Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold485
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: 999764
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 4 of 8
Found at i:356641 original size:4 final size:4
Alignment explanation
Indices: 356632--356658 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
356622 GGGATGGTAA
356632 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
356659 ATTAGTGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:356752 original size:22 final size:21
Alignment explanation
Indices: 356703--356746 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
356693 GACCCGAGTC
**
356703 AAGAAAAAAAAGAACGGAAAA
1 AAGAAAAAAAAGAAAAGAAAA
356724 AAGAAAAAGAAAGAAAAGAAAA
1 AAGAAAAA-AAAGAAAAGAAAA
356746 A
1 A
356747 CAAAAAGGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAAAGAAAAGAAAA
Found at i:356986 original size:2 final size:2
Alignment explanation
Indices: 356979--357020 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
356969 GTGATTATGT
356979 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
357021 AGACTTTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:357705 original size:16 final size:16
Alignment explanation
Indices: 357658--357710 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
357648 GTCATTTTTG
357658 GTTCGAATCATTTCGA
1 GTTCGAATCATTTCGA
* ** * *
357674 GTTTGGGTTATATCGA
1 GTTCGAATCATTTCGA
357690 GTTCGAATCATTTCGA
1 GTTCGAATCATTTCGA
357706 GTTCG
1 GTTCG
357711 GGTCAATTGA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.40
Consensus pattern (16 bp):
GTTCGAATCATTTCGA
Found at i:358434 original size:17 final size:19
Alignment explanation
Indices: 358399--358436 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
358389 CAATTTTTTA
358399 ATTTTTACATAATTAAATT
1 ATTTTTACATAATTAAATT
*
358418 ATTTTTA-A-AATTTAATT
1 ATTTTTACATAATTAAATT
358435 AT
1 AT
358437 CAATTTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 1 0.06
19 7 0.39
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTTACATAATTAAATT
Found at i:358798 original size:32 final size:32
Alignment explanation
Indices: 358756--358835 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
358746 TGGGTTAATT
* * *
358756 ATTCAAATCATTTCGGGTTCAGATTATTTTAG
1 ATTCAGATCATTTCGAGTTCAGATTATTTCAG
*
358788 ATTCAGATCATTTCGAGTTTAGATTATTTCAG
1 ATTCAGATCATTTCGAGTTCAGATTATTTCAG
*
358820 ATTCAGGTCATTTCGA
1 ATTCAGATCATTTCGA
358836 ATTCGAGTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (32 bp):
ATTCAGATCATTTCGAGTTCAGATTATTTCAG
Found at i:358832 original size:16 final size:16
Alignment explanation
Indices: 358756--358833 Score: 68
Period size: 16 Copynumber: 4.9 Consensus size: 16
358746 TGGGTTAATT
* *
358756 ATTCAAATCATTTCGG
1 ATTCAGATCATTTCAG
* * *
358772 GTTCAGATTATTTTAG
1 ATTCAGATCATTTCAG
358788 ATTCAGATCATTTC-G
1 ATTCAGATCATTTCAG
* *
358803 AGTTTAGATTATTTCAG
1 A-TTCAGATCATTTCAG
*
358820 ATTCAGGTCATTTC
1 ATTCAGATCATTTC
358834 GAATTCGAGT
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
15 2 0.04
16 43 0.91
17 2 0.04
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (16 bp):
ATTCAGATCATTTCAG
Found at i:358839 original size:16 final size:16
Alignment explanation
Indices: 358756--358848 Score: 57
Period size: 16 Copynumber: 5.8 Consensus size: 16
358746 TGGGTTAATT
* *
358756 ATTCAAATCATTTCGG
1 ATTCAGATCATTTCGA
* * *
358772 GTTCAGATTATTT-TA
1 ATTCAGATCATTTCGA
358787 GATTCAGATCATTTCGA
1 -ATTCAGATCATTTCGA
* * *
358804 GTTTAGATTATTTC-A
