Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 113 of 190
Found at i:17604148 original size:16 final size:15
Alignment explanation
Indices: 17604122--17604166 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
17604112 TTTTCTTCTT
*
17604122 TTCTCTTTTTTTTTC
1 TTCTATTTTTTTTTC
17604137 TCTCT-TTCTTTTTTTC
1 T-TCTATT-TTTTTTTC
17604153 TTCTATTTTTTTTT
1 TTCTATTTTTTTTT
17604167 GTTTTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (15 bp):
TTCTATTTTTTTTTC
Found at i:17604862 original size:19 final size:18
Alignment explanation
Indices: 17604833--17604868 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
17604823 AACTTTTTTT
*
17604833 TCTTTTTTTTCTTCATTC
1 TCTTTTTTTTCTGCATTC
17604851 TCTTTTTCTTTCTGCATT
1 TCTTTTT-TTTCTGCATT
17604869 TTTCCTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.06, C:0.22, G:0.03, T:0.69
Consensus pattern (18 bp):
TCTTTTTTTTCTGCATTC
Found at i:17612229 original size:12 final size:12
Alignment explanation
Indices: 17612212--17612257 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
17612202 TTTCCTAAAA
17612212 ATATATTTTTTT
1 ATATATTTTTTT
17612224 ATATA-TTTTTT
1 ATATATTTTTTT
*
17612235 ATAT-TTTATTT
1 ATATATTTTTTT
*
17612246 AT-TATTCTTTT
1 ATATATTTTTTT
17612257 A
1 A
17612258 AAAAACTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
10 1 0.03
11 23 0.79
12 5 0.17
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (12 bp):
ATATATTTTTTT
Found at i:17612237 original size:21 final size:22
Alignment explanation
Indices: 17612213--17612257 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
17612203 TTCCTAAAAA
17612213 TATATTTT-TTTATATATT-TTT
1 TATATTTTATTTAT-TATTCTTT
17612234 TATATTTTATTTATTATTCTTT
1 TATATTTTATTTATTATTCTTT
17612256 TA
1 TA
17612258 AAAAACTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (22 bp):
TATATTTTATTTATTATTCTTT
Found at i:17612543 original size:3 final size:3
Alignment explanation
Indices: 17612535--17612568 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
17612525 TTTCATTACC
17612535 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17612569 TATTTATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17614048 original size:11 final size:11
Alignment explanation
Indices: 17614032--17614056 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17614022 CTTATTTTTA
17614032 TTTCTTCTATT
1 TTTCTTCTATT
17614043 TTTCTTCTATT
1 TTTCTTCTATT
17614054 TTT
1 TTT
17614057 GGTCAAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTCTATT
Found at i:17615721 original size:54 final size:54
Alignment explanation
Indices: 17615637--17615745 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
17615627 CATTCAAAAT
* *
17615637 AAAAACATAGCCACTTTATGACTTGTTATCATCCTTATCAAATTGAAAGCTTGC
1 AAAAACATAGCCACTTTATAACTTGCTATCATCCTTATCAAATTGAAAGCTTGC
* * **
17615691 AAAAACATAGCCACTTTATAACTTGCTATCATCGTTGTTGAATTGAAAGCTTGC
1 AAAAACATAGCCACTTTATAACTTGCTATCATCCTTATCAAATTGAAAGCTTGC
17615745 A
1 A
17615746 TCACAATAGG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (54 bp):
AAAAACATAGCCACTTTATAACTTGCTATCATCCTTATCAAATTGAAAGCTTGC
Found at i:17621694 original size:16 final size:17
Alignment explanation
Indices: 17621675--17621742 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 17
17621665 ATTTTTTAAT
17621675 TATTTAT-TTAATTTTA
1 TATTTATATTAATTTTA
17621691 TATTTATATATATAGTTATCTA
1 TATTTATAT-TA-A-TT-T-TA
17621713 TATATT-TATTTAATTTTA
1 TAT-TTATA-TTAATTTTA
17621731 TATTTATATTAA
1 TATTTATATTAA
17621743 AAATAACATT
Statistics
Matches: 43, Mismatches: 0, Indels: 17
0.72 0.00 0.28
Matches are distributed among these distances:
16 7 0.16
17 7 0.16
18 9 0.21
19 2 0.05
20 4 0.09
21 2 0.05
22 9 0.21
23 3 0.07
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (17 bp):
TATTTATATTAATTTTA
Found at i:17621696 original size:6 final size:6
Alignment explanation
Indices: 17621675--17621740 Score: 50
Period size: 6 Copynumber: 11.7 Consensus size: 6
17621665 ATTTTTTAAT
* * * * *
17621675 TATTTA T-TTAA T-TTTA TATTTA TATATA TAGTTA TCTATA TATTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
*
17621721 T-TTAA T-TTTA TATTTA TATT
1 TATTTA TATTTA TATTTA TATT
17621741 AAAAATAACA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
5 16 0.35
6 30 0.65
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (6 bp):
TATTTA
Found at i:17621757 original size:19 final size:21
Alignment explanation
Indices: 17621733--17621777 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
17621723 TAATTTTATA
17621733 TTTATA-TT-AAAAATAACAT
1 TTTATATTTAAAAAATAACAT
*
17621752 TTTATATTTAAAAAATAATAT
1 TTTATATTTAAAAAATAACAT
17621773 TTTAT
1 TTTAT
17621778 TAATTTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 2 0.09
21 15 0.65
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTATATTTAAAAAATAACAT
Found at i:17625492 original size:19 final size:20
Alignment explanation
Indices: 17625460--17625498 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
17625450 TGTTTAGTTG
*
17625460 TTTTCATTGTTTTGT-GGTA
1 TTTTCATTGGTTTGTAGGTA
*
17625479 TTTTCTTTGGTTTGTAGGTA
1 TTTTCATTGGTTTGTAGGTA
17625499 ACAATAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.10, C:0.05, G:0.23, T:0.62
Consensus pattern (20 bp):
TTTTCATTGGTTTGTAGGTA
Found at i:17625744 original size:23 final size:23
Alignment explanation
Indices: 17625713--17625784 Score: 108
Period size: 23 Copynumber: 3.1 Consensus size: 23
17625703 AGTCATTACT
*
17625713 ATGCTTCTTTTGATTAGTTCTTC
1 ATGCATCTTTTGATTAGTTCTTC
17625736 ATGCATCTTTTGATTAGTTCTTC
1 ATGCATCTTTTGATTAGTTCTTC
* * *
17625759 ATACAACTTTTGATTAGTTCATC
1 ATGCATCTTTTGATTAGTTCTTC
17625782 ATG
1 ATG
17625785 ATCCAATGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (23 bp):
ATGCATCTTTTGATTAGTTCTTC
Found at i:17626306 original size:15 final size:14
Alignment explanation
Indices: 17626288--17626344 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
17626278 GGTAGAGCTT
17626288 AGAAAAAGAATGAAA
1 AGAAAAAGAA-GAAA
17626303 AGAAAAAG-A-AAA
1 AGAAAAAGAAGAAA
17626315 AGAAACAA-AAGAAAA
1 AGAAA-AAGAAG-AAA
17626330 AGAAAAAGAAGAAA
1 AGAAAAAGAAGAAA
17626344 A
1 A
17626345 AAATTGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.22
13 3 0.08
14 7 0.19
15 19 0.51
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (14 bp):
AGAAAAAGAAGAAA
Found at i:17626309 original size:6 final size:6
Alignment explanation
Indices: 17626300--17626339 Score: 53
Period size: 6 Copynumber: 6.2 Consensus size: 6
17626290 AAAAAGAATG
17626300 AAAAGA AAAAGA AAAAGAAA CAAAAGA AAAAGA AAAAGA A
1 AAAAGA AAAAGA AAAAG--A -AAAAGA AAAAGA AAAAGA A
17626340 GAAAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 24 0.77
7 1 0.03
8 1 0.03
9 5 0.16
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:17626312 original size:21 final size:20
Alignment explanation
Indices: 17626288--17626344 Score: 87
Period size: 21 Copynumber: 2.8 Consensus size: 20
17626278 GGTAGAGCTT
17626288 AGAAAAAGAATGAAAAGAAAA
1 AGAAAAAGAA-GAAAAGAAAA
*
17626309 AGAAAAAGAAACAAAAGAAAA
1 AGAAAAAG-AAGAAAAGAAAA
17626330 AGAAAAAGAAGAAAA
1 AGAAAAAGAAGAAAA
17626345 AAATTGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 6 0.18
21 25 0.76
22 2 0.06
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (20 bp):
AGAAAAAGAAGAAAAGAAAA
Found at i:17627967 original size:27 final size:27
Alignment explanation
Indices: 17627937--17627997 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
17627927 AATTTTCCAA
*
17627937 CACTTTAAAGTTTTTTTAATTGTTCTT
1 CACTTTAAAGTTTTTTTAATTATTCTT
* *
17627964 CACTTTTACATTTTTTTTAATTATTCTT
1 CAC-TTTAAAGTTTTTTTAATTATTCTT
*
17627992 TACTTT
1 CACTTT
17627998 TACTTTGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.21, C:0.13, G:0.03, T:0.62
Consensus pattern (27 bp):
CACTTTAAAGTTTTTTTAATTATTCTT
Found at i:17627980 original size:28 final size:28
Alignment explanation
Indices: 17627947--17628000 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
17627937 CACTTTAAAG
*
17627947 TTTTTTTAATTGTTCTTCACTTTTACAT
1 TTTTTTTAATTATTCTTCACTTTTACAT
*
17627975 TTTTTTTAATTATTCTTTACTTTTAC
1 TTTTTTTAATTATTCTTCACTTTTAC
17628001 TTTGATGTTC
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:0.19, C:0.13, G:0.02, T:0.67
Consensus pattern (28 bp):
TTTTTTTAATTATTCTTCACTTTTACAT
Found at i:17631243 original size:2 final size:2
Alignment explanation
Indices: 17631232--17631265 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
17631222 TGTATGTTAT
17631232 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17631266 TAGATTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17631478 original size:24 final size:24
Alignment explanation
Indices: 17631442--17631525 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
17631432 AATTTGTTAA
* * *
17631442 AAAATAAACAATTTATGTCTATTC
1 AAAATAGATAATTTATATCTATTC
* *
17631466 AAAATAGATAA-TTAAATCTATTA
1 AAAATAGATAATTTATATCTATTC
* **
17631489 AAAATATATCGTTTATATCTATTC
1 AAAATAGATAATTTATATCTATTC
17631513 AAAATAGATAATT
1 AAAATAGATAATT
17631526 ATTTTTTTAA
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
23 17 0.37
24 29 0.63
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (24 bp):
AAAATAGATAATTTATATCTATTC
Found at i:17635205 original size:24 final size:24
Alignment explanation
