Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 87 of 131
Found at i:29123412 original size:17 final size:17
Alignment explanation
Indices: 29123390--29123422 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29123380 ATTTTTGTTT
29123390 GTCTGGGATTGATTTTC
1 GTCTGGGATTGATTTTC
*
29123407 GTCTGGGGTTGATTTT
1 GTCTGGGATTGATTTT
29123423 TTTTGTTGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.09, G:0.33, T:0.48
Consensus pattern (17 bp):
GTCTGGGATTGATTTTC
Found at i:29125871 original size:19 final size:19
Alignment explanation
Indices: 29125847--29125890 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
29125837 TAATTTTTAT
29125847 ATTTAAATATT-TAAATATA
1 ATTTAAATATTCTAAATA-A
*
29125866 ATTTAAATATTCTAATTAA
1 ATTTAAATATTCTAAATAA
29125885 ATTTAA
1 ATTTAA
29125891 TAAATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTAAATATTCTAAATAA
Found at i:29126139 original size:13 final size:13
Alignment explanation
Indices: 29126118--29126194 Score: 100
Period size: 13 Copynumber: 5.9 Consensus size: 13
29126108 ACACTCAAAT
29126118 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
29126131 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
29126144 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* * *
29126157 TTTTCCACATCAC
1 TTTTCAAAAGCAC
29126170 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
29126183 TTTTCAAAAGCA
1 TTTTCAAAAGCA
29126195 ATGAAGAACT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 54 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:29138543 original size:25 final size:25
Alignment explanation
Indices: 29138515--29138565 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
29138505 TCATTTATAC
29138515 TTCACCAGTCCCGTCTGTTTAAGTT
1 TTCACCAGTCCCGTCTGTTTAAGTT
29138540 TTCACCAGTCCCGTCTGTTTAAGTT
1 TTCACCAGTCCCGTCTGTTTAAGTT
29138565 T
1 T
29138566 ACTAATTCTT
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:0.27, G:0.16, T:0.41
Consensus pattern (25 bp):
TTCACCAGTCCCGTCTGTTTAAGTT
Found at i:29140053 original size:24 final size:25
Alignment explanation
Indices: 29140018--29140065 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
29140008 TTATGAAATT
29140018 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
29140042 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
29140066 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:29140261 original size:16 final size:16
Alignment explanation
Indices: 29140240--29140281 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
29140230 TTATTAAATT
*
29140240 ATATATTTTAATTATA
1 ATATATTTTAATAATA
29140256 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
29140271 AT-TATGTTTAA
1 ATATAT-TTTAA
29140282 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:29140266 original size:15 final size:15
Alignment explanation
Indices: 29140231--29140272 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
29140221 TTAAGAATTT
*
29140231 TATTAAATTAT-ATA
1 TATTTAATTATAATA
29140245 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
29140259 TATTTAATAATAAT
1 TATTTAATTATAAT
29140273 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:29140506 original size:45 final size:45
Alignment explanation
Indices: 29140448--29140558 Score: 213
Period size: 45 Copynumber: 2.5 Consensus size: 45
29140438 ACAATAATAA
29140448 TATTACGCCTCTATTCCATTACATTCAACCAAACAATTGAATTGC
1 TATTACGCCTCTATTCCATTACATTCAACCAAACAATTGAATTGC
29140493 TATTACGCCTCTATTCCATTACATTCAACCAAACAATTGAATTGC
1 TATTACGCCTCTATTCCATTACATTCAACCAAACAATTGAATTGC
*
29140538 TATTACGCCTCTAATCCATTA
1 TATTACGCCTCTATTCCATTA
29140559 ATCAAAATGT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.34
Consensus pattern (45 bp):
TATTACGCCTCTATTCCATTACATTCAACCAAACAATTGAATTGC
Found at i:29153352 original size:21 final size:21
Alignment explanation
Indices: 29153304--29153386 Score: 98
Period size: 21 Copynumber: 4.0 Consensus size: 21
29153294 CGAATAAGTC
*
29153304 AACAGAAGCTCG-AAG-GCTA
1 AACAGAAGCTCGTAAGAGCTG
* *
29153323 AACAAAAGCTTGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* *
29153344 AACAGAAGCTCATAAGAGCTT
1 AACAGAAGCTCGTAAGAGCTG
*
29153365 AACAGAAGCTTGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
29153386 A
1 A
29153387 TCCATCCAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
19 10 0.19
20 3 0.06
21 39 0.75
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:29153380 original size:42 final size:40
Alignment explanation
Indices: 29153304--29153386 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 40
29153294 CGAATAAGTC
29153304 AACAGAAGCTCGAAGGCTAAACAAAAGCTTGTAAGAGCTG
1 AACAGAAGCTCGAAGGCTAAACAAAAGCTTGTAAGAGCTG
* * *
29153344 AACAGAAGCTCATAAGAGCTTAACAGAAGCTTGTAAGAGCTG
1 AACAGAAGCTC-GAAG-GCTAAACAAAAGCTTGTAAGAGCTG
29153386 A
1 A
29153387 TCCATCCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 11 0.29
41 3 0.08
42 24 0.63
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (40 bp):
AACAGAAGCTCGAAGGCTAAACAAAAGCTTGTAAGAGCTG
Found at i:29159170 original size:35 final size:35
Alignment explanation
Indices: 29159124--29159208 Score: 118
Period size: 35 Copynumber: 2.4 Consensus size: 35
29159114 ATGTTTGGCA
*
29159124 TGTTTCGGTTGGACTAGCTCTTATGAGCATTGACG
1 TGTTTCGGTTGGACTAGCTCTTATGAGCATCGACG
* * *
29159159 TGTTTCTGTTGGATTAGCTCTTATGAGCATCGACT
1 TGTTTCGGTTGGACTAGCTCTTATGAGCATCGACG
29159194 TGTTAT-GGTTGGACT
1 TGTT-TCGGTTGGACT
29159209 GATGATGTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 42 0.98
36 1 0.02
ACGTcount: A:0.16, C:0.15, G:0.27, T:0.41
Consensus pattern (35 bp):
TGTTTCGGTTGGACTAGCTCTTATGAGCATCGACG
Found at i:29162728 original size:28 final size:28
Alignment explanation
Indices: 29162687--29162740 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
29162677 ATTCCAACAC
29162687 AGAATCCGAACATGCTCAACATTTGAAA
1 AGAATCCGAACATGCTCAACATTTGAAA
* *
29162715 AGAATTCGAGCATGCTCAACATTTGA
1 AGAATCCGAACATGCTCAACATTTGA
29162741 GAATTGTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (28 bp):
AGAATCCGAACATGCTCAACATTTGAAA
Found at i:29166387 original size:35 final size:35
Alignment explanation
Indices: 29166336--29166430 Score: 147
Period size: 35 Copynumber: 2.7 Consensus size: 35
29166326 TACGTTTGGA
*
29166336 GTGTTTCGGTTGGATTAGCTCTTATGAGCATTGGC
1 GTGTTTCGGTTGGATTAGCTCTTATGAGCATTGAC
*
29166371 GTGTTTTGGGTT-GATTAGCTCTTATGAGCATTGAC
1 GTG-TTTCGGTTGGATTAGCTCTTATGAGCATTGAC
*
29166406 GTGTTTCAGTTGGATTAGCTCTTAT
1 GTGTTTCGGTTGGATTAGCTCTTAT
29166431 AAGAATGAGT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
34 6 0.11
35 41 0.76
36 7 0.13
ACGTcount: A:0.16, C:0.13, G:0.28, T:0.43
Consensus pattern (35 bp):
GTGTTTCGGTTGGATTAGCTCTTATGAGCATTGAC
Found at i:29173409 original size:14 final size:16
Alignment explanation
Indices: 29173375--29173415 Score: 61
Period size: 14 Copynumber: 2.8 Consensus size: 16
29173365 TGCTTAGTGC
29173375 TTAGGG-TTTATGAGT
1 TTAGGGTTTTATGAGT
29173390 TTAGGGTTTTATG-G-
1 TTAGGGTTTTATGAGT
29173404 TTAGGGTTTTAT
1 TTAGGGTTTTAT
29173416 TAAAATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 12 0.48
15 7 0.28
16 6 0.24
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (16 bp):
TTAGGGTTTTATGAGT
Found at i:29173750 original size:125 final size:124
Alignment explanation
Indices: 29173620--29174128 Score: 718
Period size: 126 Copynumber: 4.1 Consensus size: 124
29173610 TTTTTTTGTT
* *
29173620 CAGTAGTTTCTGAAAAATAATTTTGAGAAGATGATTCTAAAAATATAGTGTCAAAAAAGCTTCAA
1 CAGTAGTTTCTAAAAAATAATTTTGAGAAGACGATTCTAAAAA-ATAGTGTCAAAAAAGCTTCAA
* * * *
29173685 GTAGGATGCACTGTCAGCAAGAGTACTGAAAAAAGCTCCCACCTGGACGCTTTTTTTCTA
65 GTAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTA
*
29173745 CAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTGTCAAAAAATGCTTCA
1 CAGTAGTTTCT-AAAAAATAATTTTGAGAAGACGATTCTAAAAAATAGTGTCAAAAAA-GCTTCA
* * *
29173810 AGTAGGATGCACTATCAGCAAAAGTACTAAAAAAAGCTCTCACGTGGACACTCTTTTTCTA
64 AGTAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTA
*
29173871 CAGTAGTTTCTAAAATAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGT-AAAAACGCTT-A
1 CAGTAGTTTCTAAAA-AATAATTTTGAGAAGACGATTCT-AAAAAATAGTGTCAAAAAAGCTTCA
* * * *
29173934 ATGCAGGATGCACTGTTAGCAAAAGTACTG-AAAAAGCTCCCACATGGACGCTCTTTTTCTA
64 A-GTAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTA
* * * * *
29173995 CAATAGTTTCTAAAAAAATAGTTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAAACGTTTCA
1 CAGTAGTTTCT-AAAAAATAATTTTGAGAAGACGATTCT-AAAAAATAGTGTCAAAAAAGCTTCA
* * *
29174060 AGTAGGATGAACTATTAGCAAAAGTACTGAAAAAAGTTCCCACGTGGACGCTCTTTTTCTA
64 AGTAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTA
29174121 CAGTAGTT
1 CAGTAGTT
29174129 CCTGCTTGGC
Statistics
Matches: 345, Mismatches: 30, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
124 73 0.21
125 95 0.28
126 165 0.48
127 12 0.03
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (124 bp):
CAGTAGTTTCTAAAAAATAATTTTGAGAAGACGATTCTAAAAAATAGTGTCAAAAAAGCTTCAAG
TAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTA
Found at i:29174062 original size:250 final size:251
Alignment explanation
Indices: 29173620--29174128 Score: 776
Period size: 250 Copynumber: 2.0 Consensus size: 251
29173610 TTTTTTTGTT
* *
29173620 CAGTAGTTTCTGAAAAATAATTTTGAGAAGATGATTCTAAAAATATAGTGTCAAAAAAGCTTCAA
1 CAGTAGTTTCTAAAAAATAATTTTGAGAAGACGATTCTAAAAATATAGTGTCAAAAAAGCTTCAA
* * * * *
29173685 GTAGGATGCACTGTCAGCAAGAGTACTGAAAAAAGCTCCCACCTGGACGCTTTTTTTCTACAGTA
66 GCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAATA
* *
29173750 GTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTGTCAAAAAATGCTTCAAGTAG
131 GTTTCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTGTCAAAAAACGCTTCAAGTAG
* *
29173815 GATGCACTATCAGCAAAAGTACTAAAAAAAGCTCTCACGTGGACACTCTTTTTCTA
196 GATGAACTATCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACACTCTTTTTCTA
*
29173871 CAGTAGTTTCTAAAATAATAATTTTGAGAAGACGATTCTGAAAAA-ATAGTGT-AAAAACGCTT-
1 CAGTAGTTTCTAAAA-AATAATTTTGAGAAGACGATTCT-AAAAATATAGTGTCAAAAAAGCTTC
*
29173933 AATGCAGGATGCACTGTTAGCAAAAGTACTG-AAAAAGCTCCCACATGGACGCTCTTTTTCTACA
64 AA-GCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACGCTCTTTTTCTACA
* *
29173997 ATAGTTTCTAAAAAAATAGTTTTGAGAAGACGGTTCTAAAAAAATAGTGTC-AAAAACGTTTCAA
128 ATAGTTTCTAAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAATAGTGTCAAAAAACGCTTCAA
* * * *
29174061 GTAGGATGAACTATTAGCAAAAGTACTGAAAAAAGTTCCCACGTGGACGCTCTTTTTCTA
192 GTAGGATGAACTATCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACACTCTTTTTCTA
29174121 CAGTAGTT
1 CAGTAGTT
29174129 CCTGCTTGGC
Statistics
Matches: 235, Mismatches: 19, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
250 140 0.60
251 61 0.26
252 29 0.12
253 5 0.02
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (251 bp):
CAGTAGTTTCTAAAAAATAATTTTGAGAAGACGATTCTAAAAATATAGTGTCAAAAAAGCTTCAA
GCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAATA
GTTTCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTGTCAAAAAACGCTTCAAGTAG
GATGAACTATCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACACTCTTTTTCTA
Found at i:29177664 original size:18 final size:18
Alignment explanation
