Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 110 of 240
Found at i:34196022 original size:174 final size:174
Alignment explanation
Indices: 34195731--34196058 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
34195721 AACTCAAGGT
* *
34195731 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
34195796 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
34195861 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
34195905 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
34195970 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
34196035 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
34196059 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:34196050 original size:29 final size:30
Alignment explanation
Indices: 34196011--34196089 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
34196001 CTTAATAATC
34196011 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
34196041 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
34196070 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
34196090 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:34204035 original size:29 final size:29
Alignment explanation
Indices: 34203972--34204039 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
34203962 TAATCAACCG
34203972 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
34204001 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
34204030 CGCACACTTA
1 CGCACACTTA
34204040 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:34204152 original size:174 final size:174
Alignment explanation
Indices: 34203861--34204188 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
34203851 AACTCAAGGT
* *
34203861 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
34203926 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
34203991 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
34204035 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
34204100 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
34204165 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
34204189 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:34204180 original size:29 final size:30
Alignment explanation
Indices: 34204141--34204219 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
34204131 CTTAATAATC
34204141 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
34204171 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
34204200 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
34204220 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:34219444 original size:21 final size:21
Alignment explanation
Indices: 34219420--34219461 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34219410 GAGGCATTAC
34219420 CATAATAAATACAC-TTATAAA
1 CATAATAAA-ACACGTTATAAA
*
34219441 CATATTAAAACACGTTATAAA
1 CATAATAAAACACGTTATAAA
34219462 ATTTCATCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.29
Consensus pattern (21 bp):
CATAATAAAACACGTTATAAA
Found at i:34221038 original size:15 final size:16
Alignment explanation
Indices: 34221018--34221048 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34221008 ATTTTGTTGC
34221018 TAATTT-ACTTTTTCA
1 TAATTTCACTTTTTCA
34221033 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
34221049 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:34221330 original size:51 final size:50
Alignment explanation
Indices: 34221272--34221461 Score: 199
Period size: 51 Copynumber: 3.8 Consensus size: 50
34221262 GATACTGGTT
*
34221272 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT-ACTATCCGATA
*
34221323 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCC-AGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATA-CTATCCGA-TA
** * * * * * *
34221374 TGCATAGTAGCCTGCACATTGTA-TACACATGCGACCTATAAT-TCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATACTATCCGATA
* *
34221423 CACGTAGTAGCTTGCACATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
34221462 CACTTCAGTT
Statistics
Matches: 114, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
49 25 0.22
50 24 0.21
51 63 0.55
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATACTATCCGATA
Found at i:34221439 original size:100 final size:102
Alignment explanation
Indices: 34221274--34221457 Score: 275
Period size: 100 Copynumber: 1.8 Consensus size: 102
34221264 TACTGGTTCA
* *
34221274 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACATAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCAATATCCGATACACATAGTAGCCTGCA
34221339 CATAGTACTACACACGTGATCGAAGCTATCCAGTATG
66 CATAGTACTACACACGTGATCGAAGCTATCCAGTATG
* * * * *
34221376 CATAGTAGCCTGCACATTGTA-TACACATGCGACCTAT-AAT-TCTGGTACACGTAGTAGCTTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCAATATCCGATACACATAGTAGCCTGC
34221438 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
34221458 CCATCACTTC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
100 38 0.51
101 14 0.19
102 22 0.30
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCAATATCCGATACACATAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCAGTATG
Found at i:34242518 original size:13 final size:12
Alignment explanation
Indices: 34242495--34242522 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34242485 AAAAGAAACA
34242495 AAAATTATTTTT
1 AAAATTATTTTT
34242507 AAAATTATTTTT
1 AAAATTATTTTT
34242519 AAAA
1 AAAA
34242523 AAAGTAAATA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AAAATTATTTTT
Found at i:34252482 original size:9 final size:9
Alignment explanation
Indices: 34252465--34252497 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
34252455 CCACGTTAGC
34252465 AAAAA-TTA
1 AAAAATTTA
34252473 AAAAATTTAA
1 AAAAATTT-A
34252483 AAAAATTTA
1 AAAAATTTA
34252492 AAAAAT
1 AAAAAT
34252498 AAAAACATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.22
9 9 0.39
10 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAAATTTA
Found at i:34252487 original size:10 final size:10
Alignment explanation
Indices: 34252472--34252496 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34252462 AGCAAAAATT
34252472 AAAAAATTTA
1 AAAAAATTTA
34252482 AAAAAATTTA
1 AAAAAATTTA
34252492 AAAAA
1 AAAAA
34252497 TAAAAACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:34252649 original size:18 final size:20
Alignment explanation
Indices: 34252613--34252652 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
34252603 ATTTTTTTAT
*
34252613 AAATTTTTAAAATACTATTA
1 AAATTTATAAAATACTATTA
34252633 AAATTTATAAAA-A-TATTA
1 AAATTTATAAAATACTATTA
34252651 AA
1 AA
34252653 TAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 11 0.58
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATTTATAAAATACTATTA
Found at i:34253296 original size:21 final size:21
Alignment explanation
Indices: 34253272--34253313 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34253262 TTCATTTTGG
34253272 AATTAACTTTTA-AAATTTTTT
1 AATTAA-TTTTATAAATTTTTT
*
34253293 AATTAATTTTATATATTTTTT
1 AATTAATTTTATAAATTTTTT
34253314 GAACTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTAATTTTATAAATTTTTT
Found at i:34253371 original size:10 final size:10
Alignment explanation
Indices: 34253345--34253379 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
34253335 TTATATTTAT
34253345 AAATTTTAATA
1 AAATTTTAA-A
*
34253356 ACATTTTAAA
1 AAATTTTAAA
34253366 AAATTTTAAA
1 AAATTTTAAA
34253376 AAAT
1 AAAT
34253380 ATTAGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTTTAAA
Found at i:34254239 original size:30 final size:30
Alignment explanation
Indices: 34254200--34254258 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
34254190 GGAGGTGGTA
* *
34254200 TGGGAAGGGAATAAAAGTTTTAGGGGGAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAG
*
34254231 TGGG-AGGGAGTAAAAATTTTGGGAGAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAA
34254259 ATAAAAGGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
30 14 0.56
31 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (30 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAG
Found at i:34254492 original size:9 final size:9
Alignment explanation
Indices: 34254474--34254510 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
34254464 TATAGTTTGA
34254474 TATTCGAAT
1 TATTCGAAT
*
34254483 TATTCAAAT
1 TATTCGAAT
*
34254492 TATTCGAGT
1 TATTCGAAT
34254501 TATTCGAAT
1 TATTCGAAT
34254510 T
1 T
34254511 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:34254780 original size:25 final size:24
Alignment explanation
Indices: 34254735--34254790 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
34254725 TAATTATTTC
34254735 TTTTATTTTTAAAAAAATTGAATT
1 TTTTATTTTTAAAAAAATTGAATT
**
34254759 TTTTAATTTTTAAAAAGTTTG-ATT
1 TTTT-ATTTTTAAAAAAATTGAATT
34254783 TTTT-TTTT
1 TTTTATTTT
34254791 AATTTTTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 4 0.14
24 11 0.38
25 14 0.48
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (24 bp):
TTTTATTTTTAAAAAAATTGAATT
Found at i:34256023 original size:16 final size:16
Alignment explanation
Indices: 34255985--34256024 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
34255975 AATATGTGAA
34255985 TAATATTATTTAAAAT
1 TAATATTATTTAAAAT
*
34256001 TATTATT-TTTAAAATT
1 TAATATTATTTAAAA-T
34256017 TAATATTA
1 TAATATTA
34256025 AAATAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATTATTTAAAAT
Found at i:34256033 original size:18 final size:19
Alignment explanation
Indices: 34256010--34256045 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
34256000 TTATTATTTT
34256010 TAAAATTT-AATATTAAAA
1 TAAAATTTAAATATTAAAA
34256028 TAAAATTTAAATATTAAA