1 ATTCAGATCATTTCGA
*
358819 GATTCAGGTCATTTCGA
1 -ATTCAGATCATTTCGA
358836 ATTC-GAGTCATTT
1 ATTCAGA-TCATTT
358849 TGTAATTCGA
Statistics
Matches: 56, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
15 2 0.04
16 52 0.93
17 2 0.04
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (16 bp):
ATTCAGATCATTTCGA
Found at i:359705 original size:21 final size:21
Alignment explanation
Indices: 359681--359720 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
359671 AGATATATTA
* *
359681 AATTAATATTTTTATATTTTT
1 AATTAATAATATTATATTTTT
*
359702 AATTATTAATATTATATTT
1 AATTAATAATATTATATTT
359721 ATTTATCAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTAATAATATTATATTTTT
Found at i:362056 original size:18 final size:18
Alignment explanation
Indices: 362033--362068 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
362023 TGTTTCATAG
362033 AAATAAAAGATGTTGAGT
1 AAATAAAAGATGTTGAGT
*
362051 AAATAAAGGATGTTGAGT
1 AAATAAAAGATGTTGAGT
362069 TTGTTTGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (18 bp):
AAATAAAAGATGTTGAGT
Found at i:365398 original size:10 final size:10
Alignment explanation
Indices: 365382--365431 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
365372 GTAATGAGAG
365382 AAAGAAAAAA
1 AAAGAAAAAA
*
365392 GAAGAAAAAAA
1 AAAG-AAAAAA
365403 AAAGAAAAAA
1 AAAGAAAAAA
*
365413 AAAG-AAAGA
1 AAAGAAAAAA
365422 AAAGAAAAAA
1 AAAGAAAAAA
365432 GGATTGGTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 8 0.24
10 17 0.50
11 9 0.26
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:365400 original size:11 final size:11
Alignment explanation
Indices: 365386--365431 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
365376 TGAGAGAAAG
365386 AAAAAAGAAGA
1 AAAAAAGAAGA
*
365397 AAAAAAAAAGA
1 AAAAAAGAAGA
365408 AAAAAA-AAGA
1 AAAAAAGAAGA
365418 AAGAAAAGAA-A
1 AA-AAAAGAAGA
365429 AAA
1 AAA
365432 GGATTGGTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
10 7 0.22
11 23 0.72
12 2 0.06
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAGA
Found at i:365403 original size:14 final size:13
Alignment explanation
Indices: 365386--365431 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 13
365376 TGAGAGAAAG
365386 AAAAAAGAAGAAAA
1 AAAAAAGAA-AAAA
365400 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
*
365413 AAAGAAAGAAAAGA
1 AAA-AAAGAAAAAA
365427 AAAAA
1 AAAAA
365432 GGATTGGTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 9 0.30
14 21 0.70
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:365408 original size:25 final size:26
Alignment explanation
Indices: 365380--365432 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
365370 AAGTAATGAG
365380 AGAAAGAAAAAAG-AAGAAAA-AAAAA
1 AGAAA-AAAAAAGAAAGAAAAGAAAAA
365405 AGAAAAAAAAAGAAAGAAAAGAAAAA
1 AGAAAAAAAAAGAAAGAAAAGAAAAA
365431 AG
1 AG
365433 GATTGGTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 7 0.27
25 12 0.46
26 7 0.27
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (26 bp):
AGAAAAAAAAAGAAAGAAAAGAAAAA
Found at i:365985 original size:18 final size:18
Alignment explanation
Indices: 365940--365999 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
365930 AAAAGTGATG
* *
365940 TATTTTTTAAAATAAATAA
1 TATTTATTAAAATATAT-A
365959 TATTT-TTAAAGATATAT-
1 TATTTATTAAA-ATATATA
*
365976 TATTTATTAAATTATATA
1 TATTTATTAAAATATATA
365994 TATTTA
1 TATTTA
366000 AACTAAACAC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
17 10 0.28
18 16 0.44
19 10 0.28