Indices: 17635134--17635206 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
17635124 AAAATATGTG
*
17635134 TAAAAATGTATTTATAATTAAAAA
1 TAAAAATATATTTATAATTAAAAA
* * *
17635158 TAAAAATAGATTGA-AATATGAAAA
1 TAAAAATATATTTATAAT-TAAAAA
*
17635182 TAAAAAATATATTTTTAATTAAAAA
1 T-AAAAATATATTTATAATTAAAAA
17635207 ATATATGTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
23 3 0.08
24 17 0.45
25 15 0.39
26 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (24 bp):
TAAAAATATATTTATAATTAAAAA
Found at i:17635415 original size:30 final size:29
Alignment explanation
Indices: 17635376--17635436 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
17635366 TTTGTTCATT
*
17635376 AAATATATTTTTTAAAAATAATAAATAATAA
1 AAATATATTTTTGAAAAATAA-AAATAA-AA
17635407 AAAT-TATTTTTGAAAAATAAAAATAAAA
1 AAATATATTTTTGAAAAATAAAAATAAAA
17635435 AA
1 AA
17635437 CATTTTCTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 4 0.14
29 6 0.21
30 15 0.52
31 4 0.14
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (29 bp):
AAATATATTTTTGAAAAATAAAAATAAAA
Found at i:17636038 original size:22 final size:21
Alignment explanation
Indices: 17635996--17636043 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
17635986 TTTTTTATTG
17635996 ATTTTCTTTTTTTGGAATTTT
1 ATTTTCTTTTTTTGGAATTTT
* **
17636017 CTTTTCATTTTTTTGGTTTTTT
1 ATTTTC-TTTTTTTGGAATTTT
17636039 ATTTT
1 ATTTT
17636044 TTAGAGAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.10, C:0.06, G:0.08, T:0.75
Consensus pattern (21 bp):
ATTTTCTTTTTTTGGAATTTT
Found at i:17636156 original size:34 final size:34
Alignment explanation
Indices: 17636079--17636239 Score: 100
Period size: 35 Copynumber: 4.7 Consensus size: 34
17636069 TGATCTAGAT
17636079 TGAACCACAA-TTAAGAAATAAAATGATAGGAAC
1 TGAACCACAAGTTAAGAAATAAAATGATAGGAAC
* * * *
17636112 TAAACTACAAGTTGAAG-AATACAATGACT-GGGAC
1 TGAACCACAAGTT-AAGAAATAAAATGA-TAGGAAC
* * * * *
17636146 TGAACCACAAGTCAGGAAATAAAAATTA-ATGAGAT
1 TGAACCACAAGTTAAGAAAT-AAAATGATAGGA-AC
* * *
17636181 TGAACTACAAGTTAGGAAATAAAGATGA-ACGGGA-
1 TGAACCACAAGTTAAGAAATAAA-ATGATA-GGAAC
*
17636215 TGAAACCACAAGTCAAGAAATAAAA
1 TG-AACCACAAGTTAAGAAATAAAA
17636240 ATGACTGGGA
Statistics
Matches: 97, Mismatches: 21, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
33 10 0.10
34 35 0.36
35 51 0.53
36 1 0.01
ACGTcount: A:0.51, C:0.12, G:0.19, T:0.18
Consensus pattern (34 bp):
TGAACCACAAGTTAAGAAATAAAATGATAGGAAC
Found at i:17636250 original size:35 final size:35
Alignment explanation
Indices: 17636134--17636249 Score: 128
Period size: 35 Copynumber: 3.3 Consensus size: 35
17636124 TGAAGAATAC
17636134 AATGACTGGGACTGAACCACAAGTCAGGAAATAAA
1 AATGACTGGGACTGAACCACAAGTCAGGAAATAAA
* * * * * *
17636169 AATTAATGAGATTGAACTACAAGTTAGGAAATAAA
1 AATGACTGGGACTGAACCACAAGTCAGGAAATAAA
* *
17636204 GATGAAC-GGGA-TGAAACCACAAGTCAAGAAATAAA
1 AATG-ACTGGGACTG-AACCACAAGTCAGGAAATAAA
17636239 AATGACTGGGA
1 AATGACTGGGA
17636250 TTAAATCGCA
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
34 4 0.06
35 59 0.92
36 1 0.02
ACGTcount: A:0.48, C:0.12, G:0.22, T:0.17
Consensus pattern (35 bp):
AATGACTGGGACTGAACCACAAGTCAGGAAATAAA
Found at i:17636350 original size:35 final size:35
Alignment explanation
Indices: 17636146--17636380 Score: 133
Period size: 35 Copynumber: 6.8 Consensus size: 35
17636136 TGACTGGGAC
* * **
17636146 TGAACCACAAGTCAGGAAATAAAAATTAATGAGAT
1 TGAACCACAAGTTAGGAAATAAAAATGACCGAGAT
* * * *
17636181 TGAACTACAAGTTAGGAAATAAAGATGAACGGGA-
1 TGAACCACAAGTTAGGAAATAAAAATGACCGAGAT
* * * *
17636215 TGAAACCACAAGTCAAGAAATAAAAATGACTGGGAT
1 TG-AACCACAAGTTAGGAAATAAAAATGACCGAGAT
* * * ** *
17636251 TAAATCGCAA-TT-GAGAAAT-AAAATGACTAAGAC
1 TGAACCACAAGTTAG-GAAATAAAAATGACCGAGAT
* * * * * *
17636284 TAAACTACAAGTTA-AAGAATTATAATAACCGAGAT
1 TGAACCACAAGTTAGGA-AATAAAAATGACCGAGAT
* *
17636319 TGAACCACAAGTTAGGAAATAAAAATTACCGAAAT
1 TGAACCACAAGTTAGGAAATAAAAATGACCGAGAT
* *
17636354 TAAACCACAA-TT-GAGAAATAATAATGA
1 TGAACCACAAGTTAG-GAAATAAAAATGA
17636381 TCTGGACTAA
Statistics
Matches: 152, Mismatches: 39, Indels: 19
0.72 0.19 0.09
Matches are distributed among these distances:
33 20 0.13
34 26 0.17
35 104 0.68
36 2 0.01
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (35 bp):
TGAACCACAAGTTAGGAAATAAAAATGACCGAGAT
Found at i:17636438 original size:137 final size:138
Alignment explanation
Indices: 17636176--17636448 Score: 334
Period size: 137 Copynumber: 2.0 Consensus size: 138
17636166 AAAAATTAAT
* * **
17636176 GAGATTGAACTACAAGTTAGGAAATAAAGATGAACGGGATGAAACCACAAGTCAAGAAATAAAAA
1 GAGATTGAACCACAAGTTAGGAAATAAAAATGAACGAAATGAAACCACAAGTCAAGAAATAAAAA
* * * * * * * *
17636241 TGACTGGGATTAAATCGCAATTGAGAAATAAAATGACTAAGACTAAACTACAAGTTAAAGAATTA
66 TGACTGGGACTAAACCACAACTGAGAAATAAAATAACCAAGACTAAACTACAAGTCAAAGAATAA
17636306 TAATAACC
131 TAATAACC
* * * ** *
17636314 GAGATTGAACCACAAGTTAGGAAATAAAAATTACCGAAATTAAACCACAA-TTGAGAAATAATAA
1 GAGATTGAACCACAAGTTAGGAAATAAAAATGAACGAAATGAAACCACAAGTCAAGAAATAAAAA
* * *
17636378 TGATCT-GGACTAAACCACAACTGAGAAATAAAATAACCAGGATTAAACTGCAAGTCAAAGAATA
66 TGA-CTGGGACTAAACCACAACTGAGAAATAAAATAACCAAGACTAAACTACAAGTCAAAGAATA
17636442 ATAATAA
130 ATAATAA
17636449 TCAAGACTAA
Statistics
Matches: 113, Mismatches: 21, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
137 68 0.60
138 45 0.40
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (138 bp):
GAGATTGAACCACAAGTTAGGAAATAAAAATGAACGAAATGAAACCACAAGTCAAGAAATAAAAA
TGACTGGGACTAAACCACAACTGAGAAATAAAATAACCAAGACTAAACTACAAGTCAAAGAATAA
TAATAACC
Found at i:17636468 original size:137 final size:138
Alignment explanation
Indices: 17636187--17636480 Score: 313
Period size: 137 Copynumber: 2.1 Consensus size: 138
17636177 AGATTGAACT
* ** *
17636187 ACAAGTTAGGAAATAAAGATGAACGGGATGAAACCACAAGTCAAGAAATAAAAATGACTGGGATT
1 ACAAGTTAGGAAATAAAAATGAACGAAATGAAACCACAAGTCAAGAAATAAAAATGACTGGGACT
* * * * * * * *
17636252 AAATCGCAATTGAGAAATAAAATGACTAAGACTAAACTACAAGTTAAAGAATTATAATAACCGAG
66 AAACCACAACTGAGAAATAAAATAACCAAGACTAAACTACAAGTCAAAGAATAATAATAACCAAG
* *
17636317 ATTGAACC
131 ACTAAACC
* * * ** *
17636325 ACAAGTTAGGAAATAAAAATTACCGAAATTAAACCACAA-TTGAGAAATAATAATGATCT-GGAC
1 ACAAGTTAGGAAATAAAAATGAACGAAATGAAACCACAAGTCAAGAAATAAAAATGA-CTGGGAC
* * * *
17636388 TAAACCACAACTGAGAAATAAAATAACCAGGATTAAACTGCAAGTCAAAGAATAATAATAATCAA
65 TAAACCACAACTGAGAAATAAAATAACCAAGACTAAACTACAAGTCAAAGAATAATAATAACCAA
*
17636453 GACTAAACT
130 GACTAAACC
** *
17636462 GTAAGTTAAGAAATAAAAA
1 ACAAGTTAGGAAATAAAAA
17636481 CTATCAGAAT
Statistics
Matches: 127, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
137 92 0.72
138 35 0.28
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.20
Consensus pattern (138 bp):
ACAAGTTAGGAAATAAAAATGAACGAAATGAAACCACAAGTCAAGAAATAAAAATGACTGGGACT
AAACCACAACTGAGAAATAAAATAACCAAGACTAAACTACAAGTCAAAGAATAATAATAACCAAG
ACTAAACC
Found at i:17636477 original size:35 final size:34
Alignment explanation
Indices: 17636401--17636479 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 34
17636391 ACCACAACTG
* *
17636401 AGAAATAAAATAACCAGGATTAAACTGCAAGTCA
1 AGAAATAAAATAACCAAGACTAAACTGCAAGTCA
* * *
17636435 A-AGAATAATAATAATCAAGACTAAACTGTAAGTTA
1 AGA-AATAA-AATAACCAAGACTAAACTGCAAGTCA
17636470 AGAAATAAAA
1 AGAAATAAAA
17636480 ACTATCAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
33 1 0.03
34 8 0.22
35 27 0.73
36 1 0.03
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (34 bp):
AGAAATAAAATAACCAAGACTAAACTGCAAGTCA
Found at i:17637024 original size:35 final size:35
Alignment explanation
Indices: 17636985--17637103 Score: 134
Period size: 35 Copynumber: 3.4 Consensus size: 35
17636975 TTGAGTTGTA
* *
17636985 AGTCAAAGAATAAAGATGATAGAGGCTAAACTACG
1 AGTCAAAAAATAAAGATGATAGAGACTAAACTACG
* *
17637020 AGTCAAAAAATAAAGATGATCAG-GATTGAACTACG
1 AGTCAAAAAATAAAGATGAT-AGAGACTAAACTACG
* * *
17637055 AATCAAAAAATAAAGATGACTA-AGACTAAGCTATG
1 AGTCAAAAAATAAAGATGA-TAGAGACTAAACTACG
*
17637090 AGTCAGAAAATAAA
1 AGTCAAAAAATAAA
17637104 AACAATCAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
35 67 0.96
36 3 0.04
ACGTcount: A:0.52, C:0.11, G:0.18, T:0.18
Consensus pattern (35 bp):
AGTCAAAAAATAAAGATGATAGAGACTAAACTACG
Found at i:17638314 original size:23 final size:23
Alignment explanation
Indices: 17638288--17638332 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17638278 CTTGTCAGTA
17638288 CCAACT-AATCTGAGCTTAAAATG
1 CCAACTCAAT-TGAGCTTAAAATG
*
17638311 CCAACTCAATTGGGCTTAAAAT
1 CCAACTCAATTGAGCTTAAAAT
17638333 TTGGATGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (23 bp):
CCAACTCAATTGAGCTTAAAATG
Found at i:17638471 original size:23 final size:23
Alignment explanation
Indices: 17638341--17638482 Score: 76
Period size: 22 Copynumber: 6.3 Consensus size: 23
17638331 ATTTGGATGT
* *
17638341 CAGCTAATCTTGGCTT-GAGTGC
1 CAGCTAATCTAGGCTTAAAGTGC
* * * *
17638363 CAGTTAATTTGGGCTTAAAATGC
1 CAGCTAATCTAGGCTTAAAGTGC
* * ** *
17638386 CAACTAATCTAAGCTT-GGGTGA
1 CAGCTAATCTAGGCTTAAAGTGC
* *
17638408 TAGCTAATCTAGGTTTAAGAGT--
1 CAGCTAATCTAGGCTTAA-AGTGC
* * *
17638430 CATCTAATCTATGCATAAAGTGC
1 CAGCTAATCTAGGCTTAAAGTGC
* *
17638453 CAGCTAATCTAGGGTTAAAATGC
1 CAGCTAATCTAGGCTTAAAGTGC
*
17638476 CAACTAA
1 CAGCTAA
17638483 CCCGGGCTTG
Statistics
Matches: 84, Mismatches: 31, Indels: 9
0.68 0.25 0.07
Matches are distributed among these distances:
21 3 0.04
22 40 0.48
23 39 0.46
24 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (23 bp):
CAGCTAATCTAGGCTTAAAGTGC
Found at i:17638717 original size:21 final size:21
Alignment explanation
Indices: 17638691--17638730 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17638681 ATCTTATCAA
17638691 TGCCAGCTAAACTGAGCTTGG
1 TGCCAGCTAAACTGAGCTTGG
* *
17638712 TGCCAGCTAGACTGGGCTT
1 TGCCAGCTAAACTGAGCTT
17638731 AAATCTCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (21 bp):
TGCCAGCTAAACTGAGCTTGG
Found at i:17642579 original size:58 final size:58
Alignment explanation
Indices: 17642489--17642600 Score: 179
Period size: 58 Copynumber: 1.9 Consensus size: 58
17642479 TCAACGTTTG
* *
17642489 TAGACACCCAATTTGGTCCAGGCCCGGATCAATTGGGCCTGGCCCAAATAGGTAGGTA
1 TAGACACCCAATTTGATCCAGGCCCGGATCAATTGAGCCTGGCCCAAATAGGTAGGTA
* * *
17642547 TAGACACCCAATTTGATCCAGGCCCGGATCAATTGAGCTTGGTCCAAATGGGTA
1 TAGACACCCAATTTGATCCAGGCCCGGATCAATTGAGCCTGGCCCAAATAGGTA
17642601 AGTTCAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (58 bp):
TAGACACCCAATTTGATCCAGGCCCGGATCAATTGAGCCTGGCCCAAATAGGTAGGTA
Found at i:17642632 original size:6 final size:6
Alignment explanation
Indices: 17642621--17642655 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
17642611 TATCTTTGTC
17642621 ATTTTT ATTTTT ATTTTT A-TTTT ATTTTAT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT-T ATTTT
17642656 ATGTATATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:17642656 original size:12 final size:12
Alignment explanation
Indices: 17642623--17642657 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
17642613 TCTTTGTCAT
17642623 TTTTAT-TTTTA
1 TTTTATATTTTA
17642634 TTTT-TATTTTA
1 TTTTATATTTTA
17642645 TTTTATATTTTA
1 TTTTATATTTTA
17642657 T
1 T
17642658 GTATATCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.59
12 8 0.36
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTATATTTTA
Found at i:17642687 original size:16 final size:16
Alignment explanation
Indices: 17642666--17642751 Score: 51
Period size: 14 Copynumber: 5.6 Consensus size: 16
17642656 ATGTATATCC
17642666 TATGTATTTTATTATT
1 TATGTATTTTATTATT
*
17642682 TATGTA--TTATTACT
1 TATGTATTTTATTATT
* * *
17642696 AATATA-TATATATATT
1 TATGTATTTTAT-TATT
17642712 TAT-TATTTT-TTATCT
1 TATGTATTTTATTAT-T
17642727 T-T-TATTTTATTTATT
1 TATGTATTTTA-TTATT
*
17642742 TTTGTATTTT
1 TATGTATTTT
17642752 TATTTATCTA
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
14 21 0.38
15 10 0.18
16 18 0.33
17 6 0.11
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.67
Consensus pattern (16 bp):
TATGTATTTTATTATT
Found at i:17642737 original size:22 final size:23
Alignment explanation
Indices: 17642710--17642756 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
17642700 TATATATATA
17642710 TTTA-TTATTTTT-TATCTTTTAT
1 TTTATTTATTTTTGTAT-TTTTAT
17642732 TTTATTTATTTTTGTATTTTTAT
1 TTTATTTATTTTTGTATTTTTAT
17642755 TT
1 TT
17642757 ATCTAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.17
23 16 0.70
24 3 0.13
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTATTTATTTTTGTATTTTTAT
Found at i:17642768 original size:60 final size:61
Alignment explanation
Indices: 17642670--17642785 Score: 139
Period size: 60 Copynumber: 1.9 Consensus size: 61
17642660 ATATCCTATG
17642670 TATTTTATTATTTATGTATTATTACTAATATATATATATAT-T-TATTATTTTTTATCTTT
1 TATTTTATTATTTATGTATTATTACTAATATATATATATATCTATATTATTTTTTATCTTT
* * * * *
17642729 TATTTTATTTATTTTTGTATTTTTATTTATCTA-ATTATATATCTGATATTATTTTTT
1 TATTTTA-TTATTTATGTATTATTACTAATATATA-TATATATCT-ATATTATTTTTT
17642786 TTATTTATCC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
59 8 0.17
60 27 0.57
61 1 0.02
63 11 0.23
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (61 bp):
TATTTTATTATTTATGTATTATTACTAATATATATATATATCTATATTATTTTTTATCTTT
Found at i:17643738 original size:19 final size:19
Alignment explanation
Indices: 17643716--17643752 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
17643706 TTTTTTTTAA
17643716 ATTT-TTTTTTCATTTATTT
1 ATTTATTTTTT-ATTTATTT
17643735 ATTTATTTTTTATTTATT
1 ATTTATTTTTTATTTATT
17643753 AGATTAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (19 bp):
ATTTATTTTTTATTTATTT
Found at i:17643746 original size:11 final size:11
Alignment explanation
Indices: 17643716--17643857 Score: 51
Period size: 11 Copynumber: 12.5 Consensus size: 11
17643706 TTTTTTTTAA
17643716 ATTTTTT-TTT
1 ATTTTTTATTT
17643726 CATTTATTTATTT
1 -ATTT-TTTATTT
17643739 ATTTTTTATTT
1 ATTTTTTATTT
**
17643750 ATTAGATTAGATTT
1 ATT---TTTTATTT
**
17643764 ATTTAATATTCT
1 ATTTTTTATT-T
* *
17643776 -TTTTATCTTT
1 ATTTTTTATTT
* *
17643786 ATTTTATCTTT
1 ATTTTTTATTT
17643797 ATTTTTGT-TTT
1 ATTTTT-TATTT
* *
17643808 A-CTTTTCTTT
1 ATTTTTTATTT
17643818 ATTTTTTTATTT
1 A-TTTTTTATTT
*
17643830 -TTCTTTATTT
1 ATTTTTTATTT
*
17643840 TTTTTATTATTCT
1 ATTTT-TTATT-T
17643853 ATTTT
1 ATTTT
17643858 CTTTAAATAA
Statistics
Matches: 104, Mismatches: 13, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
9 1 0.01
10 17 0.16
11 48 0.46
12 21 0.20
13 8 0.08
14 9 0.09
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (11 bp):
ATTTTTTATTT
Found at i:17643807 original size:17 final size:17
Alignment explanation
Indices: 17643776--17643841 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 17
17643766 TTAATATTCT
17643776 TTTTATCTTTA-TTTTA
1 TTTTATCTTTATTTTTA
17643792 TCTTTAT-TTT-TGTTTTA
1 T-TTTATCTTTAT-TTTTA
*
17643809 CTTT-TCTTTATTTTTTTA
1 TTTTATCTTTA--TTTTTA
17643827 TTTT-TCTTTATTTTT
1 TTTTATCTTTATTTTT
17643842 TTTATTATTC
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
15 1 0.02
16 15 0.37
17 10 0.24
18 14 0.34
19 1 0.02
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTATCTTTATTTTTA
Found at i:17643849 original size:22 final size:21
Alignment explanation
Indices: 17643783--17643850 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 21
17643773 TCTTTTTATC
*
17643783 TTTATTTTATCTTTATTTTTGT
1 TTTATTTT-TCTTTATTTTTTT
*
17643805 TTTACTTTTCTTTA---TTTT
1 TTTATTTTTCTTTATTTTTTT
17643823 TTTATTTTTCTTTATTTTTTT
1 TTTATTTTTCTTTATTTTTTT
17643844 TATTATT
1 T-TTATT
17643851 CTATTTTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 16 0.41
21 11 0.28
22 12 0.31
ACGTcount: A:0.13, C:0.06, G:0.01, T:0.79
Consensus pattern (21 bp):
TTTATTTTTCTTTATTTTTTT
Found at i:17643855 original size:17 final size:18
Alignment explanation
Indices: 17643819--17643862 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
17643809 CTTTTCTTTA
*
17643819 TTTTTTTATTTTTCTTTAT
1 TTTTTTTATTATTC-TTAT
17643838 TTTTTTTATTATTC-TAT
1 TTTTTTTATTATTCTTAT
*
17643855 TTTCTTTA
1 TTTTTTTA
17643863 AATAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
19 13 0.57
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTTATTATTCTTAT
Found at i:17644023 original size:118 final size:116
Alignment explanation
Indices: 17643865--17644335 Score: 662
Period size: 118 Copynumber: 4.0 Consensus size: 116
17643855 TTTCTTTAAA
*
17643865 TAAAAATCAAAGTTTCAAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA
1 TAAAAAT-AAAGTTTC--AAAAAAAGGATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGA
*
17643930 AAATCAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
63 AAAT--AAATTTTCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
* *
17643986 TAAAAATAAATTTTCAAAAAAAGGGTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
1 TAAAAATAAAGTTTCAAAAAAAGGATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
17644051 TCAAAATTTTCAAAAAATATTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
66 T--AAATTTTCAAAAAATA-TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
* ** ** *
17644105 TAAAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATTAATTTTCCTT-AGA
1 T-AAAAATAAAGTTTCAAAAAAAGGATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGA-A
* *
17644169 AATAAATTTTCAAAAAAGGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
64 AATAAATTTTCAAAAAA-TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
17644223 TAGAAAT-AAGTTTCAAAAAAA-TATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 TAAAAATAAAGTTTCAAAAAAAGGATTTTTGAA-GAAAAGTTGAAAGTATCAATTTTCCTTGAAA
*
17644285 ATAAATTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
65 ATAAATTTTCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
17644336 CTACACAAGA
Statistics
Matches: 326, Mismatches: 18, Indels: 19
0.90 0.05 0.05
Matches are distributed among these distances:
114 34 0.10
115 51 0.16
116 14 0.04
117 5 0.02
118 114 0.35
119 37 0.11
120 64 0.20
121 7 0.02
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (116 bp):
TAAAAATAAAGTTTCAAAAAAAGGATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
TAAATTTTCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:17644212 original size:58 final size:57
Alignment explanation
Indices: 17643892--17644335 Score: 599
Period size: 57 Copynumber: 7.6 Consensus size: 57
17643882 AAAAAAAAGG
* *
17643892 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCCAAAAAAT
1 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTTCAAAAAAT
* *
17643951 ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA-
1 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAT
**
17644007 AGGGTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTTCAAAAAAT
1 A---TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTTCAAAAAAT
* *
17644069 ATTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTTCAAAAAAAAT
1 A-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTC--AAAAAAT
* *
17644130 ATTTTTGGGGAAAAGTTGAAAGTATTAATTTTCCTTAGAAATAAATTTTCAAAAAAGG
1 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAA-T
*
17644188 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAGTTTCAAAAAAAT
1 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC-AAAAAAT
** *
17644245 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAT
1 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAT
17644302 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
17644336 CTACACAAGA
Statistics
Matches: 344, Mismatches: 26, Indels: 32
0.86 0.06 0.08
Matches are distributed among these distances:
56 1 0.00
57 103 0.30
58 53 0.15
59 95 0.28
60 65 0.19
61 26 0.08
62 1 0.00
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (57 bp):
ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAT
Found at i:17644234 original size:30 final size:30
Alignment explanation
Indices: 17644200--17644288 Score: 73
Period size: 28 Copynumber: 3.1 Consensus size: 30
17644190 TTTTGGGGAA
17644200 AAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAGTTGAAAGTATCAATTTTCCTTAGAAAT
* * *
17644230 AAGTTTCAAA--A-AAATATTT--TTAAGGAA-
1 AAG-TTGAAAGTATCAAT-TTTCCTT-AGAAAT
*
17644257 AAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAGTTGAAAGTATCAATTTTCCTTAGAAAT
17644287 AA
1 AA
17644289 ATTTTCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 18
0.63 0.10 0.26
Matches are distributed among these distances:
26 5 0.12
27 5 0.12
28 11 0.26
29 10 0.23
30 7 0.16
31 5 0.12
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (30 bp):
AAGTTGAAAGTATCAATTTTCCTTAGAAAT
Found at i:17647470 original size:10 final size:10
Alignment explanation
Indices: 17647455--17647479 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17647445 AGTTGAATAA
17647455 AATTGCTAAC
1 AATTGCTAAC
17647465 AATTGCTAAC
1 AATTGCTAAC
17647475 AATTG
1 AATTG
17647480 GTATCAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (10 bp):
AATTGCTAAC
Found at i:17648106 original size:21 final size:21
Alignment explanation
Indices: 17648065--17648106 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
17648055 ATGCTTATTG
* *
17648065 CATTTGATATAGAAGCTTAAA
1 CATTTGATAAAGAAGCATAAA
17648086 CATTTGTATAAAG-AGCATAAA
1 CATTTG-ATAAAGAAGCATAAA
17648107 TAAAAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (21 bp):
CATTTGATAAAGAAGCATAAA
Found at i:17650676 original size:14 final size:13
Alignment explanation
Indices: 17650655--17650687 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
17650645 TTTCTTTCTG
17650655 ATTTTTTTTTTAA
1 ATTTTTTTTTTAA
17650668 ATTTATTTTTTT-A
1 ATTT-TTTTTTTAA
17650681 ATTTTTT
1 ATTTTTT
17650688 GCTTAGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 9 0.47
14 7 0.37
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
ATTTTTTTTTTAA
Found at i:17652697 original size:38 final size:37
Alignment explanation
Indices: 17652640--17652768 Score: 152
Period size: 38 Copynumber: 3.4 Consensus size: 37
17652630 TAAGACGAAG
* *
17652640 TGCATATATTATTTATTAAGATGTGCATGAGATAGAA
1 TGCATATACTATCTATTAAGATGTGCATGAGATAGAA
* *
17652677 TGCATGTACTATCTAATTAAGATGTGCATGAGGTAGAA
1 TGCATATACTATCT-ATTAAGATGTGCATGAGATAGAA
* *
17652715 TGCATATATTACTATCTATTAATATGTGCATGAAAT-GAA
1 TGC--ATA-TACTATCTATTAAGATGTGCATGAGATAGAA
17652754 GTGCATATACTATCT
1 -TGCATATACTATCT
17652769 TATATTTTCT
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
37 19 0.24
38 28 0.35
39 3 0.04
40 21 0.27
41 8 0.10
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (37 bp):
TGCATATACTATCTATTAAGATGTGCATGAGATAGAA
Found at i:17652759 original size:40 final size:40
Alignment explanation
Indices: 17652640--17652762 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
17652630 TAAGACGAAG
17652640 TGCATATATTA-T-T-TATTAAGATGTGCATGAGATAGAA
1 TGCATATATTACTATCTATTAAGATGTGCATGAGATAGAA
* *
17652677 TGC--AT-GTACTATCTAATTAAGATGTGCATGAGGTAGAA
1 TGCATATATTACTATCT-ATTAAGATGTGCATGAGATAGAA
* *
17652715 TGCATATATTACTATCTATTAATATGTGCATGAAAT-GAA
1 TGCATATATTACTATCTATTAAGATGTGCATGAGATAGAA
17652754 GTGCATATA
1 -TGCATATA
17652763 CTATCTTATA
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
34 2 0.03
35 3 0.04
36 1 0.01
37 4 0.06
38 25 0.35
39 3 0.04
40 26 0.36
41 8 0.11
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.36
Consensus pattern (40 bp):
TGCATATATTACTATCTATTAAGATGTGCATGAGATAGAA
Found at i:17653863 original size:17 final size:18
Alignment explanation
Indices: 17653841--17653875 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17653831 TGTGTGAAGA
*
17653841 AATAT-AACAAATAAAAT
1 AATATAAACAAAAAAAAT
17653858 AATATAAACAAAAAAAAT
1 AATATAAACAAAAAAAAT
17653876 TAAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (18 bp):
AATATAAACAAAAAAAAT
Found at i:17655088 original size:42 final size:42
Alignment explanation
Indices: 17655040--17655119 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
17655030 ACATGTTAAA
17655040 TTTAGGGGTTTCATGGG-TTTT-AAGGTTTCAAGATTTTAATGT
1 TTTA-GGGTTTCA-GGGTTTTTCAAGGTTTCAAGATTTTAATGT
* * *
17655082 TTTAGGGTTTTAGGGTTTTTCAAGGTTTCGAGGTTTTA
1 TTTAGGGTTTCAGGGTTTTTCAAGGTTTCAAGATTTTA
17655120 GGATTTCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 3 0.09
41 11 0.33
42 19 0.58
ACGTcount: A:0.19, C:0.05, G:0.28, T:0.49
Consensus pattern (42 bp):
TTTAGGGTTTCAGGGTTTTTCAAGGTTTCAAGATTTTAATGT
Found at i:17655092 original size:16 final size:16
Alignment explanation
Indices: 17655046--17655099 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
17655036 TAAATTTAGG
17655046 GGTTTCATGGGTTTTAA
1 GGTTTCA-GGGTTTTAA
* *
17655063 GGTTTCAAGATTTTAA
1 GGTTTCAGGGTTTTAA
* * *
17655079 TGTTTTAGGGTTTTAG
1 GGTTTCAGGGTTTTAA
17655095 GGTTT
1 GGTTT
17655100 TTCAAGGTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 22 0.76
17 7 0.24
ACGTcount: A:0.19, C:0.04, G:0.28, T:0.50
Consensus pattern (16 bp):
GGTTTCAGGGTTTTAA
Found at i:17659281 original size:13 final size:13
Alignment explanation
Indices: 17659263--17659288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17659253 CAATAATTAC
17659263 TAATTAATTAAAT
1 TAATTAATTAAAT
17659276 TAATTAATTAAAT
1 TAATTAATTAAAT
17659289 GATAGTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTAATTAAAT
Found at i:17659743 original size:3 final size:3
Alignment explanation
Indices: 17659735--17659773 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
17659725 TTTAGTCTAC
17659735 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17659774 CGAACCATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17662196 original size:19 final size:19
Alignment explanation
Indices: 17662160--17662196 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17662150 TTAATAGATT
* *
17662160 TAAAAATAAAAGAGATAAA
1 TAAAAATAAAAAAAATAAA
17662179 TAAAAATAAAAAAAATAA
1 TAAAAATAAAAAAAATAA
17662197 TTTAATCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (19 bp):
TAAAAATAAAAAAAATAAA
Found at i:17663710 original size:1 final size:1
Alignment explanation
Indices: 17663704--17663728 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
17663694 GATGGACATC
17663704 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
17663729 TTTTCTTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:17665255 original size:19 final size:20
Alignment explanation
Indices: 17665212--17665263 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
17665202 GTGATTTTTT
*
17665212 TTTTAATTTGTATATATAATC
1 TTTTAATTT-TATATATAATA
*
17665233 TTTTAATTTTA-ATATATTA
1 TTTTAATTTTATATATAATA
17665252 TTTT-ATTTTATA
1 TTTTAATTTTATA
17665264 ATTCAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 6 0.21
19 11 0.39
20 2 0.07
21 9 0.32
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTAATTTTATATATAATA
Found at i:17674345 original size:30 final size:30
Alignment explanation
Indices: 17674280--17674346 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
17674270 GTTCAGTTAA
*
17674280 ATAAAAATAAAAATTTTAAAATTTAATTAG
1 ATAAAAATAAAAATTTTAAAATTTAATGAG
* *
17674310 ATAAAAATAAATA-TTTAAAGGTTTAA-GAG
1 ATAAAAATAAAAATTTTAAA-ATTTAATGAG
*
17674339 ATTAAAAT
1 ATAAAAAT
17674347 TTTAAATAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.34
Consensus pattern (30 bp):
ATAAAAATAAAAATTTTAAAATTTAATGAG
Found at i:17674717 original size:13 final size:13
Alignment explanation
Indices: 17674682--17674724 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
17674672 AATTATGTTT
*
17674682 TTTTTATATTTTA
1 TTTTTATATTATA
*
17674695 TATTTATATTATA
1 TTTTTATATTATA
* *
17674708 TTTTTGTATTCTA
1 TTTTTATATTATA
17674721 TTTT
1 TTTT
17674725 AAATTTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTTTATATTATA
Found at i:17684255 original size:22 final size:23
Alignment explanation
Indices: 17684227--17684270 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
17684217 GTATATTTAA
17684227 AAAAT-AAAAAACTAATTTAAAT
1 AAAATAAAAAAACTAATTTAAAT
*
17684249 AAAATAAAAAAATTAATTTAAA
1 AAAATAAAAAAACTAATTTAAA
17684271 AGAGGAAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAATAAAAAAACTAATTTAAAT
Found at i:17685397 original size:16 final size:16
Alignment explanation
Indices: 17685362--17685396 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
17685352 TTTGGTTTTA
*
17685362 TTTTATAATTTCACAT
1 TTTTATAATTACACAT
17685378 TTTTA-AATTACACAT
1 TTTTATAATTACACAT
17685393 TTTT
1 TTTT
17685397 TTTAAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTATAATTACACAT
Found at i:17686119 original size:31 final size:32
Alignment explanation
Indices: 17686079--17686165 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
17686069 TGTCGAGTTG
* * *
17686079 CAAGATTTTAGAGTTTAGAGTTTTAA-GGTTT
1 CAAGGTTTTAGAGTCTAGAGATTTAAGGGTTT
*
17686110 CATA-GTTTTAGAGTCTCGAGATTTAAGGGTTT
1 CA-AGGTTTTAGAGTCTAGAGATTTAAGGGTTT
* *
17686142 CAAGGTTTTAGGGTCTTGAGATTT
1 CAAGGTTTTAGAGTCTAGAGATTT
17686166 GAATTTTAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
31 21 0.45
32 26 0.55
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (32 bp):
CAAGGTTTTAGAGTCTAGAGATTTAAGGGTTT
Found at i:17686190 original size:16 final size:16
Alignment explanation
Indices: 17686169--17686199 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17686159 GAGATTTGAA
*
17686169 TTTTAAGGTTTCAAAG
1 TTTTAAGATTTCAAAG
17686185 TTTTAAGATTTCAAA
1 TTTTAAGATTTCAAA
17686200 AATTTTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (16 bp):
TTTTAAGATTTCAAAG
Found at i:17688523 original size:3 final size:3
Alignment explanation
Indices: 17688517--17688543 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
17688507 TTTTGTTGTA
17688517 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
17688544 TTTTTAGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:17691870 original size:19 final size:20
Alignment explanation
Indices: 17691846--17691885 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
17691836 CACAAAAAAG
17691846 CCTTTTATTT-ATTATTTTT
1 CCTTTTATTTAATTATTTTT
17691865 CCTTTTATTTAAATTATTTTT
1 CCTTTTATTT-AATTATTTTT
17691886 GTCTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
21 9 0.47
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (20 bp):
CCTTTTATTTAATTATTTTT
Found at i:17692435 original size:19 final size:20
Alignment explanation
Indices: 17692411--17692450 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
17692401 CACAAAAAAG
17692411 CCTTTTATTT-ATTATTTTT
1 CCTTTTATTTAATTATTTTT
17692430 CCTTTTATTTAAATTATTTTT
1 CCTTTTATTT-AATTATTTTT
17692451 GTCTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
21 9 0.47
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (20 bp):
CCTTTTATTTAATTATTTTT
Found at i:17692461 original size:565 final size:565
Alignment explanation
Indices: 17691649--17692771 Score: 2178
Period size: 565 Copynumber: 2.0 Consensus size: 565
17691639 TAAGGAACAA
17691649 TTTAGGAACCTTTAAGTATATCAATCGTAACCCAACATATAATGAACCTTAATAGTCCAGTCTAG
1 TTTAGGAACCTTTAAGTATATCAATCGTAACCCAACATATAATGAACCTTAATAGTCCAGTCTAG
17691714 GGTAGAGCCATATCAAACCTTTTTATAGAAAACACATGAATTATGACGTGTGAAGAAACATCTTT
66 GGTAGAGCCATATCAAACCTTTTTATAGAAAACACATGAATTATGACGTGTGAAGAAACATCTTT
17691779 CCTTTTAACAAATAATAAAATGGTTATATAATACATCCAAAATTTAAACAAAAATTTCACAAAAA
131 CCTTTTAACAAATAATAAAATGGTTATATAATACATCCAAAATTTAAACAAAAATTTCACAAAAA
17691844 AGCCTTTTATTTATTATTTTTCCTTTTATTTAAATTATTTTTGTCTAAATTTTTGTATCTTCCAT
196 AGCCTTTTATTTATTATTTTTCCTTTTATTTAAATTATTTTTGTCTAAATTTTTGTATCTTCCAT
*
17691909 GGGTTTTTTAAAAATTTTTTGCATTT-TAAAAAATAAGGTTGTAAAAAATGTTTTTTTTTTCTTT
261 GGGTTTTTTAAAAATTTTTTGCATTTAAAAAAAATAAGGTTGTAAAAAATGTTTTTTTTTTCTTT
*
17691973 TCTTTCCTAAAAAC-AAAAAACAAAAGAATAAACTTTTCTTGTTCTATAAAAGAATTTTTTAGGT
326 TCTTTCCTAAAAACAAAAAAAAAAAAGAATAAACTTTTCTTGTTCTATAAAAGAATTTTTTAGGT
*
17692037 CTTTCCTCTAAATTAAAAAAAAAAAAAGTGTTACAGTCCAAAAAATGGGTAGAATTATTTTTGTC
391 ATTTCCTCTAAATT-AAAAAAAAAAAAGTGTTACAGTCCAAAAAATGGGTAGAATTATTTTTGTC
17692102 ATTTGTTATTTGTTTAAAATAGAAAAAAAAAGGTTTTTTTTTTTAATTCTTGAAAAGAATGGGTG
455 ATTTGTTATTTGTTTAAAATAG-AAAAAAAAGGTTTTTTTTTTTAATTCTTGAAAAGAATGGGTG
17692167 GTCATTGAAAGAACAAAAAAGGGATTTTAAATTACTAAGAGGAACCT
519 GTCATTGAAAGAACAAAAAAGGGATTTTAAATTACTAAGAGGAACCT
*
17692214 TTTAGGAACCTTTAAGTATATCAATCGTAACCCAACATATAGTGAACCTTAATAGTCCAGTCTAG
1 TTTAGGAACCTTTAAGTATATCAATCGTAACCCAACATATAATGAACCTTAATAGTCCAGTCTAG
17692279 GGTAGAGCCATATCAAACCTTTTTATAGAAAACACATGAATTATGACGTGTGAAGAAACATCTTT
66 GGTAGAGCCATATCAAACCTTTTTATAGAAAACACATGAATTATGACGTGTGAAGAAACATCTTT
17692344 CCTTTTAACAAATAATAAAATGGTTATATAATACATCCAAAATTTAAACAAAAATTTCACAAAAA
131 CCTTTTAACAAATAATAAAATGGTTATATAATACATCCAAAATTTAAACAAAAATTTCACAAAAA
17692409 AGCCTTTTATTTATTATTTTTCCTTTTATTTAAATTATTTTTGTCTAAATTTTTGTATCTTCCAT
196 AGCCTTTTATTTATTATTTTTCCTTTTATTTAAATTATTTTTGTCTAAATTTTTGTATCTTCCAT
17692474 GGGTTTTTTAAAAATTTTTTGCATTTAAAAAAAATAAGGTTGTAAAAAATGTTTTTTTTTTCTTT
261 GGGTTTTTTAAAAATTTTTTGCATTTAAAAAAAATAAGGTTGTAAAAAATGTTTTTTTTTTCTTT
17692539 TCTTTCCTAAAAACAAAAAAAAAAAAGAATAAACTTTTCTTGTTCTATAAAAGAATTTTTTAGGT
326 TCTTTCCTAAAAACAAAAAAAAAAAAGAATAAACTTTTCTTGTTCTATAAAAGAATTTTTTAGGT
17692604 ATTTCCTCTAAATTAAAAAAAAAAAAGTGTTACAGTCCAAAAAATGGGTAGAATTATTTTTGTCA
391 ATTTCCTCTAAATTAAAAAAAAAAAAGTGTTACAGTCCAAAAAATGGGTAGAATTATTTTTGTCA
17692669 TTTGTTATTTGTTTAAAATAGAAAAAAAAGGTTTTTTTTTTTAATTCTTGAAAAGAATGGGTGGT
456 TTTGTTATTTGTTTAAAATAGAAAAAAAAGGTTTTTTTTTTTAATTCTTGAAAAGAATGGGTGGT
17692734 CATTGAAAGAACAAAAAAGGGATTTTAAATTACTAAGA
521 CATTGAAAGAACAAAAAAGGGATTTTAAATTACTAAGA
17692772 TTTTTTTTAT
Statistics
Matches: 552, Mismatches: 4, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
565 367 0.66
566 123 0.22
567 62 0.11
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (565 bp):
TTTAGGAACCTTTAAGTATATCAATCGTAACCCAACATATAATGAACCTTAATAGTCCAGTCTAG
GGTAGAGCCATATCAAACCTTTTTATAGAAAACACATGAATTATGACGTGTGAAGAAACATCTTT
CCTTTTAACAAATAATAAAATGGTTATATAATACATCCAAAATTTAAACAAAAATTTCACAAAAA
AGCCTTTTATTTATTATTTTTCCTTTTATTTAAATTATTTTTGTCTAAATTTTTGTATCTTCCAT
GGGTTTTTTAAAAATTTTTTGCATTTAAAAAAAATAAGGTTGTAAAAAATGTTTTTTTTTTCTTT
TCTTTCCTAAAAACAAAAAAAAAAAAGAATAAACTTTTCTTGTTCTATAAAAGAATTTTTTAGGT
ATTTCCTCTAAATTAAAAAAAAAAAAGTGTTACAGTCCAAAAAATGGGTAGAATTATTTTTGTCA
TTTGTTATTTGTTTAAAATAGAAAAAAAAGGTTTTTTTTTTTAATTCTTGAAAAGAATGGGTGGT
CATTGAAAGAACAAAAAAGGGATTTTAAATTACTAAGAGGAACCT
Found at i:17696111 original size:21 final size:20
Alignment explanation
Indices: 17696087--17696132 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
17696077 CCATTCAAAG
*
17696087 AAAAAAGAA-AAAAGAGAAA
1 AAAAAAGAACAAAAAAGAAA
*
17696106 CAAAAATGAACAAAAAAGAAA
1 -AAAAAAGAACAAAAAAGAAA
17696127 AAAAAA
1 AAAAAA
17696133 AGAATAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.83, C:0.04, G:0.11, T:0.02
Consensus pattern (20 bp):
AAAAAAGAACAAAAAAGAAA
Found at i:17696119 original size:10 final size:10
Alignment explanation
Indices: 17696087--17696169 Score: 53
Period size: 11 Copynumber: 7.9 Consensus size: 10
17696077 CCATTCAAAG
17696087 AAAAAAGAA-
1 AAAAAAGAAC
*
17696096 AAAAGAGAAAC
1 AAAAAAG-AAC
*
17696107 AAAAATGAAC
1 AAAAAAGAAC
*
17696117 AAAAAAGAAAA
1 AAAAAAG-AAC
*
17696128 AAAAAAGAAT
1 AAAAAAGAAC
*
17696138 AATAGAAGAAC
1 AA-AAAAGAAC
17696149 AGAAGAGAAGAA-
1 A-AA-A-AAGAAC
17696161 AAAAAAGAA
1 AAAAAAGAA
17696170 TGGGAAAAGA
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
9 11 0.19
10 16 0.28
11 24 0.41
12 2 0.03
13 5 0.09
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.04
Consensus pattern (10 bp):
AAAAAAGAAC
Found at i:17696121 original size:11 final size:9
Alignment explanation
Indices: 17696087--17696131 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
17696077 CCATTCAAAG
17696087 AAAAAAGAA
1 AAAAAAGAA
*
17696096 AAAAGAGAA
1 AAAAAAGAA
17696105 ACAAAAATGAA
1 A-AAAAA-GAA
17696116 CAAAAAAGAA
1 -AAAAAAGAA
17696126 AAAAAA
1 AAAAAA
17696132 AAGAATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 15 0.48
10 7 0.23
11 8 0.26
12 1 0.03
ACGTcount: A:0.82, C:0.04, G:0.11, T:0.02
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:17700743 original size:18 final size:18
Alignment explanation
Indices: 17700722--17700757 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17700712 GGATTAATCT
17700722 TTAAAAAAGTAAAAAAAA
1 TTAAAAAAGTAAAAAAAA
**
17700740 TTAAAAATTTAAAAAAAA
1 TTAAAAAAGTAAAAAAAA
17700758 GGAAATAAAA
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:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
TTAAAAAAGTAAAAAAAA
Found at i:17704433 original size:2 final size:2
Alignment explanation
Indices: 17704426--17704492 Score: 77
Period size: 2 Copynumber: 35.0 Consensus size: 2
17704416 CTTGGAACAA
* * *
17704426 AT AT AT AT AT AT GT AT GT AT AT AT AT AT AT GT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
17704467 AT AT AT AT -T A- AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17704493 TACCTTATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
1 3 0.06
2 51 0.94
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
AT
Found at i:17704448 original size:14 final size:14
Alignment explanation
Indices: 17704429--17704492 Score: 87
Period size: 14 Copynumber: 4.6 Consensus size: 14
17704419 GGAACAAATA
*
17704429 TATATATATGTATG
1 TATATATATATATG
17704443 TATATATATATATG
1 TATATATATATATG
*
17704457 TATATAT-TATATA
1 TATATATATATATG
17704470 TATAT-TAATATATG
1 TATATAT-ATATATG
17704484 TATATATAT
1 TATATATAT
