCA
114679940 AA
1 AA
114679942 TTTAGCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (31 bp):
AAATCGACTCTTTTTAAAAGATAGAAAGTCA
Found at i:114684528 original size:35 final size:35
Alignment explanation
Indices: 114684470--114684552 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 35
114684460 TTAGTTGTAT
114684470 TTAATTAATTTAAATCGAATTATTCAATTCAAGTAA
1 TTAATTAATTTAAATCGAATTATTCAATTC-AGTAA
* * *
114684506 TTAATTTA-TTAAATTGAGTTATTCAATTCAGTAA
1 TTAATTAATTTAAATCGAATTATTCAATTCAGTAA
*
114684540 TTATAATAATTTA
1 TTA-ATTAATTTA
114684553 TCTTAATTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
34 8 0.20
35 22 0.55
36 10 0.25
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (35 bp):
TTAATTAATTTAAATCGAATTATTCAATTCAGTAA
Found at i:114689691 original size:16 final size:17
Alignment explanation
Indices: 114689672--114689704 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
114689662 AAGTCTTACA
114689672 AAAAAAAAAAGA-AAAG
1 AAAAAAAAAAGAGAAAG
*
114689688 AAAAGAAAAAGAGAAAG
1 AAAAAAAAAAGAGAAAG
114689705 TGTTTGCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAGAAAG
Found at i:114694926 original size:30 final size:30
Alignment explanation
Indices: 114694892--114694953 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
114694882 TTCGAGCTTC
*
114694892 TTCCAACCGCCCTGCTTTTCTCGGTAAGTT
1 TTCCAACAGCCCTGCTTTTCTCGGTAAGTT
* *
114694922 TTCCAACAGCTCTGCTTTTCTCGTTAAGTT
1 TTCCAACAGCCCTGCTTTTCTCGGTAAGTT
114694952 TT
1 TT
114694954 TCCCTTCGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.42
Consensus pattern (30 bp):
TTCCAACAGCCCTGCTTTTCTCGGTAAGTT
Found at i:114697305 original size:33 final size:33
Alignment explanation
Indices: 114697255--114697317 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
114697245 TGTACTTTAT
*
114697255 TTTATTTTTTTATATATTCTTTAAAAATTTGAG
1 TTTATTTTTTGATATATTCTTTAAAAATTTGAG
* *
114697288 TTTATTTATTTGA-ATATTTTTTATAAATTT
1 TTTATTT-TTTGATATATTCTTTAAAAATTT
114697318 TAAATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 22 0.85
34 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (33 bp):
TTTATTTTTTGATATATTCTTTAAAAATTTGAG
Found at i:114697999 original size:25 final size:25
Alignment explanation
Indices: 114697967--114698017 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
114697957 TCTTTAATTA
114697967 TTTATGCTTTATTTGTTTTACTCAT
1 TTTATGCTTTATTTGTTTTACTCAT
114697992 TTTATGCTTTATTTGTTTTACTCAT
1 TTTATGCTTTATTTGTTTTACTCAT
114698017 T
1 T
114698018 CTAAAATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.65
Consensus pattern (25 bp):
TTTATGCTTTATTTGTTTTACTCAT
Found at i:114699161 original size:15 final size:15
Alignment explanation
Indices: 114699118--114699164 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
114699108 CTTATGTTTC
114699118 ATTTTAATTATTTAT
1 ATTTTAATTATTTAT
* * *
114699133 GTTTAAAATA-TTAT
1 ATTTTAATTATTTAT
114699147 ATTTTAATTATTTAT
1 ATTTTAATTATTTAT
114699162 ATT
1 ATT
114699165 ATTATTTTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
ATTTTAATTATTTAT
Found at i:114699943 original size:17 final size:18
Alignment explanation
Indices: 114699908--114699946 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
114699898 AAACATAAAC
114699908 TTAAAATTTTATAAATAT
1 TTAAAATTTTATAAATAT
*
114699926 TTAAAATTTTA-CAATAT
1 TTAAAATTTTATAAATAT
114699943 TTAA
1 TTAA
114699947 TATAACTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAATTTTATAAATAT
Found at i:114701471 original size:41 final size:42
Alignment explanation
Indices: 114701412--114701497 Score: 156
Period size: 41 Copynumber: 2.1 Consensus size: 42
114701402 TTTAAAGTTA
114701412 AGTGACTTAAATCGTAAACCTATTAAAAGTTTAGTGATCTTT
1 AGTGACTTAAATCGTAAACCTATTAAAAGTTTAGTGATCTTT
*
114701454 AGTGACTT-AATCGTAAACCTATTAATAGTTTAGTGATCTTT
1 AGTGACTTAAATCGTAAACCTATTAAAAGTTTAGTGATCTTT
114701495 AGT
1 AGT
114701498 TAGTTTGCCC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 35 0.81
42 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (42 bp):
AGTGACTTAAATCGTAAACCTATTAAAAGTTTAGTGATCTTT
Found at i:114710050 original size:90 final size:90
Alignment explanation
Indices: 114709581--114710038 Score: 754
Period size: 90 Copynumber: 5.1 Consensus size: 90
114709571 AATGTTTGAA
* *
114709581 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCTGATTGGACTTCCTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGATTGGACATCCTT
114709646 TTTAGAACGAAACAAGGAATGGAAT
66 TTTAGAACGAAACAAGGAATGGAAT
* *
114709671 CGTCGCCGTCTTCTTCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGATTGGACATCCTT
114709736 TTTAGAACGAAACAAGGAATGGAAT
66 TTTAGAACGAAACAAGGAATGGAAT
* * *
114709761 CGTCGTCGTCTTCTTCAAGACGAAGATAGACTTCCGGTTATTGGCCATTCCGATTGGACATCCTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGATTGGACATCCTT
114709826 TTTAGAACGAAACAAGGAATGGAAT
66 TTTAGAACGAAACAAGGAATGGAAT
* * *
114709851 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTGTCGGCCATTCCGATTAGACATCCTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGATTGGACATCCTT
*
114709916 TTTAGAACGAAACAAAGAATGGAAT
66 TTTAGAACGAAACAAGGAATGGAAT
* * * *
114709941 CGTCGTCGTCTTCTCCAAGACGAAGATAGACTTCCGGTTATCGGCCATTCCGATTGGACATCATT
1 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGATTGGACATCCTT
* *
114710006 TTTAGAACGGAACAAGGAATGGAAC
66 TTTAGAACGAAACAAGGAATGGAAT
*
114710031 CGCCGCCG
1 CGTCGCCG
114710039 GATGCTCCAA
Statistics
Matches: 344, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 344 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (90 bp):
CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGATTGGACATCCTT
TTTAGAACGAAACAAGGAATGGAAT
Found at i:114711268 original size:51 final size:51
Alignment explanation
Indices: 114711208--114711573 Score: 525
Period size: 51 Copynumber: 7.2 Consensus size: 51
114711198 AAAACTGAAG
* * * *
114711208 ACAAAGGGTTGATCCCTACGTCCCTAGATGTTCCCGCTAGTAAACCCGAAA
1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
*
114711259 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCTGAAA
1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
114711310 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
* * * *
114711361 ACAGTGGGCTCATCCCTACCTCTCCAGATGTTTCCGCTAGTAAACCCGAAA
1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
* * * * *
114711412 ACAGTGGGGTGATCCCTACCTCCCCAAATGTTCCCGTTAGTAAACCCGAAA
1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
* *
114711463 ACAATGGGTTCATCCCTACCTCCCCAGATGTTTCCGTTAGTAAACCCGAAA
1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
* * * * * * *
114711514 ACAGTGGGTTGATCCCTATCTCTCCAGATCTTTCCGCTAGTAAACCTGAAA
1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
114711565 ACAATGGGT
1 ACAATGGGT
114711574 GGTCTCTATC
Statistics
Matches: 286, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 286 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (51 bp):
ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
Found at i:114711680 original size:21 final size:21
Alignment explanation
Indices: 114711656--114711703 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
114711646 ACACAAGAAA
114711656 AAGAAGCACCATGGAAAAGGG
1 AAGAAGCACCATGGAAAAGGG
*
114711677 AAGAAGCACCATGGGAAAGGG
1 AAGAAGCACCATGGAAAAGGG
114711698 AAGAAG
1 AAGAAG
114711704 AAAGGGAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.48, C:0.12, G:0.35, T:0.04
Consensus pattern (21 bp):
AAGAAGCACCATGGAAAAGGG
Found at i:114718067 original size:17 final size:18
Alignment explanation
Indices: 114718027--114718068 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