1 TAAAATTTAAATATTAAA
34256046 TAATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATTTAAATATTAAAA
Found at i:34257287 original size:5 final size:5
Alignment explanation
Indices: 34257277--34257303 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
34257267 TTATTTAATC
34257277 ATTTA ATTTA ATTTA ATTTA ATTTA AT
1 ATTTA ATTTA ATTTA ATTTA ATTTA AT
34257304 ACATTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:34258952 original size:22 final size:22
Alignment explanation
Indices: 34258924--34259075 Score: 105
Period size: 22 Copynumber: 7.0 Consensus size: 22
34258914 ACACCACATC
*
34258924 AGAGAGCACCATAGTGCTAAAT
1 AGAGAGCACCAAAGTGCTAAAT
* **
34258946 AGAGAGCACTAAAGTGCTAAGC
1 AGAGAGCACCAAAGTGCTAAAT
* **
34258968 AGATAGCACC-AAGTG-TTGAT
1 AGAGAGCACCAAAGTGCTAAAT
* * **
34258988 CAGAGAGCGCCAAATTG-TTGAT
1 -AGAGAGCACCAAAGTGCTAAAT
*
34259010 CAGAGAGCATCAAAGTGCTAAAT
1 -AGAGAGCACCAAAGTGCTAAAT
* *
34259033 AGAGAGCATCAAAGTGCTAAAC
1 AGAGAGCACCAAAGTGCTAAAT
* *
34259055 AAAGAGTA-CAGAAGTGCTAAA
1 AGAGAGCACCA-AAGTGCTAAA
34259076 CCCGTACAAG
Statistics
Matches: 105, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
20 1 0.01
21 15 0.14
22 86 0.82
23 3 0.03
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.18
Consensus pattern (22 bp):
AGAGAGCACCAAAGTGCTAAAT
Found at i:34260118 original size:20 final size:18
Alignment explanation
Indices: 34260068--34260123 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 18
34260058 TGACTTATAT
34260068 ACCTTAATTAAAACTTAATTA
1 ACCTTAATT--AA-TTAATTA
*
34260089 ACCTTTATTAATTAATATA
1 ACCTTAATTAATTAAT-TA
34260108 ATCCTTAATTAATTAA
1 A-CCTTAATTAATTAA
34260124 ACTTAAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 13 0.42
21 8 0.26
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (18 bp):
ACCTTAATTAATTAATTA
Found at i:34272192 original size:149 final size:149
Alignment explanation
Indices: 34271953--34272251 Score: 535
Period size: 149 Copynumber: 2.0 Consensus size: 149
34271943 CCATCATCCA
* *
34271953 CTCAAGGTTAAGGTATGCCACACTATGAACGTCACAAGTGAACAAATCTATAAATGAATTTTTGA
1 CTCAAGGTTAAGGTATGACACACTATGAACGTCACAAGTGAACAAATCTATAAATGAATTTTTAA
34272018 TCTATTTTACTTGGGGTCATGTTCATTATACTATCAGTCCAGTTAGTTACATTTATGACTCTATC
66 TCTATTTTACTTGGGGTCATGTTCATTATACTATCAGTCCAGTTAGTTACATTTATGACTCTATC
34272083 TTCTAGGAGTCATCCGCTT
131 TTCTAGGAGTCATCCGCTT
*
34272102 CTCAAGGTTAAGGTATGACACACTATGAATGTCACAAGTGAACAAATCTATAAATGAATTTTTAA
1 CTCAAGGTTAAGGTATGACACACTATGAACGTCACAAGTGAACAAATCTATAAATGAATTTTTAA
* *
34272167 TCTATTTTACTTGGGGTCATGTTCATTATACTATCAGTCCAGTTAGTTATATTTATGTCTCTATC
66 TCTATTTTACTTGGGGTCATGTTCATTATACTATCAGTCCAGTTAGTTACATTTATGACTCTATC
* *
34272232 TTTTAGGAGTCATTCGCTT
131 TTCTAGGAGTCATCCGCTT
34272251 C
1 C
34272252 AATACCTAAA
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 143 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (149 bp):
CTCAAGGTTAAGGTATGACACACTATGAACGTCACAAGTGAACAAATCTATAAATGAATTTTTAA
TCTATTTTACTTGGGGTCATGTTCATTATACTATCAGTCCAGTTAGTTACATTTATGACTCTATC
TTCTAGGAGTCATCCGCTT
Found at i:34276423 original size:17 final size:18
Alignment explanation
Indices: 34276391--34276430 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
34276381 TTTTAAGTAG
*
34276391 AATTTTTTATAAAATGTA
1 AATTTTTTATAAAATGAA
*
34276409 AATTTTTT-TATAATGAA
1 AATTTTTTATAAAATGAA
34276426 AATTT
1 AATTT
34276431 GCTTTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
AATTTTTTATAAAATGAA
Found at i:34276537 original size:21 final size:22
Alignment explanation
Indices: 34276513--34276561 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
34276503 TACTCTAACT
34276513 ATTTTTAATATATTATTT-TAA
1 ATTTTTAATATATTATTTGTAA
*
34276534 ATTTTTATTATATTATTTGTAA
1 ATTTTTAATATATTATTTGTAA
*
34276556 TTTTTT
1 ATTTTT
34276562 TTAATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTTTAATATATTATTTGTAA
Found at i:34277187 original size:6 final size:6
Alignment explanation
Indices: 34277178--34277214 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
34277168 TTCAAAGCAA
* *
34277178 AAAAAA AAAAAG AAAAAG AAAAAG AAAAAG AAGAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
34277215 TATTTTAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:34277195 original size:21 final size:21
Alignment explanation
Indices: 34277171--34277212 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34277161 AAAACTTTTC
34277171 AAAGCAAAAA-AAAAAAAAGAA
1 AAAG-AAAAAGAAAAAAAAGAA
*
34277192 AAAGAAAAAGAAAAAGAAGAA
1 AAAGAAAAAGAAAAAAAAGAA
34277213 GATATTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAGAAAAAAAAGAA
Found at i:34278922 original size:126 final size:125
Alignment explanation
Indices: 34278691--34278973 Score: 410
Period size: 126 Copynumber: 2.3 Consensus size: 125
34278681 TTATTTCGAG
**
34278691 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCAGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTGT
*
34278755 GAAATCGTGCCCTCGTGGACACGATTTCGCTACAGTTGGTCATGTAAGAAATAAATT-TTTT
65 GAAATCGCGCCCTCGTGGACACGATTTCGCTACAGTTGGTCATGTAAGAAAT-AATTATTTT
* *
34278816 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACTAGGATGCTAT-ATGAGAATAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCA-GAGAAGAAATTG
* *
34278880 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
64 TGAAATCGCGCCCTCGTGGACACGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
* * * *
34278942 TTGATGTTTCTGAGCAAAGAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
34278974 GCCCTCGTGA
Statistics
Matches: 143, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
125 34 0.24
126 108 0.76
127 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACACGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
Found at i:34280347 original size:30 final size:30
Alignment explanation
Indices: 34280272--34280514 Score: 348
Period size: 30 Copynumber: 8.2 Consensus size: 30
34280262 GTGCCATCAC
34280272 AGGGTTTAGGGTTTTTAATTAAATTAAATT
1 AGGGTTTAGGGTTTTTAATTAAATTAAATT
* *
34280302 AGGG-TTAGGGTTTTTAATTTAATTAGATT
1 AGGGTTTAGGGTTTTTAATTAAATTAAATT
*
34280331 AGGGTTTAGGGCTTTTAATTAAATTAAATT
1 AGGGTTTAGGGTTTTTAATTAAATTAAATT
**
34280361 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTTAGGGTTTTTAATTAAATTAAATT
* **
34280390 AGGGTTTAGGGTTTTTAATTTAATTAGGTT
1 AGGGTTTAGGGTTTTTAATTAAATTAAATT
*
34280420 AGGGTTTAGGGCTTTTAATTAAATTAAATT
1 AGGGTTTAGGGTTTTTAATTAAATTAAATT
* **
34280450 AGGG-TTAAGGTTTTTAATTAAATTAGGTT
1 AGGGTTTAGGGTTTTTAATTAAATTAAATT
*
34280479 AGGGTTTAGTGTTTTTAATTAAATTAAATT
1 AGGGTTTAGGGTTTTTAATTAAATTAAATT
34280509 AGGGTT
1 AGGGTT
34280515 AGAGTTTGAA
Statistics
Matches: 189, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
29 78 0.41
30 111 0.59
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (30 bp):
AGGGTTTAGGGTTTTTAATTAAATTAAATT
Found at i:34280364 original size:59 final size:60
Alignment explanation
Indices: 34280272--34280514 Score: 348
Period size: 59 Copynumber: 4.1 Consensus size: 60
34280262 GTGCCATCAC
* *
34280272 AGGGTTTAGGGTTTTTAATTAAATTAAATTAGGG-TTAGGGTTTTTAATTTAATTAGATT
1 AGGGTTTAGGGTTTTTAATTAAATTAAATTAGGGTTTAGGGTTTTTAATTAAATTAAATT
* **
34280331 AGGGTTTAGGGCTTTTAATTAAATTAAATTAGGG-TTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTTAGGGTTTTTAATTAAATTAAATTAGGGTTTAGGGTTTTTAATTAAATTAAATT
* ** *
34280390 AGGGTTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTAGGGCTTTTAATTAAATTAAATT
1 AGGGTTTAGGGTTTTTAATTAAATTAAATTAGGGTTTAGGGTTTTTAATTAAATTAAATT
* ** *
34280450 AGGG-TTAAGGTTTTTAATTAAATTAGGTTAGGGTTTAGTGTTTTTAATTAAATTAAATT
1 AGGGTTTAGGGTTTTTAATTAAATTAAATTAGGGTTTAGGGTTTTTAATTAAATTAAATT
34280509 AGGGTT
1 AGGGTT
34280515 AGAGTTTGAA
Statistics
Matches: 168, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
59 141 0.84
60 27 0.16
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (60 bp):
AGGGTTTAGGGTTTTTAATTAAATTAAATTAGGGTTTAGGGTTTTTAATTAAATTAAATT
Found at i:34280423 original size:89 final size:89
Alignment explanation
Indices: 34280272--34280514 Score: 407
Period size: 89 Copynumber: 2.7 Consensus size: 89
34280262 GTGCCATCAC
**
34280272 AGGGTTTAGGGTTTTTAATTAAATTAAATTAGGG-TTAGGGTTTTTAATTTAATTAGATTAGGGT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAGATTAGGGT
34280336 TTAGGGCTTTTAATTAAATTAAATT
65 TTAGGGCTTTTAATTAAATTAAATT
*
34280361 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAGGTTAGGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAGATTAGGGTT
34280426 TAGGGCTTTTAATTAAATTAAATT
66 TAGGGCTTTTAATTAAATTAAATT
* * * *
34280450 AGGGTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTAGTGTTTTTAATTAAATTAAATTAGGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAGATTAGGGTT
34280515 AGAGTTTGAA
Statistics
Matches: 145, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
88 27 0.19
89 118 0.81
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (89 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAGATTAGGGTT
TAGGGCTTTTAATTAAATTAAATT
Found at i:34280470 original size:24 final size:23
Alignment explanation
Indices: 34280441--34280485 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
34280431 CTTTTAATTA
34280441 AATTAAATTAGGGTTAAGGTTTTT
1 AATTAAATTA-GGTTAAGGTTTTT
*
34280465 AATTAAATTAGGTTAGGGTTT
1 AATTAAATTAGGTTAAGGTTT
34280486 AGTGTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (23 bp):
AATTAAATTAGGTTAAGGTTTTT
Found at i:34282373 original size:14 final size:15
Alignment explanation
Indices: 34282356--34282389 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34282346 AATAATTATC
34282356 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
34282370 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