Indices: 29177631--29177666 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
29177621 GGAAAAGAAA
**
29177631 ACATATAAGGGTTAGGAT
1 ACATATAAGGACTAGGAT
29177649 ACATATAAGGACTAGGAT
1 ACATATAAGGACTAGGAT
29177667 GCGCATCTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.25
Consensus pattern (18 bp):
ACATATAAGGACTAGGAT
Found at i:29179244 original size:36 final size:32
Alignment explanation
Indices: 29179176--29179240 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
29179166 CCTCGGCCTC
29179176 ACACGAAAACATGACACTGACTGAATTGATAG
1 ACACGAAAACATGACACTGACTGAATTGATAG
*
29179208 ACACGAAAACATGACACTGACTGAAGTGATAG
1 ACACGAAAACATGACACTGACTGAATTGATAG
29179240 A
1 A
29179241 TAGAACCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (32 bp):
ACACGAAAACATGACACTGACTGAATTGATAG
Found at i:29184169 original size:61 final size:61
Alignment explanation
Indices: 29184066--29184217 Score: 164
Period size: 61 Copynumber: 2.5 Consensus size: 61
29184056 TAAAAGTGAT
* * * * *
29184066 GCCTTTGTGGATGTTTTATGTTAAATGTGAGCCATAGTGGCTGGATATGTTATACGTGAAA
1 GCCTTTGTGGATGTTCTATGTTACATGTGAGCCATAGTGGCTGAACATATTATACGTGAAA
* * * * *
29184127 GCCTTTGTGGATGTTCTCTGTTACATGTGAGCCCTAAG-GGCTGAACCTATTATATGTGGAA
1 GCCTTTGTGGATGTTCTATGTTACATGTGAGCCAT-AGTGGCTGAACATATTATACGTGAAA
* * *
29184188 GCCTTTGTGGCTATTCTTTGTTACA-GTGAG
1 GCCTTTGTGGATGTTCTATGTTACATGTGAG
29184218 TCTTTGTAGC
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
60 5 0.06
61 70 0.91
62 2 0.03
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (61 bp):
GCCTTTGTGGATGTTCTATGTTACATGTGAGCCATAGTGGCTGAACATATTATACGTGAAA
Found at i:29185338 original size:408 final size:408
Alignment explanation
Indices: 29184583--29185399 Score: 1634
Period size: 408 Copynumber: 2.0 Consensus size: 408
29184573 CACCAGTAGA
29184583 AAGTTAAAAAGGAAAGTAAGTTGCCAGTACAAAACCGTAAGTAAGTTGAATGATACTGACTGAGG
1 AAGTTAAAAAGGAAAGTAAGTTGCCAGTACAAAACCGTAAGTAAGTTGAATGATACTGACTGAGG
29184648 TAAGGTTGTTTATAGAATGTGAAGGGATACAATGTATGTAGAGATTTAAAACATGTTCCTACTGA
66 TAAGGTTGTTTATAGAATGTGAAGGGATACAATGTATGTAGAGATTTAAAACATGTTCCTACTGA
29184713 GTTTGATGAATACCTGTTTGGTTCTATAGAGTAAAGTGCAATGTTTTATATTTTATATGAAATGA
131 GTTTGATGAATACCTGTTTGGTTCTATAGAGTAAAGTGCAATGTTTTATATTTTATATGAAATGA
29184778 TGAATGAATGTATGATAATGCCTCACTAAGTTCTTGTGAACTTATTATGGATGCCTCTATTTGTA
196 TGAATGAATGTATGATAATGCCTCACTAAGTTCTTGTGAACTTATTATGGATGCCTCTATTTGTA
29184843 AGATCTGTTAGAAAATTGAAAGATGATCACCTCCGAACGTACCAACATCTAGAGTAGAAATCTTA
261 AGATCTGTTAGAAAATTGAAAGATGATCACCTCCGAACGTACCAACATCTAGAGTAGAAATCTTA
29184908 CACAAAATATGTTAAAAAGGCAGTATCCGTAAGCATACAGGTTCGGTTGTAATATAGTTACAACA
326 CACAAAATATGTTAAAAAGGCAGTATCCGTAAGCATACAGGTTCGGTTGTAATATAGTTACAACA
29184973 GAGTAGGTAAGTACTCTG
391 GAGTAGGTAAGTACTCTG
29184991 AAGTTAAAAAGGAAAGTAAGTTGCCAGTACAAAACCGTAAGTAAGTTGAATGATACTGACTGAGG
1 AAGTTAAAAAGGAAAGTAAGTTGCCAGTACAAAACCGTAAGTAAGTTGAATGATACTGACTGAGG
29185056 TAAGGTTGTTTATAGAATGTGAAGGGATACAATGTATGTAGAGATTTAAAACATGTTCCTACTGA
66 TAAGGTTGTTTATAGAATGTGAAGGGATACAATGTATGTAGAGATTTAAAACATGTTCCTACTGA
29185121 GTTTGATGAATACCTGTTTGGTTCTATAGAGTAAAGTGCAATGTTTTATATTTTATATGAAATGA
131 GTTTGATGAATACCTGTTTGGTTCTATAGAGTAAAGTGCAATGTTTTATATTTTATATGAAATGA
29185186 TGAATGAATGTATGATAATGCCTCACTAAGTTCTTGTGAACTTATTATGGATGCCTCTATTTGTA
196 TGAATGAATGTATGATAATGCCTCACTAAGTTCTTGTGAACTTATTATGGATGCCTCTATTTGTA
29185251 AGATCTGTTAGAAAATTGAAAGATGATCACCTCCGAACGTACCAACATCTAGAGTAGAAATCTTA
261 AGATCTGTTAGAAAATTGAAAGATGATCACCTCCGAACGTACCAACATCTAGAGTAGAAATCTTA
29185316 CACAAAATATGTTAAAAAGGCAGTATCCGTAAGCATACAGGTTCGGTTGTAATATAGTTACAACA
326 CACAAAATATGTTAAAAAGGCAGTATCCGTAAGCATACAGGTTCGGTTGTAATATAGTTACAACA
29185381 GAGTAGGTAAGTACTCTG
391 GAGTAGGTAAGTACTCTG
29185399 A
1 A
29185400 GGATCGTACC
Statistics
Matches: 409, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
408 409 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (408 bp):
AAGTTAAAAAGGAAAGTAAGTTGCCAGTACAAAACCGTAAGTAAGTTGAATGATACTGACTGAGG
TAAGGTTGTTTATAGAATGTGAAGGGATACAATGTATGTAGAGATTTAAAACATGTTCCTACTGA
GTTTGATGAATACCTGTTTGGTTCTATAGAGTAAAGTGCAATGTTTTATATTTTATATGAAATGA
TGAATGAATGTATGATAATGCCTCACTAAGTTCTTGTGAACTTATTATGGATGCCTCTATTTGTA
AGATCTGTTAGAAAATTGAAAGATGATCACCTCCGAACGTACCAACATCTAGAGTAGAAATCTTA
CACAAAATATGTTAAAAAGGCAGTATCCGTAAGCATACAGGTTCGGTTGTAATATAGTTACAACA
GAGTAGGTAAGTACTCTG
Found at i:29186907 original size:10 final size:10
Alignment explanation
Indices: 29186888--29186918 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
29186878 CTAAATTTTA
*
29186888 TTTATTTTAT
1 TTTATGTTAT
29186898 TTTATGTTAT
1 TTTATGTTAT
29186908 TTTATGTTAT
1 TTTATGTTAT
29186918 T
1 T
29186919 ATTCTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (10 bp):
TTTATGTTAT
Found at i:29186909 original size:15 final size:14
Alignment explanation
Indices: 29186882--29186918 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
29186872 TATCTCCTAA
29186882 ATTTTATTTATTTT
1 ATTTTATTTATTTT
29186896 ATTTTATGTTATTTT
1 ATTTTAT-TTATTTT
*
29186911 ATGTTATT
1 ATTTTATT
29186919 ATTCTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (14 bp):
ATTTTATTTATTTT
Found at i:29187366 original size:36 final size:36
Alignment explanation
Indices: 29187314--29187384 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
29187304 GGTTTAGTGT
*
29187314 ATGACTTGAAGTAGGGGTACACCTATTGTAGCAACA
1 ATGACTTGAAGCAGGGGTACACCTATTGTAGCAACA
*
29187350 ATGACTTGTAGCAGGGGTACACCTATTGTAGCAAC
1 ATGACTTGAAGCAGGGGTACACCTATTGTAGCAAC
29187385 CACAGATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (36 bp):
ATGACTTGAAGCAGGGGTACACCTATTGTAGCAACA
Found at i:29190477 original size:10 final size:10
Alignment explanation
Indices: 29190460--29190499 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
29190450 AACATATATA
29190460 AATCACATTT
1 AATCACATTT
*
29190470 AGTCACATTT
1 AATCACATTT
*
29190480 AATCACATTC
1 AATCACATTT
29190490 AATCACATTT
1 AATCACATTT
29190500 TATGATAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.38
Consensus pattern (10 bp):
AATCACATTT
Found at i:29203257 original size:24 final size:24
Alignment explanation
Indices: 29203197--29203250 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
29203187 GACACACCAC
* * * *
29203197 AGCTCATAAGAGCGTCCCGCTATT
1 AGCTCTTATGAGCATCCCGATATT
29203221 AGCTCTTATGAGCATCCCGATATT
1 AGCTCTTATGAGCATCCCGATATT
*
29203245 TGCTCT
1 AGCTCT
29203251 CTTGAGCTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (24 bp):
AGCTCTTATGAGCATCCCGATATT
Found at i:29203359 original size:25 final size:25
Alignment explanation
Indices: 29203330--29203436 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 25
29203320 ATGGTTCTCC
29203330 AGAGCTT-CTCGATATATGGCTCGCA
1 AGAGCTTCCT-GATATATGGCTCGCA
* * * *
29203355 CGAGCTTCCTGATAAATGGCTCTCT
1 AGAGCTTCCTGATATATGGCTCGCA
* * * * *
29203380 GGAGCTACCCGTTAT-TGGCTCACA
1 AGAGCTTCCTGATATATGGCTCGCA
* * *
29203404 TGAGCTTCCTGTTATATGGCTCGAA
1 AGAGCTTCCTGATATATGGCTCGCA
29203429 AGAGCTTC
1 AGAGCTTC
29203437 TAGTTTATGT
Statistics
Matches: 63, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
24 19 0.30
25 42 0.67
26 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.30
Consensus pattern (25 bp):
AGAGCTTCCTGATATATGGCTCGCA
Found at i:29208130 original size:34 final size:35
Alignment explanation
Indices: 29208058--29208140 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 35
29208048 TAGCCTTTGG
* * * *
29208058 TTCTTTCCTCTTTTCTTTGTGGTCGAATATTGCCT
1 TTCTTTCCTCTTCTCTCTGTGGCCGAATACTGCCT
* *
29208093 TTCTTTCTTCTTCTCTCT-TGGCCGAATACTGCTT
1 TTCTTTCCTCTTCTCTCTGTGGCCGAATACTGCCT
*
29208127 TTCTCTCCCTCTTC
1 TTCT-TTCCTCTTC
29208141 ATCTATTCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 17 0.44
35 22 0.56
ACGTcount: A:0.07, C:0.30, G:0.11, T:0.52
Consensus pattern (35 bp):
TTCTTTCCTCTTCTCTCTGTGGCCGAATACTGCCT
Found at i:29208532 original size:27 final size:27
Alignment explanation
Indices: 29208492--29208874 Score: 337
Period size: 27 Copynumber: 14.2 Consensus size: 27
29208482 TGCGATTCGT
29208492 GGGTAAAATGACCGAAATACCCCCGAA
1 GGGTAAAATGACCGAAATACCCCCGAA
* * *
29208519 GTGTAAAATGACCGAATTACCCCCAAA
1 GGGTAAAATGACCGAAATACCCCCGAA
* *
29208546 GGGTAAAATGACCCAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCCCGAA
** *
29208573 GGGTAAAATGGTC-AAATTACCCCTGAA
1 GGGTAAAATGACCGAAA-TACCCCCGAA
* * *
29208600 GGGTAAAATGACCGAGATAACCCCGAT
1 GGGTAAAATGACCGAAATACCCCCGAA
* * ** *
29208627 GGGTAAAATGACTGAAATAACCTTGAT
1 GGGTAAAATGACCGAAATACCCCCGAA
* * * *
29208654 GGATAAAATAACTGAAATACTCCCGAA
1 GGGTAAAATGACCGAAATACCCCCGAA
** *
29208681 GGGTAAAATGATTGAAATACCCGCGAA
1 GGGTAAAATGACCGAAATACCCCCGAA
* *
29208708 GGGTAAAATGACCGAATTACCCTCGAA
1 GGGTAAAATGACCGAAATACCCCCGAA
* * *
29208735 GGG-AAAATGATCTAAATACCCCTGAA
1 GGGTAAAATGACCGAAATACCCCCGAA
*
29208761 GGGTAAAATGATCGAAATACCCCCGAA
1 GGGTAAAATGACCGAAATACCCCCGAA
* * * *
29208788 GGGTAAAGTGACTGGAATAACCCC-ATA
1 GGGTAAAATGACCGAAATACCCCCGA-A
* * *
29208815 GAGG-AGAATGATCAAAATACCCCC-ATA
1 G-GGTAAAATGACCGAAATACCCCCGA-A
* *
29208842 AGATAAAATGACCGAAATACCCCC-ATA
1 GGGTAAAATGACCGAAATACCCCCGA-A
29208869 GGGTAA
1 GGGTAA
29208875 TGATTGTTAA
Statistics
Matches: 286, Mismatches: 64, Indels: 12
0.79 0.18 0.03
Matches are distributed among these distances:
26 26 0.09
27 256 0.90
28 4 0.01
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCCCGAA
Found at i:29209284 original size:28 final size:28
Alignment explanation
Indices: 29209250--29209435 Score: 257
Period size: 28 Copynumber: 6.7 Consensus size: 28
29209240 GTACCGATAT
* *
29209250 TGTATTGGGCTAAGGCCCACATTATTAT
1 TGTATTGGGCTAAGGCCCACATTGTTAC
*
29209278 TGTATTGGGCTAAGGCCTACATTGTTAC
1 TGTATTGGGCTAAGGCCCACATTGTTAC
* *
29209306 TGTGTTGGGCTAAGGCCCGCATTGTTAC
1 TGTATTGGGCTAAGGCCCACATTGTTAC
* *
29209334 TGTATTGGGCTAAGG-CCATATTTTTAC
1 TGTATTGGGCTAAGGCCCACATTGTTAC
*
29209361 TGTATTGGGCTAAGGGCCACATTGTTAC
1 TGTATTGGGCTAAGGCCCACATTGTTAC
* *
29209389 TGTATTGGGGTAAGGCCCACATTATTAC
1 TGTATTGGGCTAAGGCCCACATTGTTAC
* *
29209417 AGCATTGGGCTAAGGCCCA
1 TGTATTGGGCTAAGGCCCA
29209436 TACTGTATTG
Statistics
Matches: 139, Mismatches: 18, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
27 24 0.17
28 115 0.83
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (28 bp):
TGTATTGGGCTAAGGCCCACATTGTTAC
Found at i:29209390 original size:83 final size:83
Alignment explanation
Indices: 29209250--29209433 Score: 262
Period size: 83 Copynumber: 2.2 Consensus size: 83
29209240 GTACCGATAT
* *
29209250 TGTATTGGGCTAAGGCCCACATTATTATTGTATTGGGCTAAGGCCTACATTGTTACTGTGTTGGG
1 TGTATTGGGCTAAGG-CCACATTATTACTGTATTGGGCTAAGGCCTACATTGTTACTGTATTGGG
* *
29209315 CTAAGGCCCGCATTGTTAC
65 CTAAGGCCCACATTATTAC
* *
29209334 TGTATTGGGCTAAGGCCATATTTTTACTGTATTGGGCTAAGGGCC-ACATTGTTACTGTATTGGG
1 TGTATTGGGCTAAGGCCACATTATTACTGTATTGGGCTAA-GGCCTACATTGTTACTGTATTGGG
*
29209398 GTAAGGCCCACATTATTAC
65 CTAAGGCCCACATTATTAC
* *
29209417 AGCATTGGGCTAAGGCC
1 TGTATTGGGCTAAGGCC
29209434 CATACTGTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
83 71 0.79
84 19 0.21
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (83 bp):
TGTATTGGGCTAAGGCCACATTATTACTGTATTGGGCTAAGGCCTACATTGTTACTGTATTGGGC
TAAGGCCCACATTATTAC