114718017 GTTCTTTTAA
* *
114718027 TTAATTATAATTACGTAT
1 TTAAATATAATAACGTAT
114718045 TT-AATATAATAACGT-T
1 TTAAATATAATAACGTAT
114718061 TTAAATAT
1 TTAAATAT
114718069 TTGTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 3 0.14
17 16 0.76
18 2 0.10
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (18 bp):
TTAAATATAATAACGTAT
Found at i:114718533 original size:21 final size:22
Alignment explanation
Indices: 114718494--114718534 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
114718484 AAAAAAATAT
*
114718494 AAAATTGATTGATGAATTAAAA
1 AAAATTGATTAATGAATTAAAA
*
114718516 AAAATTG-TTAATGGATTAA
1 AAAATTGATTAATGAATTAA
114718535 TTTTCCATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (22 bp):
AAAATTGATTAATGAATTAAAA
Found at i:114727933 original size:14 final size:14
Alignment explanation
Indices: 114727914--114727941 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
114727904 AAAATATGAC
114727914 CAATATGGTCATTA
1 CAATATGGTCATTA
114727928 CAATATGGTCATTA
1 CAATATGGTCATTA
114727942 TTAGTTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
CAATATGGTCATTA
Found at i:114734956 original size:83 final size:81
Alignment explanation
Indices: 114734794--114735165 Score: 265
Period size: 82 Copynumber: 4.5 Consensus size: 81
114734784 AAGCTCGAAT
* * * * * * *
114734794 TTAGCAAGTAGTACCCATAAAAAGTGTGTGCTCAAATAATTAGCCAAGTGTCTTAAAAGGTTAGC
1 TTAGCAAGCAGTA-CC-TCAAAGGTGTGTGCTCAAATAATTGGCTAAGTGTCTTAAGAGGCTAG-
* * *
114734859 AATG-G-TTCTACTATTAAC
63 AA-GCGATTTTGCTATTAGC
* * *
114734877 TTAGGAAGCAGTACACTCAAAGCGAGTGTGCTCAAATAATTGGTTAAGT-TCCTTAAGAGGCTAG
1 TTAGCAAGCAGTAC-CTCAAAG-GTGTGTGCTCAAATAATTGGCTAAGTGT-CTTAAGAGGCTAG
114734941 AAGC-AGTTTTGCTATTAGC
63 AAGCGA-TTTTGCTATTAGC
* * * * *
114734960 TTCA-CAAGCAG-ATCTTCAAAGGGTGCGTGCCCAACTAATTGGCTAAGTGTCTTAAGAGGCTTG
1 TT-AGCAAGCAGTA-CCTCAAA-GGTGTGTGCTCAAATAATTGGCTAAGTGTCTTAAGAGGCTAG
*
114735023 CAGCGATTTTGCTATTAGC
63 AAGCGATTTTGCTATTAGC
* * * *
114735042 TTAGCAAGCAGTACCCTCAAA-GTGTGTTCTCAAATAATTAGCTAAGTGTCTT-AGAAGACTAGC
1 TTAGCAAGCAGTA-CCTCAAAGGTGTGTGCTCAAATAATTGGCTAAGTGTCTTAAG-AGGCTAGA
* * * *
114735105 AGTGATTCTACTATTAAC
64 AGCGATTTTGCTATTAGC
* * **
114735123 TTTAGCAAGTAGGACGCTCAAACAATGTGTGCTCAAATAATTG
1 -TTAGCAAGCAGTAC-CTCAAA-GGTGTGTGCTCAAATAATTG
114735166 TTTCAATGCC
Statistics
Matches: 231, Mismatches: 40, Indels: 35
0.75 0.13 0.11
Matches are distributed among these distances:
80 2 0.01
81 49 0.21
82 89 0.39
83 74 0.32
84 17 0.07
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (81 bp):
TTAGCAAGCAGTACCTCAAAGGTGTGTGCTCAAATAATTGGCTAAGTGTCTTAAGAGGCTAGAAG
CGATTTTGCTATTAGC
Found at i:114735188 original size:84 final size:84
Alignment explanation
Indices: 114735100--114735254 Score: 213
Period size: 84 Copynumber: 1.8 Consensus size: 84
114735090 TCTTAGAAGA
* * **
114735100 CTAGCAGTGATTCTACTATTAACTTTAGCAAGTAGGACGCTCAAACAAT-GTGTGCTCAAATAAT
1 CTAGCAGTGATTCTACTATTAACTTTAGCAAGTACGACCCTCAAAC-ATCGTGAACTCAAATAAT
*
114735164 TGTTTCAATGCCTTCAAAGG
65 TGATTCAATGCCTTCAAAGG
* * * *
114735184 CTAGCAGTGGTTCTGCTATTAACTTTGGCAAGTACTACCCTCAAACATCGTGAACTCAAATAATT
1 CTAGCAGTGATTCTACTATTAACTTTAGCAAGTACGACCCTCAAACATCGTGAACTCAAATAATT
114735249 GATTCA
66 GATTCA
114735255 TTGTCTTGGA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
83 2 0.03
84 59 0.97
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (84 bp):
CTAGCAGTGATTCTACTATTAACTTTAGCAAGTACGACCCTCAAACATCGTGAACTCAAATAATT
GATTCAATGCCTTCAAAGG
Found at i:114735279 original size:84 final size:84
Alignment explanation
Indices: 114735110--114735286 Score: 194
Period size: 84 Copynumber: 2.1 Consensus size: 84
114735100 CTAGCAGTGA
* * ** *
114735110 TTCTACTATTAACTTTAGCAAGTAGGACGCTCAAACAATGTGTGCTCAAATAATTGTTTCAATGC
1 TTCTACTATTAACTTTAGCAAGTACGACCCTCAAACAATGTGAACTCAAATAATTGATTCAATGC
* *
114735175 CTTCAAAGGCTAGCAGTGG
66 CTTCAAAGGCCAGCAATGG
* * * *
114735194 TTCTGCTATTAACTTTGGCAAGTACTACCCTCAAAC-ATCGTGAACTCAAATAATTGATTCATTG
1 TTCTACTATTAACTTTAGCAAGTACGACCCTCAAACAAT-GTGAACTCAAATAATTGATTCAATG
* ** *
114735258 TCTTGGATGGCCAGCAATGG
65 CCTTCAAAGGCCAGCAATGG
*
114735278 TTTTACTAT
1 TTCTACTAT
114735287 AACGTAGTGA
Statistics
Matches: 75, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
83 2 0.03
84 73 0.97
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (84 bp):
TTCTACTATTAACTTTAGCAAGTACGACCCTCAAACAATGTGAACTCAAATAATTGATTCAATGC
CTTCAAAGGCCAGCAATGG
Found at i:114743098 original size:21 final size:21
Alignment explanation
Indices: 114743073--114743112 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
114743063 GTATTAAGTC
114743073 AATAAAAATGCA-AAAAATAAT
1 AATAAAAAT-CATAAAAATAAT
*
114743094 AATAAATATCATAAAAATA
1 AATAAAAATCATAAAAATA
114743113 TGTGAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (21 bp):
AATAAAAATCATAAAAATAAT
Found at i:114750163 original size:43 final size:44
Alignment explanation
Indices: 114750115--114750323 Score: 216
Period size: 43 Copynumber: 4.9 Consensus size: 44
114750105 GTTACCGAGA
*
114750115 TGTGATTACATGTAAGACCAAGTCTGGGACATTGGCATTGTT-T
1 TGTGATTACATGTAAGACCAAGTCTGGGACATTGGCATCGTTAT
* * * *
114750158 TGTGATTACATGTAAGACCATGTCTGGGGCATTGACATCATTAT
1 TGTGATTACATGTAAGACCAAGTCTGGGACATTGGCATCGTTAT
* *
114750202 T-CGATTACGTGTAAGACCATA-TCTGGGACATTGGCATCGTTAT
1 TGTGATTACATGTAAGACCA-AGTCTGGGACATTGGCATCGTTAT
* * ** * *
114750245 T-TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATA-
1 TGTGATTACATGTAAGACCAAGTCTGGGACATTGGCATCGTTAT
* *
114750287 TGTGATAACATGTAAGACCATA-TCTGGGATA-TGGCAT
1 TGTGATTACATGTAAGACCA-AGTCTGGGACATTGGCAT
114750324 TGTACGAGCT
Statistics
Matches: 138, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
42 7 0.05
43 129 0.93
44 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (44 bp):
TGTGATTACATGTAAGACCAAGTCTGGGACATTGGCATCGTTAT
Found at i:114750268 original size:86 final size:86
Alignment explanation
Indices: 114750114--114750323 Score: 259
Period size: 86 Copynumber: 2.5 Consensus size: 86
114750104 GGTTACCGAG
*
114750114 ATGTGATTACATGTAAGACCA-AGTCTGGGACATTGGCATTGTTTTGTGATTACATGTAAGACCA
1 ATGTGATTACATGTAAGACCATA-TCTGGGACATTGGCATCGTTTTGTGATTACATGTAAGACCA
* *
114750178 TGTCTGGGGCATTGACATC-ATT
65 TGTCTGGGACAGTGACATCGA-T
* * *
114750200 AT-TCGATTACGTGTAAGACCATATCTGGGACATTGGCATCGTTATT-TGATTTCGTGTAAGACC
1 ATGT-GATTACATGTAAGACCATATCTGGGACATTGGCATCGTT-TTGTGATTACATGTAAGACC
* *
114750263 CTGTCTGGGACAGTGGCATCGAT
64 ATGTCTGGGACAGTGACATCGAT
* *
114750286 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCAT
114750324 TGTACGAGCT
Statistics
Matches: 108, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
85 7 0.06
86 96 0.89
87 5 0.05
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (86 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTTTTGTGATTACATGTAAGACCAT
GTCTGGGACAGTGACATCGAT
Found at i:114751744 original size:36 final size:36
Alignment explanation
Indices: 114751677--114751777 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 36
114751667 TAATAGTCAT
* * * * * *
114751677 TAACAATCAGTCAATCAG-AACAATTATTTATTCAG
1 TAACAATCAGTTATTCGGTAACAATCAATTATTCAA
*
114751712 TAACAGTCAGTTATTCGGTAACAATCAATTATTCAA
1 TAACAATCAGTTATTCGGTAACAATCAATTATTCAA
* * *
114751748 TAATAATCAGTTATTCTGTATCAATCAATT
1 TAACAATCAGTTATTCGGTAACAATCAATT
114751778 GATCGGTTAT
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
35 14 0.26
36 40 0.74
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (36 bp):
TAACAATCAGTTATTCGGTAACAATCAATTATTCAA
Found at i:114751849 original size:19 final size:19
Alignment explanation