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TATTTATTAAAATATATA
Found at i:366889 original size:18 final size:19
Alignment explanation
Indices: 366861--366904 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
366851 TTTTATAGAG
366861 TTTATATATTGT-TAGTAA-A
1 TTTA-ATATTGTATA-TAATA
366880 TTTAATATTGTATATAATA
1 TTTAATATTGTATATAATA
366899 TTTAAT
1 TTTAAT
366905 TACTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (19 bp):
TTTAATATTGTATATAATA
Found at i:372741 original size:192 final size:184
Alignment explanation
Indices: 372413--372754 Score: 470
Period size: 192 Copynumber: 1.8 Consensus size: 184
372403 TTTGAAACAG
** * *
372413 TGATTCCTTTTATCATCATTAAGGCTGGTGAATAAAAAAAACAGGTATCTTGAGGACTTGAAAGA
1 TGATTCCTTTTATCATCATTAAGGAAGGTGAATAAAAAAAACAGATATCTTGAGAACTTGAAAGA
* *
372478 ATTAGATTGCTTCTTTTTTGTGGTCATCTGAACTATATTGTTTCTAGTATCTTACTATCACTCTC
66 ATTAGATTGCTTCTTTTTTGTGGTCATCAGAACTATATTGTTTCTAGTATCATACTATCACTCTC
372543 ATGGCTTTATATTGGTCTATGTAACTTGGACTCGGATTTGGATGTCGGATATAT
131 ATGGCTTTATATTGGTCTATGTAACTTGGACTCGGATTTGGATGTCGGATATAT
* * *
372597 TGATTCCTTTTATCATCATTGAGGAAGGTTAATAAAAAAAAAAAACAGATGTCTTAGAGAACTTG
1 TGATTCCTTTTATCATCATTAAGGAAGGTGAAT----AAAAAAAACAGATATCTT-GAGAACTTG
* * * *
372662 AAAGAATT-GATTGCTTTATTTTTTTTCGTGGTCATCAGAATTATGTTGTTTCTATTATCATACT
61 AAAGAATTAGATTGC--T-TCTTTTTT-GTGGTCATCAGAACTATATTGTTTCTAGTATCATACT
*
372726 ATTACTCTCATGGCTTTATATTGGTCTAT
122 ATCACTCTCATGGCTTTATATTGGTCTAT
372755 ATTACCCGGA
Statistics
Matches: 135, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
184 29 0.21
188 22 0.16
189 16 0.12
190 1 0.01
191 7 0.05
192 60 0.44
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (184 bp):
TGATTCCTTTTATCATCATTAAGGAAGGTGAATAAAAAAAACAGATATCTTGAGAACTTGAAAGA
ATTAGATTGCTTCTTTTTTGTGGTCATCAGAACTATATTGTTTCTAGTATCATACTATCACTCTC
ATGGCTTTATATTGGTCTATGTAACTTGGACTCGGATTTGGATGTCGGATATAT
Found at i:372799 original size:15 final size:14
Alignment explanation
Indices: 372779--372820 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
372769 GGTGTGGAGG
372779 TCGGATATGAGTATT
1 TCGGATATGAGTA-T
*
372794 TCGGATGTGAGTA-
1 TCGGATATGAGTAT
372807 TCGGATATGAGTAT
1 TCGGATATGAGTAT
372821 GTTCTGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.26, C:0.07, G:0.31, T:0.36
Consensus pattern (14 bp):
TCGGATATGAGTAT
Found at i:373502 original size:16 final size:13
Alignment explanation
Indices: 373472--373505 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
373462 ACGATTAATT
373472 ATAATAAATATTA
1 ATAATAAATATTA
**
373485 ATAATAAATATCG
1 ATAATAAATATTA
373498 ATAATAAA
1 ATAATAAA
373506 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (13 bp):
ATAATAAATATTA
Found at i:373999 original size:34 final size:35
Alignment explanation
Indices: 373931--374007 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 35
373921 TTTATATAAT
*
373931 TTATTAATTTTATTAAAATATTTTAAAATTATTTA
1 TTATTTATTTTATTAAAATATTTTAAAATTATTTA
*
373966 TTATTTATTTTATTTAAACT-TTTT-AAATTATTTA
1 TTATTTATTTTA-TTAAAATATTTTAAAATTATTTA
374000 TTCATTTA
1 TT-ATTTA
374008 ATACAACAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
34 12 0.32
35 20 0.53
36 6 0.16
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (35 bp):
TTATTTATTTTATTAAAATATTTTAAAATTATTTA
Found at i:374209 original size:21 final size:22
Alignment explanation
Indices: 374173--374238 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 22
374163 AACTTATTTA
*
374173 ATTATTAAT-TTTAATTTTA-C
1 ATTATTAATAATTAATTTTATC
*
374193 TTTATTAATAATTAATTTTATC