Found at i:29209474 original size:111 final size:108
Alignment explanation
Indices: 29209250--29209474 Score: 229
Period size: 111 Copynumber: 2.0 Consensus size: 108
29209240 GTACCGATAT
* * * * **
29209250 TGTATTGGGCTAAGGCCCACATTATTATTGTATTGGGCTAAGGCCTACATTGTTACTGTGTTGGG
1 TGTATTGGGCTAAGGCCCACATTATTACTGTATTGGGCTAAGGCCCACATTATTACAGCATTGGG
* * * *
29209315 CTAAGGCCCGCATTGTTACTGTATTGGGCTAAGGCCATATTTTTAC
66 CTAAGGCCCGCATTGTTACTGAATAGGGCTAAGGCCACA---TGAC
* * *
29209361 TGTATTGGGCTAAGGGCCACATTGTTACTGTATTGGGGTAAGGCCCACATTATTACAGCATTGGG
1 TGTATTGGGCTAAGGCCCACATTATTACTGTATTGGGCTAAGGCCCACATTATTACAGCATTGGG
* *
29209426 CTAAGGCCCATACTGTATTGTTACTGAATAGGGCTCAGGCC-CA-GAC
66 CTAAGG-CC---C-GCATTGTTACTGAATAGGGCTAAGGCCACATGAC
29209472 TGT
1 TGT
29209475 TACCGCATGT
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
111 67 0.71
112 2 0.02
115 2 0.02
116 23 0.24
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.32
Consensus pattern (108 bp):
TGTATTGGGCTAAGGCCCACATTATTACTGTATTGGGCTAAGGCCCACATTATTACAGCATTGGG
CTAAGGCCCGCATTGTTACTGAATAGGGCTAAGGCCACATGAC
Found at i:29210636 original size:19 final size:20
Alignment explanation
Indices: 29210594--29210636 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
29210584 TCATGCTTTC
*
29210594 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
29210614 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
29210632 TATTC
1 TATTC
29210637 CACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:29211354 original size:22 final size:22
Alignment explanation
Indices: 29211329--29211405 Score: 93
Period size: 22 Copynumber: 3.4 Consensus size: 22
29211319 ACTATTAAAT
29211329 AGAGAGCACTAAAGTGCTATAC
1 AGAGAGCACTAAAGTGCTATAC
*
29211351 AGAGAGCAC-AAATGTGCTAAAC
1 AGAGAGCACTAAA-GTGCTATAC
*
29211373 AGAGAGCACTAATGTGCTGATAATC
1 AGAGAGCACTAAAGTGCT-AT-A-C
29211398 AGAGAGCA
1 AGAGAGCA
29211406 TGCTAGTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
21 3 0.06
22 31 0.66
23 3 0.06
24 1 0.02
25 9 0.19
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (22 bp):
AGAGAGCACTAAAGTGCTATAC
Found at i:29211404 original size:25 final size:24
Alignment explanation
Indices: 29211329--29211500 Score: 121
Period size: 25 Copynumber: 7.4 Consensus size: 24
29211319 ACTATTAAAT
*
29211329 AGAGAGCACTAAAGTGCTAT-A-C
1 AGAGAGCACTAACGTGCTATAATC
* *
29211351 AGAGAGCACAAATGTGCTA-AA-C
1 AGAGAGCACTAACGTGCTATAATC
*
29211373 AGAGAGCACTAATGTGCTGATAATC
1 AGAGAGCACTAACGTGCT-ATAATC
29211398 AGAGAG--C--A--TGCTAGTAATC
1 AGAGAGCACTAACGTGCTA-TAATC
*
29211417 AGAGAGCACTGACGTGCTAATAATC
1 AGAGAGCACTAACGTGCT-ATAATC
* * *
29211442 AGAGAGCATTGACATGCTAATAATC
1 AGAGAGCACTAACGTGCT-ATAATC
* * * *
29211467 AGATAACACTGACATGCTAATAATC
1 AGAGAGCACTAACGTGCT-ATAATC
29211492 AGAGAGCAC
1 AGAGAGCAC
29211501 ACTAAACTCC
Statistics
Matches: 128, Mismatches: 10, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.01
19 15 0.12
21 2 0.02
22 36 0.28
23 3 0.02
24 2 0.02
25 68 0.53
26 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (24 bp):
AGAGAGCACTAACGTGCTATAATC
Found at i:29211466 original size:50 final size:50
Alignment explanation
Indices: 29211404--29211499 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
29211394 AATCAGAGAG
* * *
29211404 CATGCTAGTAATCAGAGAGCACTGACGTGCTAATAATCAGAGAGCATTGA
1 CATGCTAATAATCAGAGAACACTGACATGCTAATAATCAGAGAGCATTGA
*
29211454 CATGCTAATAATCAGATAACACTGACATGCTAATAATCAGAGAGCA
1 CATGCTAATAATCAGAGAACACTGACATGCTAATAATCAGAGAGCA
29211500 CACTAAACTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.22
Consensus pattern (50 bp):
CATGCTAATAATCAGAGAACACTGACATGCTAATAATCAGAGAGCATTGA
Found at i:29213715 original size:36 final size:36
Alignment explanation
Indices: 29213668--29213739 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
29213658 ATCTAACTTG
29213668 ATATTCTAGGTCCCCATAGTCTCCTTGTTATCTTTC
1 ATATTCTAGGTCCCCATAGTCTCCTTGTTATCTTTC
29213704 ATATTCTAGGTCCCCATAGTCTCCTTGTTATCTTTC
1 ATATTCTAGGTCCCCATAGTCTCCTTGTTATCTTTC
29213740 TCTCTTTATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.17, C:0.28, G:0.11, T:0.44
Consensus pattern (36 bp):
ATATTCTAGGTCCCCATAGTCTCCTTGTTATCTTTC
Found at i:29219165 original size:506 final size:506
Alignment explanation
Indices: 29218213--29219224 Score: 2024
Period size: 506 Copynumber: 2.0 Consensus size: 506
29218203 ACTATCTGAT
29218213 GTCACAGAAAGAGTTGAATCTGAGACAGCGTAGATGGCTTAAATTGTTGAAAGATTATGATCTAG
1 GTCACAGAAAGAGTTGAATCTGAGACAGCGTAGATGGCTTAAATTGTTGAAAGATTATGATCTAG
29218278 TTATCGATTATCATCCGAGAAAAGCAAATGTAGTTGCAGATGCTCTGAGTAGAAAGTCTCTATTT
66 TTATCGATTATCATCCGAGAAAAGCAAATGTAGTTGCAGATGCTCTGAGTAGAAAGTCTCTATTT
29218343 GCCTTGCGAGCAATGAATACCTGATTATCATTGTCTCTTGATGGCTTAATTTTAGCTGAGTTAAA
131 GCCTTGCGAGCAATGAATACCTGATTATCATTGTCTCTTGATGGCTTAATTTTAGCTGAGTTAAA
29218408 AGCTAAACTGACATTTTTACTTCAGATTTGCTAAATTCAGAAAATTGATGATGAGTTACAAGATA
196 AGCTAAACTGACATTTTTACTTCAGATTTGCTAAATTCAGAAAATTGATGATGAGTTACAAGATA
29218473 AATGAGTACAATGTGAGTTGACTTTCGATTCAGAATTTCATATTGGACCCGATAATTGTCTATTA
261 AATGAGTACAATGTGAGTTGACTTTCGATTCAGAATTTCATATTGGACCCGATAATTGTCTATTA
29218538 TTTAGACGCAAAATTTGTGTACCAAAGAATTCAGAGCTTGTACAGAAGATTTTAGATGAAGCTCA
326 TTTAGACGCAAAATTTGTGTACCAAAGAATTCAGAGCTTGTACAGAAGATTTTAGATGAAGCTCA
29218603 CAGTGGTACTATGTCTGTTCATCTGGGGAGTAATAAAATGTACAATGATCTAAAACAAATGTACT
391 CAGTGGTACTATGTCTGTTCATCTGGGGAGTAATAAAATGTACAATGATCTAAAACAAATGTACT
29218668 GGTGGTCAGGAATGAAATGTGATATTTCTGAATTTGTATCTAGATGTTTGA
456 GGTGGTCAGGAATGAAATGTGATATTTCTGAATTTGTATCTAGATGTTTGA
29218719 GTCACAGAAAGAGTTGAATCTGAGACAGCGTAGATGGCTTAAATTGTTGAAAGATTATGATCTAG
1 GTCACAGAAAGAGTTGAATCTGAGACAGCGTAGATGGCTTAAATTGTTGAAAGATTATGATCTAG
29218784 TTATCGATTATCATCCGAGAAAAGCAAATGTAGTTGCAGATGCTCTGAGTAGAAAGTCTCTATTT
66 TTATCGATTATCATCCGAGAAAAGCAAATGTAGTTGCAGATGCTCTGAGTAGAAAGTCTCTATTT
29218849 GCCTTGCGAGCAATGAATACCTGATTATCATTGTCTCTTGATGGCTTAATTTTAGCTGAGTTAAA
131 GCCTTGCGAGCAATGAATACCTGATTATCATTGTCTCTTGATGGCTTAATTTTAGCTGAGTTAAA
29218914 AGCTAAACTGACATTTTTACTTCAGATTTGCTAAATTCAGAAAATTGATGATGAGTTACAAGATA
196 AGCTAAACTGACATTTTTACTTCAGATTTGCTAAATTCAGAAAATTGATGATGAGTTACAAGATA
29218979 AATGAGTACAATGTGAGTTGACTTTCGATTCAGAATTTCATATTGGACCCGATAATTGTCTATTA
261 AATGAGTACAATGTGAGTTGACTTTCGATTCAGAATTTCATATTGGACCCGATAATTGTCTATTA
29219044 TTTAGACGCAAAATTTGTGTACCAAAGAATTCAGAGCTTGTACAGAAGATTTTAGATGAAGCTCA
326 TTTAGACGCAAAATTTGTGTACCAAAGAATTCAGAGCTTGTACAGAAGATTTTAGATGAAGCTCA
29219109 CAGTGGTACTATGTCTGTTCATCTGGGGAGTAATAAAATGTACAATGATCTAAAACAAATGTACT
391 CAGTGGTACTATGTCTGTTCATCTGGGGAGTAATAAAATGTACAATGATCTAAAACAAATGTACT
29219174 GGTGGTCAGGAATGAAATGTGATATTTCTGAATTTGTATCTAGATGTTTGA
456 GGTGGTCAGGAATGAAATGTGATATTTCTGAATTTGTATCTAGATGTTTGA
29219225 TATGTCAGCA
Statistics
Matches: 506, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
506 506 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (506 bp):
GTCACAGAAAGAGTTGAATCTGAGACAGCGTAGATGGCTTAAATTGTTGAAAGATTATGATCTAG
TTATCGATTATCATCCGAGAAAAGCAAATGTAGTTGCAGATGCTCTGAGTAGAAAGTCTCTATTT
GCCTTGCGAGCAATGAATACCTGATTATCATTGTCTCTTGATGGCTTAATTTTAGCTGAGTTAAA
AGCTAAACTGACATTTTTACTTCAGATTTGCTAAATTCAGAAAATTGATGATGAGTTACAAGATA
AATGAGTACAATGTGAGTTGACTTTCGATTCAGAATTTCATATTGGACCCGATAATTGTCTATTA
TTTAGACGCAAAATTTGTGTACCAAAGAATTCAGAGCTTGTACAGAAGATTTTAGATGAAGCTCA
CAGTGGTACTATGTCTGTTCATCTGGGGAGTAATAAAATGTACAATGATCTAAAACAAATGTACT
GGTGGTCAGGAATGAAATGTGATATTTCTGAATTTGTATCTAGATGTTTGA
Found at i:29221656 original size:24 final size:24
Alignment explanation
Indices: 29221624--29221674 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
29221614 CAACTTACAA
* *
29221624 GAGTGTCCCATTATTAGCTCTCAT
1 GAGTATCCCAATATTAGCTCTCAT
* *
29221648 GAGTATCCCAATATTGGCTCTCTT
1 GAGTATCCCAATATTAGCTCTCAT
29221672 GAG
1 GAG
29221675 CTACCCGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (24 bp):
GAGTATCCCAATATTAGCTCTCAT
Found at i:29225987 original size:21 final size:21
Alignment explanation
Indices: 29225946--29225989 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
29225936 ACTCTAAAAT
*
29225946 AAGCAACGAAAATAGATTAGG
1 AAGCAACGAAAATAGAATAGG
*
29225967 AAGCACACTAAAA-AGAATAGG
1 AAGCA-ACGAAAATAGAATAGG
29225988 AA
1 AA
29225990 AACACAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.57, C:0.11, G:0.20, T:0.11
Consensus pattern (21 bp):
AAGCAACGAAAATAGAATAGG
Found at i:29242122 original size:77 final size:77
Alignment explanation
Indices: 29241995--29242149 Score: 265
Period size: 77 Copynumber: 2.0 Consensus size: 77
29241985 TTCTACTCAC
* *
29241995 CGCCTTATTTCGCCTTCTCTCATCTTCCTTATTTCTCCATGTAAGAAGTCACAACGTGATAAAGT
1 CGCCTTATTTCGCATTCTCTCATCTTCCTTATTTCTCCATGTAAGAAGTCACAACATGATAAAGT
29242060 AACTACGGTCAG
66 AACTACGGTCAG
* **
29242072 CGCCTTATTTCTCATTCTCTCATCTTCCTTATTTCTCCATGTTGGAAGTCACAACATGATAAAGT
1 CGCCTTATTTCGCATTCTCTCATCTTCCTTATTTCTCCATGTAAGAAGTCACAACATGATAAAGT
29242137 AACTACGGTCAG
66 AACTACGGTCAG
29242149 C
1 C
29242150 TTACAAGTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.35
Consensus pattern (77 bp):
CGCCTTATTTCGCATTCTCTCATCTTCCTTATTTCTCCATGTAAGAAGTCACAACATGATAAAGT
AACTACGGTCAG
Found at i:29246254 original size:21 final size:20
Alignment explanation
Indices: 29246225--29246271 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
29246215 CTCATTCACA
*
29246225 TCTCTTCTCTCACAACTTTTC
1 TCTCATCTCTCAC-ACTTTTC
**
29246246 TCTCATCTCTCACTTTTTTC
1 TCTCATCTCTCACACTTTTC
29246266 TCTCAT
1 TCTCAT
29246272 TTTCCCATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.13, C:0.36, G:0.00, T:0.51
Consensus pattern (20 bp):
TCTCATCTCTCACACTTTTC
Found at i:29246649 original size:16 final size:16
Alignment explanation
Indices: 29246628--29246666 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
29246618 GTAAAATGTT
29246628 TGATTAAATAAAACCA
1 TGATTAAATAAAACCA
29246644 TGATTAAATAAAACCA
1 TGATTAAATAAAACCA
29246660 TGATTAA
1 TGATTAA
29246667 GTTATTCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (16 bp):
TGATTAAATAAAACCA
Found at i:29247237 original size:5 final size:5
Alignment explanation
Indices: 29247227--29247253 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
29247217 GCATTAGAAG
29247227 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
29247254 ACTTTGTTTC
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:29253627 original size:16 final size:15
Alignment explanation
Indices: 29253595--29253628 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
29253585 TTTGAAATTT
*
29253595 TTTAAGTATGCTAAA
1 TTTAAGTATGATAAA
29253610 TTTAAGTATGAATAAA
1 TTTAAGTATG-ATAAA
29253626 TTT
1 TTT
29253629 TGATTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (15 bp):
TTTAAGTATGATAAA
Found at i:29257868 original size:22 final size:21
Alignment explanation
Indices: 29257843--29257885 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
29257833 GGGTATAATT
*
29257843 GTAAATTAATAATAAAAATAAA
1 GTAAAATAATAA-AAAAATAAA
*
29257865 GTAAAATAATAAAAAAGTAAA
1 GTAAAATAATAAAAAAATAAA
29257886 ATTTCATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (21 bp):
GTAAAATAATAAAAAAATAAA
Found at i:29257881 original size:16 final size:16
Alignment explanation