Indices: 114751704--114751851 Score: 72
Period size: 18 Copynumber: 7.7 Consensus size: 19
114751694 GAACAATTAT
* *
114751704 TTATTCAGTAACAGTC-AG
1 TTATTCAGTAACAATCAAA
*
114751722 TTATTCGGTAACAATC-AA
1 TTATTCAGTAACAATCAAA
* * *
114751740 TTATTCAATAATAATC-AG
1 TTATTCAGTAACAATCAAA
* *
114751758 TTATTCTGTATCAATCAATTGA
1 TTATTCAGTAACAATCAA---A
* *
114751780 TCGGTTATCCAGTAACAGTC-AA
1 ----TTATTCAGTAACAATCAAA
* *
114751802 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAACAATCAAA
* *
114751821 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAATCAAA
114751839 TTATTCAGTAACA
1 TTATTCAGTAACA
114751852 GTCGATCTTT
Statistics
Matches: 95, Mismatches: 25, Indels: 19
0.68 0.18 0.14
Matches are distributed among these distances:
18 68 0.72
19 13 0.14
22 1 0.01
25 1 0.01
26 12 0.13
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:114752096 original size:12 final size:12
Alignment explanation
Indices: 114752079--114752103 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114752069 AGTGCCGAAT
114752079 CGGTAACAGTAA
1 CGGTAACAGTAA
114752091 CGGTAACAGTAA
1 CGGTAACAGTAA
114752103 C
1 C
114752104 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:114752276 original size:19 final size:20
Alignment explanation
Indices: 114752229--114752276 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
114752219 CACTTTCCAG
*
114752229 TTTTCAATTAATTCATATTT
1 TTTTCAATTAACTCATATTT
*
114752249 TAATT-AATTAACT-ATATTT
1 T-TTTCAATTAACTCATATTT
114752268 TTTTCAATT
1 TTTTCAATT
114752277 CAATATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 8 0.35
21 2 0.09
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTCAATTAACTCATATTT
Found at i:114752319 original size:20 final size:20
Alignment explanation
Indices: 114752289--114752326 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
114752279 ATATAATTCC
114752289 ATTCAATTTTCACTAATAAAT
1 ATTCAATTTTCAC-AATAAAT
114752310 ATTCAA-TTTCACAATAA
1 ATTCAATTTTCACAATAA
114752327 TCACAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTCAATTTTCACAATAAAT
Found at i:114753354 original size:16 final size:15
Alignment explanation
Indices: 114753345--114753379 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
114753335 TATTTATTAT
114753345 ATAATATATTATTTA
1 ATAATATATTATTTA
*
114753360 ATAATATACTTATATA
1 ATAATATA-TTATTTA
114753376 ATAA
1 ATAA
114753380 GTAAATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAATATATTATTTA
Found at i:114758195 original size:18 final size:18
Alignment explanation
Indices: 114758174--114758209 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
114758164 ATTTATTTCT
114758174 AAAAAT-ATGTTAAAAATA
1 AAAAATAAT-TTAAAAATA
114758192 AAAAATAATTTAAAAATA
1 AAAAATAATTTAAAAATA
114758210 GCTCGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAAATAATTTAAAAATA
Found at i:114760598 original size:23 final size:22
Alignment explanation
Indices: 114760559--114760623 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
114760549 ATTTGAGTTT
*
114760559 TTAAA-TTTAAAAAATAAATAGA
1 TTAAATTTTAAAAAATAAA-AAA
*
114760581 TTAAATTTTTAAAAATAAAAAA
1 TTAAATTTTAAAAAATAAAAAA
*
114760603 TTAAATTTTAAATATATAAAA
1 TTAAATTTTAAA-AAATAAAA
114760624 GGGTATTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 18 0.49
23 19 0.51
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAATTTTAAAAAATAAAAAA
Found at i:114760611 original size:22 final size:23
Alignment explanation
Indices: 114760559--114760614 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
114760549 ATTTGAGTTT
*
114760559 TTAAA-TTTAAAAAATAAATAGA
1 TTAAATTTTAAAAAATAAATAAA
*
114760581 TTAAATTTTTAAAAATAAA-AAA
1 TTAAATTTTAAAAAATAAATAAA
114760603 TTAAATTTTAAA
1 TTAAATTTTAAA
114760615 TATATAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
TTAAATTTTAAAAAATAAATAAA
Found at i:114760623 original size:22 final size:22
Alignment explanation
Indices: 114760559--114760624 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
114760549 ATTTGAGTTT
*
114760559 TTAAA-TTTAAAAAATAAATAGA
1 TTAAATTTTAAAATATAAA-AGA
*
114760581 TTAAATTTTTAAAA-ATAAAAAA
1 TTAAA-TTTTAAAATATAAAAGA
114760603 TTAAATTTTAAATATATAAAAG
1 TTAAATTTTAAA-ATATAAAAG
114760625 GGTATTATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.18
22 13 0.34
23 11 0.29
24 7 0.18
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (22 bp):
TTAAATTTTAAAATATAAAAGA
Found at i:114766088 original size:30 final size:32
Alignment explanation
Indices: 114766052--114766110 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
114766042 AATTCAATTA
114766052 GAAATTA-TCAATAATTT-AT-TATTTTTTAAT
1 GAAATTAGTC-ATAATTTAATATATTTTTTAAT
*
114766082 GAAATTAGTCATATTTTAATATATTTTTT
1 GAAATTAGTCATAATTTAATATATTTTTT
114766111 TAACATCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 13 0.52
31 4 0.16
32 8 0.32
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.54
Consensus pattern (32 bp):
GAAATTAGTCATAATTTAATATATTTTTTAAT
Found at i:114770049 original size:19 final size:18
Alignment explanation
Indices: 114770016--114770061 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
114770006 AAGTTAAGTG
*
114770016 AAATAATA-AGTTAAGAA
1 AAATAATATTGTTAAGAA
114770033 AAGATAATATTGTTAAGAA
1 AA-ATAATATTGTTAAGAA
*
114770052 GAATAATATT
1 AAATAATATT
114770062 TAAATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.08
18 14 0.56
19 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (18 bp):
AAATAATATTGTTAAGAA
Found at i:114770057 original size:18 final size:19
Alignment explanation
Indices: 114770025--114770061 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
114770015 GAAATAATAA
114770025 GTTAAGAAAAGATAATATT
1 GTTAAGAAAAGATAATATT
*
114770044 GTTAAGAAGA-ATAATATT
1 GTTAAGAAAAGATAATATT
114770062 TAAATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.32
Consensus pattern (19 bp):
GTTAAGAAAAGATAATATT
Found at i:114771756 original size:14 final size:14
Alignment explanation
Indices: 114771737--114771768 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
114771727 CTCAATCACC
114771737 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
114771751 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
114771765 GGGC
1 GGGC
114771769 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:114776877 original size:14 final size:14
Alignment explanation
Indices: 114776858--114776889 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
114776848 TCAAATCACC
114776858 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
114776872 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
114776886 GGGC
1 GGGC
114776890 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:114780879 original size:13 final size:13
Alignment explanation
Indices: 114780861--114780889 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
114780851 ATTTTAATGT
114780861 TTACATTATAGTA
1 TTACATTATAGTA
114780874 TTACATTATAGTA
1 TTACATTATAGTA
114780887 TTA
1 TTA
114780890 TATAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TTACATTATAGTA
Found at i:114784064 original size:257 final size:257
Alignment explanation
Indices: 114783601--114784123 Score: 1001
Period size: 257 Copynumber: 2.0 Consensus size: 257
114783591 AAATTAGCTA
* *
114783601 AATAAAAATGGGACTAAATTGGAATATCTAGAATTCTCTTCATTTTTCTTTATTTTCATCAGCTG
1 AATAAACATGGGACTAAATTGGAATATCCAGAATTCTCTTCATTTTTCTTTATTTTCATCAGCTG
114783666 AAAAACAGCCATGGAAGAGGGTTCAAGCTGGTTTTCATTCTCTAGCTACATGTAAGTTTAATTCT
66 AAAAACAGCCATGGAAGAGGGTTCAAGCTGGTTTTCATTCTCTAGCTACATGTAAGTTTAATTCT
*
114783731 TGCTTTCTCTTAGAAATTTCTATGTTTTTGGACTTTTACAATTAGGTCCAACTTACTATTTCATT