1 ATTATTAATAATTAATTTTATC
* * *
374215 ATTA-CAATAATTAATCTCATC
1 ATTATTAATAATTAATTTTATC
374236 ATT
1 ATT
374239 TATTCAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.21
21 26 0.68
22 4 0.11
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTATTAATAATTAATTTTATC
Found at i:375211 original size:23 final size:23
Alignment explanation
Indices: 375181--375226 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
375171 ATTTATTTAT
*
375181 ATTTATTTATTTAA-ATTAAATAA
1 ATTTATTTA-TAAATATTAAATAA
375204 ATTTATTTATAAATATTAAATAA
1 ATTTATTTATAAATATTAAATAA
375227 TCATATTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTATTTATAAATATTAAATAA
Found at i:375274 original size:22 final size:22
Alignment explanation
Indices: 375235--375290 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
375225 AATCATATTC
375235 ATAAATATATAATTTATGAATA
1 ATAAATATATAATTTATGAATA
*
375257 ATTAAATATAT-ATTTATGAATG
1 A-TAAATATATAATTTATGAATA
*
375279 ATAAATAAATAA
1 ATAAATATATAA
375291 ATAAATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 8 0.27
22 13 0.43
23 9 0.30
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (22 bp):
ATAAATATATAATTTATGAATA
Found at i:375330 original size:31 final size:37
Alignment explanation
Indices: 375294--375365 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
375284 TAAATAAATA
375294 AATTTT-AATA-AAAA-AAT-AAA-A-AATAATTATT
1 AATTTTAAATATAAAATAATAAAATATAATAATTATT
375325 AATTTTAAATATAAAATAATAAAATATAATAATTATT
1 AATTTTAAATATAAAATAATAAAATATAATAATTATT
375362 AATT
1 AATT
375366 ATATTATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
31 6 0.17
32 4 0.11
33 4 0.11
34 3 0.09
35 3 0.09
36 1 0.03
37 14 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (37 bp):
AATTTTAAATATAAAATAATAAAATATAATAATTATT
Found at i:375401 original size:30 final size:30
Alignment explanation
Indices: 375361--375419 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
375351 TAATAATTAT
* *
375361 TAATTATATTATAAACAAATAATACATAAC
1 TAATAATATTATAAACAAATAATAAATAAC
**
375391 TAATAATATTATAATTAAATAATAAATAA
1 TAATAATATTATAAACAAATAATAAATAA
375420 ATTTTAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (30 bp):
TAATAATATTATAAACAAATAATAAATAAC
Found at i:385208 original size:4 final size:4
Alignment explanation
Indices: 385199--385224 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
385189 TTTGAAGTGT
385199 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
385225 GTAGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:385768 original size:16 final size:18
Alignment explanation
Indices: 385735--385768 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
385725 AAAACAAAAT
385735 AATATAATATGATATAAA
1 AATATAATATGATATAAA
385753 AATATAA-ATG-TATAAA
1 AATATAATATGATATAAA
385769 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (18 bp):
AATATAATATGATATAAA
Found at i:385834 original size:36 final size:36
Alignment explanation
Indices: 385746--385827 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
385736 ATATAATATG
* *
385746 ATATAAAAATATAAATGTATAAATATTTTAAAATTT
1 ATATAAAAATATAAATGTATAAATATATCAAAATTT
* *
385782 ATAAAAAAAATATAAAT-TATTAATATATCAAAATTT
1 AT-ATAAAAATATAAATGTATAAATATATCAAAATTT
385818 ATATAAAAAT
1 ATATAAAAAT
385828 TTTAAATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
35 7 0.17
36 20 0.50
37 13 0.32
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (36 bp):
ATATAAAAATATAAATGTATAAATATATCAAAATTT
Found at i:385853 original size:16 final size:16