34282385 TAAAA
1 TAAAA
34282390 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:34282526 original size:29 final size:29
Alignment explanation
Indices: 34282487--34282545 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 29
34282477 TTGAAAATAT
34282487 TAAAAATTTTAAAATTAT-TTTAAAAAAA
1 TAAAAATTTTAAAATTATCTTTAAAAAAA
34282515 TAAAAATATTTAAAATTATCTTTAAAAAAA
1 TAAAAAT-TTTAAAATTATCTTTAAAAAAA
34282545 T
1 T
34282546 GAAATTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 7 0.24
29 11 0.38
30 11 0.38
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (29 bp):
TAAAAATTTTAAAATTATCTTTAAAAAAA
Found at i:34282604 original size:22 final size:21
Alignment explanation
Indices: 34282579--34282629 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
34282569 TAATATGGAT
*
34282579 TTGAGAGATTTTTTGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
*
34282601 TTGAGAGGATTTTGGAAGGAAT
1 TTGAGA-GATTTTGGAAGGAAA
34282623 TTGAGAG
1 TTGAGAG
34282630 TTTAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:34282652 original size:52 final size:52
Alignment explanation
Indices: 34282582--34282681 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
34282572 TATGGATTTG
* * * *
34282582 AGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
34282634 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
34282682 AATATTTGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
Found at i:34282698 original size:24 final size:22
Alignment explanation
Indices: 34282634--34282689 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
34282624 TGAGAGTTTA
34282634 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
34282656 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
34282678 AGAGAATATTTG
1 AGAGAAT-TTTG
34282690 TTTGTGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:34282898 original size:77 final size:77
Alignment explanation
Indices: 34282771--34282923 Score: 297
Period size: 77 Copynumber: 2.0 Consensus size: 77
34282761 AAATTTTTGA
*
34282771 CCGTTGGGGTATTGTTCACTCGCGCGTGTCATCGCTTCCACGTCAGAGCGACCTGCTGACGTGGA
1 CCGTTGGGGTATTGTTCACTCGCGCGTGTCATCGCGTCCACGTCAGAGCGACCTGCTGACGTGGA
34282836 AGGAAATCGCGC
66 AGGAAATCGCGC
34282848 CCGTTGGGGTATTGTTCACTCGCGCGTGTCATCGCGTCCACGTCAGAGCGACCTGCTGACGTGGA
1 CCGTTGGGGTATTGTTCACTCGCGCGTGTCATCGCGTCCACGTCAGAGCGACCTGCTGACGTGGA
34282913 AGGAAATCGCG
66 AGGAAATCGCG
34282924 TCCTTGAGGG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.17, C:0.28, G:0.32, T:0.23
Consensus pattern (77 bp):
CCGTTGGGGTATTGTTCACTCGCGCGTGTCATCGCGTCCACGTCAGAGCGACCTGCTGACGTGGA
AGGAAATCGCGC
Found at i:34292507 original size:30 final size:32
Alignment explanation
Indices: 34292447--34292510 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
34292437 CACTTATTTT
34292447 CACCTATGCCAAATGCATACACATAAATATATC
1 CACCTATGCCAAATGCA-ACACATAAATATATC
* * *
34292480 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCAAATGCAACACATAAATATAT
34292511 ATACATATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.27
Consensus pattern (32 bp):
CACCTATGCCAAATGCAACACATAAATATATC
Found at i:34292783 original size:41 final size:41
Alignment explanation
Indices: 34292726--34292959 Score: 450
Period size: 41 Copynumber: 5.7 Consensus size: 41
34292716 ACTGGCTCTT
*
34292726 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
34292767 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
34292808 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
34292849 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
34292890 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
34292931 AGCCTGCTAGACTTATAGTCTGAATATGT
1 AGCCTGCTAGACTTATAGTCTGAA-ATGT
34292960 CACTAACGAT
Statistics
Matches: 191, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
41 187 0.98
42 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:34300224 original size:30 final size:32
Alignment explanation
Indices: 34300164--34300227 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
34300154 CACTTATTTT
34300164 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
34300197 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
34300228 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:34300487 original size:41 final size:41
Alignment explanation
Indices: 34300442--34300634 Score: 368
Period size: 41 Copynumber: 4.7 Consensus size: 41
34300432 ACCGGCTCTT
*
34300442 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
34300483 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
34300524 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
34300565 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
34300606 AGCCTGCTAGACTTATAGTCTGAATATGT
1 AGCCTGCTAGACTTATAGTCTGAA-ATGT
34300635 CACTAACGAT
Statistics
Matches: 150, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
41 146 0.97
42 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:34302500 original size:6 final size:6
Alignment explanation
Indices: 34302489--34302521 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
34302479 CAAAAAGAAT
*
34302489 TTTTAA TTTTAA TTTTAA TTTCAA -TTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
34302522 TTTATGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:34313246 original size:3 final size:3
Alignment explanation
Indices: 34313238--34313273 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
34313228 GGAATCGTTG
34313238 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
34313274 TAAGATGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:34318817 original size:18 final size:18
Alignment explanation
Indices: 34318791--34318825 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34318781 ATGATGTGGC
*
34318791 AAACTATTTTCATGCTTG
1 AAACCATTTTCATGCTTG
*
34318809 AAACCATTTTGATGCTT
1 AAACCATTTTCATGCTT
34318826 CCTGTTCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACCATTTTCATGCTTG
Found at i:34335589 original size:23 final size:22
Alignment explanation
Indices: 34335562--34335615 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
34335552 TAGCCACTCA
*
34335562 ATTTATGT-CTTATTTCTTATTT
1 ATTTATGTACTTAATT-TTATTT
34335584 ATTT-TAGTCACTTAATTTTATTT
1 ATTTAT-GT-ACTTAATTTTATTT
34335607 ATTTATGTA
1 ATTTATGTA
34335616 ACACCCCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
21 1 0.04
22 7 0.26
23 12 0.44
24 7 0.26
ACGTcount: A:0.24, C:0.07, G:0.06, T:0.63
Consensus pattern (22 bp):
ATTTATGTACTTAATTTTATTT
Found at i:34347944 original size:30 final size:30
Alignment explanation
Indices: 34347908--34348082 Score: 228
Period size: 30 Copynumber: 5.8 Consensus size: 30
34347898 ACTTTTCTCA
* *
34347908 ACTAGCCACACTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
34347938 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
34347968 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
34347998 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
34348028 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
34348058 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
34348083 CTTGTACCTA
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
29 3 0.02
30 128 0.98
ACGTcount: A:0.27, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:34348610 original size:23 final size:23
Alignment explanation
Indices: 34348573--34348704 Score: 65
Period size: 25 Copynumber: 5.5 Consensus size: 23
34348563 CCTTTTTTGT
34348573 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
34348596 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
34348618 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* * *
34348641 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
34348668 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
34348693 TATTATTTATAT
1 TATTATATATAT
34348705 ATATATTTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 18 0.22
24 4 0.05
25 30 0.37
26 1 0.01
27 6 0.07
28 3 0.04
29 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:34348668 original size:27 final size:27
Alignment explanation
Indices: 34348638--34348754 Score: 82
Period size: 25 Copynumber: 4.5 Consensus size: 27
34348628 ATTTTAAATT
34348638 CTATATTACGTATATATATATTTTATA
1 CTATATTACGTATATATATATTTTATA
* * * *
34348665 CTATTTTA--TGTATATATCTTTAATA
1 CTATATTACGTATATATATATTTTATA
* **
34348690 TTATATTATTTATATATATATTTT-TA
1 CTATATTACGTATATATATATTTTATA
* * * *
34348716 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTA-CGTATATATATATTTTATA
*
34348742 CTATATTATGTAT
1 CTATATTACGTAT
34348755 GTATTTTTAA
Statistics
Matches: 68, Mismatches: 17, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
25 25 0.37
26 20 0.29
27 23 0.34
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (27 bp):
CTATATTACGTATATATATATTTTATA
Found at i:34348678 original size:25 final size:25
Alignment explanation
Indices: 34348650--34348788 Score: 97
Period size: 25 Copynumber: 5.5 Consensus size: 25
34348640 ATATTACGTA
*
34348650 TATATATATTTTATACTATTTTATG
1 TATATATATTTTATACTATATTATG
* * * *
34348675 TATATATCTTTAATATTATATTATT
1 TATATATATTTTATACTATATTATG
* * *
34348700 TATATATATATTTTTAC-ATGTTATCT
1 TATATATAT-TTTATACTATATTAT-G
*
34348726 TATGTATATATCTTA-ACTATATTATG
1 TA--TATATATTTTATACTATATTATG
* *
34348752 TATGTAT-TTTTAACACTATATTATG
1 TATATATATTTT-ATACTATATTATG
*
34348777 TACATAT-TTTTA
1 TATATATATTTTA
34348789 ATATTATCAC
Statistics
Matches: 89, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
23 3 0.03
24 6 0.07
25 54 0.61
26 11 0.12
27 8 0.09
28 7 0.08
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATATATTTTATACTATATTATG
Found at i:34348700 original size:30 final size:28
Alignment explanation