131 TGCTTTCTCCTAGAAATTTCTATGTTTTTGGACTTTTACAATTAGGTCCAACTTACTATTTCATT
114783796 AGTTTTTGATTTCATGGTTAATTTTTAAAGTTTTTATGGATTAGTGATGGAAGAATATGATG
196 AGTTTTTGATTTCATGGTTAATTTTTAAAGTTTTTATGGATTAGTGATGGAAGAATATGATG
*
114783858 AATAAACATGGGACTAGATTGGAATATCCAGAATTCTCTTCATTTTTCTTTATTTTCATCAGCTG
1 AATAAACATGGGACTAAATTGGAATATCCAGAATTCTCTTCATTTTTCTTTATTTTCATCAGCTG
114783923 AAAAACAGCCATGGAAGAGGGTTCAAGCTGGTTTTCATTCTCTAGCTACATGTAAGTTTAATTCT
66 AAAAACAGCCATGGAAGAGGGTTCAAGCTGGTTTTCATTCTCTAGCTACATGTAAGTTTAATTCT
114783988 TGCTTTCTCCTAGAAATTTCTATGTTTTTGGACTTTTACAATTAGGTCCAACTTACTATTTCATT
131 TGCTTTCTCCTAGAAATTTCTATGTTTTTGGACTTTTACAATTAGGTCCAACTTACTATTTCATT
*
114784053 AGTTTTTGATTTCATGGTTAATTTTTAAAGTTTTTATGGATTAGTGATGGAAGTATATGATG
196 AGTTTTTGATTTCATGGTTAATTTTTAAAGTTTTTATGGATTAGTGATGGAAGAATATGATG
114784115 AATAAACAT
1 AATAAACAT
114784124 ATAATTGAAG
Statistics
Matches: 261, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
257 261 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (257 bp):
AATAAACATGGGACTAAATTGGAATATCCAGAATTCTCTTCATTTTTCTTTATTTTCATCAGCTG
AAAAACAGCCATGGAAGAGGGTTCAAGCTGGTTTTCATTCTCTAGCTACATGTAAGTTTAATTCT
TGCTTTCTCCTAGAAATTTCTATGTTTTTGGACTTTTACAATTAGGTCCAACTTACTATTTCATT
AGTTTTTGATTTCATGGTTAATTTTTAAAGTTTTTATGGATTAGTGATGGAAGAATATGATG
Found at i:114785411 original size:35 final size:35
Alignment explanation
Indices: 114785385--114785718 Score: 440
Period size: 35 Copynumber: 9.6 Consensus size: 35
114785375 CATGGCAAAG
114785385 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* * * *
114785420 TGTGAAATGTAGGTATGGTATTAACCATACCTAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
*
114785455 TGTGAAACGTAGGTATGATATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* * *
114785490 TGTGAAACGTAGGTATGGTGTTAACCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
*
114785525 TGTGAAATGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* * *
114785560 TGTGAAA-GTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* *
114785594 TGTGAAACATAGGTATGATATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* * *
114785629 TGTGAAACATAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
** * *
114785664 TAAG-AACGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCAT-CCATACCGAGT
*
114785698 TGTGAAATGTAGGTATGGTAT
1 TGTGAAACGTAGGTATGGTAT
114785719 TTCAATAAGG
Statistics
Matches: 258, Mismatches: 38, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
33 1 0.00
34 57 0.22
35 200 0.78
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
Found at i:114785502 original size:70 final size:70
Alignment explanation
Indices: 114785385--114785719 Score: 491
Period size: 70 Copynumber: 4.8 Consensus size: 70
114785375 CATGGCAAAG
* *
114785385 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTAACCATAC
1 TGTGAAACGTAGGTATGATATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATA-
114785450 CT-AGT
65 CTGAGT
*
114785455 TGTGAAACGTAGGTATGATATCATCCATACCGAGTTGTGAAACGTAGGTATGGTGTTAACCATAC
1 TGTGAAACGTAGGTATGATATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
*
114785520 CGAGT
66 TGAGT
* *
114785525 TGTGAAATGTAGGTATGGTATCATCCATACCGAGTTGTGAAA-GTAGGTATGGTATTAACCATAC
1 TGTGAAACGTAGGTATGATATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
114785589 TGAGT
66 TGAGT
* * *
114785594 TGTGAAACATAGGTATGATATCATCCATACCGAGTTGTGAAACATAGGTATGGTATTATCCATAC
1 TGTGAAACGTAGGTATGATATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
114785659 TGAGT
66 TGAGT
** * *
114785664 TAAG-AACGTAGGTATGGCATTTC--CCATACCGAGTTGTGAAATGTAGGTATGGTATT
1 TGTGAAACGTAGGTAT-G-ATATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATT
114785720 TCAATAAGGA
Statistics
Matches: 242, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
69 106 0.44
70 132 0.55
71 4 0.02
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (70 bp):
TGTGAAACGTAGGTATGATATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
TGAGT
Found at i:114785631 original size:104 final size:104
Alignment explanation
Indices: 114785385--114785718 Score: 461
Period size: 104 Copynumber: 3.2 Consensus size: 104
114785375 CATGGCAAAG
*
114785385 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTAACCATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATAC
* * * *
114785450 CTAGTTGTGAAACGTAGGTATGATATCATCCATACCGAGT
66 CGAGTTGTGAAA-GTAGGTATGGTATTAACCATACCGAGT
* * * *
114785490 TGTGAAACGTAGGTATGGTGTTAACCATACCGAGTTGTGAAATGTAGGTATGGTATCATCCATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATAC
*
114785555 CGAGTTGTGAAAGTAGGTATGGTATTAACCATACTGAGT
66 CGAGTTGTGAAAGTAGGTATGGTATTAACCATACCGAGT
* * **
114785594 TGTGAAACATAGGTATGATATCATCCATACCGAGTTGTGAAACATAGGTATGGTATTATCCATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATAC
* ** * * **
114785659 TGAGTTAAGAACGTAGGTATGGCATTTCCCATACCGAGT
66 CGAGTTGTGAAAGTAGGTATGGTATTAACCATACCGAGT
*
114785698 TGTGAAATGTAGGTATGGTAT
1 TGTGAAACGTAGGTATGGTAT
114785719 TTCAATAAGG
Statistics
Matches: 200, Mismatches: 29, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
104 129 0.64
105 71 0.35
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (104 bp):
TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATAC
CGAGTTGTGAAAGTAGGTATGGTATTAACCATACCGAGT
Found at i:114786178 original size:24 final size:24
Alignment explanation
Indices: 114786119--114786189 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
114786109 AAGACATGGC
* * *
114786119 CAGTAAGCTCTTTATGAGCTGATAA
1 CAGTAAACTCTAT-TGAGCTGAAAA
114786144 CAGTAAACTCTATTGAGCTGAAAA
1 CAGTAAACTCTATTGAGCTGAAAA
* ** *
114786168 CGGTATGCTCTATTGAGTTGAA
1 CAGTAAACTCTATTGAGCTGAA
114786190 CAATAAGCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 28 0.72
25 11 0.28
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.31
Consensus pattern (24 bp):
CAGTAAACTCTATTGAGCTGAAAA
Found at i:114787309 original size:42 final size:42
Alignment explanation
Indices: 114787246--114787372 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
114787236 CTTCGTTTTC
** * *
114787246 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
114787289 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
114787330 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
114787371 TC
1 TC
114787373 TTACTGATGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:114787416 original size:88 final size:89
Alignment explanation
Indices: 114787289--114787456 Score: 214
Period size: 88 Copynumber: 1.9 Consensus size: 89
114787279 CTTCACATAA
* * *
114787289 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATAT-CGATGCCATAGCCCAGCTATGG
1 TGATGCCATAGCCCAGATATGGTCTTACACATATGCATATATCCGATGCCATAGCCCAGATATGG
114787353 TCTTACACGAATCACATATCTTAC
66 TCTTACACGAATCACATATCTTAC
* * *
114787377 TGATGCCATATCCCAGATATGGTCTTATACAGTA-GCATATATCACACCGATGCCATATCCCAGA
1 TGATGCCATAGCCCAGATATGGTCTTACACA-TATGCATATAT----CCGATGCCATAGCCCAGA
*
114787441 TATGGTCTTATACGAA
61 TATGGTCTTACACGAA
114787457 AATTACTTGT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
88 35 0.52
89 2 0.03
93 30 0.45
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (89 bp):
TGATGCCATAGCCCAGATATGGTCTTACACATATGCATATATCCGATGCCATAGCCCAGATATGG
TCTTACACGAATCACATATCTTAC
Found at i:114787434 original size:47 final size:46
Alignment explanation
Indices: 114787331--114787456 Score: 162
Period size: 47 Copynumber: 2.7 Consensus size: 46
114787321 ATTCATATAT
* * * * **
114787331 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTTAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