Alignment explanation
Indices: 385832--385862 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
385822 AAAAATTTTA
*
385832 AATAAAATTATAATAT
1 AATAAAAATATAATAT
385848 AATAAAAATATAATA
1 AATAAAAATATAATA
385863 CGAATATATT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAAAAATATAATAT
Found at i:386548 original size:2 final size:2
Alignment explanation
Indices: 386541--386571 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
386531 AAATACATAC
386541 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
386572 AATTTGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:386653 original size:2 final size:2
Alignment explanation
Indices: 386646--386689 Score: 63
Period size: 2 Copynumber: 21.5 Consensus size: 2
386636 TGGTGGTACA
386646 AT AT AT AT AT AT AT AT AT AT AT AT AT CA- AT GAT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT -AT AT AT AT AT AT
386689 A
1 A
386690 AATTTGAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 1 0.03
2 35 0.90
3 3 0.08
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:387306 original size:2 final size:2
Alignment explanation
Indices: 387261--387287 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
387251 AGTTTTCTAT
387261 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 T
387288 GGATAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:387699 original size:32 final size:31
Alignment explanation
Indices: 387639--387742 Score: 122
Period size: 32 Copynumber: 3.3 Consensus size: 31
387629 CTGATGTTGA
387639 TTATAAATTTAAT-AAATTAAACATAATTA-
1 TTATAAATTTAATGAAATTAAACATAATTAC
* * *
387668 TTAGTAAATTTGATGAATATTAAATAAAATTAC
1 TTA-TAAATTTAATGAA-ATTAAACATAATTAC
*
387701 TCATAAATTTAATGAAAATTAAACATAATTAC
1 TTATAAATTTAATG-AAATTAAACATAATTAC
*
387733 TTGTAAATTT
1 TTATAAATTT
387743 GATATTCATT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
29 3 0.05
30 9 0.15
31 2 0.03
32 43 0.70
33 4 0.07
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (31 bp):
TTATAAATTTAATGAAATTAAACATAATTAC
Found at i:388632 original size:18 final size:19
Alignment explanation
Indices: 388596--388633 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
388586 TAAATATAAA
*
388596 AATATAAAAATATTTATAT
1 AATATAAAAATATTAATAT
*
388615 AATAT-AAATTATTAATAT
1 AATATAAAAATATTAATAT
388633 A
1 A
388634 TAATATCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATATAAAAATATTAATAT
Found at i:389151 original size:23 final size:22
Alignment explanation
Indices: 389113--389156 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
389103 TAAATTATAA
*
389113 TTTAATTTAATTTATAAATATT
1 TTTAATTAAATTTATAAATATT
389135 TTTAATTAATATTTATAAATAT
1 TTTAATTAA-ATTTATAAATAT
389157 GGATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAATTAAATTTATAAATATT
Found at i:389501 original size:28 final size:27
Alignment explanation
Indices: 389468--389527 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 27
389458 AATATTTAAT
389468 AAATTTA-AATTTTAAATTTTAATATATA
1 AAATTTATAATTTTAAATTTTAA-ATA-A
* *
389496 AAATTTATTATTTTAACTTTTAAATAA
1 AAATTTATAATTTTAAATTTTAAATAA
389523 AAATT
1 AAATT
389528 ATTTTGATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 6 0.21
28 10 0.34
29 13 0.45
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
AAATTTATAATTTTAAATTTTAAATAA
Found at i:389940 original size:18 final size:17
Alignment explanation
Indices: 389914--389984 Score: 53
Period size: 18 Copynumber: 4.4 Consensus size: 17
389904 TAAATTTAAC
*
389914 TTAATTTAATATATAAAT