Indices: 29257853--29257887 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
29257843 GTAAATTAAT
29257853 AATAAAAATAAAGTAA
1 AATAAAAATAAAGTAA
29257869 AATAATAAA-AAAGTAA
1 AATAA-AAATAAAGTAA
29257885 AAT
1 AAT
29257888 TTCATCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (16 bp):
AATAAAAATAAAGTAA
Found at i:29266703 original size:33 final size:34
Alignment explanation
Indices: 29266666--29266737 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
29266656 GAGTTTGTTT
*
29266666 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
* *
29266699 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
29266733 ATTAA
1 ATTAA
29266738 TTTGTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:29270508 original size:34 final size:35
Alignment explanation
Indices: 29270410--29270548 Score: 201
Period size: 34 Copynumber: 4.0 Consensus size: 35
29270400 AACAGACTAG
***
29270410 ATGCTCATAAGAGCTAATCCATCTGGAACACACCA
1 ATGCTCATAAGAGCTAATCCATCCAAAACACACCA
* * * *
29270445 AAGCTTATAAGAGCTAATCCATCCGAAACACATCA
1 ATGCTCATAAGAGCTAATCCATCCAAAACACACCA
29270480 ATGCTCATAAGAGCT-ATCCATCCAAAACACACCA
1 ATGCTCATAAGAGCTAATCCATCCAAAACACACCA
29270514 ATGCTCATAAGAGCT-ATCCATCCAAAACACACCA
1 ATGCTCATAAGAGCTAATCCATCCAAAACACACCA
29270548 A
1 A
29270549 AACAAAGAGT
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
34 52 0.55
35 43 0.45
ACGTcount: A:0.41, C:0.29, G:0.11, T:0.19
Consensus pattern (35 bp):
ATGCTCATAAGAGCTAATCCATCCAAAACACACCA
Found at i:29270513 original size:69 final size:71
Alignment explanation
Indices: 29270388--29270545 Score: 207
Period size: 69 Copynumber: 2.3 Consensus size: 71
29270378 AGTACATCGA
* * *** *
29270388 TAATCCAACCGAAACAGACTAGATGCTCATAAGAGCTAATCCATCTGGAACACACCAAAGCTTAT
1 TAATCCATCCGAAACACACTAGATGCTCATAAGAGCTAATCCATCCAAAACACACCAAAGCTCAT
29270453 AAGAGC
66 AAGAGC
*
29270459 TAATCCATCCGAAACACA-TCA-ATGCTCATAAGAGCT-ATCCATCCAAAACACACCAATGCTCA
1 TAATCCATCCGAAACACACT-AGATGCTCATAAGAGCTAATCCATCCAAAACACACCAAAGCTCA
29270521 TAAGAGC
65 TAAGAGC
*
29270528 T-ATCCATCCAAAACACAC
1 TAATCCATCCGAAACACAC
29270546 CAAAACAAAG
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
68 15 0.19
69 29 0.38
70 16 0.21
71 17 0.22
ACGTcount: A:0.41, C:0.29, G:0.11, T:0.18
Consensus pattern (71 bp):
TAATCCATCCGAAACACACTAGATGCTCATAAGAGCTAATCCATCCAAAACACACCAAAGCTCAT
AAGAGC
Found at i:29273855 original size:19 final size:19
Alignment explanation
Indices: 29273831--29273874 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
29273821 GACCCCTGCA
* *
29273831 TCTCAAATTTTCATG-TTTT
1 TCTCAAAATTTC-TGATTTG
29273850 TCTCAAAATTTCTGATTTG
1 TCTCAAAATTTCTGATTTG
29273869 TCTCAA
1 TCTCAA
29273875 TTTGATCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.50
Consensus pattern (19 bp):
TCTCAAAATTTCTGATTTG
Found at i:29275402 original size:26 final size:26
Alignment explanation
Indices: 29275300--29275396 Score: 140
Period size: 26 Copynumber: 3.7 Consensus size: 26
29275290 AACACACCAA
* *
29275300 TATCGCAGCAAAGTTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* * *
29275326 TATCACAACGAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
29275352 TATTGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
29275378 TATCGCAGCAAAGCTGCCA
1 TATCGCAGCAAAGCTGCCA
29275397 AGAACAATAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.19
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:29275601 original size:27 final size:27
Alignment explanation
Indices: 29275571--29276052 Score: 473
Period size: 27 Copynumber: 18.0 Consensus size: 27
29275561 GGTATAATAG
* *
29275571 TCATTTTACTCTATAGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTAATTCGA
* * * * *
29275598 TCATTCTACCATATGGGGGTACTTCGG
1 TCATTTTACCCTATAGGGGTAATTCGA
*
29275625 TCATTTTACCCTATGGGGGTAATTCGA
1 TCATTTTACCCTATAGGGGTAATTCGA
* *
29275652 TCATTTTACCCTATAGAGGTATTTCGA
1 TCATTTTACCCTATAGGGGTAATTCGA
* *
29275679 TCATTCTACCCTATA-GGGTATTTCGA
1 TCATTTTACCCTATAGGGGTAATTCGA
*
29275705 TCATTTTACCTTATAGGGGTAATTCGA
1 TCATTTTACCCTATAGGGGTAATTCGA
** * ** *
29275732 TCATTCAACCTTACGGGGGTATTTC-A
1 TCATTTTACCCTATAGGGGTAATTCGA
* * *
29275758 GTCACTCTACCCTATGGGGGTAATTC-A
1 -TCATTTTACCCTATAGGGGTAATTCGA
* * *
29275785 GTCATTTTACCCTATATGGATAATTCGG
1 -TCATTTTACCCTATAGGGGTAATTCGA
* *
29275813 TCATTTTACCCTGT-GAGGGTAATTCGG
1 TCATTTTACCCTATAG-GGGTAATTCGA
* *
29275840 TTATTTTACCCTATGGGGGTAATTCGA
1 TCATTTTACCCTATAGGGGTAATTCGA
* *
29275867 TTATTTTACCCTAT-GAGGGTAATTCGG
1 TCATTTTACCCTATAG-GGGTAATTCGA
* *
29275894 TCATTTTACCTTAT-GGGAGT-ATTCGG
1 TCATTTTACCCTATAGGG-GTAATTCGA
*
29275920 TCATTTTACCCTAT-GAGGGTAATTCGG
1 TCATTTTACCCTATAG-GGGTAATTCGA
*
29275947 TCATTTTACCCTAT-GCGGGTATTTCGA
1 TCATTTTACCCTATAG-GGGTAATTCGA
* *
29275974 TCATTTTACCATATGGGGGTAATTCGA
1 TCATTTTACCCTATAGGGGTAATTCGA
29276001 TCATTTTACCCTATAGGGGTAATTC-A
1 TCATTTTACCCTATAGGGGTAATTCGA
*
29276027 GTCATTTTATCCTAT-GGGGTAATTCG
1 -TCATTTTACCCTATAGGGGTAATTCG
29276053 GTTATAACAG
Statistics
Matches: 391, Mismatches: 52, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
26 60 0.15
27 329 0.84
28 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTAATTCGA
Found at i:29275628 original size:54 final size:54
Alignment explanation
Indices: 29275570--29276054 Score: 525
Period size: 54 Copynumber: 9.0 Consensus size: 54
29275560 GGGTATAATA
* * * * *
29275570 GTCATTTTACTCTATAGGGGTATTTCGATCATTCTACCATATGGGGGTACTTCG
1 GTCATTTTACCCTATAGGGGTAATTCGATCATTTTACCCTATGGGGGTAATTCG
* * * *
29275624 GTCATTTTACCCTATGGGGGTAATTCGATCATTTTACCCTATAGAGGTATTTCG
1 GTCATTTTACCCTATAGGGGTAATTCGATCATTTTACCCTATGGGGGTAATTCG
* * * * *
29275678 ATCATTCTACCCTATA-GGGTATTTCGATCATTTTACCTTATAGGGGTAATTCG
1 GTCATTTTACCCTATAGGGGTAATTCGATCATTTTACCCTATGGGGGTAATTCG
* ** * ** * * * *
29275731 ATCATTCAACCTTACGGGGGTATTTC-AGTCACTCTACCCTATGGGGGTAATTCA
1 GTCATTTTACCCTATAGGGGTAATTCGA-TCATTTTACCCTATGGGGGTAATTCG
* * * * *
29275785 GTCATTTTACCCTATATGGATAATTCGGTCATTTTACCCTGTGAGGGTAATTCG
1 GTCATTTTACCCTATAGGGGTAATTCGATCATTTTACCCTATGGGGGTAATTCG
* * * *
29275839 GTTATTTTACCCTATGGGGGTAATTCGATTATTTTACCCTATGAGGGTAATTCG
1 GTCATTTTACCCTATAGGGGTAATTCGATCATTTTACCCTATGGGGGTAATTCG
* * *
29275893 GTCATTTTACCTTAT-GGGAGT-ATTCGGTCATTTTACCCTATGAGGGTAATTCG
1 GTCATTTTACCCTATAGGG-GTAATTCGATCATTTTACCCTATGGGGGTAATTCG
* *
29275946 GTCATTTTACCCTAT-GCGGGTATTTCGATCATTTTACCATATGGGGGTAATTCG
1 GTCATTTTACCCTATAG-GGGTAATTCGATCATTTTACCCTATGGGGGTAATTCG
* *
29276000 ATCATTTTACCCTATAGGGGTAATTC-AGTCATTTTATCCTAT-GGGGTAATTCG
1 GTCATTTTACCCTATAGGGGTAATTCGA-TCATTTTACCCTATGGGGGTAATTCG
29276053 GT
1 GT
29276055 TATAACAGTG
Statistics
Matches: 363, Mismatches: 60, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
53 109 0.30
54 253 0.70
55 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (54 bp):
GTCATTTTACCCTATAGGGGTAATTCGATCATTTTACCCTATGGGGGTAATTCG
Found at i:29276053 original size:134 final size:133
Alignment explanation
Indices: 29275571--29276054 Score: 596
Period size: 134 Copynumber: 3.6 Consensus size: 133
29275561 GGTATAATAG
* * * *
29275571 TCATTTTACTCTATAGGGGTATTTCGATCATTCTACCATATGGGGGTACTTCGGTCATTTTACCC
1 TCATTTTAC-CTATAGGGGTAATTCGATCATTCTACCCTATGGGGGTAATTCAGTCATTTTACCC
* * * *
29275636 TATGGGGGTAATTCGATCATTTTACCCTATAGAGGTATTTCGATCATTCTACCCTAT-AGGGTAT
65 TATGGGGGTAATTCGGTCATTTTACCCTATAG-GGTAATTCGGTCATTTTACCCTATGAGGGTAT
29275700 TTCGA
129 TTCGA
* * * * * *
29275705 TCATTTTACCTTATAGGGGTAATTCGATCATTCAACCTTACGGGGGTATTTCAGTCACTCTACCC
1 TCATTTTACC-TATAGGGGTAATTCGATCATTCTACCCTATGGGGGTAATTCAGTCATTTTACCC
* * * *
29275770 TATGGGGGTAATTCAGTCATTTTACCCTATATGGATAATTCGGTCATTTTACCCTGTGAGGGTAA
65 TATGGGGGTAATTCGGTCATTTTACCCTATA-GGGTAATTCGGTCATTTTACCCTATGAGGGTAT
*
29275835 TTCGG
129 TTCGA
* * * * * * *
29275840 TTATTTTACCCTATGGGGGTAATTCGATTATTTTACCCTATGAGGGTAATTCGGTCATTTTACCT
1 TCATTTTA-CCTATAGGGGTAATTCGATCATTCTACCCTATGGGGGTAATTCAGTCATTTTACCC
* *
29275905 TATGGGAGT-ATTCGGTCATTTTACCCTATGAGGGTAATTCGGTCATTTTACCCTATGCGGGTAT
65 TATGGGGGTAATTCGGTCATTTTACCCTAT-AGGGTAATTCGGTCATTTTACCCTATGAGGGTAT
29275969 TTCGA
129 TTCGA
* * * *
29275974 TCATTTTACCATATGGGGGTAATTCGATCATTTTACCCTATAGGGGTAATTCAGTCATTTTATCC
1 TCATTTTACC-TATAGGGGTAATTCGATCATTCTACCCTATGGGGGTAATTCAGTCATTTTACCC
29276039 TAT-GGGGTAATTCGGT
65 TATGGGGGTAATTCGGT
29276055 TATAACAGTG
Statistics
Matches: 298, Mismatches: 45, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
133 7 0.02
134 220 0.74
135 69 0.23
136 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (133 bp):
TCATTTTACCTATAGGGGTAATTCGATCATTCTACCCTATGGGGGTAATTCAGTCATTTTACCCT
ATGGGGGTAATTCGGTCATTTTACCCTATAGGGTAATTCGGTCATTTTACCCTATGAGGGTATTT
CGA
Found at i:29276391 original size:16 final size:17
Alignment explanation
Indices: 29276364--29276395 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29276354 TGTATAAAAC
29276364 CTTAATTTTAAAGAAAG
1 CTTAATTTTAAAGAAAG
29276381 CTTAA-TTTAAAGAAA
1 CTTAATTTTAAAGAAA
29276396 ATGATCTACG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.34
Consensus pattern (17 bp):
CTTAATTTTAAAGAAAG
Found at i:29276795 original size:28 final size:28
Alignment explanation
Indices: 29276754--29276810 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
29276744 ATCATGCAGC
* * *
29276754 AACAGTGTAGGCCTTATCCCAATATAGT
1 AACAATGTAGGCCTTAGCCCAATACAGT
*
29276782 AACAATGTGGGCCTTAGCCCAATACAGT
1 AACAATGTAGGCCTTAGCCCAATACAGT
29276810 A
1 A
29276811 TCGGTACAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (28 bp):
AACAATGTAGGCCTTAGCCCAATACAGT
Found at i:29277078 original size:32 final size:32
Alignment explanation
Indices: 29277053--29277159 Score: 133
Period size: 32 Copynumber: 3.3 Consensus size: 32
29277043 ATATGGTTGG
* *
29277053 CACAAAGCCATCAGTAATGGTAATATGACCGA
1 CACAAAGCCATCAGTAACGGTAATATGATCGA
* * * *
29277085 CACAAAGCCATCAGTAGCAGTGATATGATTGA
1 CACAAAGCCATCAGTAACGGTAATATGATCGA
* * *
29277117 CACACAGTCATCAGTAACGGTAATATGATCGG
1 CACAAAGCCATCAGTAACGGTAATATGATCGA
29277149 CACAAAGCCAT
1 CACAAAGCCAT
29277160 TAGCAGCATC
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (32 bp):
CACAAAGCCATCAGTAACGGTAATATGATCGA
Found at i:29277133 original size:64 final size:64
Alignment explanation
Indices: 29277038--29277159 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 64
29277028 GCCATAAATA
* * *
29277038 CAGTAATATGGTTGGCACAAAGCCATCAGTAATGGTAATATGACCGACACAAAGCCATCAGTAG
1 CAGTAATATGATTGACACAAAGCCATCAGTAACGGTAATATGACCGACACAAAGCCATCAGTAG
* * * * *
29277102 CAGTGATATGATTGACACACAGTCATCAGTAACGGTAATATGATCGGCACAAAGCCAT
1 CAGTAATATGATTGACACAAAGCCATCAGTAACGGTAATATGACCGACACAAAGCCAT
29277160 TAGCAGCATC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (64 bp):
CAGTAATATGATTGACACAAAGCCATCAGTAACGGTAATATGACCGACACAAAGCCATCAGTAG
Found at i:29277194 original size:26 final size:26
Alignment explanation
Indices: 29277163--29277214 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
29277153 AAGCCATTAG
** *
29277163 CAGCATCGTAGCAAAGCTGCGAGTAA
1 CAGCATCACAGCAAAGCTGCCAGTAA
29277189 CAGCATCACAGCAAAGCTGCCAGTAA
1 CAGCATCACAGCAAAGCTGCCAGTAA
29277215 TCAGAATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.27, G:0.23, T:0.13
Consensus pattern (26 bp):
CAGCATCACAGCAAAGCTGCCAGTAA