114787377 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
114787424 CGATGCCATATCCCAGATATGGTCTTATACGAA
1 CGATGCCATATCCCAGATATGGTCTTATACGAA
114787457 AATTACTTGT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
46 28 0.41
47 40 0.59
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:114787515 original size:31 final size:31
Alignment explanation
Indices: 114787472--114787586 Score: 176
Period size: 31 Copynumber: 3.7 Consensus size: 31
114787462 CTTGTCACTT
* * *
114787472 GTAGCTGAAGCTACCACTATTCACTGAACAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* *
114787503 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
114787534 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
*
114787565 GTAGCTGAAGCTACCACTTTTC
1 GTAGCAGAAGCTACCACTTTTC
114787587 TCTTGTCATT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCAGAAGCTACCACTTTTCACTGATCAG
Found at i:114787662 original size:50 final size:50
Alignment explanation
Indices: 114787565--114787741 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
114787555 CACTGATCAG
* * * *
114787565 GTAGCTGAAGCTACCACTTTTCTCTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCATTGATCAGATAAGT
*
114787616 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCATTGATCAGATAAGT
* *
114787666 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCATTGATCAGATAAGT
*
114787716 GTGGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
114787742 GTTGCCATGG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 94 0.81
51 22 0.19
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCATTGATCAGATAAGT
Found at i:114791645 original size:26 final size:26
Alignment explanation
Indices: 114791616--114791672 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
114791606 GTATTCATAT
*
114791616 ATCACAATATGTATTTGTATCATTAA
1 ATCACAATATGTATTTGTATCATCAA
* *
114791642 ATCATAGTATGTATTTGTATCATCAA
1 ATCACAATATGTATTTGTATCATCAA
114791668 ATCAC
1 ATCAC
114791673 GTTATCAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (26 bp):
ATCACAATATGTATTTGTATCATCAA
Found at i:114802468 original size:47 final size:49
Alignment explanation
Indices: 114802379--114802504 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 49
114802369 CTTTACATAA
* * * * *
114802379 TAATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTC-AC
1 TAATGCCATATCCCAGATATGGTCTTATACAGTAAGCACATATCACAAC
* *
114802426 TAATGTCATATCCCAGATATGGTCTTATACAGT-AGCATATATCACAAC
1 TAATGCCATATCCCAGATATGGTCTTATACAGTAAGCACATATCACAAC
*
114802474 -GATGCCATATCCCAGATATGGTCTTATACAG
1 TAATGCCATATCCCAGATATGGTCTTATACAG
114802505 AAATCACTTG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 64 0.94
48 4 0.06
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (49 bp):
TAATGCCATATCCCAGATATGGTCTTATACAGTAAGCACATATCACAAC
Found at i:114802520 original size:7 final size:7
Alignment explanation
Indices: 114802508--114802536 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
114802498 TATACAGAAA
114802508 TCACTTG
1 TCACTTG
114802515 TCACTTG
1 TCACTTG
114802522 TCACTTG
1 TCACTTG
114802529 TCACTTG
1 TCACTTG
114802536 T
1 T
114802537 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:114802570 original size:31 final size:31
Alignment explanation
Indices: 114802535--114802712 Score: 234
Period size: 31 Copynumber: 5.7 Consensus size: 31
114802525 CTTGTCACTT
*
114802535 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
**** *
114802566 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
**
114802597 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
* *
114802628 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
114802659 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCA-AAGCTACCACTTTTCACTGATCAG
114802690 GTAG-CAGAAGCTACCACTTTTCA
1 GTAGCCA-AAGCTACCACTTTTCA
114802713 GTTGTCATTT
Statistics
Matches: 133, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
30 1 0.01
31 132 0.99
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCAAAGCTACCACTTTTCACTGATCAG
Found at i:114802632 original size:62 final size:62
Alignment explanation
Indices: 114802542--114802712 Score: 261
Period size: 62 Copynumber: 2.8 Consensus size: 62
114802532 CTTGTAGCCA
* * ** * *
114802542 AAGCTACCACTATTCACTGATCAGGTAGCTGGTGCTACCATTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTAGCAG
* * *
114802604 GAGCTACCACTTTTCACTGATCAGGTAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTAGCAG
114802666 AAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCA
1 AAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCA
114802713 GTTGTCATTT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 99 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (62 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTAGCAG
Found at i:114802694 original size:93 final size:93
Alignment explanation
Indices: 114802535--114802712 Score: 275
Period size: 93 Copynumber: 1.9 Consensus size: 93
114802525 CTTGTCACTT
* ** *
114802535 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCTGGTGCTACCATTTTTCACTGATCAGGTA
1 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTA
* *
114802600 GCCGGAGCTACCACTTTTCACTGATCAG
66 GCAGAAGCTACCACTTTTCACTGATCAG
* * *
114802628 GTAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTA
1 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTA
114802693 GCAGAAGCTACCACTTTTCA
66 GCAGAAGCTACCACTTTTCA
114802713 GTTGTCATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (93 bp):
GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTA
GCAGAAGCTACCACTTTTCACTGATCAG
Found at i:114802796 original size:50 final size:50
Alignment explanation
Indices: 114802690--114802866 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
114802680 CACTGATCAG
* * * *
114802690 GTAGCAGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
114802741 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
114802791 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
114802841 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
114802867 GTTTCCATGG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:114805547 original size:53 final size:52
Alignment explanation
Indices: 114805471--114805675 Score: 191
Period size: 52 Copynumber: 3.9 Consensus size: 52
114805461 CACATATCAT
* * ** *
114805471 ACCGATGCTATATCCCAGGCATGGTCTTATAC-GGAGGCACATTATCAC-ATCAT
1 ACCGATGCCATAGCCCAACCATGGTCTTATACGGGA-GCACATT-TCACAAT-AC
** * *
114805524 ATTGATGCCATAGTCCAACCATGGTCTTATACGGGAGTACATTTCACAATAC
1 ACCGATGCCATAGCCCAACCATGGTCTTATACGGGAGCACATTTCACAATAC
* * *
114805576 ACCGATGCCATAGCCCAACTATGGTCTTATACGGGCA-CACATATCACAATGC
1 ACCGATGCCATAGCCCAACCATGGTCTTATACGGG-AGCACATTTCACAATAC
* * ** * *
114805628 ACCAATGCTATAGCCCAAATATGGTCTTATACGGGCGCACATATCACA
1 ACCGATGCCATAGCCCAACCATGGTCTTATACGGGAGCACATTTCACA
114805676 TCATTCTGTC
Statistics
Matches: 128, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
52 91 0.71
53 34 0.27
54 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (52 bp):
ACCGATGCCATAGCCCAACCATGGTCTTATACGGGAGCACATTTCACAATAC
Found at i:114805594 original size:52 final size:52
Alignment explanation
Indices: 114805527--114805675 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 52
114805517 ACATCATATT
* * * *
114805527 GATGCCATAGTCCAACCATGGTCTTATACGGG-AGTACATTTCACAATACACC
1 GATGCCATAGCCCAACTATGGTCTTATACGGGCA-CACATATCACAATACACC
*
114805579 GATGCCATAGCCCAACTATGGTCTTATACGGGCACACATATCACAATGCACC
1 GATGCCATAGCCCAACTATGGTCTTATACGGGCACACATATCACAATACACC
* * * *
114805631 AATGCTATAGCCCAAATATGGTCTTATACGGGCGCACATATCACA