Indices: 34348647--34348739 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 28
34348637 TCTATATTAC
* * *
34348647 GTATATATATATT-TTATACTATTTTAT
1 GTATATATCTTTTATTATATTATTTTAT
34348674 GTATATATCTTTAATATTATATTA-TTTAT
1 GTATATATCTTT--TATTATATTATTTTAT
* * * *
34348703 ATATATAT-TTTTA-CATGTTATCTTAT
1 GTATATATCTTTTATTATATTATTTTAT
34348729 GTATATATCTT
1 GTATATATCTT
34348740 AACTATATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
25 5 0.09
26 13 0.25
27 12 0.23
28 3 0.06
29 13 0.25
30 7 0.13
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (28 bp):
GTATATATCTTTTATTATATTATTTTAT
Found at i:34348794 original size:20 final size:20
Alignment explanation
Indices: 34348769--34348824 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
34348759 TTTTAACACT
34348769 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* * *
34348789 ATATTAT-CACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
34348808 TTATATATGTACATATT
1 ATAT-TATGTACATATT
34348825 GATGTAGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:34348966 original size:16 final size:14
Alignment explanation
Indices: 34348947--34348980 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
34348937 TATTATTCTA
34348947 ATATTTTGATATTTT
1 ATATTTT-ATATTTT
34348962 GATATTTTATATTTT
1 -ATATTTTATATTTT
34348977 ATAT
1 ATAT
34348981 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
ATATTTTATATTTT
Found at i:34348975 original size:7 final size:8
Alignment explanation
Indices: 34348947--34348980 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
34348937 TATTATTCTA
34348947 ATATTTTG
1 ATATTTTG
34348955 ATATTTTG
1 ATATTTTG
34348963 ATATTTT-
1 ATATTTTG
34348970 ATATTTT-
1 ATATTTTG
34348977 ATAT
1 ATAT
34348981 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:34348982 original size:16 final size:15
Alignment explanation
Indices: 34348947--34348987 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
34348937 TATTATTCTA
34348947 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
*
34348963 ATATTTTATATTTTAT
1 ATATTTTATATTTT-G
34348979 ATATTTTAT
1 ATATTTTAT
34348988 TATTCACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:34350532 original size:12 final size:12
Alignment explanation
Indices: 34350515--34350550 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
34350505 ATTCATTTGA
34350515 CATTCATGCATT
1 CATTCATGCATT
34350527 CATTCATGCATT
1 CATTCATGCATT
*
34350539 CATTCATACATT
1 CATTCATGCATT
34350551 GCATATCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:34359017 original size:68 final size:70
Alignment explanation
Indices: 34358851--34359025 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
34358841 CTTTCCAAGG
* * *
34358851 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTTAATTTAT
*
34358916 TTTTT
66 GTTTT
* ** * *
34358921 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACG-CGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTTAATTTA
34358985 TGTTTT
65 TGTTTT
** *
34358991 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
34359026 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
68 31 0.34
70 20 0.22
71 40 0.44
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTTAATTTAT
GTTTT
Found at i:34359169 original size:76 final size:74
Alignment explanation
Indices: 34359043--34359381 Score: 443
Period size: 76 Copynumber: 4.5 Consensus size: 74
34359033 TTTGTTTTTC
*
34359043 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
34359108 GTTGTTAAAAA
66 GTT-TT-AAAA
**
34359119 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
34359184 GTTTT--CA
66 GTTTTAAAA
* * ** * * *
34359191 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
34359256 GTTTTCAAAAAA
66 GTTTT---AAAA
* * *
34359268 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGA-GTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
34359331 TCTGTTTTAAAA
63 TCTGTTTTAAAA
*
34359343 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
34359382 ATTACACACT
Statistics
Matches: 236, Mismatches: 18, Indels: 18
0.87 0.07 0.07
Matches are distributed among these distances:
72 66 0.28
75 41 0.17
76 67 0.28
77 35 0.15
78 20 0.08
79 7 0.03
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAA
Found at i:34359241 original size:72 final size:72
Alignment explanation
Indices: 34359029--34359381 Score: 397
Period size: 72 Copynumber: 4.7 Consensus size: 72
34359019 TAAGCCTTTT
* *
34359029 AATTTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
34359093 GTAATTTC
65 GTAATTTC
* **
34359101 AATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCT
1 AATTTCTGTT-TT---CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
34359166 GAGGTAATTTC
62 GAGGTAATTTC
* * ** * *
34359177 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
34359242 TATTTTC
66 TAATTTC
*
34359249 AATTTCTGTTTTCAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACA
1 AATTTCTGTTTTC-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
* *
34359313 TGCTGA-GTATTTTC
58 CGCTGAGGTAATTTC
* *
34359327 AATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AATTTCTGTTTT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
34359382 ATTACACACT
Statistics
Matches: 245, Mismatches: 20, Indels: 28
0.84 0.07 0.10
Matches are distributed among these distances:
71 2 0.01
72 76 0.31
75 38 0.16
76 67 0.27
77 35 0.14
78 20 0.08
79 7 0.03
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:34359611 original size:70 final size:72
Alignment explanation
Indices: 34359534--34359976 Score: 246
Period size: 72 Copynumber: 6.0 Consensus size: 72
34359524 TCAAAATCAG
*
34359534 CTCATATTGCAAGAGGTGAGTTGAGCCTC-GGGCACACTGAGGTATTTTCAATTTT-GTGTTTTA
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTTCGTGTTTTA
34359597 ATTTCAA
66 ATTTCAA
* * *
34359604 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTTTTTA
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTTCGTGTTTTA
*
34359669 ATTT-ATGT
66 ATTTCA--A
* * * ** * * * * * *
34359677 TTCAAAAATCGACTCATATTGCGAGAGGTGAG-TTGAGCCTCGGACACGCTGAGGTAATTTCAA-
1 CTC--ATATTG---CA-AGAG-GTGAGTTGAGCCT----C-AGGACACACTGAGGTATTTTCAAT
*
34359740 TTTC-TGTTTGTCAAAAATT-AA
54 TTTCGTGTTT-T---AATTTCAA
* * *
34359761 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCCACATGCTGAGGTCTTTTCAA-TTTC-TGTTC
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACA--CTGAGGTATTTTCAATTTTCGTGTT-
* **
34359823 GTAAAAAAAATCAA
63 -T---TAATTTCAA
* * *
34359837 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT-AAATTTC-TGTTTTC
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTTCGTGTTTT-
**
34359900 AAAAATCAA
65 -AATTTCAA
* * * * * *
34359909 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTGTCAATTTT-GTGTTTTA
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTTCGTGTTTTA
34359973 ATTT
66 ATTT
34359977 ATTTTCAAAA
Statistics
Matches: 293, Mismatches: 46, Indels: 67
0.72 0.11 0.17
Matches are distributed among these distances:
70 28 0.10
71 28 0.10
72 69 0.24
73 14 0.05
74 24 0.08
75 27 0.09
76 32 0.11
77 13 0.04
78 4 0.01
79 4 0.01
80 8 0.03
82 8 0.03
83 6 0.02
84 23 0.08
86 5 0.02
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (72 bp):
CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTTCGTGTTTTA
ATTTCAA
Found at i:34359744 original size:281 final size:284
Alignment explanation
Indices: 34359409--34360053 Score: 750
Period size: 281 Copynumber: 2.2 Consensus size: 284
34359399 TTTTTTCAAT
* *
34359409 TCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGATGAGGTAATTTCAATTTCTGTTTGTCAAG
1 TCATATTGCGAGAGGTGAGTTGAGCCTC-GACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAA
* *
34359474 AATCAACTCATATTGCGAGAAGTGGGTTGAACCT-T-T-TAATTTCTACTT-T-TTC-AAAATCA
65 AATCAACTCATATTGCGAGAAGTGAGTTGAACCTCTCTGTAATTTCAACTTCTGTTCAAAAATCA
* * *
34359533 GCTCATATTGCAAGAGGTGAGTTGAGCCTC-GGGCACACTGAGGTATTTTCAATTT-TGTGTTT-
130 ACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTAAATTTCTGT-TTTC
* ** * *
34359595 TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTT
194 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTGTCAATTTT
* *
34359660 CGTTTTTTAATTTATGTTTCAAAAATCGAC
259 -GTGTTTTAATTTAT-TTTCAAAAA--AAC
34359690 TCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAA
1 TCATATTGCGAGAGGTGAGTTGAGCCTC-GACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAA
* * * ** *
34359755 AATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACATGCTGAGGTCTTTTCAATTTCTG
65 AATCAACTCATATTGCGAGAAGTGAGTTGAACCT------C-T-CT---GTAATTTCAACTTCTG
* *
34359820 TTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
119 TTC-----AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTT
* *
34359885 TAAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGA
179 TAAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGA
34359950 GGTATTGTCAATTTTGTGTTTTAATTTATTTTCAAAAAAAC
244 GGTATTGTCAATTTTGTGTTTTAATTTATTTTCAAAAAAAC
* * * * * *
34359991 TCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGATTTCCATTTCTGTTTTTCAA
1 TCATATTGCGAGAGGTGAGTTGAGCCTCGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAA
34360054 TTTCTACTTT
Statistics
Matches: 308, Mismatches: 31, Indels: 31
0.83 0.08 0.08
Matches are distributed among these distances:
281 92 0.30
289 1 0.00
291 1 0.00
295 8 0.03
296 1 0.00
297 3 0.01
300 30 0.10
301 29 0.09
303 44 0.14
304 38 0.12
305 61 0.20
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (284 bp):
TCATATTGCGAGAGGTGAGTTGAGCCTCGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAA
ATCAACTCATATTGCGAGAAGTGAGTTGAACCTCTCTGTAATTTCAACTTCTGTTCAAAAATCAA
CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTAAATTTCTGTTTTCAA
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTGTCAATTTTGT
GTTTTAATTTATTTTCAAAAAAAC
Found at i:34359783 original size:72 final size:73
Alignment explanation
Indices: 34359678--34359963 Score: 391
Period size: 72 Copynumber: 3.9 Consensus size: 73
34359668 AATTTATGTT
*
34359678 TCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
34359742 TCTGTTTG
66 TCTGTTTG
* * **
34359750 TCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCCACATGCTGAGGTCTTTTCAA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAA
*
34359814 TTTCTGTTCG
64 TTTCTGTTTG
* * *
34359824 TAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAA
1 T--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
34359889 TTTCTGTTT-
64 TTTCTGTTTG
* * *
34359898 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGT-ATTGTCAAT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAAT
34359962 TT
65 TT
34359964 TGTGTTTTAA
Statistics
Matches: 190, Mismatches: 18, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
71 2 0.01
72 96 0.51
74 28 0.15
75 25 0.13
76 37 0.19
77 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (73 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TCTGTTTG
Found at i:34360070 original size:81 final size:82
Alignment explanation
Indices: 34359895--34360098 Score: 229
Period size: 81 Copynumber: 2.5 Consensus size: 82
34359885 TAAATTTCTG
* * **
34359895 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTGTCA
1 TTTT-AAAAAACAACTCATATTGCGAGAGGTGAGTTGAACCTCGAAGCACGCCGAGGTATTGTCA
34359960 ATTTTGTGTTTTAATTTA
65 ATTTTGTGTTTTAATTTA
* * *
34359978 TTTTCAAAAA-AACTCATATTGCGAGAGGTGAGTTGAACCTC-AAG-ACGCTGAGGTGATT-TCC
1 TTTTAAAAAACAACTCATATTGCGAGAGGTGAGTTGAACCTCGAAGCACGCCGAGGT-ATTGTCA
34360039 ATTTCTGT-TTTTCAATTTCTA
65 ATTT-TGTGTTTT-AA-TT-TA
*
34360060 CTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 --TTTTAAAAAACAACTCATATTGCGAGAGGTGAGTTGA
34360099 GTCTCGGCCA
Statistics
Matches: 104, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
79 19 0.18
80 9 0.09
81 32 0.31
82 6 0.06
83 4 0.04
84 8 0.08
85 26 0.25
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (82 bp):
TTTTAAAAAACAACTCATATTGCGAGAGGTGAGTTGAACCTCGAAGCACGCCGAGGTATTGTCAA
TTTTGTGTTTTAATTTA
Found at i:34360145 original size:13 final size:14
Alignment explanation
Indices: 34360120--34360171 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
34360110 ACGCTGAGGT
*
34360120 CTTTTCAAATTCTG
1 CTTTTCAATTTCTG
*
34360134 -TTTTTAATTTCTG
1 CTTTTCAATTTCTG
34360147 CTTTTCAATTTCTG
1 CTTTTCAATTTCTG
* *
34360161 GTTTCCAATTT
1 CTTTTCAATTT
34360172 ATATTTTTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 11 0.34
14 21 0.66
ACGTcount: A:0.17, C:0.17, G:0.08, T:0.58
Consensus pattern (14 bp):
CTTTTCAATTTCTG
Found at i:34361057 original size:30 final size:30
Alignment explanation
Indices: 34361023--34361184 Score: 263
Period size: 30 Copynumber: 5.4 Consensus size: 30
34361013 AATCTTAGCT
34361023 TTTTCCACCACCAACTCCACTAGCCACACC
1 TTTTCCACCACCAACTCCACTAGCCACACC
* *
34361053 TTTTCCACCACCAACTCCACTAGCCACTCT
1 TTTTCCACCACCAACTCCACTAGCCACACC
34361083 TTTTCCACCACCAACTCCACTAGCCACACC
1 TTTTCCACCACCAACTCCACTAGCCACACC
* *
34361113 TTTTCCACCACCAACTCCTCTAGCCAC-TC
1 TTTTCCACCACCAACTCCACTAGCCACACC
34361142 TTTTCCACCACCAACTCCACTAGCCACACC
1 TTTTCCACCACCAACTCCACTAGCCACACC
**
34361172 TTCCCCACCACCA
1 TTTTCCACCACCA
34361185 CTTGTACCTA
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
29 27 0.22
30 94 0.78
ACGTcount: A:0.25, C:0.50, G:0.03, T:0.22
Consensus pattern (30 bp):
TTTTCCACCACCAACTCCACTAGCCACACC
Found at i:34361086 original size:60 final size:60
Alignment explanation
Indices: 34361021--34361184 Score: 294
Period size: 60 Copynumber: 2.8 Consensus size: 60
34361011 TAAATCTTAG
34361021 CTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACT
1 CTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACT
*
34361081 CTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCTCTAGCCACT
1 CTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACT
**
34361141 C-TTTTCCACCACCAACTCCACTAGCCACACCTTCCCCACCACCA
1 CTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCA
34361185 CTTGTACCTA
Statistics
Matches: 101, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
59 41 0.41
60 60 0.59
ACGTcount: A:0.24, C:0.50, G:0.03, T:0.23
Consensus pattern (60 bp):
CTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACT
Found at i:34361775 original size:27 final size:27
Alignment explanation
Indices: 34361745--34361858 Score: 92
Period size: 25 Copynumber: 4.3 Consensus size: 27
34361735 ATTACGTATA
*
34361745 TATATATATATTTTATACTATTTTA-T
1 TATATATATATTTTATACTATATTATT
* * *
34361771 T-TATATATCTTTAATATTATATTATT
1 TATATATATATTTTATACTATATTATT
* *
34361797 TATATATATATTTT-TTCTACATGTTATCT
1 TATATATATATTTTATACT--ATATTAT-T
* * *
34361826 TATGTATATATCTTA-ACTATATTATG
1 TATATATATATTTTATACTATATTATT
34361852 TATATAT
1 TATATAT
34361859 TTTAACACTA
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
25 19 0.28
26 11 0.16
27 16 0.24
28 6 0.09
29 15 0.22
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (27 bp):
TATATATATATTTTATACTATATTATT
Found at i:34361775 original size:29 final size:28
Alignment explanation
Indices: 34361743--34361858 Score: 82
Period size: 27 Copynumber: 4.2 Consensus size: 28
34361733 ATATTACGTA
34361743 TATATATATATATTTTATAC--TATT-T
1 TATATATATATATTTTATACTATATTAT
* * * *
34361768 TATTTATATATCTTTAATATTATATTATT
1 TATATATATATATTTTATACTATATTA-T
* * *
34361797 TATATATATATTTTTTCTAC-ATGTTAT
1 TATATATATATATTTTATACTATATTAT
* *
34361824 CT-TATGTATATATCTTA-ACTATATTAT
1 -TATATATATATATTTTATACTATATTAT
34361851 GTATATAT
1 -TATATAT
34361859 TTTAACACTA
Statistics
Matches: 67, Mismatches: 17, Indels: 11
0.71 0.18 0.12
Matches are distributed among these distances:
25 16 0.24
26 2 0.03
27 23 0.34
28 10 0.15
29 16 0.24
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.58
Consensus pattern (28 bp):
TATATATATATATTTTATACTATATTAT
Found at i:34361776 original size:25 final size:25
Alignment explanation
Indices: 34361747--34361890 Score: 87
Period size: 25 Copynumber: 5.6 Consensus size: 25
34361737 TACGTATATA
* *
34361747 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
34361772 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
** * *
34361797 TATATATATATTTTTTCTACATGTTATCT
1 TATATATAT-TTAATACT--ATATTAT-T
*
34361826 TATGTATATATCTT-A-ACTATATTATG
1 TA--TATATAT-TTAATACTATATTATT
* *
34361852 TATATAT-TTTAACACTATATTATG
1 TATATATATTTAATACTATATTATT
* *
34361876 TACATATTTTTAATA
1 TATATATATTTAATA
34361891 TTATCACGTA
Statistics
Matches: 93, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
22 2 0.02
23 2 0.02
24 22 0.24
25 35 0.38
26 6 0.06
27 6 0.06
28 6 0.06
29 5 0.05
31 9 0.10
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:34361868 original size:24 final size:22
Alignment explanation
Indices: 34361825--34361885 Score: 86
Period size: 24 Copynumber: 2.7 Consensus size: 22
34361815 ACATGTTATC
*
34361825 TTATGTATATATCTTAACTATA
1 TTATGTATATATTTTAACTATA
34361847 TTATGTATATATTTTAACACTATA
1 TTATGTATATATTTT-A-ACTATA
*
34361871 TTATGTACATATTTT
1 TTATGTATATATTTT
34361886 TAATATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.40
23 1 0.03
24 20 0.57
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.52
Consensus pattern (22 bp):
TTATGTATATATTTTAACTATA
Found at i:34362074 original size:17 final size:17
Alignment explanation
Indices: 34362033--34362081 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
34362023 ATATTAATTA
*
34362033 TTAT-TATTCTAATATT
1 TTATATATTTTAATATT
*
34362049 TT-GATATTTTAATATT
1 TTATATATTTTAATATT
*
34362065 TTATATATTTTATTATT
1 TTATATATTTTAATATT
34362082 CACATCATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTATATATTTTAATATT
Found at i:34369780 original size:7 final size:7
Alignment explanation
Indices: 34369770--34369794 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34369760 ATATCATATT
34369770 AAATTTA
1 AAATTTA
34369777 AAATTTA
1 AAATTTA
34369784 AAATTTA
1 AAATTTA
34369791 AAAT
1 AAAT
34369795 ATAATGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTTA
Found at i:34370615 original size:24 final size:24
Alignment explanation
Indices: 34370599--34370652 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
34370589 AATCAAAGTC
34370599 AAATATATTATGTTAATAAATGCT
1 AAATATATTATGTTAATAAATGCT
* *
34370623 AAATATATTATACTT-ATAAATACT
1 AAATATATTAT-GTTAATAAATGCT
34370647 AAATAT
1 AAATAT
34370653 TCTAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (24 bp):
AAATATATTATGTTAATAAATGCT
Found at i:34375002 original size:24 final size:24
Alignment explanation
Indices: 34374960--34375011 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
34374950 AATCAAAGTC
** *
34374960 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
34374984 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
34375008 AAAT
1 AAAT
34375012 CTTTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:34376140 original size:25 final size:26
Alignment explanation
Indices: 34376112--34376165 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
34376102 TGTATAAGGT
34376112 AAATAATAT-ATAATTAAAA-AATAAA
1 AAATAATATGA-AATTAAAAGAATAAA
*
34376137 AAATAATGTGAAATTAAAAGGAATAAA
1 AAATAATATGAAATTAAAA-GAATAAA
34376164 AA
1 AA
34376166 TTAAATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 16 0.64
26 1 0.04
27 8 0.32
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (26 bp):
AAATAATATGAAATTAAAAGAATAAA
Found at i:34376269 original size:24 final size:23
Alignment explanation