Found at i:29277381 original size:24 final size:24
Alignment explanation
Indices: 29277354--29277422 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
29277344 CATACAATTT
*
29277354 ACAGACAAAACAGTTATTTAAATC
1 ACAGACAAAACAGTCATTTAAATC
* **
29277378 ACAGACAAATCAGTCATTTTCATC
1 ACAGACAAAACAGTCATTTAAATC
* * *
29277402 ATAGACAAATCAATCATTTAA
1 ACAGACAAAACAGTCATTTAA
29277423 CCTCGAGGGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (24 bp):
ACAGACAAAACAGTCATTTAAATC
Found at i:29277483 original size:27 final size:27
Alignment explanation
Indices: 29277443--29277511 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
29277433 AAAATAGTCG
**
29277443 TTTACCCTCTAGGGGCATTACGGTCAT
1 TTTACCCTAAAGGGGCATTACGGTCAT
* * * **
29277470 TTTACCTTACAGGGGTATTTTGGTCAT
1 TTTACCCTAAAGGGGCATTACGGTCAT
29277497 TTTACCCTAAAGGGG
1 TTTACCCTAAAGGGG
29277512 TATCTCGGTC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (27 bp):
TTTACCCTAAAGGGGCATTACGGTCAT
Found at i:29277521 original size:27 final size:27
Alignment explanation
Indices: 29277463--29277530 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
29277453 AGGGGCATTA
* * *
29277463 CGGTCATTTTACCTTACAGGGGTATTT
1 CGGTCATTTTACCCTAAAGGGGTATCT
*
29277490 TGGTCATTTTACCCTAAAGGGGTATCT
1 CGGTCATTTTACCCTAAAGGGGTATCT
**
29277517 CGGTCCCTTTACCC
1 CGGTCATTTTACCC
29277531 CATGAGAGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.37
Consensus pattern (27 bp):
CGGTCATTTTACCCTAAAGGGGTATCT
Found at i:29277593 original size:27 final size:27
Alignment explanation
Indices: 29277532--29277768 Score: 107
Period size: 27 Copynumber: 8.9 Consensus size: 27
29277522 CCTTTACCCC
* * *
29277532 ATGAGAGTATTTCGGTCATTCTATCCT
1 ATGAGGGTATTTCGATCATTTTATCCT
*
29277559 ATGAGGGTATTTCGATCATTTTATCTT
1 ATGAGGGTATTTCGATCATTTTATCCT
* * * *
29277586 GTGGGGGTAATTCGATCATTTTA-CCC
1 ATGAGGGTATTTCGATCATTTTATCCT
* * * *
29277612 ATCGAGGATATTTTGGTAATTTTAT--T
1 AT-GAGGGTATTTCGATCATTTTATCCT
* *
29277638 GATCGAGGGTATTTCGGTAATTTTA-CCT
1 -AT-GAGGGTATTTCGATCATTTTATCCT
* * * *
29277666 ACCGAGGGTATTT-TAGTAATTTTA-CCC
1 A-TGAGGGTATTTCGA-TCATTTTATCCT
*
29277693 AT-AGGGTATTTCCG-T-AGTTTTA-CCC
1 ATGAGGGTATTT-CGATCA-TTTTATCCT
* *
29277718 ATTGAGGGTATTTCGATAATTTTACCCT
1 A-TGAGGGTATTTCGATCATTTTATCCT
* * * *
29277746 TTGTGGGTATTTCAATAATTTTA
1 ATGAGGGTATTTCGATCATTTTA
29277769 CCCACGAATT
Statistics
Matches: 166, Mismatches: 29, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
24 1 0.01
25 19 0.11
26 5 0.03
27 137 0.83
28 4 0.02
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (27 bp):
ATGAGGGTATTTCGATCATTTTATCCT
Found at i:29277725 original size:52 final size:53
Alignment explanation
Indices: 29277603--29277772 Score: 155
Period size: 54 Copynumber: 3.2 Consensus size: 53
29277593 TAATTCGATC
* * *** *
29277603 ATTTTACCCATCGAGGATATTTTGGTAATTTTATTGATCGAGGGTATTTCGGTA
1 ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATC-AGGGTATTTCCGTA
* *
29277657 ATTTTACCTACCGAGGGTATTTTAGTAATTTTACCCAT-AGGGTATTTCCGTA
1 ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCAGGGTATTTCCGTA
* * * * ** **
29277709 GTTTTACCCATTGAGGGTA-TTTCGATAATTTTACCCTTTGTGGGTATTTCAATA
1 ATTTTACCCATCGAGGGTATTTTAG-TAATTTTACCC-ATCAGGGTATTTCCGTA
29277763 ATTTTACCCA
1 ATTTTACCCA
29277773 CGAATTGCAC
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
51 4 0.04
52 39 0.41
53 1 0.01
54 51 0.54
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (53 bp):
ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCAGGGTATTTCCGTA
Found at i:29277769 original size:27 final size:26
Alignment explanation
Indices: 29277642--29277771 Score: 111
Period size: 27 Copynumber: 4.9 Consensus size: 26
29277632 TTTATTGATC
** *
29277642 GAGGGTATTTCGGTAATTTTA-CCTACC
1 GAGGGTATTTCAATAATTTTACCCT--T
* * *
29277669 GAGGGTATTTTAGTAATTTTACCCAT
1 GAGGGTATTTCAATAATTTTACCCTT
** *
29277695 -AGGGTATTTCCGTAGTTTTACCCATT
1 GAGGGTATTTCAATAATTTTACCC-TT
*
29277721 GAGGGTATTTCGATAATTTTACCCTTT
1 GAGGGTATTTCAATAATTTTACCC-TT
*
29277748 GTGGGTATTTCAATAATTTTACCC
1 GAGGGTATTTCAATAATTTTACCC
29277772 ACGAATTGCA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
25 20 0.23
26 1 0.01
27 63 0.73
28 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (26 bp):
GAGGGTATTTCAATAATTTTACCCTT
Found at i:29284361 original size:92 final size:93
Alignment explanation
Indices: 29284200--29284378 Score: 333
Period size: 92 Copynumber: 1.9 Consensus size: 93
29284190 CGCAGGAGCA
* *
29284200 ATTCAAGTGCATAGAAATTGAATCCACATTTTTGTTATAGGAAACATTATTGCTTGATTAGATGA
1 ATTCAAGTGCACAGAAATTGAATCCACATTTTTGTTACAGGAAACATTATTGCTTGATTAGATGA
29284265 AGTTGGGATATCAGTACCTGGGGCGAAC
66 AGTTGGGATATCAGTACCTGGGGCGAAC
29284293 ATTCAAGTGCACAGAAATTGAATCCACATTTTT-TTACAGGAAACATTATTGCTTGATTAGATGA
1 ATTCAAGTGCACAGAAATTGAATCCACATTTTTGTTACAGGAAACATTATTGCTTGATTAGATGA
29284357 AGTTGGGATATCAGTACCTGGG
66 AGTTGGGATATCAGTACCTGGG
29284379 CGACACTTCC
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 52 0.62
93 32 0.38
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.32
Consensus pattern (93 bp):
ATTCAAGTGCACAGAAATTGAATCCACATTTTTGTTACAGGAAACATTATTGCTTGATTAGATGA
AGTTGGGATATCAGTACCTGGGGCGAAC
Found at i:29286599 original size:13 final size:13
Alignment explanation
Indices: 29286583--29286619 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
29286573 ATACATAATA
29286583 GTTATATGAAATG
1 GTTATATGAAATG
* *
29286596 GTTATGTGAATTG
1 GTTATATGAAATG
29286609 GTTATATGAAA
1 GTTATATGAAA
29286620 ATATATGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (13 bp):
GTTATATGAAATG
Found at i:29287929 original size:11 final size:12
Alignment explanation
Indices: 29287898--29287932 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
29287888 CATTGATTTA
*
29287898 TGATATTTAAAT
1 TGATTTTTAAAT
29287910 TGATTTTTAAAT
1 TGATTTTTAAAT
29287922 TG-TTTTTAAAT
1 TGATTTTTAAAT
29287933 ATTATTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (12 bp):
TGATTTTTAAAT
Found at i:29291604 original size:21 final size:21
Alignment explanation
Indices: 29291575--29291615 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29291565 AATACCTAGT
29291575 AAAAGGTATCGATACTTTTTA
1 AAAAGGTATCGATACTTTTTA
* *
29291596 AAAATGTATTGATACTTTTT
1 AAAAGGTATCGATACTTTTT
29291616 GTAATTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (21 bp):
AAAAGGTATCGATACTTTTTA
Found at i:29299682 original size:27 final size:27
Alignment explanation
Indices: 29299647--29299895 Score: 275
Period size: 27 Copynumber: 9.2 Consensus size: 27
29299637 GTAATGGGTC
**
29299647 TAAAATGACCGAAATACCCTTAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
29299674 TAAAATGACCAAAATACCTTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
29299701 TAAAGTGACC-AAATTACCTTCGAAGGG
1 TAAAATGACCGAAA-TACCCTCGAAGGG
* * * *
29299728 TCAAATAACCGAAATACCCCCGAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
29299755 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
29299782 TAAAATGATCGAAACACCCTCGCAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * * *
29299809 TAGAATGACTGAAAAACTCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
29299836 TAAAATAACTGAAATACCCTCGTAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
29299863 TAAAATGACAGAAATATCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
29299890 TAAAAT
1 TAAAAT
29299896 AACTGTTATA
Statistics
Matches: 185, Mismatches: 35, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
26 3 0.02
27 179 0.97
28 3 0.02
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.18
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:29300301 original size:28 final size:28
Alignment explanation
Indices: 29300261--29300315 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
29300251 CATTGTACTG
29300261 TTACTGTATTGGGCTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
*
29300289 TTACTGTATTGGGCTTAGGCCCACACT
1 TTACTGTATTGGGCTAAGGCCCACACT
29300316 GTTGTATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTA
Found at i:29301697 original size:15 final size:15
Alignment explanation
Indices: 29301677--29301715 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
29301667 GATTTTTGAG
*
29301677 TATGTGGGCGCAAGT
1 TATGTGGACGCAAGT
29301692 TATGTGGACGCAAGT
1 TATGTGGACGCAAGT
29301707 TATGTGGAC
1 TATGTGGAC
29301716 TCCCGAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.23, C:0.13, G:0.36, T:0.28
Consensus pattern (15 bp):
TATGTGGACGCAAGT
Found at i:29308403 original size:27 final size:27
Alignment explanation
Indices: 29308364--29308588 Score: 265
Period size: 27 Copynumber: 8.3 Consensus size: 27
29308354 GTAATGGGCC
*
29308364 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
29308391 TAAAATGACCGAAATACCCCCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * * *
29308418 TAAAGTGATCGGAATACCCTCAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* ** * *
29308445 TAAAATAACTAAAATACCCTCAAAGGT
1 TAAAATGACCGAAATACCCTCGAAGGG
*
29308472 TAAAATGACCGAAATACCCTCGCAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
29308499 TAGAATGACCGAGAA-ACCCTCGAAGGG
1 TAAAATGACCGA-AATACCCTCGAAGGG
* * *
29308526 TAAAATGATCGAAATACCCTCGCATGG
1 TAAAATGACCGAAATACCCTCGAAGGG
29308553 TAAAATGACCGAAATA-CCTCCGAAGGG
1 TAAAATGACCGAAATACCCT-CGAAGGG
*
29308580 TATAATGAC
1 TAAAATGAC
29308589 TATTATACCC
Statistics
Matches: 165, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.03
27 158 0.96
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:29308947 original size:28 final size:28
Alignment explanation
Indices: 29308882--29308960 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
29308872 TGCATTGTAA
29308882 TGTTACTGTATTGGGCTAAGGCCCACAC
1 TGTTACTGTATTGGGCTAAGGCCCACAC
* * * *
29308910 TATTATTGTATTTGGCTAAGGCTCACAC
1 TGTTACTGTATTGGGCTAAGGCCCACAC
* * *
29308938 TGTTGCTGTATAGGGCTCAGGCC
1 TGTTACTGTATTGGGCTAAGGCC
29308961 TAGACTACTA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (28 bp):
TGTTACTGTATTGGGCTAAGGCCCACAC
Found at i:29317415 original size:40 final size:39
Alignment explanation
Indices: 29317337--29317580 Score: 292
Period size: 40 Copynumber: 6.1 Consensus size: 39
29317327 TACTATTCAG
* *
29317337 TTCAGGGTTACC-AAGGTACAAACAGGGCACGTATGTGCA
1 TTCAGGGGTACCGAA-GTACAAACAGGGCACGTAAGTGCA
* *
29317376 TTAAGGGGTACCGAAGTACAAACACGGGCATGTAAGTGCA
1 TTCAGGGGTACCGAAGTACAAACA-GGGCACGTAAGTGCA
* * * *
29317416 TTCAGGGGTATCGAAGTATAAACAAGGGCACATATGTGCA
1 TTCAGGGGTACCGAAGTACAAAC-AGGGCACGTAAGTGCA
* * *
29317456 TTCAAGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
1 TTCAGGGGTACCGAAGTACAAACA-GGGCACGTAAGTGCA
*
29317496 TTCAGGGGTACCAAAGTACAAACAGAGGCACGTAAGTGCA
1 TTCAGGGGTACCGAAGTACAAACAG-GGCACGTAAGTGCA
* * *
29317536 TTCGGGGGTGCCGAAGTACAAACAGGGACACCTAAGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGG-CACGTAAGTGCA
29317576 TTCAG
1 TTCAG
29317581 CAATAATTAT
Statistics
Matches: 177, Mismatches: 22, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
39 23 0.13
40 153 0.86
41 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (39 bp):
TTCAGGGGTACCGAAGTACAAACAGGGCACGTAAGTGCA
Found at i:29317494 original size:120 final size:120
Alignment explanation