1 GATGCCATAGCCCAACTATGGTCTTATACGGGCACACATATCACA
114805676 TCATTCTGTC
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 86 0.99
53 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (52 bp):
GATGCCATAGCCCAACTATGGTCTTATACGGGCACACATATCACAATACACC
Found at i:114806893 original size:17 final size:17
Alignment explanation
Indices: 114806863--114806895 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
114806853 TTTATCTCAT
114806863 TTTATATACAAATTTCC
1 TTTATATACAAATTTCC
114806880 TTTA-ATACATAATTTC
1 TTTATATACA-AATTTC
114806896 ACTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATATACAAATTTCC
Found at i:114808817 original size:3 final size:3
Alignment explanation
Indices: 114808809--114808848 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
114808799 TTTAAAATAT
*
114808809 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
114808849 AATAATGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:114808954 original size:3 final size:3
Alignment explanation
Indices: 114808948--114809072 Score: 55
Period size: 3 Copynumber: 43.0 Consensus size: 3
114808938 TCGTCGTTAC
* * * * *
114808948 TAT TAT TAT TAT TAT TAT TAC TAT TA- TAT T-T TTT TA- AAT TAC TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** * * **
114808993 TAC TAT TAT T-T CTTT TGC TAT T-T AAT ATAT TAT TAT TAC CCT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* *
114809038 TAT TAT TAT TAT TAT T-G TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
114809073 ATTTACACCT
Statistics
Matches: 87, Mismatches: 27, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
2 8 0.09
3 76 0.87
4 3 0.03
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:114809060 original size:17 final size:17
Alignment explanation
Indices: 114809038--114809075 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
114809028 TTACCCTTAT
* *
114809038 TATTATTATTATTATTG
1 TATTATTACTATTATTA
114809055 TATTATTACTATTATTA
1 TATTATTACTATTATTA
114809072 TATT
1 TATT
114809076 TACACCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (17 bp):
TATTATTACTATTATTA
Found at i:114809060 original size:20 final size:20
Alignment explanation
Indices: 114809035--114809072 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
114809025 TTATTACCCT
*
114809035 TATTATTATTATTATTATTG
1 TATTATTACTATTATTATTG
114809055 TATTATTACTATTATTAT
1 TATTATTACTATTATTAT
114809073 ATTTACACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
TATTATTACTATTATTATTG
Found at i:114809256 original size:15 final size:15
Alignment explanation
Indices: 114809233--114809262 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
114809223 ATAATTTCAT
*
114809233 ATTATTATTATTATC
1 ATTACTATTATTATC
114809248 ATTACTATTATTATC
1 ATTACTATTATTATC
114809263 CTTTTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTACTATTATTATC
Found at i:114813399 original size:13 final size:13
Alignment explanation
Indices: 114813381--114813405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
114813371 TTTTTAAATA
114813381 ATTAATATTAATT
1 ATTAATATTAATT
114813394 ATTAATATTAAT
1 ATTAATATTAAT
114813406 AGGCCGGTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTAATATTAATT
Found at i:114824908 original size:28 final size:31
Alignment explanation
Indices: 114824876--114824944 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 31
114824866 TATTATTTCA
114824876 TTTAATAAAAAAGT-TGTTTT-TTTTAT-AT
1 TTTAATAAAAAAGTATGTTTTATTTTATAAT
** * *
114824904 TTTAATAGTAAATTATTTTTTATTTTATAAT
1 TTTAATAAAAAAGTATGTTTTATTTTATAAT
114824935 TTTAATAAAA
1 TTTAATAAAA
114824945 TATAAGTTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 11 0.34
29 5 0.16
30 6 0.19
31 10 0.31
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (31 bp):
TTTAATAAAAAAGTATGTTTTATTTTATAAT
Found at i:114828211 original size:126 final size:126
Alignment explanation
Indices: 114827986--114828353 Score: 587
Period size: 126 Copynumber: 2.9 Consensus size: 126
114827976 CTCGTTTATA
* * * *
114827986 GTAGAAAAAGAGCATTCACGTGGGAGCTTTTTTCATAAATTTTGTTGACATTGCATCCTACTTGA
1 GTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATAAATTTTGCTGACATTGCATCCTGCTTGA
* *
114828051 AGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACT
66 AGCGTTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAAACTACT
* *
114828112 GTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCATAAATTTTGCTGACATTGTATCCTGCTTGA
1 GTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATAAATTTTGCTGACATTGCATCCTGCTTGA
114828177 AGCGTTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAAACTACT
66 AGCGTTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAAACTACT
* * * *
114828238 GTAGCAAAACAGCGTCCACGTGGGAGCTTTTTTC-TGTATTTTTGCTGACATTGCATCCTGCTTG
1 GTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAT-AAATTTTGCTGACATTGCATCCTGCTTG
* *
114828302 AAGCATTTTTGACACTATTTATTCAGAAACG-CTTCTTAAAATTATTTTTTCA
65 AAGCGTTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCA
114828354 CGGTAAAAAT
Statistics
Matches: 225, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
125 21 0.09
126 204 0.91
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (126 bp):
GTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATAAATTTTGCTGACATTGCATCCTGCTTGA
AGCGTTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAAACTACT
Found at i:114828455 original size:21 final size:22
Alignment explanation
Indices: 114828429--114828476 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
114828419 TAATTACTCT
114828429 ATTTAA-AAAACATAAACCCTA
1 ATTTAATAAAACATAAACCCTA
* *
114828450 ATTTAATAAACCTTAAACCCTA
1 ATTTAATAAAACATAAACCCTA
114828472 ATTTA
1 ATTTA
114828477 GTTTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (22 bp):
ATTTAATAAAACATAAACCCTA
Found at i:114828487 original size:22 final size:22
Alignment explanation
Indices: 114828462--114828515 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
114828452 TTAATAAACC
* *
114828462 TTAAACCCTAATTTAGTTTATT
1 TTAAACCCTAACTTAATTTATT
* *
114828484 TTAAATCTTAACTTAATTTATT
1 TTAAACCCTAACTTAATTTATT
*
114828506 TAAAACCCTA
1 TTAAACCCTA
114828516 GAACTCTAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAAACCCTAACTTAATTTATT
Found at i:114828610 original size:22 final size:22
Alignment explanation
Indices: 114828582--114828623 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
114828572 AATCTTTAAT
114828582 TTAATTTATTTAAAACCCTAAC
1 TTAATTTATTTAAAACCCTAAC
114828604 TTAATTTATTTAAAACCCTA
1 TTAATTTATTTAAAACCCTA
114828624 GAACCCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAATTTATTTAAAACCCTAAC
Found at i:114828667 original size:33 final size:34
Alignment explanation
Indices: 114828602--114828669 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
114828592 TAAAACCCTA
* * *
114828602 ACTTAATTTATTTAAAACCCTAGAACCCTAATTT
1 ACTTAATCTATTTAAAAACATAGAACCCTAATTT
114828636 ACTTAATCTATTTAAAAACATA-AACCCTAATTT
1 ACTTAATCTATTTAAAAACATAGAACCCTAATTT
114828669 A
1 A
114828670 ATAAACCCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 12 0.39
34 19 0.61
ACGTcount: A:0.43, C:0.19, G:0.01, T:0.37
Consensus pattern (34 bp):
ACTTAATCTATTTAAAAACATAGAACCCTAATTT
Found at i:114828694 original size:107 final size:108
Alignment explanation
Indices: 114828393--114828801 Score: 539
Period size: 108 Copynumber: 3.8 Consensus size: 108
114828383 ACACAATGTT
** * *
114828393 ATTT-TTTAAAAAACTA-AACCCTAATTTAATTACTCTATTTAAAAAACATAAACCCTAATTTAA
1 ATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAATTTAA
* * * * *
114828456 TAAACCTTAAACCCTAATTTAGTTTATTTTAAATCTTAACTTA