Indices: 34376217--34376269 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
34376207 TGATTAAAAT
* *
34376217 AATAAAAAGAATATATGTATTTT
1 AATAAAAAGAATATATGTATATC
34376240 AA-AAAAA-AATTATATGTGATATC
1 AATAAAAAGAA-TATATGT-ATATC
34376263 AATAAAA
1 AATAAAA
34376270 TTTTAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 2 0.08
22 12 0.48
23 7 0.28
24 4 0.16
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (23 bp):
AATAAAAAGAATATATGTATATC
Found at i:34377612 original size:3 final size:3
Alignment explanation
Indices: 34377601--34377670 Score: 115
Period size: 3 Copynumber: 23.7 Consensus size: 3
34377591 TAATTTCAAA
* *
34377601 AAG AA- AAG AAG AAG AAG AAG AAG AAG AAT TAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
34377648 AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AA
34377671 AATAATGTGT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:34377755 original size:21 final size:21
Alignment explanation
Indices: 34377729--34377787 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
34377719 AAGATAATTT
*
34377729 AGGTACAACACCCTTC-CACCC
1 AGGTACAACACCCTTCTCA-AC
* *
34377750 AGGTACAACTCCCTTCTCAAG
1 AGGTACAACACCCTTCTCAAC
34377771 AGGTACAACACCCTTCT
1 AGGTACAACACCCTTCT
34377788 AGTTGGGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.29, C:0.39, G:0.12, T:0.20
Consensus pattern (21 bp):
AGGTACAACACCCTTCTCAAC
Found at i:34380133 original size:30 final size:30
Alignment explanation
Indices: 34380099--34380244 Score: 154
Period size: 30 Copynumber: 4.9 Consensus size: 30
34380089 AGAATCAGTC
* * * *
34380099 TGGGCCTGAGCCCTATATAGTAGCAGTGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTGTG
* * *
34380129 TGGGCCATAGCCCAATACAGTAATAGAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTGTG
* *
34380159 TGGGCCTTAGCCCAAAATAGTAACAGAT-TG
1 TGGGCCTTAGCCCAATACAGTAACAG-TGTG
*
34380189 TGGGCCTTAGCCCTATACAGTAACA--GTG
1 TGGGCCTTAGCCCAATACAGTAACAGTGTG
*
34380217 TGGGCCTTAGCCCAAAACAGTAATCAGT
1 TGGGCCTTAGCCCAATACAGTAA-CAGT
34380245 ACAAATGCAG
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
28 23 0.24
29 2 0.02
30 69 0.73
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (30 bp):
TGGGCCTTAGCCCAATACAGTAACAGTGTG
Found at i:34380192 original size:60 final size:58
Alignment explanation
Indices: 34380094--34380244 Score: 178
Period size: 60 Copynumber: 2.6 Consensus size: 58
34380084 CATGCAGAAT
* * * * *
34380094 CAGTCTGGGCCTGAGCCCTATATAGTAGCAGTGTGTGGGCCATAGCCCAATACAGTAATA
1 CAGTGTGGGCCTTAGCCCAAAATAGTAACAGTGTGTGGGCCATAGCCCAATACAGT-A-A
* * *
34380154 GAGTGTGGGCCTTAGCCCAAAATAGTAACAGAT-TGTGGGCCTTAGCCCTATACAGTAA
1 CAGTGTGGGCCTTAGCCCAAAATAGTAACAG-TGTGTGGGCCATAGCCCAATACAGTAA
*
34380212 CAGTGTGGGCCTTAGCCCAAAACAGTAATCAGT
1 CAGTGTGGGCCTTAGCCCAAAATAGTAA-CAGT
34380245 ACAAATGCAG
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
58 28 0.35
59 4 0.05
60 46 0.58
61 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (58 bp):
CAGTGTGGGCCTTAGCCCAAAATAGTAACAGTGTGTGGGCCATAGCCCAATACAGTAA
Found at i:34380380 original size:26 final size:26
Alignment explanation
Indices: 34380349--34380447 Score: 126
Period size: 26 Copynumber: 3.8 Consensus size: 26
34380339 ACACACCAAA
*
34380349 ATCGCAACAAAGCTGCCAGTATTAGT
1 ATCGCAACAAAGCTGCCAGTATCAGT
* * *
34380375 AACGCAACAAAACTGCCAGTAACAGT
1 ATCGCAACAAAGCTGCCAGTATCAGT
* *
34380401 ATCGCAGCAAAGCTGCTAGTATCAGT
1 ATCGCAACAAAGCTGCCAGTATCAGT
* *
34380427 ATCGCAGCAAAGTTGCCAGTA
1 ATCGCAACAAAGCTGCCAGTA
34380448 ACAATATTTG
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.19
Consensus pattern (26 bp):
ATCGCAACAAAGCTGCCAGTATCAGT
Found at i:34380444 original size:52 final size:52
Alignment explanation
Indices: 34380349--34380450 Score: 141
Period size: 52 Copynumber: 2.0 Consensus size: 52
34380339 ACACACCAAA
*
34380349 ATCGCAACAAAGCTGCCAGTATTAGTAACGCAACAAAACTGCCAGTAACAGT
1 ATCGCAACAAAGCTGCCAGTATCAGTAACGCAACAAAACTGCCAGTAACAGT
* * * * **
34380401 ATCGCAGCAAAGCTGCTAGTATCAGTATCGCAGCAAAGTTGCCAGTAACA
1 ATCGCAACAAAGCTGCCAGTATCAGTAACGCAACAAAACTGCCAGTAACA
34380451 ATATTTGTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.19
Consensus pattern (52 bp):
ATCGCAACAAAGCTGCCAGTATCAGTAACGCAACAAAACTGCCAGTAACAGT
Found at i:34380679 original size:27 final size:27
Alignment explanation
Indices: 34380649--34380982 Score: 402
Period size: 27 Copynumber: 12.3 Consensus size: 27
34380639 TATAAAGGTT
* *
34380649 ATTTTACCCCTT-GGGGGTATTTCAGTA
1 ATTTTA-CCCTTCGAGGGTATTTCGGTA
* *
34380676 ATTTTACCCTTCGAGGGCATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
34380703 GTTTTACCCTTCGAGGGTGTTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
34380730 ATTTTACCCTTCGAGGGTGTTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
34380757 GTTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
34380784 ATTTTACTCATCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
**
34380811 ATTTTACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
34380838 ATTTTTACCCTTCAAGGGTATTTTGGTA
1 A-TTTTACCCTTCGAGGGTATTTCGGTA
* * *
34380866 AGTTTACCCTT-TAGGAGTATTTTGGTA
1 ATTTTACCCTTCGAGG-GTATTTCGGTA
* *
34380893 ATTTTACCCTTCAAGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
34380920 ATTTTACCCTTCAAGGGTATTTCGGGA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
34380947 ATTTTACCCTTTGGGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
34380974 ATTTTACCC
1 ATTTTACCC
34380983 ACGAATCGCA
Statistics
Matches: 267, Mismatches: 36, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
26 8 0.03
27 231 0.87
28 28 0.10
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTA
Found at i:34382961 original size:20 final size:20
Alignment explanation
Indices: 34382936--34382973 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34382926 CTTGTATGGG
34382936 TTTGCACTTTAATGCCTCCA
1 TTTGCACTTTAATGCCTCCA
*
34382956 TTTGCACTTTAGTGCCTC
1 TTTGCACTTTAATGCCTC
34382974 TATTAGCATT
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:0.16, C:0.29, G:0.13, T:0.42
Consensus pattern (20 bp):
TTTGCACTTTAATGCCTCCA
Found at i:34386121 original size:18 final size:18
Alignment explanation
Indices: 34386098--34386135 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
34386088 TTGAATATAA
34386098 TATGCGAATGTGTAAGTG
1 TATGCGAATGTGTAAGTG
34386116 TATGCGAATGTGTAAGTG
1 TATGCGAATGTGTAAGTG
34386134 TA
1 TA
34386136 CATGTCGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.32, T:0.34
Consensus pattern (18 bp):
TATGCGAATGTGTAAGTG
Found at i:34396922 original size:52 final size:52
Alignment explanation
Indices: 34396861--34397046 Score: 170
Period size: 52 Copynumber: 3.6 Consensus size: 52
34396851 TGATGAACAC
*
34396861 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-AATAA-ATAATGGTCACAG
1 GTGT-TAGTACTATGTGAAGGCTACTACGTGTACCGAA-AAGAT-ATGGTCACAG
* * * * * *
34396914 GTGTTAGTACTAAGTGAAGGCTACCATGTGTACCGAAAAGCTTTGGTCACAT
1 GTGTTAGTACTATGTGAAGGCTACTACGTGTACCGAAAAGATATGGTCACAG
* * *
34396966 GTG-TAGTACTATGTGAAGGCTACTACGTGGACCGTAAAA-CT-TGATCAC--
1 GTGTTAGTACTATGTGAAGGCTACTACGTGTACCG-AAAAGATATGGTCACAG
* *
34397014 GTGTGTAGCAATATGTGAAGGCTACTACGTGTA
1 GTGT-TAGTACTATGTGAAGGCTACTACGTGTA
34397047 TCGATTGATA
Statistics
Matches: 113, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
48 3 0.03
50 31 0.27
51 29 0.26
52 43 0.38
53 7 0.06
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (52 bp):
GTGTTAGTACTATGTGAAGGCTACTACGTGTACCGAAAAGATATGGTCACAG
Found at i:34397029 original size:50 final size:51
Alignment explanation
Indices: 34396927--34397044 Score: 150
Period size: 50 Copynumber: 2.3 Consensus size: 51
34396917 TTAGTACTAA
* * * * * *
34396927 GTGAAGGCTACCATGTGTACCGAAAAGCTTTGGTCACATGTGTAGTACTAT
1 GTGAAGGCTACTACGTGGACCGAAAAGCTTTGATCACATGTGTAGCAATAT
*
34396978 GTGAAGGCTACTACGTGGACCGTAAAA-C-TTGATCACGTGTGTAGCAATAT
1 GTGAAGGCTACTACGTGGACCG-AAAAGCTTTGATCACATGTGTAGCAATAT
34397028 GTGAAGGCTACTACGTG
1 GTGAAGGCTACTACGTG
34397045 TATCGATTGA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 35 0.59
51 20 0.34
52 4 0.07
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (51 bp):
GTGAAGGCTACTACGTGGACCGAAAAGCTTTGATCACATGTGTAGCAATAT
Found at i:34397418 original size:16 final size:14
Alignment explanation
Indices: 34397381--34397420 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
34397371 ATGCCCAAAA
34397381 GAGTTATATATTCT
1 GAGTTATATATTCT
34397395 GAGTTATATATTCT
1 GAGTTATATATTCT
34397409 GAGTTATATATT
1 GAGTTATATATT
34397421 ATGTTTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (14 bp):
GAGTTATATATTCT
Found at i:34399280 original size:21 final size:21
Alignment explanation
Indices: 34399256--34399297 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
34399246 TAAAAAAAGA
34399256 TGGCATGATAAGCACACCCAT
1 TGGCATGATAAGCACACCCAT
34399277 TGGCATGATAAGCACACCCAT
1 TGGCATGATAAGCACACCCAT
34399298 CCTCGTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (21 bp):
TGGCATGATAAGCACACCCAT
Found at i:34399594 original size:5 final size:6
Alignment explanation
Indices: 34399578--34399615 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
34399568 TAAATAAATA
34399578 ATTTTT ATTTTT ATTTTT A-TTTT ATCCTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT AT--TTTT ATTTTT A
34399616 ATTGTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.17
6 18 0.62
8 6 0.21
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:34406060 original size:32 final size:32
Alignment explanation
Indices: 34406014--34406075 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
34406004 TTCTCTAAAG
* *
34406014 TGTCAGAATAGTAGTTTTGGGGCCAAAAATAT
1 TGTCAGAATAGTAGTTTCGGGGCAAAAAATAT
*