Indices: 29317340--29317579 Score: 342
Period size: 120 Copynumber: 2.0 Consensus size: 120
29317330 TATTCAGTTC
* *
29317340 AGGGTTACCAAGGTACAAACAGGGCACGTATGTGCATTAAGGGGTACCGAAGTACAAACACG-GG
1 AGGGTTACCAAAGTACAAACAGGGCACGTATGTGCATTAAGGGGTACCAAAGTACAAACA-GAGG
* * * *
29317404 CATGTAAGTGCATTCAGGGGTATCGAAGTATAAACAAGGG-CACATATGTGCATTCA
65 CACGTAAGTGCATTCAGGGGTACCGAAGTACAAAC-AGGGACACATAAGTGCATTCA
*
29317460 AGGG-TACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAACAGAGG
1 AGGGTTACCAAAGTACAAACA-GGGCACGTATGTGCATTAAGGGGTACCAAAGTACAAACAGAGG
* * *
29317524 CACGTAAGTGCATTCGGGGGTGCCGAAGTACAAACAGGGACACCTAAGTGCATTCA
65 CACGTAAGTGCATTCAGGGGTACCGAAGTACAAACAGGGACACATAAGTGCATTCA
29317580 GCAATAATTA
Statistics
Matches: 107, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
119 20 0.19
120 87 0.81
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (120 bp):
AGGGTTACCAAAGTACAAACAGGGCACGTATGTGCATTAAGGGGTACCAAAGTACAAACAGAGGC
ACGTAAGTGCATTCAGGGGTACCGAAGTACAAACAGGGACACATAAGTGCATTCA
Found at i:29322905 original size:34 final size:34
Alignment explanation
Indices: 29322862--29322939 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 34
29322852 GCATTTTTGA
*
29322862 CACTGTACTGAGATA-GGCTAAGGCCCAA-ACTGT
1 CACTGTACTGA-AAAGGGCTAAGGCCCAAGACTGT
*
29322895 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGTT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTG-T
29322931 CAACTGTAC
1 C-ACTGTAC
29322940 ACTGTGAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
33 7 0.18
34 18 0.47
35 4 0.11
36 5 0.13
37 4 0.11
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:29323678 original size:26 final size:26
Alignment explanation
Indices: 29323642--29323700 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
29323632 GTAAGTGTTT
*
29323642 TGAAACTGATACATGCTATGATAATC
1 TGAAACTGATAAATGCTATGATAATC
* * *
29323668 TGAAACTGATAAATGTTATGATATTT
1 TGAAACTGATAAATGCTATGATAATC
29323694 TGAAACT
1 TGAAACT
29323701 ACTGTAGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (26 bp):
TGAAACTGATAAATGCTATGATAATC
Found at i:29331906 original size:31 final size:31
Alignment explanation
Indices: 29331871--29331964 Score: 125
Period size: 31 Copynumber: 3.0 Consensus size: 31
29331861 ATGAACAAAG
* *
29331871 ACTTATCATAGAGAGCTCACATAGGGAGCTT
1 ACTTATCACAGAGAGCTCGCATAGGGAGCTT
* * * *
29331902 ACTTATCACAAAGAGATCGTATATGGAGCTT
1 ACTTATCACAGAGAGCTCGCATAGGGAGCTT
*
29331933 ACTTATCACAGAGAGCTTGCATAGGGAGCTT
1 ACTTATCACAGAGAGCTCGCATAGGGAGCTT
29331964 A
1 A
29331965 TTTGAAAATA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (31 bp):
ACTTATCACAGAGAGCTCGCATAGGGAGCTT
Found at i:29338542 original size:40 final size:40
Alignment explanation
Indices: 29338473--29338581 Score: 148
Period size: 40 Copynumber: 2.7 Consensus size: 40
29338463 GGTGCTAATA
* *
29338473 GAAAAACGCCGCAATAA-GTAAAGAAATAGCGGCGTTTATGG
1 GAAAAACGCAGCAA-AAGGT-AAGCAATAGCGGCGTTTATGG
*
29338514 GAAAAATGCAGCAAAAGGTAAGCAATAGCGGCGTTTATGG
1 GAAAAACGCAGCAAAAGGTAAGCAATAGCGGCGTTTATGG
* *
29338554 GGAAAACGCCGCAAAAGGTAAGCAATAG
1 GAAAAACGCAGCAAAAGGTAAGCAATAG
29338582 TGGCCACAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 47 0.77
41 14 0.23
ACGTcount: A:0.42, C:0.15, G:0.28, T:0.15
Consensus pattern (40 bp):
GAAAAACGCAGCAAAAGGTAAGCAATAGCGGCGTTTATGG
Found at i:29338728 original size:48 final size:48
Alignment explanation
Indices: 29338673--29338770 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
29338663 TTCTCAATCA
*
29338673 TTTCTTTGCTTGAAACCCTAAAATCCTATCCCTTTTCTTTCCTAGACT
1 TTTCTTTGCTTGAAACCCTAAAATCCCATCCCTTTTCTTTCCTAGACT
* * * *
29338721 TTTCTTTGCTTGAATCTCTAAAATCCCATCCCTTTTCTTTCTTAGTCT
1 TTTCTTTGCTTGAAACCCTAAAATCCCATCCCTTTTCTTTCCTAGACT
29338769 TT
1 TT
29338771 AAATTACTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.18, C:0.28, G:0.06, T:0.48
Consensus pattern (48 bp):
TTTCTTTGCTTGAAACCCTAAAATCCCATCCCTTTTCTTTCCTAGACT
Found at i:29338781 original size:48 final size:48
Alignment explanation
Indices: 29338681--29338783 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
29338671 CATTTCTTTG
* *** *
29338681 CTTGAAACCCTAAAATCCTATCCCTTTTCTTTCCTAGACTTTTCTTTG
1 CTTGAAACCCTAAAATCCCATCCCTTTTCTTTCCTAGACTTTAAATTA
* * * *
29338729 CTTGAATCTCTAAAATCCCATCCCTTTTCTTTCTTAGTCTTTAAATTA
1 CTTGAAACCCTAAAATCCCATCCCTTTTCTTTCCTAGACTTTAAATTA
29338777 CTTGAAA
1 CTTGAAA
29338784 AAAATATACA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (48 bp):
CTTGAAACCCTAAAATCCCATCCCTTTTCTTTCCTAGACTTTAAATTA
Found at i:29342241 original size:72 final size:72
Alignment explanation
Indices: 29342041--29342259 Score: 203
Period size: 72 Copynumber: 3.1 Consensus size: 72
29342031 ATTAATTATC
* * * **
29342041 AAGTAAAATCATTTATTTAATTATGTGTTTTTAAAAAAGGTTAATTTA-TTCAATTTATT-AAGT
1 AAGTAAAAACATTTCTTCAATTATGAATTTTT-AAAAAGGTTAATTTAGTTCAATTTATTGAA-T
29342104 TTTGATATT
64 TTTGATATT
** * * * * * * ** *
29342113 AAGCGAAACCATTTCTTTAGTTAT-ACA-TTTTCAGAAGCTTAATTTAGTTTGATTTATTGAAAT
1 AAGTAAAAACATTTCTTCAATTATGA-ATTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATT
29342176 TTGATATT
65 TTGATATT
** * *
29342184 AAGTAAAAATGTTTGTTCAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAGTTT
1 AAGTAAAAACATTTCTTCAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTT
29342249 TGATATT
66 TGATATT
29342256 AAGT
1 AAGT
29342260 GGAACCATTT
Statistics
Matches: 114, Mismatches: 28, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
70 12 0.11
71 39 0.34
72 63 0.55
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (72 bp):
AAGTAAAAACATTTCTTCAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTT
TGATATT
Found at i:29342386 original size:72 final size:70
Alignment explanation
Indices: 29342301--29342516 Score: 207
Period size: 72 Copynumber: 3.0 Consensus size: 70
29342291 CCGCTTGTTA
* * *
29342301 AATTATGCGTTTTTAAAAAATTTAATTTAGTTCAATTTATTGAATTTTGATATGAAGTAGAACTG
1 AATTATGTGTTTTTAAAAAA-TTAATTTAGTTCAATTTATTGAGTTTTGATATTAAGTA-AACTG
29342366 TTTATTC
64 TTTATTC
** * * * **
29342373 AATTATGTGTTTTTAAAAAGGCTATTTTAGTTCAATTCATTGAGTTTTGGTATTAAGTAAAACCA
1 AATTATGTGTTTTTAAAAA-ATTAATTTAGTTCAATTTATTGAGTTTTGATATTAAGT-AAACTG
29342438 TTTATTC
64 TTTATTC
* * * * * * ** *
29342445 AAGTTATATGTTTTGAGAAGATTAAATTAATTTGATTTATTGAGTTTTGATATTAAGTAAAATCG
1 AA-TTATGTGTTTTTAAAAAATTAATTTAGTTCAATTTATTGAGTTTTGATATTAAGTAAACT-G
29342510 TTTATTC
64 TTTATTC
29342517 GGTAATATTA
Statistics
Matches: 114, Mismatches: 26, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
71 3 0.03
72 97 0.85
73 14 0.12
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.47
Consensus pattern (70 bp):
AATTATGTGTTTTTAAAAAATTAATTTAGTTCAATTTATTGAGTTTTGATATTAAGTAAACTGTT
TATTC
Found at i:29344652 original size:82 final size:80
Alignment explanation
Indices: 29344541--29344690 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 80
29344531 CGCTTTTACT
* * **
29344541 AAAAACGCCGCTAAAGAACATGACATTTAGCGGCTTTTTTGGGAAAAGTGCCGCTAAAGGTCATG
1 AAAAACGCCGCTAAAGAACATGACATTTAGCGGC-GTTTTGGAAAAAGCACCGCTAAAGGTCATG
29344606 TTCTTAAGCGTTTGTG
65 TTCTTAAGCGTTTGTG
** * *
29344622 AAAAAGCGCCGCTAAAGGTCATGTTC-TTTAGTGGCGTTTTGGAAAAAGCACCGCTAAAGGTCAT
1 AAAAA-CGCCGCTAAAGAACATG-ACATTTAGCGGCGTTTTGGAAAAAGCACCGCTAAAGGTCAT
29344686 GTTCT
64 GTTCT
29344691 ATAGCGGCGT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
81 35 0.59
82 23 0.39
83 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (80 bp):
AAAAACGCCGCTAAAGAACATGACATTTAGCGGCGTTTTGGAAAAAGCACCGCTAAAGGTCATGT
TCTTAAGCGTTTGTG
Found at i:29344676 original size:42 final size:41
Alignment explanation
Indices: 29344577--29344703 Score: 161
Period size: 42 Copynumber: 3.1 Consensus size: 41
29344567 TTAGCGGCTT
* * *
29344577 TTTTGGGAAAAGTGCCGCTAAAGGTCATGTTC-TTA-AGCG
1 TTTTGGAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGGGCG
29344616 -TTTGTGAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCG
1 TTTTG-GAAAAAGCGCCGCTAAAGGTCATGTTCTTTAG-GGCG
* *
29344658 TTTTGGAAAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCG
1 TTTTGGAAAAAGCGCCGCTAAAGGTCATGTTCTTTAG-GGCG
29344700 TTTT
1 TTTT
29344704 TTCACATAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
38 4 0.05
39 25 0.32
40 3 0.04
42 41 0.53
43 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (41 bp):
TTTTGGAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGGGCG
Found at i:29345643 original size:62 final size:62
Alignment explanation
Indices: 29345529--29345645 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 62
29345519 ATTTATTGAC
* * ** * *
29345529 TTTTTTAGAATTAGAACTAAATTAACAAATTTTGTAAATTTTGAGGGTTAATTTTATAGAGT
1 TTTTTTAGAATCAGAACTAAATGAACAAATTTTGTAAACATTGAAGGCTAATTTTATAGAGT
29345591 TTTTTTAGAACTCA-AACTAAAATGAA-AAATTTTGTAAACATTGAAGGCTAATTTT
1 TTTTTTAGAA-TCAGAACT-AAATGAACAAATTTTGTAAACATTGAAGGCTAATTTT
29345646 GTTGAATATT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
62 39 0.83
63 8 0.17
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (62 bp):
TTTTTTAGAATCAGAACTAAATGAACAAATTTTGTAAACATTGAAGGCTAATTTTATAGAGT
Found at i:29345797 original size:28 final size:30
Alignment explanation
Indices: 29345765--29345829 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 30
29345755 TTTCAAAAAT
* *
29345765 TTTAATAACTAAATTAAAA-AA-ATAATGG
1 TTTAATAACTAAAATAAAAGAAGATAATAG
29345793 TTTAATAACTAAAATAAAAGGAAGATAATAG
1 TTTAATAACTAAAATAAAA-GAAGATAATAG
29345824 TTTAAT
1 TTTAAT
29345830 GACATTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 18 0.56
30 2 0.06
31 12 0.38
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.32
Consensus pattern (30 bp):
TTTAATAACTAAAATAAAAGAAGATAATAG
Found at i:29348694 original size:6 final size:6
Alignment explanation
Indices: 29348683--29348720 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
29348673 ATTAAATCCT
29348683 CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CC
1 CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CC
29348721 CAATGCCTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.53, G:0.00, T:0.16
Consensus pattern (6 bp):
CCTAAC
Found at i:29349092 original size:31 final size:32
Alignment explanation
Indices: 29349037--29349097 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
29349027 TAACTTTTAG
* * *
29349037 AATTTAGTTAAATTATTTACATTTTGATGAAA
1 AATTTAGTTAAATTATTAAAATTTTAATGAAA
*
29349069 AATTTA-TTGAATTATTAAAATTTTAATGA
1 AATTTAGTTAAATTATTAAAATTTTAATGA
29349098 TATTGACATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.48
Consensus pattern (32 bp):
AATTTAGTTAAATTATTAAAATTTTAATGAAA
Found at i:29352809 original size:17 final size:17
Alignment explanation
Indices: 29352784--29352817 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29352774 TAACACACAA
29352784 AAAAATATACGTAAAAC
1 AAAAATATACGTAAAAC
*
29352801 AAAACTATACGTAAAAC
1 AAAAATATACGTAAAAC
29352818 TATATGCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.15, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAATATACGTAAAAC
Found at i:29371147 original size:54 final size:54
Alignment explanation
Indices: 29371065--29371172 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
29371055 CTCAATATTG