66 TAAACCCTAAACCTTAATTTAATTTATTTTAAACCCTAACTTA
* * ***
114828499 ATTTATTTAAAACCCTAGAACTCTAATTTACTTAATCTATTTAAAAAACATAAGCCCTAATTCCC
1 ATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAATTTAA
* *
114828564 TAAACCC-AAATCTTTAATTTAATTTATTTAAAACCCTAACTTA
66 TAAACCCTAAA-CCTTAATTTAATTTATTTTAAACCCTAACTTA
114828607 ATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTT-AAAAACATAAACCCTAATTTAA
1 ATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAATTTAA
*
114828671 TAAACCCTAAACCTTAATTTAATTTATTTTAAACACTAACTTA
66 TAAACCCTAAACCTTAATTTAATTTATTTTAAACCCTAACTTA
* * *
114828714 ATTTATTTAAAATCCTAGAACCCTAATTTACTTAATCTATTT--AAAACCTAAGCCCTAATTTAT
1 ATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAATTTA-
*
114828777 TTAAATCCCT-AA-CTTAATTT-ATTTA
65 ATAAA-CCCTAAACCTTAATTTAATTTA
114828802 AAAATAATTA
Statistics
Matches: 269, Mismatches: 28, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
105 5 0.02
106 30 0.11
107 114 0.42
108 120 0.45
ACGTcount: A:0.41, C:0.18, G:0.01, T:0.39
Consensus pattern (108 bp):
ATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAATTTAA
TAAACCCTAAACCTTAATTTAATTTATTTTAAACCCTAACTTA
Found at i:114828748 original size:34 final size:32
Alignment explanation
Indices: 114828709--114828780 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 32
114828699 TTAAACACTA
*
114828709 ACTTAATTTATTTAAAATCCTAGAACCCTAATTT
1 ACTTAATCTATTTAAAA-CCTA-AACCCTAATTT
*
114828743 ACTTAATCTATTTAAAACCTAAGCCCTAATTT
1 ACTTAATCTATTTAAAACCTAAACCCTAATTT
*
114828775 ATTTAA
1 ACTTAA
114828781 ATCCCTAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 15 0.43
33 4 0.11
34 16 0.46
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.40
Consensus pattern (32 bp):
ACTTAATCTATTTAAAACCTAAACCCTAATTT
Found at i:114828755 original size:56 final size:57
Alignment explanation
Indices: 114828582--114828787 Score: 218
Period size: 56 Copynumber: 3.8 Consensus size: 57
114828572 AATCTTTAAT
* * *
114828582 TTAATTTATTTAAAACCCTAA-CTTAATTTATTTAAAACCCTAGAACCCTAATTTAC
1 TTAATCTATTTAAAACACTAACCCTAATTTATTTAAAACCCTAGAACCCTAATTTAC
* *
114828638 TTAATCTATTTAAAA-ACATAAACCCTAATTTA-AT-AAACCCTA-AACCTTAA--T--
1 TTAATCTATTTAAAACAC-T-AACCCTAATTTATTTAAAACCCTAGAACCCTAATTTAC
* * * *
114828689 TTAATTTATTTTAAACACTAA-CTTAATTTATTTAAAATCCTAGAACCCTAATTTAC
1 TTAATCTATTTAAAACACTAACCCTAATTTATTTAAAACCCTAGAACCCTAATTTAC
*
114828745 TTAATCTATTTAAAAC-CTAAGCCCTAATTTATTTAAATCCCTA
1 TTAATCTATTTAAAACACTAA-CCCTAATTTATTTAAAACCCTA
114828788 ACTTAATTTA
Statistics
Matches: 121, Mismatches: 16, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
49 8 0.07
50 3 0.02
51 21 0.17
52 9 0.07
53 1 0.01
54 1 0.01
55 12 0.10
56 37 0.31
57 21 0.17
58 8 0.07
ACGTcount: A:0.41, C:0.19, G:0.01, T:0.39
Consensus pattern (57 bp):
TTAATCTATTTAAAACACTAACCCTAATTTATTTAAAACCCTAGAACCCTAATTTAC
Found at i:114828797 original size:22 final size:21
Alignment explanation
Indices: 114828743--114828804 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 21
114828733 ACCCTAATTT
*
114828743 ACTTAATCTATTTAAAACCTA
1 ACTTAATTTATTTAAAACCTA
* *
114828764 AGCCCTAATTTATTTAAATCCCTA
1 A--CTTAATTTATTTAAA-ACCTA
114828788 ACTTAATTTATTTAAAA
1 ACTTAATTTATTTAAAA
114828805 ATAATTAACC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
21 1 0.03
22 14 0.42
23 13 0.39
24 5 0.15
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (21 bp):
ACTTAATTTATTTAAAACCTA
Found at i:114831742 original size:22 final size:22
Alignment explanation
Indices: 114831693--114831736 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
114831683 TCACGTTAAT
114831693 AAATAATTTAAAAATTATAAAA
1 AAATAATTTAAAAATTATAAAA
*
114831715 AAATAA-TTATAAATTA-AAAA
1 AAATAATTTAAAAATTATAAAA
114831735 AA
1 AA
114831737 TCATAAACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 9 0.43
22 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATAATTTAAAAATTATAAAA
Found at i:114840516 original size:5 final size:5
Alignment explanation
Indices: 114840490--114840547 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
114840480 ATGTGTTAAA
* **
114840490 ATATAT ATATT AAATT ATTATT ATATT ATAGA ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
114840539 ATATT ATAT
1 ATATT ATAT
114840548 AAATAAGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
5 29 0.67
6 10 0.23
7 4 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (5 bp):
ATATT
Found at i:114840539 original size:12 final size:12
Alignment explanation
Indices: 114840493--114840548 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
114840483 TGTTAAAATA
*
114840493 TATATATTAAAT
1 TATATATTATAT
114840505 TAT-TATTATAT
1 TATATATTATAT
114840516 TATAGAATATTATAT
1 TAT---ATATTATAT
114840531 TATATATTATAT
1 TATATATTATAT
114840543 TATATA
1 TATATA
114840549 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 18 0.46
15 11 0.28
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (12 bp):
TATATATTATAT
Found at i:114841894 original size:18 final size:19
Alignment explanation
Indices: 114841873--114841911 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
114841863 ATATATAAAT
114841873 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
114841891 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
114841910 AT
1 AT
114841912 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:114842261 original size:39 final size:39
Alignment explanation
Indices: 114842151--114842285 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 39
114842141 GACCTCGAGT
* * * * *
114842151 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATCGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
114842192 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
114842230 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
114842269 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
114842286 CCATATTGGT
Statistics
Matches: 72, Mismatches: 20, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
38 18 0.25
39 34 0.47
40 4 0.06
41 16 0.22
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:114842429 original size:18 final size:19
Alignment explanation
Indices: 114842408--114842448 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
114842398 AATGAAATGA
114842408 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
114842426 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
114842445 GAAA
1 GAAA
114842449 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:114844690 original size:30 final size:30
Alignment explanation
Indices: 114844654--114844715 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
114844644 TCTATTAACG
114844654 CACTATAGGTAACAACATCAGGCTCAATGC
1 CACTATAGGTAACAACATCAGGCTCAATGC
114844684 CACTATAGGTAACAACATCAGGCTCAATGC
1 CACTATAGGTAACAACATCAGGCTCAATGC
114844714 CA
1 CA
114844716 TGCTTTCTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.19
Consensus pattern (30 bp):
CACTATAGGTAACAACATCAGGCTCAATGC
Found at i:114855762 original size:13 final size:13
Alignment explanation
Indices: 114855726--114855770 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
114855716 TAAATTCTAT
114855726 AAATATAATAATTAA
1 AAATATAA-AATT-A
114855741 AAATAATAAAATTA
1 AAAT-ATAAAATTA
114855755 AAATATAAATATTA
1 AAATATAAA-ATTA
114855769 AA
1 AA
114855771 TCTATAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.18
14 11 0.39
15 8 0.29
16 4 0.14
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATATAAAATTA
Found at i:114866410 original size:105 final size:105
Alignment explanation
Indices: 114866219--114866419 Score: 253