34406046 TGTCGGAATAGTAGTTTCGGGGCAAAAAAT
1 TGTCAGAATAGTAGTTTCGGGGCAAAAAAT
34406076 CTAACGTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (32 bp):
TGTCAGAATAGTAGTTTCGGGGCAAAAAATAT
Found at i:34407559 original size:90 final size:89
Alignment explanation
Indices: 34407351--34407568 Score: 260
Period size: 89 Copynumber: 2.4 Consensus size: 89
34407341 ATACCAGAAA
* * **
34407351 CGAGTAAGACCATGACTAAAAGACGTTATGCCATCACGATTCTATTGAGTAAGACCATGACTAAA
1 CGAGTAAGACCATGACTGAAAGACGTTATGACATCACGATTCTAACGAGTAAGACCATGACTAAA
** *
34407416 GATGTTATGGCATCATGATTCTAT
66 GACATTATGGCATCACGATTCTAT
* * * * * *
34407440 CGAGTAAGACCATGATTGAAATACATTATGGCATCATGATTCTAACGAGTAAGACCATGATTGAA
1 CGAGTAAGACCATGACTGAAAGACGTTATGACATCACGATTCTAACGAGTAAGACCATGACT-AA
*
34407505 AGACATTATTGCATCACGATTCTAT
65 AGACATTATGGCATCACGATTCTAT
*
34407530 CGAGTAAGACTC-T-AGCTGAAAGATGTTATGACATCACGA
1 CGAGTAAGAC-CATGA-CTGAAAGACGTTATGACATCACGA
34407569 CAGAAAATGA
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
89 54 0.50
90 52 0.49
91 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (89 bp):
CGAGTAAGACCATGACTGAAAGACGTTATGACATCACGATTCTAACGAGTAAGACCATGACTAAA
GACATTATGGCATCACGATTCTAT
Found at i:34407565 original size:45 final size:45
Alignment explanation
Indices: 34407351--34407568 Score: 262
Period size: 45 Copynumber: 4.9 Consensus size: 45
34407341 ATACCAGAAA
* *
34407351 CGAGTAAGACCATGACTAAAAGACGTTATGCCATCACGATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
* * *
34407396 TGAGTAAGACCATGACT-AAAGATGTTATGGCATCATGATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
* * * * *
34407440 CGAGTAAGACCATGATTGAAATACATTATGGCATCATGATTCTAA
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
* * *
34407485 CGAGTAAGACCATGATTGAAAGACATTATTGCATCACGATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
* *
34407530 CGAGTAAGACTC-T-AGCTGAAAGATGTTATGACATCACGA
1 CGAGTAAGAC-CATGA-CTGAAAGACGTTATGGCATCACGA
34407569 CAGAAAATGA
Statistics
Matches: 151, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
44 40 0.26
45 110 0.73
46 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (45 bp):
CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
Found at i:34413526 original size:40 final size:40
Alignment explanation
Indices: 34413430--34413654 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
34413420 TTGAATGCTG
* *
34413430 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
*
34413469 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34413509 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34413549 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
34413589 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
34413630 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34413655 AACGAGGAGC
Statistics
Matches: 170, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
39 19 0.11
40 141 0.83
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34413672 original size:80 final size:80
Alignment explanation
Indices: 34413430--34413687 Score: 251
Period size: 80 Copynumber: 3.2 Consensus size: 80
34413420 TTGAATGCTG
* * * * *
34413430 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAA-TTACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
** *
34413491 TTTGTGCGAGTTACTAAA
63 TTTGAACGAGTGACTAAA
* * *
34413509 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
34413574 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
34413589 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAATTACTATAA-CCGGGCTATGTCCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAATTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
34413653 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
34413669 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
34413688 TACGTGATTT
Statistics
Matches: 156, Mismatches: 17, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
79 36 0.23
80 109 0.70
81 11 0.07
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTACGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:34413672 original size:120 final size:119
Alignment explanation
Indices: 34413430--34413687 Score: 276
Period size: 120 Copynumber: 2.2 Consensus size: 119
34413420 TTGAATGCTG
*
34413430 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
* * * ** *
34413495 TGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
66 TACGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
* * **
34413549 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
* * *
34413611 TTTGTACGAATTACTATAA-CCGGGCTATGTCCCGAAGGTATTTGAACGAG-GAGCTATA
62 TTTGTACGAATTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
34413669 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
34413688 TACGTGATTT
Statistics
Matches: 117, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
119 36 0.31
120 71 0.61
121 10 0.09
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
TACGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:34429520 original size:40 final size:40
Alignment explanation
Indices: 34429462--34429848 Score: 693
Period size: 40 Copynumber: 9.7 Consensus size: 40
34429452 AGCATTGGAT
34429462 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
34429502 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
34429542 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
34429582 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
34429622 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
34429662 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
34429702 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
34429742 TATATCCGGGCTAAGACCTGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
34429782 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
34429822 TATGCCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
34429849 ATGTGTTTGC
Statistics
Matches: 332, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 332 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:34435063 original size:50 final size:50
Alignment explanation
Indices: 34435004--34435119 Score: 178
Period size: 50 Copynumber: 2.3 Consensus size: 50
34434994 ATTAAAGCGA
**
34435004 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGACACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGACACCAAGATGAGAAC
* * *
34435054 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGACACCAAGATGAGAAC
*
34435104 TACCATGTAAGACCAT
1 TCCCATGTAAGACCAT
34435120 ATCTAAGATA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGACACCAAGATGAGAAC
Found at i:34439181 original size:13 final size:13
Alignment explanation
Indices: 34439163--34439187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34439153 AGTAGTGAGG
34439163 ATTTTAAGGATAA
1 ATTTTAAGGATAA
34439176 ATTTTAAGGATA
1 ATTTTAAGGATA
34439188 TGAAAGAGAG
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
ATTTTAAGGATAA
Found at i:34452716 original size:19 final size:20
Alignment explanation
Indices: 34452692--34452731 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
34452682 TGACCCTCTT
*
34452692 ATTGAACAT-AAAATAAAAA
1 ATTGAAAATAAAAATAAAAA
34452711 ATTGAAAATAAAAATAAAAA
1 ATTGAAAATAAAAATAAAAA
34452731 A
1 A
34452732 GAAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (20 bp):
ATTGAAAATAAAAATAAAAA
Found at i:34464329 original size:27 final size:25
Alignment explanation
Indices: 34464306--34464404 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 25
34464296 CCTTAGATCA
*
34464306 TGACAAAGGCTTCCATTTAATAGATT
1 TGACAAAGGCTTCCATTTCATAGA-T
* *
34464332 TCCACAAAGGCTTCCATTTCATAAAT
1 T-GACAAAGGCTTCCATTTCATAGAT
34464358 TGCTACAAAGGCTTCCATTTCATAGAT
1 TG--ACAAAGGCTTCCATTTCATAGAT
* *
34464385 TGCCATAAAGGTTTCCATTT
1 TG--ACAAAGGCTTCCATTT
34464405 TCTAGCGTGT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
26 3 0.05
27 59 0.95
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (25 bp):
TGACAAAGGCTTCCATTTCATAGAT
Found at i:34465477 original size:27 final size:27
Alignment explanation
Indices: 34465447--34465500 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
34465437 ATGTATCCTT
**
34465447 AAGTTATCCCTTCGTTTGATTTTGACC
1 AAGTTATCCCTTCGTTCAATTTTGACC
34465474 AAGTTATCCCTTCGTTCAATTTTGACC
1 AAGTTATCCCTTCGTTCAATTTTGACC
34465501 TTCTCGTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (27 bp):
AAGTTATCCCTTCGTTCAATTTTGACC
Found at i:34466953 original size:35 final size:35
Alignment explanation
Indices: 34466861--34466998 Score: 116
Period size: 35 Copynumber: 3.9 Consensus size: 35
34466851 GAAAGACATA
* * *
34466861 TATACCATTTACATGGTGTCAACCCGAAAGACCTA
1 TATACCATTTACATGGTGTCACCCCGAAGGACCTG
* ** * ** *
34466896 AATACTGTTTACACGGCATCGCCCCGAAGGACCTG
1 TATACCATTTACATGGTGTCACCCCGAAGGACCTG
* * *
34466931 TATACCATTTACATGGTGTC-GCCCTAGAGGACTTG
1 TATACCATTTACATGGTGTCACCCCGA-AGGACCTG
* * *
34466966 TATACCGTTTACGTGGTGTCACCTCGAAGGACC
1 TATACCATTTACATGGTGTCACCCCGAAGGACC
34466999 AGTTGATAAC
Statistics
Matches: 76, Mismatches: 25, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
34 4 0.05
35 69 0.91
36 3 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (35 bp):
TATACCATTTACATGGTGTCACCCCGAAGGACCTG
Found at i:34470264 original size:65 final size:65
Alignment explanation
Indices: 34470159--34470304 Score: 204
Period size: 65 Copynumber: 2.2 Consensus size: 65
34470149 ATGGGACATG
* * * *
34470159 TTTGGTGTGTTGGAGAGTGTTAACTTTGAGCTTTATTTTTGGGATATGTTCGACTCTATGAGTCA
1 TTTGGTGTGTTAGAGAGTGTTAACTTTGAGCTTCACTTTTGGGATATGTTCAACTCTATGAGTCA
* *
34470224 TTTGGTGTGTTAGAGGGTGTTAGCTTT-ATGCTTCACTTTTGGGATATGTTCAACTCTATGAGTC
1 TTTGGTGTGTTAGAGAGTGTTAACTTTGA-GCTTCACTTTTGGGATATGTTCAACTCTATGAGTC