29371065 GCATGTACCTCTGGACTCGATTCTGAGCTCGATTTAGACCGAGAATCAACTAAA
1 GCATGTACCTCTGGACTCGATTCTGAGCTCGATTTAGACCGAGAATCAACTAAA
*
29371119 GCATGTACCTCTGGACTCGATTCTGAGCTCGATTTAGACCGAGAATCAGCTAAA
1 GCATGTACCTCTGGACTCGATTCTGAGCTCGATTTAGACCGAGAATCAACTAAA
29371173 ACTATGGCTC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (54 bp):
GCATGTACCTCTGGACTCGATTCTGAGCTCGATTTAGACCGAGAATCAACTAAA
Found at i:29373104 original size:12 final size:11
Alignment explanation
Indices: 29373071--29373130 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
29373061 AAAAATTAAA
*
29373071 AAAAGTATTTTA
1 AAAA-TATTTTT
29373083 AAAATATTTTT
1 AAAATATTTTT
29373094 AAAATACTTTTT
1 AAAATA-TTTTT
**
29373106 TTAAT-TTTTT
1 AAAATATTTTT
29373116 -AAA-ATTTTT
1 AAAATATTTTT
29373125 AAAATA
1 AAAATA
29373131 AAAATGGGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
9 7 0.17
10 8 0.20
11 13 0.32
12 12 0.30
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:29375305 original size:11 final size:12
Alignment explanation
Indices: 29375280--29375310 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
29375270 GCTAGCTTGT
29375280 AAAGAAAAAAGA
1 AAAGAAAAAAGA
29375292 AAAGAAAAAA-A
1 AAAGAAAAAAGA
29375303 AAAGAAAA
1 AAAGAAAA
29375311 CATCCAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAGA
Found at i:29376103 original size:31 final size:31
Alignment explanation
Indices: 29376067--29376125 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
29376057 TTAATTATTA
29376067 AATTATTTAAAAAAATTTATTTAAATCATTG
1 AATTATTTAAAAAAATTTATTTAAATCATTG
***
29376098 AATTATTTAAAAGTTTTTATTTAAATCA
1 AATTATTTAAAAAAATTTATTTAAATCA
29376126 CTAAGCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
AATTATTTAAAAAAATTTATTTAAATCATTG
Found at i:29376823 original size:3 final size:3
Alignment explanation
Indices: 29376815--29376850 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
29376805 GGCTGGGAGT
29376815 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
29376851 ACAACCCCTC
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:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:29377194 original size:6 final size:6
Alignment explanation
Indices: 29377183--29377211 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
29377173 GGAAAGAGGT
29377183 TGGCAA TGGCAA TGGCAA TGGCAA TGGCA
1 TGGCAA TGGCAA TGGCAA TGGCAA TGGCA
29377212 TCCTAGTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.34, T:0.17
Consensus pattern (6 bp):
TGGCAA
Found at i:29378664 original size:40 final size:40
Alignment explanation
Indices: 29378593--29378827 Score: 222
Period size: 41 Copynumber: 5.8 Consensus size: 40
29378583 CTTTCGGGGC
* *
29378593 TTTAGCGGCGTTTTTGAAAATGCGCCACTAATGCTTAGGGA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT-GGGA
* * * *
29378634 TTTAGC-GCGTTTTTGGAAAAGCGCTGCTAATGCTCTGTGT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT-TGGGA
* * * * * *
29378674 TTTAGCGGCATTTTTTAAAAAGCGTCGCTAAAGCTCGGGGT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT-TGGGA
* * *
29378715 TTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCGGTA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTTGGGA
* * *
29378755 TTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTGGGTGC
1 -TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTTGG-GA
* *
29378797 TTTAGTGGCGCTTTTTCAAAAA-CGCCGCTAA
1 TTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAA
29378828 AACCCCGAGC
Statistics
Matches: 160, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
40 34 0.21
41 116 0.73
42 10 0.06
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTTGGGA
Found at i:29378746 original size:82 final size:81
Alignment explanation
Indices: 29378593--29378827 Score: 276
Period size: 82 Copynumber: 2.9 Consensus size: 81
29378583 CTTTCGGGGC
* * * * *
29378593 TTTAGCGGCGTTTTTGAAAATGCGCCACTAATGCTTAGGGATTTAGC-GCGTTTTTGGAAAAGCG
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGC-TGGGGATTTAGCGGCGTTTTTGAAAAAGCG
* * *
29378657 CTGCTAATGCTCTGTGT
65 CCGCTAATGCTCGGTAT
* * * *
29378674 TTTAGCGGCATTTTTTAAAAAGCGTCGCTAAAGCTCGGGGTTTTAGCGGCGTTTTTGAAAAAGCG
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCT-GGGGATTTAGCGGCGTTTTTGAAAAAGCG
*
29378739 CCACTAATGCTCGGTAT
65 CCGCTAATGCTCGGTAT
* * *
29378756 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTGGGTGCTTTAGTGGCGCTTTTTCAAAAA-C
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTGGG-GATTTAGCGGCG-TTTTTGAAAAAGC
29378820 GCCGCTAA
64 GCCGCTAA
29378828 AACCCCGAGC
Statistics
Matches: 130, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 40 0.31
82 79 0.61
83 10 0.08
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (81 bp):
TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTGGGGATTTAGCGGCGTTTTTGAAAAAGCGC
CGCTAATGCTCGGTAT
Found at i:29378840 original size:41 final size:41
Alignment explanation
Indices: 29378798--29378957 Score: 180
Period size: 41 Copynumber: 3.9 Consensus size: 41
29378788 GCTGGGTGCT
*
29378798 TTAGTGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCT
1 TTAGTGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* * * *
29378839 TTAG-GGACGCTTTTTTAAAAATGCCGCTAAAACACAGAGCA
1 TTAGTGG-CGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
** * * **
29378880 TTAGCAGCGCTTTTCCAAAAACG-CGCTAAATCCCTAAGCA
1 TTAGTGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* *
29378920 TTAGTGGCGCATTTTCAAAAACGCCGCTAAAGCCCCGA
1 TTAGTGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGA
29378958 AAGGTAAGAA
Statistics
Matches: 96, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
40 34 0.35
41 61 0.64
42 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (41 bp):
TTAGTGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
Found at i:29378842 original size:82 final size:82
Alignment explanation
Indices: 29378592--29378869 Score: 199
Period size: 82 Copynumber: 3.4 Consensus size: 82
29378582 CCTTTCGGGG
* * * * ** * **
29378592 CTTTAGCGGCGTTTTTGAAAATGCGCCACTAATGCTTAGGGATTTAGC-GCGTTTTTGGAAAAGC
1 CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGCTCGGGGCTTTAGCGGCGTTTTTCAAAAAGC
** ** * * *
29378656 GCTGCTAATGCTCTGTG
66 GCCACTAAAACCCCGTA
* * * * *
29378673 TTTTAGCGGCATTTTTTAAAAAGCGTCGCTAAAGCTCGGGGTTTTAGCGGCGTTTTTGAAAAAGC
1 CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGCTCGGGGCTTTAGCGGCGTTTTTCAAAAAGC
** * *
29378738 GCCACTAATGCTCGGTA
66 GCCACTAAAACCCCGTA
* * *
29378755 TTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCT-GGGTGCTTTAGTGGCGCTTTTTCAAAAA
1 CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGCTCGGG-GCTTTAGCGGCG-TTTTTCAAAAA
*
29378819 -CGCCGCTAAAACCCCG-A
64 GCGCCACTAAAACCCCGTA
*
29378836 GCTTTAG-GGACGCTTTTTTAAAAA-TGCCGCTAAA
1 -CTTTAGCGG-CG-TTTTTTAAAAAGCGCCGCTAAA
29378870 ACACAGAGCA
Statistics
Matches: 162, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
81 44 0.27
82 97 0.60
83 21 0.13
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGCTCGGGGCTTTAGCGGCGTTTTTCAAAAAGC
GCCACTAAAACCCCGTA
Found at i:29378842 original size:123 final size:122
Alignment explanation
Indices: 29378591--29378859 Score: 301
Period size: 123 Copynumber: 2.2 Consensus size: 122
29378581 ACCTTTCGGG
* *
29378591 GCTTTAGCGGCGTTTTTGAAAATGCGCCACTAATGCTTAGGGATTTAGCGCGTTTTTGGAAAAGC
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTTAGGGATTTAGCGCGTTTTTGAAAAAGC
* * * * * * * * *
29378656 GCTGCTAATGCTCTGTGTTTTAGCGGCATTTTTTAAAAAGCGTCGCTAAAGCTCGGG
66 GCCGCTAATGCTCGGTGCTTTAGCGGCATTTTTCAAAAAGCGCCGCTAAAACCCCGA
* * * *
29378713 GTTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGC-TCGGTATTTTAGCGGCGTTTTTTAAAAA
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTTAGGGA-TTTAGC-GCGTTTTTGAAAAA
* * *
29378777 GCGCCGCTAATGCTGGGTGCTTTAGTGGCGCTTTTTCAAAAA-CGCCGCTAAAACCCCGA
64 GCGCCGCTAATGCTCGGTGCTTTAGCGGC-ATTTTTCAAAAAGCGCCGCTAAAACCCCGA
*
29378836 GCTTTAG-GGACGCTTTTTTAAAAA
1 GCTTTAGCGG-CG-TTTTTGAAAAA
29378860 TGCCGCTAAA
Statistics
Matches: 122, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
121 4 0.03
122 42 0.34
123 56 0.46
124 20 0.16
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (122 bp):
GCTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTTAGGGATTTAGCGCGTTTTTGAAAAAGC
GCCGCTAATGCTCGGTGCTTTAGCGGCATTTTTCAAAAAGCGCCGCTAAAACCCCGA
Found at i:29379343 original size:15 final size:15
Alignment explanation
Indices: 29379315--29379357 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
29379305 TTTAAGGCCG
*
29379315 ATTTAGGGAGTATGA
1 ATTTAGGGATTATGA
*
29379330 ATTTATGGATTATGA
1 ATTTAGGGATTATGA
29379345 A-TTAGGGATTATG
1 ATTTAGGGATTATG
29379358 GTTTAAGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.40
Consensus pattern (15 bp):
ATTTAGGGATTATGA
Found at i:29379383 original size:21 final size:21
Alignment explanation
Indices: 29379349--29379400 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
29379339 TTATGAATTA
*
29379349 GGGA-TTATGGTTTAAGTGTT-
1 GGGATTTAAGGTTTAAG-GTTG
29379369 GGGATTTAAGGTTTAAGGTTG
1 GGGATTTAAGGTTTAAGGTTG
*
29379390 GGGGTTTAAGG
1 GGGATTTAAGG
29379401 GTTAGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (21 bp):
GGGATTTAAGGTTTAAGGTTG
Found at i:29379704 original size:15 final size:15
Alignment explanation
Indices: 29379658--29379707 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
29379648 TTTAAAGGTT
29379658 GGGATTTAAGG-TTTA
1 GGGATTT-AGGATTTA
* * *
29379673 GGG-GTTAAGAGTTA
1 GGGATTTAGGATTTA
29379687 GGGATTTAGGATTTA
1 GGGATTTAGGATTTA
29379702 GGGATT
1 GGGATT
29379708 CAGGGGTGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 2 0.07
14 8 0.30
15 17 0.63
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.36
Consensus pattern (15 bp):
GGGATTTAGGATTTA
Found at i:29380607 original size:40 final size:40
Alignment explanation
Indices: 29380513--29380628 Score: 146
Period size: 40 Copynumber: 2.9 Consensus size: 40
29380503 AAAAGGCATT
* **
29380513 AAAAAACGCCGCTATAGATCGAACATTAGCGGCATTTCTTC
1 AAAAAA-GCCGCTATAGATCGAGCATTAGCGGTGTTTCTTC
29380554 --AAAAGCACTGCTATAGATCGAGCATTAGCGGTGTTTCTTC
1 AAAAAAGC-C-GCTATAGATCGAGCATTAGCGGTGTTTCTTC
* *
29380594 AAAAAAGCCGCTATAGATTGAGCTTTAGCGGTGTT
1 AAAAAAGCCGCTATAGATCGAGCATTAGCGGTGTT
29380629 ATTTTAAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
38 2 0.03
39 5 0.08
40 52 0.79
41 1 0.02
42 6 0.09
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (40 bp):
AAAAAAGCCGCTATAGATCGAGCATTAGCGGTGTTTCTTC
Found at i:29380638 original size:40 final size:39
Alignment explanation
Indices: 29380511--29380644 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 39
29380501 ATAAAAGGCA
* ** *
29380511 TTAAAAAACGCCGCTATAGATCGAACATTAGCGGCATTTC
1 TTAAAAAA-GCCGCTATAGATCGAGCATTAGCGGTGTTTT
*
29380551 TT-CAAAAGCACTGCTATAGATCGAGCATTAGCGGTGTTTCT
1 TTAAAAAAGC-C-GCTATAGATCGAGCATTAGCGGTGTTT-T
* * *
29380592 TCAAAAAAGCCGCTATAGATTGAGCTTTAGCGGTGTTATT
1 TTAAAAAAGCCGCTATAGATCGAGCATTAGCGGTGTT-TT
*
29380632 TTAAAAACGCCGC
1 TTAAAAAAGCCGC
29380645 AAAAAATAAG
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
38 2 0.03
39 5 0.06
40 62 0.79
41 3 0.04
42 6 0.08
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (39 bp):