Period size: 105 Copynumber: 1.9 Consensus size: 105
114866209 TATAGGTAAC
* **
114866219 AACATCAGGCTCAATGCCTTGCTTTATCATTGTGTCAACAATATCTTTAGCTTTAGAAAGCATCC
1 AACATCAGGCTCAATGCCATGCTTTATCATTGTGTCAACAATATCTACAGCTTTAGAAAGCATCC
* * *
114866284 CTTCTTTGTAACATGCATCGATGC-ATATATTGTACGTGAT
66 CCTCCTTGCAACATGCATCGAT-CAATATATTGTACGTGAT
* * * * *
114866324 AACATTAGGCTCAATGCCATGCTTTCTCATTGTGTCAACGATTTCTACAGCTTCT-GAAATCATC
1 AACATCAGGCTCAATGCCATGCTTTATCATTGTGTCAACAATATCTACAGCTT-TAGAAAGCATC
* *
114866388 CCCTCCTTGCAACGTGCGTCGATCAATATATT
65 CCCTCCTTGCAACATGCATCGATCAATATATT
114866420 ATATGTGTAG
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
104 1 0.01
105 79 0.98
106 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (105 bp):
AACATCAGGCTCAATGCCATGCTTTATCATTGTGTCAACAATATCTACAGCTTTAGAAAGCATCC
CCTCCTTGCAACATGCATCGATCAATATATTGTACGTGAT
Found at i:114870247 original size:15 final size:17
Alignment explanation
Indices: 114870221--114870252 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
114870211 TTCTATATTT
114870221 TTTTATATAATT-AATA
1 TTTTATATAATTCAATA
114870237 TTTTA-ATAATTCAATA
1 TTTTATATAATTCAATA
114870253 ATTATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTATATAATTCAATA
Found at i:114875176 original size:20 final size:21
Alignment explanation
Indices: 114875139--114875177 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
114875129 CCGATAGTTG
* *
114875139 AATTATTTTTCTCTATTTTTT
1 AATTATTTTTATCAATTTTTT
114875160 AATT-TTTTTATCAATTTT
1 AATTATTTTTATCAATTTT
114875178 AATAATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (21 bp):
AATTATTTTTATCAATTTTTT
Found at i:114889391 original size:25 final size:26
Alignment explanation
Indices: 114889331--114889379 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
114889321 ATTTGTTTTA
*
114889331 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
114889355 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
114889380 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:114890237 original size:22 final size:22
Alignment explanation
Indices: 114890206--114890252 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
114890196 AATAATTAGT
* *
114890206 ATAAATTTAAAATAAAT-TTAAA
1 ATAAAATTAAAA-AAATACTAAA
114890228 ATAAAATTAAAAAAATACTAAA
1 ATAAAATTAAAAAAATACTAAA
114890250 ATA
1 ATA
114890253 GGCTTCTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
ATAAAATTAAAAAAATACTAAA
Found at i:114890240 original size:12 final size:11
Alignment explanation
Indices: 114890206--114890243 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
114890196 AATAATTAGT
114890206 ATAAATTTAAA
1 ATAAATTTAAA
114890217 ATAAATTTAAA
1 ATAAATTTAAA
*
114890228 ATAAAATTAAA
1 ATAAATTTAAA
114890239 A-AAAT
1 ATAAAT
114890244 ACTAAAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 3 0.12
11 22 0.88
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAAATTTAAA
Found at i:114890363 original size:21 final size:20
Alignment explanation
Indices: 114890325--114890364 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
114890315 AATATAAGAT
**
114890325 TAACTCATATATCCTTATAG
1 TAACTCATATATAATTATAG
114890345 TAACTCTATATATAATTATA
1 TAACTC-ATATATAATTATA
114890365 ATAGTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (20 bp):
TAACTCATATATAATTATAG
Found at i:114898204 original size:18 final size:18
Alignment explanation
Indices: 114898181--114898273 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
114898171 CCCAACTACT
* *
114898181 GTATACGTGAACAATACC
1 GTATACGTGAATAGTACC
114898199 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
114898217 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* * *
114898235 ATATACGTGAATAGTGCG
1 GTATACGTGAATAGTACC
*
114898253 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
114898271 GTA
1 GTA
114898274 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:114898717 original size:36 final size:36
Alignment explanation
Indices: 114898670--114898739 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
114898660 TGAAGAAAGT
114898670 AAGAAATGGTTAGGCCTATTTATAGTTGAGGTTCTA
1 AAGAAATGGTTAGGCCTATTTATAGTTGAGGTTCTA
114898706 AAGAAATGGTTAGGCCTATTTATAGTTGAGGTTC
1 AAGAAATGGTTAGGCCTATTTATAGTTGAGGTTC
114898740 AAGGATCAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.36
Consensus pattern (36 bp):
AAGAAATGGTTAGGCCTATTTATAGTTGAGGTTCTA
Found at i:114904665 original size:16 final size:16
Alignment explanation
Indices: 114904646--114904690 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
114904636 TTTTTTTTCA
114904646 ATTTTAATATTTTATT
1 ATTTTAATATTTTATT
*
114904662 A-TTTAATGTTTT-TT
1 ATTTTAATATTTTATT
114904676 ATTCTTAATATTTTA
1 ATT-TTAATATTTTA
114904691 ATAATTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 3 0.12
15 11 0.46
16 10 0.42
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
ATTTTAATATTTTATT
Found at i:114914266 original size:25 final size:22
Alignment explanation
Indices: 114914215--114914269 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
114914205 TATTATTTTA
* *
114914215 TGTAAATATTTTCTAAATTTAT
1 TGTATATATTTTCTAAAATTAT
114914237 TGTATATATTTTCTTTAAAATTAT
1 TGTATATATTTTC--TAAAATTAT
114914261 TCGTATATA
1 T-GTATATA
114914270 GCTTGGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 12 0.43
24 9 0.32
25 7 0.25
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
TGTATATATTTTCTAAAATTAT
Found at i:114917743 original size:18 final size:19
Alignment explanation
Indices: 114917717--114917754 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
114917707 CACATATGTC
*
114917717 AGTTAATAAATA-ATTTAA
1 AGTTAATAAAAATATTTAA
*
114917735 AGTTTATAAAAATATTTAA
1 AGTTAATAAAAATATTTAA
114917754 A
1 A
114917755 AAAAGTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
AGTTAATAAAAATATTTAA
Found at i:114919760 original size:44 final size:46
Alignment explanation
Indices: 114919709--114919796 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 46
114919699 ACATTTATTC
114919709 CATTCAACCAAACACA-AGAATT-CT-ATTACAGCTCTATTCCATTT
1 CATTCAACCAAACA-ATAGAATTACTGATTACAGCTCTATTCCATTT
* *
114919753 CATTCAACCAAACAATTGAATTATTGATTACAGCTCTATTCCAT
1 CATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCCAT
114919797 CACAACTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 1 0.03
44 19 0.49
45 1 0.03
46 18 0.46
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (46 bp):
CATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCCATTT
Found at i:114919807 original size:16 final size:16
Alignment explanation
Indices: 114919779--114919849 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
114919769 TGAATTATTG
114919779 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
114919795 ATCACAACTCTATTCC
1 ATTACAGCTCTATTCC
* *
114919811 ATTACAGTTCTATTCA
1 ATTACAGCTCTATTCC
114919827 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
114919843 ATTACAG
1 ATTACAG
114919850 TGAACCAAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:114921110 original size:7 final size:7
Alignment explanation
Indices: 114921091--114921137 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
114921081 TTAGAGGAAT
*
114921091 TAAAGTA
1 TAAATTA
114921098 TAAATT-
1 TAAATTA
114921104 TATAATTA
1 TA-AATTA
*
114921112 TTAATTTA
1 -TAAATTA
114921120 TAAATTA
1 TAAATTA
114921127 TAAATTA
1 TAAATTA
114921134 TAAA
1 TAAA
114921138 AAAAATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 2 0.06
7 26 0.76
8 4 0.12
9 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (7 bp):
TAAATTA
Done.