34470288 A
65 A
* *
34470289 TTTAGTGTGTTGGAGA
1 TTTGGTGTGTTAGAGA
34470305 TTCATGTATC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 1 0.01
65 70 0.99
ACGTcount: A:0.18, C:0.10, G:0.28, T:0.44
Consensus pattern (65 bp):
TTTGGTGTGTTAGAGAGTGTTAACTTTGAGCTTCACTTTTGGGATATGTTCAACTCTATGAGTCA
Found at i:34473329 original size:24 final size:24
Alignment explanation
Indices: 34473302--34473350 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
34473292 AATGGTTAAT
34473302 TTGTGTTTCTTACCTACCACAGAA
1 TTGTGTTTCTTACCTACCACAGAA
34473326 TTGTGTTTCTTACCTACCACAGAA
1 TTGTGTTTCTTACCTACCACAGAA
34473350 T
1 T
34473351 GGAAGGATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (24 bp):
TTGTGTTTCTTACCTACCACAGAA
Found at i:34474264 original size:100 final size:100
Alignment explanation
Indices: 34474091--34474291 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
34474081 TTTAAACCAA
34474091 AATAAATTGAATAAAAGTAAATTTCATATCAAGATATCGGTCGCTCCATTAATATTTTATCTTTG
1 AATAAATTGAATAAAAGTAAATTTCATATCAAGATATCGGTCGCTCCATTAATATTTTATCTTTG
34474156 GACAAAATAGTAACTTGTAAGTGATACATTGTTGT
66 GACAAAATAGTAACTTGTAAGTGATACATTGTTGT
34474191 AATAAATTGAATAAAAGTAAATTTCATATCAAGATATCGGTCGCTCCATTAATATTTTATCTTTG
1 AATAAATTGAATAAAAGTAAATTTCATATCAAGATATCGGTCGCTCCATTAATATTTTATCTTTG
34474256 GACAAAATAGTAACTTGTAAGTGATACATTGTTGT
66 GACAAAATAGTAACTTGTAAGTGATACATTGTTGT
34474291 A
1 A
34474292 GTAATCAAAC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (100 bp):
AATAAATTGAATAAAAGTAAATTTCATATCAAGATATCGGTCGCTCCATTAATATTTTATCTTTG
GACAAAATAGTAACTTGTAAGTGATACATTGTTGT
Found at i:34474926 original size:7 final size:7
Alignment explanation
Indices: 34474914--34474963 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
34474904 TTAAAAGTTA
34474914 TTAATTT
1 TTAATTT
34474921 TTAATTT
1 TTAATTT
34474928 TTAA--T
1 TTAATTT
34474933 TTAATTT
1 TTAATTT
*
34474940 TTCATCCTT
1 TTAAT--TT
34474949 TTAATTT
1 TTAATTT
34474956 TTGAATTT
1 TT-AATTT
34474964 ATTTTTTATC
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
5 5 0.14
7 20 0.56
8 5 0.14
9 6 0.17
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (7 bp):
TTAATTT
Found at i:34475108 original size:9 final size:9
Alignment explanation
Indices: 34475096--34475150 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
34475086 TTAAAAATAT
34475096 TTTTTATAA
1 TTTTTATAA
*
34475105 TTTTTATACC
1 TTTTTATA-A
34475115 TTTTTAATAA
1 TTTTT-ATAA
34475125 --TTT-TAA
1 TTTTTATAA
34475131 TTTTTATAA
1 TTTTTATAA
*
34475140 TTTTTAAAA
1 TTTTTATAA
34475149 TT
1 TT
34475151 ATAAAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
6 3 0.08
8 6 0.16
9 21 0.55
10 5 0.13
11 3 0.08
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:34475135 original size:26 final size:24
Alignment explanation
Indices: 34475102--34475150 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
34475092 ATATTTTTTA
*
34475102 TAATTTTTATACCTTTTTAATAATTT
1 TAATTTTTATA-ATTTTTAA-AATTT
34475128 TAATTTTTATAATTTTTAAAATT
1 TAATTTTTATAATTTTTAAAATT
34475151 ATAAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 7 0.32
26 11 0.50
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (24 bp):
TAATTTTTATAATTTTTAAAATTT
Found at i:34480986 original size:16 final size:16
Alignment explanation
Indices: 34480964--34481011 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
34480954 TTGGATTGTT
34480964 ATTTTTTTATTTTTT-
1 ATTTTTTTATTTTTTA
* *
34480979 AGTTTTTTATATTTTGA
1 ATTTTTTTAT-TTTTTA
34480996 ATTTTTTATATTTTTT
1 ATTTTTT-TATTTTTT
34481012 TGGAATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 9 0.35
16 4 0.15
17 10 0.38
18 3 0.12
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (16 bp):
ATTTTTTTATTTTTTA
Found at i:34480993 original size:9 final size:9
Alignment explanation
Indices: 34480963--34481011 Score: 52
Period size: 8 Copynumber: 5.9 Consensus size: 9
34480953 TTTGGATTGT
34480963 TATTTTTT-
1 TATTTTTTA
34480971 TATTTTTTA
1 TATTTTTTA
*
34480980 -GTTTTTTA
1 TATTTTTTA
*
34480988 TA-TTTTGA
1 TATTTTTTA
34480996 -ATTTTTTA
1 TATTTTTTA
34481004 TATTTTTT
1 TATTTTTT
34481012 TGGAATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
7 1 0.03
8 25 0.76
9 7 0.21
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (9 bp):
TATTTTTTA
Found at i:34483300 original size:19 final size:20
Alignment explanation
Indices: 34483266--34483340 Score: 80
Period size: 21 Copynumber: 3.7 Consensus size: 20
34483256 GTACATCGTT
* *
34483266 AACAGAAGCTCGTA-AGCTG
1 AACAGAAACTCATAGAGCTG
* *
34483285 AACAGAAACTCTTAAGAGTTG
1 AACAGAAACTCAT-AGAGCTG
34483306 AACAGAAACTCATAGGAGCTG
1 AACAGAAACTCATA-GAGCTG
*
34483327 AACGGAAACTCATA
1 AACAGAAACTCATA
34483341 AGAGTTAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 11 0.23
20 2 0.04
21 34 0.72
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (20 bp):
AACAGAAACTCATAGAGCTG
Found at i:34483309 original size:21 final size:21
Alignment explanation
Indices: 34483283--34483376 Score: 98
Period size: 21 Copynumber: 4.5 Consensus size: 21
34483273 GCTCGTAAGC
*
34483283 TGAACAGAAACTCTTAAGAGT
1 TGAACAGAAACTCATAAGAGT
* *
34483304 TGAACAGAAACTCATAGGAGC
1 TGAACAGAAACTCATAAGAGT
*
34483325 TGAACGGAAACTCATAAGAGT
1 TGAACAGAAACTCATAAGAGT
* * * * *
34483346 TAAATATAAGCTCGTAAGAGT
1 TGAACAGAAACTCATAAGAGT
*
34483367 TAAACAGAAA
1 TGAACAGAAA
34483377 GTAAAACACA
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (21 bp):
TGAACAGAAACTCATAAGAGT
Found at i:34486824 original size:19 final size:17
Alignment explanation
Indices: 34486786--34486839 Score: 67
Period size: 19 Copynumber: 3.1 Consensus size: 17
34486776 ATTTATTTTT
34486786 TAAAATTA-AAAATAAT-
1 TAAAATTATAAAA-AATA
34486802 TAAAATTATTAAGAAAATA
1 TAAAATTA-TAA-AAAATA
34486821 TAAAATTATAAAAAATA
1 TAAAATTATAAAAAATA
34486838 TA
1 TA
34486840 TTTTTAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.24
17 8 0.24
18 8 0.24
19 10 0.29
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
TAAAATTATAAAAAATA
Found at i:34487005 original size:19 final size:19
Alignment explanation
Indices: 34486963--34487010 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
34486953 AAATATAAAT
34486963 TTAAAAATTAAAAGAGACA
1 TTAAAAATTAAAAGAGACA
*
34486982 -AAAAAATTAAATAGAGA-A
1 TTAAAAATTAAA-AGAGACA
34487000 TTAAAACATTA
1 TTAAAA-ATTA
34487011 TTTTATATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 11 0.46
19 9 0.38
20 4 0.17
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.23
Consensus pattern (19 bp):
TTAAAAATTAAAAGAGACA
Found at i:34491023 original size:18 final size:18
Alignment explanation
Indices: 34491000--34491133 Score: 76
Period size: 18 Copynumber: 6.9 Consensus size: 18
34490990 TTATTATTAA
34491000 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
34491018 ATATAATTTAAT-AACAT
1 ATATAATTTAATAAAAAT
*
34491035 ATATGAATTTACTAAAATCAT
1 ATAT-AATTTAATAAAA--AT
* * *
34491056 AATATACA-ATACTATAAA-
1 -ATATA-ATTTAATAAAAAT
*
34491074 ATATAATTTAAAATAATTATTATTAA
1 ATATAATTT--AATAA--A--A--AT
34491100 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
34491118 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
34491134 TTCTTAGTAT
Statistics
Matches: 91, Mismatches: 9, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
16 1 0.01
17 14 0.15
18 36 0.40
19 6 0.07
20 1 0.01
21 11 0.12
22 6 0.07
23 1 0.01
24 5 0.05
25 1 0.01
26 9 0.10
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.39
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:34491177 original size:23 final size:21
Alignment explanation
Indices: 34491100--34491179 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 21
34491090 TTATTATTAA
*
34491100 ATATAATTTAATAAAA---AT
1 ATATAATTTAATAAAATTCTT
34491118 ATATAATTTAATAAAATTCTT
1 ATATAATTTAATAAAATTCTT
* *
34491139 AGTATTAA-ATATTAAATATTCTT
1 A-TA-TAATTTAATAAA-ATTCTT
*
34491162 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
34491180 CATAATATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
18 16 0.33
21 3 0.06
22 14 0.29
23 16 0.33
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (21 bp):
ATATAATTTAATAAAATTCTT
Found at i:34491180 original size:127 final size:127
Alignment explanation
Indices: 34491034--34491278 Score: 463
Period size: 127 Copynumber: 1.9 Consensus size: 127
34491024 TTTAATAACA
34491034 TATATGAATTTACTAAAATCATAATATACAATACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATACAATACTATAAAATATAATTTAAAATAATTATTATTA
* *
34491099 AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGGATTAAATATTAAATATTCT
*
34491161 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATACAATACTATAAAATATAATTTAAAATAATTATTATTA
34491226 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGGATTAAATATT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGGATTAAATATT
34491279 CTTATGATTG
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
127 115 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (127 bp):
TATATGAATTTACTAAAATCATAATATACAATACTATAAAATATAATTTAAAATAATTATTATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGGATTAAATATTAAATATTCT
Found at i:34496762 original size:23 final size:22
Alignment explanation
Indices: 34496708--34496762 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
34496698 ATCAGGATCG
* *
34496708 TACCGAAGTGCTAGAAACAAGA
1 TACCAAAGTGCAAGAAACAAGA
* *
34496730 TCACCTAAGTGCAAGAAACATGAA
1 T-ACCAAAGTGCAAGAAACAAG-A
34496754 TACCAAAGT
1 TACCAAAGT
34496763 ACAAAACAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 1 0.04
23 24 0.89
24 2 0.07
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.16
Consensus pattern (22 bp):
TACCAAAGTGCAAGAAACAAGA
Done.