17704493 TACCTTATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
12 1 0.02
13 10 0.23
14 32 0.73
15 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
TATATATATATATG
Found at i:17710046 original size:255 final size:255
Alignment explanation
Indices: 17709595--17710108 Score: 1028
Period size: 255 Copynumber: 2.0 Consensus size: 255
17709585 ATGAGAGCTT
17709595 AATTATAAGGTTATTGACATTGCTGTTTAAACACTTCAAAACACATGAAAGTACTCAATAAAAAA
1 AATTATAAGGTTATTGACATTGCTGTTTAAACACTTCAAAACACATGAAAGTACTCAATAAAAAA
17709660 ATCCAACAAAAGAAACAAATAGAAAGACCATAATTTAGTGGTTGTTGAAGTATCAATGAAATTTT
66 ATCCAACAAAAGAAACAAATAGAAAGACCATAATTTAGTGGTTGTTGAAGTATCAATGAAATTTT
17709725 GCTATAGTAGATGTTAACAAGATTTTGCTAGTGTTTCTTGCAAATAAGGTACACTAAGGTACATG
131 GCTATAGTAGATGTTAACAAGATTTTGCTAGTGTTTCTTGCAAATAAGGTACACTAAGGTACATG
17709790 TTGTAGGATTAAAAGAAATGTTATATTTAGAAAAGGTTAGTAATTAGTATTTAACTACAA
196 TTGTAGGATTAAAAGAAATGTTATATTTAGAAAAGGTTAGTAATTAGTATTTAACTACAA
17709850 AATTATAAGGTTATTGACATTGCTGTTTAAACACTTCAAAACACATGAAAGTACTCAATAAAAAA
1 AATTATAAGGTTATTGACATTGCTGTTTAAACACTTCAAAACACATGAAAGTACTCAATAAAAAA
17709915 ATCCAACAAAAGAAACAAATAGAAAGACCATAATTTAGTGGTTGTTGAAGTATCAATGAAATTTT
66 ATCCAACAAAAGAAACAAATAGAAAGACCATAATTTAGTGGTTGTTGAAGTATCAATGAAATTTT
17709980 GCTATAGTAGATGTTAACAAGATTTTGCTAGTGTTTCTTGCAAATAAGGTACACTAAGGTACATG
131 GCTATAGTAGATGTTAACAAGATTTTGCTAGTGTTTCTTGCAAATAAGGTACACTAAGGTACATG
17710045 TTGTAGGATTAAAAGAAATGTTATATTTAGAAAAGGTTAGTAATTAGTATTTAACTACAA
196 TTGTAGGATTAAAAGAAATGTTATATTTAGAAAAGGTTAGTAATTAGTATTTAACTACAA
17710105 AATT
1 AATT
17710109 GTCTGATAGA
Statistics
Matches: 259, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 259 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (255 bp):
AATTATAAGGTTATTGACATTGCTGTTTAAACACTTCAAAACACATGAAAGTACTCAATAAAAAA
ATCCAACAAAAGAAACAAATAGAAAGACCATAATTTAGTGGTTGTTGAAGTATCAATGAAATTTT
GCTATAGTAGATGTTAACAAGATTTTGCTAGTGTTTCTTGCAAATAAGGTACACTAAGGTACATG
TTGTAGGATTAAAAGAAATGTTATATTTAGAAAAGGTTAGTAATTAGTATTTAACTACAA
Found at i:17710754 original size:46 final size:46
Alignment explanation
Indices: 17710701--17710793 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
17710691 GCTAAATAAA
17710701 TGTTCATAGGCTTTTCTCTTCTTAATTCTTATTTTCTTCATGGAAC
1 TGTTCATAGGCTTTTCTCTTCTTAATTCTTATTTTCTTCATGGAAC
*
17710747 TGTTCATAGGCTTTTCTCTTCTTCATTCTTATTTTCTTCATGGAAC
1 TGTTCATAGGCTTTTCTCTTCTTAATTCTTATTTTCTTCATGGAAC
17710793 T
1 T
17710794 CCCTTGCTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.16, C:0.20, G:0.11, T:0.53
Consensus pattern (46 bp):
TGTTCATAGGCTTTTCTCTTCTTAATTCTTATTTTCTTCATGGAAC
Found at i:17725085 original size:362 final size:352
Alignment explanation
Indices: 17724562--17725228 Score: 792
Period size: 363 Copynumber: 1.9 Consensus size: 352
17724552 ATTTGAAAGG
* * * * *
17724562 AAATAAAACTTATATGATTTTTTAGAAGGAAATGAAAGTATACTTTTTTTTCTTGATTTTAAAAA
1 AAATAAAACTTATATAATCTTTTAGAAGGAAAAGAAAGTATACATTTTTTCCTTGATTTTAAAAA
* * * *
17724627 TTTAACTTAAAATCAAGGGTAAAATGATATTTTAGTTTCTTTTGTAATAGTTATAAAAAATTTTA
66 TTCAACTTAAAATCAA--G-AAAATGATATCTTAGTTTCCTTCGTAATAGTTATAAAAAATTTTA
* *
17724692 TTTTTTTATATTAAGTACATTTTAATATGATA-GAAA-AAGTAATAATTATGGGTCAATTATCC-
128 TTTTTTTATATTAAATACATTTTAATATGATACGAAAGAA-TAATAATTAT-GATCAATTA-CCT
* * ***
17724754 TGATTTTATTTCATTTCTTTACTCTACTTAATTAAATTTTATTTGTTTCAATATTTACAAATTTT
190 TGATTCTATTTC-TTT-TTTACTCTACTTAATTAAATTGTA-TTCCCT-AATATTTACAAATTTT
17724819 AATAAAAATATAAAATTAAATCCTATTAAAAATAAAGTTAGAAATTATTTTTAACAAAAAAGAAA
251 AAT---AA-A-AAAATTAAAT-CTATT-AAAA-AAA-TTAGAAATTATTTTTAACAAAAAAGAAA
17724884 GAAATAAAACATACCAAAATAATTTAAAATGTCTTTATTACTAAAA
307 GAAATAAAACATACCAAAATAATTTAAAATGTCTTTATTACTAAAA
* *
17724930 AAATAAAATTTATA-AATCTTTTAGAAGGAAAAGAAATTAT-CATTTTTTCCTTGATTTTAAAAA
1 AAATAAAACTTATATAATCTTTTAGAAGGAAAAGAAAGTATACATTTTTTCCTTGATTTTAAAAA
* * * *
17724993 TTCAACTTAAAGTCATA-AAAATGGTATCTTATTTTCCTTCGTAATAGTTATAAAAATTTTTTAT
66 TTCAACTTAAAATCA-AGAAAATGATATCTTAGTTTCCTTCGTAATAGTTATAAAAA-ATTTTAT
* * * * * *
17725057 TTTTTTA-A-TAAATACATTTTATTATGATACTAAAGAATAATAGTTCTTATCCATTACCTTGAT
129 TTTTTTATATTAAATACATTTTAATATGATACGAAAGAATAATAATTATGATCAATTACCTTGAT
* * ** *
17725120 TCTATTTCTTTTTTATTTTGTTTTATTAAATTGTATTCCCTAATATTTACAAATTTTAATAAAAA
194 TCTATTTCTTTTTTACTCTACTTAATTAAATTGTATTCCCTAATATTTACAAATTTTAATAAAAA
17725185 AATTAAATCTATTAAAAAAATTAGAAATTATTTTTAACAAAAAA
259 AATTAAATCTATTAAAAAAATTAGAAATTATTTTTAACAAAAAA
17725229 AATAAAACAT
Statistics
Matches: 261, Mismatches: 33, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
349 24 0.09
350 3 0.01
351 4 0.02
352 5 0.02
353 10 0.04
354 1 0.00
355 2 0.01
358 19 0.07
359 3 0.01
360 18 0.07
361 5 0.02
362 36 0.14
363 46 0.18
364 15 0.06
366 34 0.13
367 23 0.09
368 13 0.05
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (352 bp):
AAATAAAACTTATATAATCTTTTAGAAGGAAAAGAAAGTATACATTTTTTCCTTGATTTTAAAAA
TTCAACTTAAAATCAAGAAAATGATATCTTAGTTTCCTTCGTAATAGTTATAAAAAATTTTATTT
TTTTATATTAAATACATTTTAATATGATACGAAAGAATAATAATTATGATCAATTACCTTGATTC
TATTTCTTTTTTACTCTACTTAATTAAATTGTATTCCCTAATATTTACAAATTTTAATAAAAAAA
TTAAATCTATTAAAAAAATTAGAAATTATTTTTAACAAAAAAGAAAGAAATAAAACATACCAAAA
TAATTTAAAATGTCTTTATTACTAAAA
Found at i:17725707 original size:25 final size:24
Alignment explanation
Indices: 17725654--17725707 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
17725644 ATTCTTTGAT
*
17725654 AAAAATTTATAAATATAAGGGAAA
1 AAAAATTTATAAATATAAGAGAAA
* *
17725678 TAAAATTTGATAAA-ATAAGAATAAA
1 AAAAATTT-ATAAATATAAG-AGAAA
17725703 AAAAA
1 AAAAA
17725708 GAAATAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (24 bp):
AAAAATTTATAAATATAAGAGAAA
Found at i:17726082 original size:20 final size:20
Alignment explanation
Indices: 17726057--17726094 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17726047 TGACATAAGT
*
17726057 ATTGACCTTACTTATATGAC
1 ATTGACCTTACTAATATGAC
*
17726077 ATTGACTTTACTAATATG
1 ATTGACCTTACTAATATG
17726095 GAGTTAACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (20 bp):
ATTGACCTTACTAATATGAC
Found at i:17726573 original size:44 final size:44
Alignment explanation
Indices: 17726513--17726663 Score: 125
Period size: 44 Copynumber: 3.5 Consensus size: 44
17726503 AAGTTTTTAA
*
17726513 TTTAAAAA-ATTCAAATTTATGAAATTTTATAATTTTTTGTCACT
1 TTTAAAAATATTCAAATTTATGAAATTTTACAATTTTTTGTCA-T
* * ** **
17726557 TTTAAAAATATT-AAATTTAATTG---TTTTCCAAGATTTTAATTTT
1 TTTAAAAATATTCAAATTT-A-TGAAATTTTACAA-TTTTTTGTCAT
* * *
17726600 TTTAAAAAAATTCAAATTCATGAAATTTTAGAATTTTTTGTCAT
1 TTTAAAAATATTCAAATTTATGAAATTTTACAATTTTTTGTCAT
17726644 TTTAAAAATTATT-AAATTTA
1 TTTAAAAA-TATTCAAATTTA
17726664 ATTTTTTTCC
Statistics
Matches: 80, Mismatches: 18, Indels: 18
0.69 0.16 0.16
Matches are distributed among these distances:
42 2 0.03
43 19 0.24
44 44 0.55
45 13 0.16
46 2 0.03
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (44 bp):
TTTAAAAATATTCAAATTTATGAAATTTTACAATTTTTTGTCAT
Found at i:17726617 original size:88 final size:88
Alignment explanation
Indices: 17726516--17726695 Score: 308
Period size: 88 Copynumber: 2.0 Consensus size: 88
17726506 TTTTTAATTT
* *
17726516 AAAAAATTCAAATTTATGAAATTTTATAATTTTTTGTCACTTTTAAAAA-TATTAAATTTAATTG
1 AAAAAATTCAAATTCATGAAATTTTAGAATTTTTTGTCA-TTTTAAAAATTATTAAATTTAATTG
17726580 TTTTCCAAGATTTTAATTTTTTTA
65 TTTTCCAAGATTTTAATTTTTTTA
*
17726604 AAAAAATTCAAATTCATGAAATTTTAGAATTTTTTGTCATTTTAAAAATTATTAAATTTAATTTT
1 AAAAAATTCAAATTCATGAAATTTTAGAATTTTTTGTCATTTTAAAAATTATTAAATTTAATTGT
*
17726669 TTTCCAATATTTTAATTTTTTTA
66 TTTCCAAGATTTTAATTTTTTTA
17726692 AAAA
1 AAAA
17726696 CAATATATCT
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
87 9 0.10
88 78 0.90
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.51
Consensus pattern (88 bp):
AAAAAATTCAAATTCATGAAATTTTAGAATTTTTTGTCATTTTAAAAATTATTAAATTTAATTGT
TTTCCAAGATTTTAATTTTTTTA
Found at i:17726691 original size:44 final size:43
Alignment explanation
Indices: 17726556--17726695 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 43
17726546 TTTTTGTCAC
* *
17726556 TTTTAAAAATATTAAATTTAATTGTTTTCCAAGATTTTAATTT
1 TTTTAAAAATATTAAATTTAATTATTTTCCAATATTTTAATTT
* ** ** **
17726599 TTTTAAAAAAATTCAAATTCATGAA--ATTTTAGAAT-TTTTTGTCA
1 TTTTAAAAATATT-AAATT--T-AATTATTTTCCAATATTTTAATTT
*
17726643 TTTTAAAAATTATTAAATTTAATTTTTTTCCAATATTTTAATTT
1 TTTTAAAAA-TATTAAATTTAATTATTTTCCAATATTTTAATTT
17726687 TTTTAAAAA
1 TTTTAAAAA
17726696 CAATATATCT
Statistics
Matches: 72, Mismatches: 17, Indels: 15
0.69 0.16 0.14
Matches are distributed among these distances:
41 2 0.03
42 1 0.01
43 19 0.26
44 38 0.53
45 9 0.12
46 1 0.01
47 2 0.03
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (43 bp):
TTTTAAAAATATTAAATTTAATTATTTTCCAATATTTTAATTT
Found at i:17726699 original size:23 final size:24
Alignment explanation
Indices: 17726675--17726743 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 24
17726665 TTTTTTTCCA
17726675 ATATTTTAATTTTTTTAAAAACAAT
1 ATATTTTAATTTTTTTAAAAAC-AT
*
17726700 ATATCTTTTATTTTTTTAAAAA-AT
1 ATAT-TTTAATTTTTTTAAAAACAT
*
17726724 CATATTTCAA-TTTTTTAAAA
1 -ATATTTTAATTTTTTTAAAA
17726744 TAGTTTTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 10 0.26
24 5 0.13
25 8 0.21
26 16 0.41
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (24 bp):
ATATTTTAATTTTTTTAAAAACAT
Found at i:17726743 original size:21 final size:20
Alignment explanation