TTAAAAAAGCCGCTATAGATCGAGCATTAGCGGTGTTTT
Found at i:29385011 original size:43 final size:43
Alignment explanation
Indices: 29384964--29385190 Score: 258
Period size: 43 Copynumber: 5.3 Consensus size: 43
29384954 TCATTTTTTA
* * *
29384964 TAGCGGCTTTTATGGCAAAAGCGCTGCTAAAGGTCATGATCTT
1 TAGCGGCTTTTGTGGCAAAAGCGCCGCTAAAGGCCATGATCTT
* * * *
29385007 TAGCGGCATTTGTAGTATAAGCGCCGCTAAAGGCCATGATCTT
1 TAGCGGCTTTTGTGGCAAAAGCGCCGCTAAAGGCCATGATCTT
* *
29385050 TAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGATCTT
1 TAGCGGCTTTTGTGGCAAAAGCGCCGCTAAAGGCCATGATCTT
* * * *
29385093 TAGCGG-TATTTGCGGTAGAAGCGCCGCTAAAGACCATGATCTT
1 TAGCGGCT-TTTGTGGCAAAAGCGCCGCTAAAGGCCATGATCTT
* * * * * *
29385136 TAGCGGCGTTTGTGTCAGAAGCACTGCTAAAGACCATGATCTT
1 TAGCGGCTTTTGTGGCAAAAGCGCCGCTAAAGGCCATGATCTT
29385179 TAGCGGCGTTTT
1 TAGCGGC-TTTT
29385191 AACGCCGCTA
Statistics
Matches: 156, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
43 153 0.98
44 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (43 bp):
TAGCGGCTTTTGTGGCAAAAGCGCCGCTAAAGGCCATGATCTT
Found at i:29385071 original size:86 final size:86
Alignment explanation
Indices: 29384964--29385185 Score: 327
Period size: 86 Copynumber: 2.6 Consensus size: 86
29384954 TCATTTTTTA
* * * *
29384964 TAGCGGCTTTTATGGCAAAAGCGCTGCTAAAGGTCATGATCTTTAGCGGCATTTGTAGTATAAGC
1 TAGCGGCGTTTGTGGCAAAAGCGCTGCTAAAGGTCATGATCTTTAGCGGCATTTGCAGTAGAAGC
*
29385029 GCCGCTAAAGGCCATGATCTT
66 GCCGCTAAAGACCATGATCTT
* * *
29385050 TAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGTATTTGCGGTAGAAGC
1 TAGCGGCGTTTGTGGCAAAAGCGCTGCTAAAGGTCATGATCTTTAGCGGCATTTGCAGTAGAAGC
29385115 GCCGCTAAAGACCATGATCTT
66 GCCGCTAAAGACCATGATCTT
* * * **
29385136 TAGCGGCGTTTGTGTCAGAAGCACTGCTAAAGACCATGATCTTTAGCGGC
1 TAGCGGCGTTTGTGGCAAAAGCGCTGCTAAAGGTCATGATCTTTAGCGGC
29385186 GTTTTAACGC
Statistics
Matches: 121, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 121 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGCAAAAGCGCTGCTAAAGGTCATGATCTTTAGCGGCATTTGCAGTAGAAGC
GCCGCTAAAGACCATGATCTT
Found at i:29385675 original size:42 final size:43
Alignment explanation
Indices: 29385629--29385749 Score: 190
Period size: 43 Copynumber: 2.8 Consensus size: 43
29385619 GTTTTTTCAT
29385629 AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGCA
1 AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGCA
* * * *
29385671 AAGCGCCACTAAAGGTCATATTTTTTAGCGGCGTTTTTGGGCA
1 AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGCA
*
29385714 AAGCGCTGCTAAAGGTCATGTTCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTT
29385750 TTTCTTATAA
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 34 0.49
43 36 0.51
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGCA
Found at i:29385728 original size:43 final size:42
Alignment explanation
Indices: 29385611--29385751 Score: 194
Period size: 42 Copynumber: 3.3 Consensus size: 42
29385601 TTTGTCAAAA
* *
29385611 TTAGCCGCGTTTTT-TCATAAGCGCCGCTAAAGGTCATGTTCT
1 TTAGCGGCGTTTTTGGCA-AAGCGCCGCTAAAGGTCATGTTCT
* * * *
29385653 TTAGCGGCGTTTGTGGCAAAGCGCCACTAAAGGTCATATTTT
1 TTAGCGGCGTTTTTGGCAAAGCGCCGCTAAAGGTCATGTTCT
*
29385695 TTAGCGGCGTTTTTGGGCAAAGCGCTGCTAAAGGTCATGTTCT
1 TTAGCGGCGTTTTT-GGCAAAGCGCCGCTAAAGGTCATGTTCT
29385738 TTAGCGGCGTTTTT
1 TTAGCGGCGTTTTT
29385752 TCTTATAAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
42 46 0.53
43 40 0.47
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (42 bp):
TTAGCGGCGTTTTTGGCAAAGCGCCGCTAAAGGTCATGTTCT
Found at i:29386934 original size:16 final size:16
Alignment explanation
Indices: 29386913--29386963 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
29386903 TTTCTAGTAT
*
29386913 TTTATTTACTAGCGTG
1 TTTATTTACTAGCGTA
29386929 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
29386945 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
29386961 TTT
1 TTT
29386964 GCTCTTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTATTTACTAGCGTA
Found at i:29387722 original size:16 final size:16
Alignment explanation
Indices: 29387703--29387757 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
29387693 ATTTTATGAA
29387703 AATTTTTATATTTTTT
1 AATTTTTATATTTTTT
29387719 AA-TTTTA-ATTTTGATT
1 AATTTTTATATTTT--TT
*
29387735 TATTTTT-TATTTTTGT
1 AATTTTTATATTTTT-T
29387751 AATTTTT
1 AATTTTT
29387758 GAATTATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 5 0.16
15 6 0.19
16 12 0.38
17 9 0.28
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (16 bp):
AATTTTTATATTTTTT
Found at i:29387765 original size:27 final size:27
Alignment explanation
Indices: 29387687--29387766 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
29387677 CTCGAAACTT
*
29387687 TTTTTTATTTTATGAAAATTTTT--A-TA
1 TTTTTTATTTT-TG-TAATTTTTGAATTA
* *
29387713 TTTTTTA-ATTT-TAA-TTTTGATTTA
1 TTTTTTATTTTTGTAATTTTTGAATTA
29387737 TTTTTTATTTTTGTAATTTTTGAATTA
1 TTTTTTATTTTTGTAATTTTTGAATTA
29387764 TTT
1 TTT
29387767 ATTGATGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
21 4 0.09
22 2 0.05
24 10 0.23
25 5 0.12
26 10 0.23
27 12 0.28
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (27 bp):
TTTTTTATTTTTGTAATTTTTGAATTA
Found at i:29388363 original size:352 final size:353
Alignment explanation
Indices: 29387846--29388550 Score: 1403
Period size: 352 Copynumber: 2.0 Consensus size: 353
29387836 CCACATCAAC
29387846 AGCGTTAGCATTTTCATTAAAAAAAGGGATTTGACTCTTTTTTGAAAGATTAAGGGTCAAATTTA
1 AGCGTTAGCATTTTCATTAAAAAAAGGGATTTGACTCTTTTTTGAAAGATTAAGGGTCAAATTTA
29387911 GCTCAAAAAAAGAATAGTGGCCAAATTGGCAAAAAAATGTTAGCGTTGAGGGTTAAATTTATCAT
66 GCTCAAAAAAAGAATAGTGGCCAAATTGGCAAAAAAATGTTAGCGTTGAGGGTTAAATTTATCAT
29387976 TATGCCTTTTGATTAAATCAAATTAATACTAAAATCGAAATTAATTAGGTGTCTCTAGATCTAAT
131 TATGCCTTTTGATTAAATCAAATTAATACTAAAATCGAAATTAATTAGGTGTCTCTAGATCTAAT
29388041 CATGGGTTGAATCGGGTCAGGCCAAAGCAAAATTTTAGGCCCTTTTTCTAGGCCTGGGCTTGATC
196 CATGGGTTGAATCGGGTCAGGCCAAAGCAAAATTTTAGGCCCTTTTTCTAGGCCTGGGCTTGATC
29388106 CAGCCCAAAAAAATGGGCCTAAATTTTGTCCAAACTCGACCCAAATTAAAAATGCTAAACCCAAG
261 CAGCCCAAAAAAATGGGCCTAAATTTTGTCCAAACTCGACCCAAATTAAAAATGCTAAACCCAAG
29388171 TCTGACCCGGCCCGCCT-TATTAATTTT
326 TCTGACCCGGCCCGCCTATATTAATTTT
29388198 AGCGTTAGCATTTTCATTAAAAAAAGGGATTTGACTCTTTTTTGAAAGATTAAGGGTCAAATTTA
1 AGCGTTAGCATTTTCATTAAAAAAAGGGATTTGACTCTTTTTTGAAAGATTAAGGGTCAAATTTA
29388263 GCTCAAAAAAAGAATAGTGGCCAAATTGGCAAAAAAATGTTAGCGTTGAGGGTTAAATTTATCAT
66 GCTCAAAAAAAGAATAGTGGCCAAATTGGCAAAAAAATGTTAGCGTTGAGGGTTAAATTTATCAT
29388328 TATGCCTTTTGATTAAATCAAATTAATACTAAAATCGAAATTAATTAGGTGTCTCTAGATCTAAT
131 TATGCCTTTTGATTAAATCAAATTAATACTAAAATCGAAATTAATTAGGTGTCTCTAGATCTAAT
29388393 CATGGGTTGAATCGGGTCAGGCCAAAGCAAAATTTTAGGCCCTTTTTCTAGGCCTGGGCTTGATC
196 CATGGGTTGAATCGGGTCAGGCCAAAGCAAAATTTTAGGCCCTTTTTCTAGGCCTGGGCTTGATC
29388458 CAGCCCAAAAAAATGGGCCTAAATTTTGTCCAAACTCGACCCAAATTAAAAATGCTAAACCCAAG
261 CAGCCCAAAAAAATGGGCCTAAATTTTGTCCAAACTCGACCCAAATTAAAAATGCTAAACCCAAG
29388523 TCTGACCCGGCCCGCCTATATTAATTTT
326 TCTGACCCGGCCCGCCTATATTAATTTT
29388551 TTTAGATTTT
Statistics
Matches: 352, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
352 342 0.97
353 10 0.03
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (353 bp):
AGCGTTAGCATTTTCATTAAAAAAAGGGATTTGACTCTTTTTTGAAAGATTAAGGGTCAAATTTA
GCTCAAAAAAAGAATAGTGGCCAAATTGGCAAAAAAATGTTAGCGTTGAGGGTTAAATTTATCAT
TATGCCTTTTGATTAAATCAAATTAATACTAAAATCGAAATTAATTAGGTGTCTCTAGATCTAAT
CATGGGTTGAATCGGGTCAGGCCAAAGCAAAATTTTAGGCCCTTTTTCTAGGCCTGGGCTTGATC
CAGCCCAAAAAAATGGGCCTAAATTTTGTCCAAACTCGACCCAAATTAAAAATGCTAAACCCAAG
TCTGACCCGGCCCGCCTATATTAATTTT
Found at i:29389740 original size:14 final size:14
Alignment explanation
Indices: 29389721--29389750 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29389711 AAATATTTCC
29389721 ATATTAAAGAATGT
1 ATATTAAAGAATGT
*
29389735 ATATTAAAGCATGT
1 ATATTAAAGAATGT
29389749 AT
1 AT
29389751 TCTTGGCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (14 bp):
ATATTAAAGAATGT
Found at i:29396831 original size:7 final size:7
Alignment explanation
Indices: 29396819--29396852 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
29396809 TAAGATGAAA
29396819 AGAAAAG
1 AGAAAAG
29396826 AGAAAAG
1 AGAAAAG
29396833 AGAAAAG
1 AGAAAAG
29396840 AGAAAAG
1 AGAAAAG
29396847 AGAAAA
1 AGAAAA
29396853 AGTAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AGAAAAG
Found at i:29397159 original size:164 final size:162
Alignment explanation
Indices: 29396978--29397306 Score: 631
Period size: 164 Copynumber: 2.0 Consensus size: 162
29396968 GAAGAAGAGA
29396978 AAAGAGAGAAAAGAAGGAATGAATAGATAAGAATAGTGGTGCAAAATGAAAGATGGTGAAAAGTG
1 AAAGAGAGAAAAGAAGGAATGAATAGATAAGAATAGTGGTGCAAAATGAAAGATGGTGAAAAGTG
*
29397043 GTGGCACAAGGTGGTTTTCGTGGTGGTGGTATGGTGGTTATGGGTGGTATGGTGGAGGAGAAGCG
66 GTGGCACAAGGTGGTTTTCGTGGTGGTGGT-TGGTGGTTATGGGCGGTATGGTGGAGGAGAAGCG
29397108 TTGATCAACACACAACAATAAATAAAATAAAAT
130 TTGATCAACACACAACAATAAATAAAATAAAAT
29397141 AAAGATGAGAAAAGAAGGAATGAATAGATAAGAATAGTGGTGCAAAATGAAAGATGGTGAAAAGT
1 AAAGA-GAGAAAAGAAGGAATGAATAGATAAGAATAGTGGTGCAAAATGAAAGATGGTGAAAAGT
29397206 GGTGGCACAAGGTGGTTTTCGTGGTGGTGGTTGGTGGTTATGGGCGGTATGGTGGAGGAGAAGCG
65 GGTGGCACAAGGTGGTTTTCGTGGTGGTGGTTGGTGGTTATGGGCGGTATGGTGGAGGAGAAGCG
29397271 TTGATCAACACACAACAATAAATAAAATAAAAT
130 TTGATCAACACACAACAATAAATAAAATAAAAT
29397304 AAA
1 AAA
29397307 AATGGTGGAG
Statistics
Matches: 164, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
163 74 0.45
164 90 0.55
ACGTcount: A:0.40, C:0.06, G:0.32, T:0.22
Consensus pattern (162 bp):
AAAGAGAGAAAAGAAGGAATGAATAGATAAGAATAGTGGTGCAAAATGAAAGATGGTGAAAAGTG
GTGGCACAAGGTGGTTTTCGTGGTGGTGGTTGGTGGTTATGGGCGGTATGGTGGAGGAGAAGCGT
TGATCAACACACAACAATAAATAAAATAAAAT
Found at i:29399889 original size:17 final size:17
Alignment explanation
Indices: 29399869--29399922 Score: 99
Period size: 17 Copynumber: 3.2 Consensus size: 17
29399859 TAGCCTTGGC
29399869 ATTGTCTCTCGGTGCAT
1 ATTGTCTCTCGGTGCAT
*
29399886 ATTGTCTCTCGGTGCAC
1 ATTGTCTCTCGGTGCAT
29399903 ATTGTCTCTCGGTGCAT
1 ATTGTCTCTCGGTGCAT
29399920 ATT
1 ATT
29399923 TCTTGATCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.41
Consensus pattern (17 bp):
ATTGTCTCTCGGTGCAT
Found at i:29400531 original size:29 final size:29
Alignment explanation
Indices: 29400374--29400581 Score: 144
Period size: 29 Copynumber: 7.3 Consensus size: 29
29400364 TTTAGATTCT
* * * *
29400374 GCCACGAAGGCGTCCTTTTAATAGAG-TA
1 GCCACAAAGGCATCCATTTAACAGAGATA
* * * *
29400402 TGCCAC-AAGGCATTCC-CTTAATAGCGATG
1 -GCCACAAAGGCA-TCCATTTAACAGAGATA
* * *
29400431 GCTACAAAGGCATCCTTTTAACAAAGATA
1 GCCACAAAGGCATCCATTTAACAGAGATA
* * *
29400460 GCCACAAATGCACCCTTTTAACAGAGATA
1 GCCACAAAGGCATCCATTTAACAGAGATA
* * *
29400489 GTCACAAAGGCATTCATTTAACTGAGATA
1 GCCACAAAGGCATCCATTTAACAGAGATA
* *
29400518 GCTACAAAGG----CATTTAACGGAGATA
1 GCCACAAAGGCATCCATTTAACAGAGATA
* *
29400543 GCCACAAA-GCTATTCATTTAACAGGGATA
1 GCCACAAAGGC-ATCCATTTAACAGAGATA
29400572 GCCACAAAGG
1 GCCACAAAGG
29400582 TTGATAACAG
Statistics
Matches: 143, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.01
25 21 0.15
28 20 0.14
29 100 0.70
30 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (29 bp):
GCCACAAAGGCATCCATTTAACAGAGATA
Done.