Indices: 17726728--17726779 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 20
17726718 AAAAATCATA
17726728 TTTCAATTTTTTAAAATAGT
1 TTTCAATTTTTTAAAATAGT
*
17726748 TTTCAA-TTTTTAGAA-A-T
1 TTTCAATTTTTTAAAATAGT
*
17726765 TATCAATTTTTTAAA
1 TTTCAATTTTTTAAA
17726780 TATTAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 6 0.21
18 8 0.29
19 8 0.29
20 6 0.21
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTCAATTTTTTAAAATAGT
Found at i:17730088 original size:15 final size:16
Alignment explanation
Indices: 17730068--17730106 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
17730058 ATTCATAAAT
17730068 AAATAATA-ATTTTTA
1 AAATAATATATTTTTA
17730083 AAATAA-ATATTTTTA
1 AAATAATATATTTTTA
*
17730098 AAAAAATAT
1 AAATAATAT
17730107 TTATTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 18 0.86
16 2 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATAATATATTTTTA
Found at i:17730113 original size:15 final size:14
Alignment explanation
Indices: 17730076--17730119 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
17730066 ATAAATAATA
17730076 ATTTTTAAAATAAAT
1 ATTTTTAAAA-AAAT
17730091 ATTTTTAAAAAAAT
1 ATTTTTAAAAAAAT
*
17730105 ATTTATTAATAAAAT
1 ATTT-TTAAAAAAAT
17730120 TATATTCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTTAAAAAAAT
Found at i:17730162 original size:25 final size:25
Alignment explanation
Indices: 17730113--17730164 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
17730103 ATATTTATTA
*
17730113 ATAAAATTATATTCATTGATAATAT
1 ATAAAATTATATTCATTAATAATAT
17730138 ATAAAATT-TATAT-ATTAATAGATAT
1 ATAAAATTATAT-TCATTAATA-ATAT
17730163 AT
1 AT
17730165 TAACAGTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (25 bp):
ATAAAATTATATTCATTAATAATAT
Found at i:17731871 original size:19 final size:18
Alignment explanation
Indices: 17731838--17731889 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
17731828 GACTTATAAA
17731838 ATTTA-TAATAAAATCAT
1 ATTTATTAATAAAATCAT
* *
17731855 ATTTTTTAATAAAAATCTT
1 ATTTATTAAT-AAAATCAT
17731874 ATTTATTAATTAAAAT
1 ATTTATTAA-TAAAAT
17731890 ATTTAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 4 0.14
18 4 0.14
19 20 0.69
20 1 0.03
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTTATTAATAAAATCAT
Found at i:17732432 original size:17 final size:17
Alignment explanation
Indices: 17732406--17732460 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
17732396 ATTTATTATT
*
17732406 AAAATTATTAATATTAA
1 AAAATAATTAATATTAA
*
17732423 AAAATAATTATATTTTAA
1 AAAATAATTA-ATATTAA
* *
17732441 TAATATATTTAATATTAA
1 -AAAATAATTAATATTAA
17732459 AA
1 AA
17732461 TATTATGTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 11 0.35
18 12 0.39
19 8 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATAATTAATATTAA
Found at i:17732587 original size:13 final size:13
Alignment explanation
Indices: 17732505--17732615 Score: 50
Period size: 13 Copynumber: 8.2 Consensus size: 13
17732495 TTATTCTTTC
*
17732505 TATTATTTATTAG
1 TATTATTTATTAA
*
17732518 TA-TA-TTAAT-A
1 TATTATTTATTAA
17732528 TATTATTTATTAA
1 TATTATTTATTAA
* **
17732541 TAATGGTTATTAA
1 TATTATTTATTAA
* *
17732554 TAAATTTTATTAATAGTA
1 T--ATTAT-TTATTA--A
17732572 TATTATTTATTAA
1 TATTATTTATTAA
*
17732585 TA-TATTATAATATAT
1 TATTATT-T-AT-TAA
17732600 TATTATTTATTAA
1 TATTATTTATTAA
17732613 TAT
1 TAT
17732616 ATTATTATTT
Statistics
Matches: 72, Mismatches: 14, Indels: 24
0.65 0.13 0.22
Matches are distributed among these distances:
10 2 0.03
11 6 0.08
12 10 0.14
13 23 0.32
14 4 0.06
15 12 0.17
16 13 0.18
18 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TATTATTTATTAA
Found at i:17732600 original size:18 final size:18
Alignment explanation
Indices: 17732561--17732619 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
17732551 TAATAAATTT
* *
17732561 TATTAATAGTA-TATTATT
1 TATTAATA-TATTATAATA
17732579 TATTAATATATTATAATA
1 TATTAATATATTATAATA
*
17732597 TATTATTAT-TTATTAATA
1 TATTAATATATTA-TAATA
17732615 TATTA
1 TATTA
17732620 TTATTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 5 0.14
18 31 0.86
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTAATATATTATAATA
Found at i:17732603 original size:28 final size:28
Alignment explanation
Indices: 17732564--17732620 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
17732554 TAAATTTTAT
17732564 TAATAGTATATTATTTATTAATATATTA
1 TAATAGTATATTATTTATTAATATATTA
17732592 TAATA-TATTATTATTTATTAATATATTA
1 TAATAGTA-TATTATTTATTAATATATTA
17732620 T
1 T
17732621 TATTTTTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
TAATAGTATATTATTTATTAATATATTA
Found at i:17732620 original size:18 final size:18
Alignment explanation
Indices: 17732579--17732629 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
17732569 GTATATTATT
*
17732579 TATTAATATATTA-TAATA
1 TATTATTAT-TTATTAATA
17732597 TATTATTATTTATTAATA
1 TATTATTATTTATTAATA
17732615 TATTATTATTT-TTAA
1 TATTATTATTTATTAA
17732630 GTAAAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 7 0.23
18 24 0.77
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTATTATTTATTAATA
Found at i:17733691 original size:15 final size:14
Alignment explanation
Indices: 17733666--17733711 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
17733656 TTTTAAAAAC
17733666 ATTTTTTATTTCTT
1 ATTTTTTATTTCTT
17733680 ATTTTTTAATTTC-T
1 ATTTTTT-ATTTCTT
*
17733694 AATTTTTATTT-TT
1 ATTTTTTATTTCTT
17733707 ATTTT
1 ATTTT
17733712 CAATTCCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 9 0.32
14 14 0.50
15 5 0.18
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (14 bp):
ATTTTTTATTTCTT
Found at i:17740664 original size:20 final size:19
Alignment explanation
Indices: 17740636--17740684 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
17740626 TAAGGAGTGC
17740636 AAAAAAAAAA-AAAAGCAATG
1 AAAAAAAAAAGAAAA--AATG
17740656 AAAACAAAAAAGAAAAAATG
1 AAAA-AAAAAAGAAAAAATG
17740676 AAAAAAAAA
1 AAAAAAAAA
17740685 TTTTAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
21 6 0.22
22 4 0.15
ACGTcount: A:0.84, C:0.04, G:0.08, T:0.04
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAAATG
Found at i:17744183 original size:10 final size:9
Alignment explanation
Indices: 17744126--17744182 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
17744116 GCATGCAAGG
17744126 AAAAAAGAA
1 AAAAAAGAA
17744135 AGAAAAAGAA
1 A-AAAAAGAA
*
17744145 AAAAATGATTA
1 AAAAAAGA--A
*
17744156 AAAAATGAA
1 AAAAAAGAA
17744165 AAAAAA-AA
1 AAAAAAGAA
*
17744173 GAAAAAGAA
1 AAAAAAGAA
17744182 A
1 A
17744183 GGAAACTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
8 7 0.17
9 15 0.38
10 9 0.22
11 9 0.22
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:17750772 original size:16 final size:17
Alignment explanation
Indices: 17750751--17750784 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17750741 TCCCTTAGAG
*
17750751 AGAAAA-AGTAAAAAAA
1 AGAAAATAGCAAAAAAA
17750767 AGAAAATAGCAAAAAAA
1 AGAAAATAGCAAAAAAA
17750784 A
1 A
17750785 AGATTTTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (17 bp):
AGAAAATAGCAAAAAAA
Found at i:17755028 original size:4 final size:4
Alignment explanation
Indices: 17755019--17755046 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
17755009 AGGATATATA
17755019 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
17755047 GGACAAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:17757953 original size:22 final size:22
Alignment explanation
Indices: 17757910--17757953 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
17757900 TGTTTGTTTC
* *
17757910 AATTTCCTTCTTATATCTTTAT
1 AATTTCCTTCTTACATCCTTAT
* *
17757932 AATTTGCTTTTTACATCCTTAT
1 AATTTCCTTCTTACATCCTTAT
17757954 TGGCTACTAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.18, G:0.02, T:0.57
Consensus pattern (22 bp):
AATTTCCTTCTTACATCCTTAT
Found at i:17758232 original size:18 final size:18
Alignment explanation
Indices: 17758209--17758245 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
17758199 TTTCTATTAT
17758209 TATCAAAGGCATTCTTTA
1 TATCAAAGGCATTCTTTA
*
17758227 TATCAAAGGCGTTCTTTA
1 TATCAAAGGCATTCTTTA
17758245 T
1 T
17758246 CCATGAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (18 bp):
TATCAAAGGCATTCTTTA
Found at i:17768426 original size:32 final size:33
Alignment explanation
Indices: 17768363--17768429 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 33
17768353 GTCCGTTCAA
17768363 TTTATAAATATTATTAAAATATTAAAAATATTT
1 TTTATAAATATTATTAAAATATTAAAAATATTT
* * * *
17768396 TTTATTAATATT-TTAAGATTTTAAATATATTT
1 TTTATAAATATTATTAAAATATTAAAAATATTT
17768428 TT
1 TT
17768430 AATTTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (33 bp):
TTTATAAATATTATTAAAATATTAAAAATATTT
Found at i:17769814 original size:13 final size:14
Alignment explanation
Indices: 17769781--17769854 Score: 59
Period size: 13 Copynumber: 5.5 Consensus size: 14
17769771 AATTTGTTTA
17769781 TTATAT-TTAGTATT
1 TTATATATTA-TATT
*
17769795 TTGTATATTA-ATT
1 TTATATATTATATT
**
17769808 TTATATAAAATA-T
1 TTATATATTATATT
*
17769821 TTATA-ATTTATATA
1 TTATATA-TTATATT
17769835 TT-TATATTATATT
1 TTATATATTATATT
17769848 TTATATA
1 TTATATA
17769855 AAAAATTATA
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
12 1 0.02
13 29 0.63
14 13 0.28
15 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
TTATATATTATATT
Found at i:17769832 original size:20 final size:21
Alignment explanation
Indices: 17769798--17769864 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 21
17769788 TAGTATTTTG
*
17769798 TATATTA-ATTTTATATAAAA
1 TATATTATAATTTATATAAAA
**
17769818 TAT-TTATAATTTATAT-ATT
1 TATATTATAATTTATATAAAA
*
17769837 TATATTATATTTTATATAAAA
1 TATATTATAATTTATATAAAA
17769858 -A-ATTATA
1 TATATTATA
17769865 TATCATAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
19 13 0.34
20 24 0.63
21 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATATTATAATTTATATAAAA
Found at i:17769849 original size:40 final size:41
Alignment explanation
Indices: 17769781--17769866 Score: 115
Period size: 40 Copynumber: 2.1 Consensus size: 41
17769771 AATTTGTTTA
* *
17769781 TTAT-ATTTAGTATTTTGTATATTAATTTTATATAAAATAT
1 TTATAATTTAGTATATTGTATATTAATTTTATATAAAAAAT
17769821 TTATAATTTA-TATATT-TATATTATATTTTATATAAAAAAT
1 TTATAATTTAGTATATTGTATATTA-ATTTTATATAAAAAAT
17769861 TATATA
1 T-TATA
17769867 TCATAATTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
39 7 0.17
40 25 0.61
41 9 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (41 bp):
TTATAATTTAGTATATTGTATATTAATTTTATATAAAAAAT
Found at i:17774309 original size:17 final size:20
Alignment explanation
Indices: 17774264--17774302 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
17774254 TTTAAAATTA
17774264 ATAAAATATTATTTTTTAAT
1 ATAAAATATTATTTTTTAAT
17774284 ATAAAATATTATTTTTTAA
1 ATAAAATATTATTTTTTAA
17774303 AACATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAAAATATTATTTTTTAAT
Found at i:17775147 original size:27 final size:25
Alignment explanation
Indices: 17775095--17775161 Score: 98
Period size: 27 Copynumber: 2.6 Consensus size: 25
17775085 GACGTGTTTG
*
17775095 ATAAATAATATTATAATAGAATAAA
1 ATAAATAATATTATAATAAAATAAA
17775120 ATAACATAATATTATAAATAAAATAAA
1 ATAA-ATAATATTAT-AATAAAATAAA
17775147 ATAAAATAATATTAT
1 AT-AAATAATATTAT
17775162 TTTATATTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
25 4 0.11
26 10 0.26
27 22 0.58
28 2 0.05
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (25 bp):
ATAAATAATATTATAATAAAATAAA
Found at i:17778536 original size:2 final size:2
Alignment explanation
Indices: 17778531--17778565 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
17778521 ATCTTCTTTA
*
17778531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17778566 CTAGATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:17784215 original size:19 final size:19
Alignment explanation
Indices: 17784191--17784229 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
17784181 GCTTAAAAAG
*
17784191 GAGAGCATGAAGATGGATA
1 GAGAGCATGAAAATGGATA
17784210 GAGAGCATGAAAATGGATA
1 GAGAGCATGAAAATGGATA
17784229 G
1 G
17784230 GAATATAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.36, T:0.15
Consensus pattern (19 bp):
GAGAGCATGAAAATGGATA
Found at i:17787757 original size:35 final size:36
Alignment explanation
Indices: 17787706--17787781 Score: 118
Period size: 35 Copynumber: 2.1 Consensus size: 36
17787696 GTAATTAGTT
* *
17787706 TTGAGCAAGGAGAGTAATTC-CTTTATTTGAGACTA
1 TTGAGCAAGGAAAGTAATTCTCTCTATTTGAGACTA
*
17787741 TTGAGCAAGGAAAGTAATTCTCTCTATTTGAGACTG
1 TTGAGCAAGGAAAGTAATTCTCTCTATTTGAGACTA
17787777 TTGAG
1 TTGAG
17787782 TAGTTTTCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 19 0.51
36 18 0.49
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (36 bp):
TTGAGCAAGGAAAGTAATTCTCTCTATTTGAGACTA
Found at i:17793488 original size:24 final size:24
Alignment explanation
Indices: 17793456--17793502 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
17793446 TTGAGTTAAG
**
17793456 TTTCATACATGAATAAAATTTATA
1 TTTCATACAAAAATAAAATTTATA
17793480 TTTCATACAAAAATAAAATTTAT
1 TTTCATACAAAAATAAAATTTAT
17793503 TTAATAGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (24 bp):
TTTCATACAAAAATAAAATTTATA
Found at i:17794165 original size:32 final size:33
Alignment explanation
Indices: 17794128--17794205 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 33
17794118 GTTTTATCAT
** * *
17794128 ATTATAAGTAATAAAGTAAATGGATCTTGTC-C
1 ATTATAAAAAATAAAGTAAATGGACCTTATCTC
17794160 ATTATAAAAAAATAAAGTAAATGGACCTTATCTC
1 ATTAT-AAAAAATAAAGTAAATGGACCTTATCTC
17794194 ATTATAATAAAA
1 ATTATAA-AAAA
17794206 ATATTTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 5 0.13
33 24 0.62
34 10 0.26
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (33 bp):
ATTATAAAAAATAAAGTAAATGGACCTTATCTC
Found at i:17794176 original size:33 final size:35
Alignment explanation
Indices: 17794137--17794208 Score: 112
Period size: 33 Copynumber: 2.1 Consensus size: 35
17794127 TATTATAAGT
* *
17794137 AATAAAGTAAATGGATCTTGTC-CATTATAA-AAA
1 AATAAAGTAAATGGACCTTATCTCATTATAATAAA
17794170 AATAAAGTAAATGGACCTTATCTCATTATAATAAA
1 AATAAAGTAAATGGACCTTATCTCATTATAATAAA
17794205 AATA
1 AATA
17794209 TTTTTTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 20 0.57
34 8 0.23
35 7 0.20
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (35 bp):
AATAAAGTAAATGGACCTTATCTCATTATAATAAA
Found at i:17794576 original size:22 final size:22
Alignment explanation
Indices: 17794527--17794586 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
17794517 TTTTGCCCTA
*
17794527 TATATTTTGATTTTGATTATTT
1 TATATTTTGATTTTTATTATTT
17794549 TATATTTTGATTTTTACCTTA-TT
1 TATATTTTGATTTTTA--TTATTT
17794572 T-TATTTT-ATTTTTAT
1 TATATTTTGATTTTTAT
17794587 GTTTTTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 1 0.03
21 7 0.20
22 21 0.60
23 3 0.09
24 3 0.09
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (22 bp):
TATATTTTGATTTTTATTATTT
Found at i:17797402 original size:17 final size:17
Alignment explanation
Indices: 17797380--17797413 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17797370 TGAATAAGGG
17797380 AAATGAAGACAATTCCC
1 AAATGAAGACAATTCCC
*
17797397 AAATGAAGTCAATTCCC
1 AAATGAAGACAATTCCC
17797414 TTAAACATGG
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:0.44, C:0.24, G:0.12, T:0.21
Consensus pattern (17 bp):
AAATGAAGACAATTCCC
Found at i:17798129 original size:50 final size:51
Alignment explanation
Indices: 17798090--17798211 Score: 140
Period size: 51 Copynumber: 2.4 Consensus size: 51
17798080 ATAAATATAT
* * *
17798090 AATTCCGTCACTAATTCTAGTTTTATTA-ATTTTTC-AAAAATAAAAAGGA
1 AATTCCATCACTAATTATAATTTTATTATATTTTTCAAAAAATAAAAAGGA
* * * **
17798139 AATTTCATCACTAATTATAATTTTATTATTTTTTTTAAAAAATAAAAAATA
1 AATTCCATCACTAATTATAATTTTATTATATTTTTCAAAAAATAAAAAGGA
* *
17798190 AATTCAATCACTAATTAGAATT
1 AATTCCATCACTAATTATAATT
17798212 ATTGATGAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 24 0.40
50 5 0.08
51 31 0.52
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (51 bp):
AATTCCATCACTAATTATAATTTTATTATATTTTTCAAAAAATAAAAAGGA
Found at i:17798200 original size:51 final size:48
Alignment explanation
Indices: 17798075--17798211 Score: 132
Period size: 51 Copynumber: 2.8 Consensus size: 48
17798065 ATATTATTGA
* * * *
17798075 AAAAAAT-AAATATATAATTCCGTCACTAATTCTAGTTTTATTAATTTTT
1 AAAAAATAAAAAATA-AATT-CATCACTAATTATAATTTTATTAATTTTT
* ** *
17798124 CAAAAATAAAAAGGAAATTTCATCACTAATTATAATTTTATTATTTTTTTT
1 AAAAAATAAAAAATAAA-TTCATCACTAATTATAATTTTATTA--ATTTTT
*
17798175 AAAAAATAAAAAATAAATTCAATCACTAATTAGAATT
1 AAAAAATAAAAAATAAATTC-ATCACTAATTATAATT
17798212 ATTGATGAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
49 28 0.39
50 9 0.13
51 34 0.48
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (48 bp):
AAAAAATAAAAAATAAATTCATCACTAATTATAATTTTATTAATTTTT
Found at i:17802106 original size:2 final size:2
Alignment explanation
Indices: 17802099--17802132 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
17802089 ATATTTAAAC
17802099 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
17802133 AACTAGATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:17807653 original size:122 final size:122
Alignment explanation
Indices: 17807436--17807683 Score: 442
Period size: 122 Copynumber: 2.0 Consensus size: 122
17807426 GCTACATTAG
17807436 AAAATAGGTTGAAATCAACGTATTCCATCATGTAACAAAGGAGATAAATGCCCACACTATTTGAA
1 AAAATAGGTTGAAATCAACGTATTCCATCATGTAACAAAGGAGATAAATGCCCACACTATTTGAA
*
17807501 AAAAATTGATAGCATTGTATGAGAGAAAAACATGTATGAATAAAATGATGATTGTTA
66 AAAAATTGATAGCATTGTATGAGAGAAAAACATGTATAAATAAAATGATGATTGTTA
* * * *
17807558 AAAATAGGTTGATATCAACGTATTTCATCCTGTAACACAGGAGATAAATGCCCACACTATTTGAA
1 AAAATAGGTTGAAATCAACGTATTCCATCATGTAACAAAGGAGATAAATGCCCACACTATTTGAA
*
17807623 AAAAATTGATAGCATTGTATGAGAGGAAAACATGTATAAATAAAATGATGATTGTTA
66 AAAAATTGATAGCATTGTATGAGAGAAAAACATGTATAAATAAAATGATGATTGTTA
17807680 AAAA
1 AAAA
17807684 ACTTGAAACT
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.27
Consensus pattern (122 bp):
AAAATAGGTTGAAATCAACGTATTCCATCATGTAACAAAGGAGATAAATGCCCACACTATTTGAA
AAAAATTGATAGCATTGTATGAGAGAAAAACATGTATAAATAAAATGATGATTGTTA
Found at i:17808891 original size:15 final size:15
Alignment explanation
Indices: 17808871--17808908 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
17808861 GCGGATATTT
17808871 TGTTACTTTTATTGA
1 TGTTACTTTTATTGA
17808886 TGTTACTTTTATTGA
1 TGTTACTTTTATTGA
*
17808901 TGATACTT
1 TGTTACTT
17808909 CACATAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (15 bp):
TGTTACTTTTATTGA
Done.