1 TTAAATTAATAT-TAAAT
389932 TTAAATTAATATTAAA-
1 TTAAATTAATATTAAAT
* *
389948 --ATATT-ATATT-TAT
1 TTAAATTAATATTAAAT
*
389961 TTAATTTAATAATTAAAT
1 TTAAATTAAT-ATTAAAT
389979 TTAAAT
1 TTAAAT
389985 AATTTTTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
12 1 0.03
13 5 0.12
14 4 0.10
15 3 0.08
16 2 0.05
17 7 0.17
18 18 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATTAATATTAAAT
Found at i:389946 original size:29 final size:29
Alignment explanation
Indices: 389901--389982 Score: 67
Period size: 29 Copynumber: 2.8 Consensus size: 29
389891 TTTTTATTTC
*
389901 ATTTAAATTTAA-CTTAATTTAATATATAA
1 ATTTAAA-TTAATATTAATTTAATATATAA
** * **
389930 ATTTAAATTAATATTAAAATATTATATTT
1 ATTTAAATTAATATTAATTTAATATATAA
*
389959 ATTTAATTTAATAATTAAATTTAA
1 ATTTAAATTAAT-ATT-AATTTAA
389983 ATAATTTTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
28 4 0.10
29 29 0.73
30 3 0.08
31 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (29 bp):
ATTTAAATTAATATTAATTTAATATATAA
Found at i:392446 original size:3 final size:3
Alignment explanation
Indices: 392438--392470 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
392428 TTTCTTTAAC
392438 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
392471 GTTTGACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:392880 original size:11 final size:11
Alignment explanation
Indices: 392866--392895 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
392856 AAATTAATTA
392866 AAATATAACAC
1 AAATATAACAC
*
392877 AAATATAATAC
1 AAATATAACAC
392888 AAATATAA
1 AAATATAA
392896 AAATACATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATATAACAC
Found at i:393264 original size:6 final size:6
Alignment explanation
Indices: 393253--393287 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
393243 AACATGATAT
393253 TATTAA TATTAA TATTAA TATTAA TATTAA TATTA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTA
393288 TAATTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TATTAA
Found at i:393293 original size:6 final size:6
Alignment explanation
Indices: 393284--393315 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
393274 TAATATTAAT
*
393284 ATTATA ATTATA ATTATA ATAATA ATTATA AT
1 ATTATA ATTATA ATTATA ATTATA ATTATA AT
393316 ATAGCCTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTATA
Found at i:393293 original size:12 final size:12
Alignment explanation
Indices: 393254--393315 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
393244 ACATGATATT
393254 ATTAATATTA-A
1 ATTAATATTATA
393265 TATTAATATTA-A
1 -ATTAATATTATA
393277 TATTAATATTATA
1 -ATTAATATTATA
393290 ATT-ATAATTATA
1 ATTAAT-ATTATA
393302 A-TAATAATTATA
1 ATTAAT-ATTATA
393314 AT
1 AT
393316 ATAGCCTTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.07
12 42 0.91
13 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTAATATTATA
Found at i:393299 original size:18 final size:18
Alignment explanation
Indices: 393260--393315 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
393250 TATTATTAAT
393260 ATTAATATTA-ATATTA-A
1 ATTAATATTATA-ATTATA
393277 TATTAATATTATAATTATA
1 -ATTAATATTATAATTATA
*
393296 ATT-ATAATAATAATTATA
1 ATTAAT-ATTATAATTATA
393314 AT
1 AT
393316 ATAGCCTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 2 0.06
18 30 0.88
19 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTAATATTATAATTATA
Found at i:394097 original size:6 final size:6
Alignment explanation
Indices: 394087--394141 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
394077 GTGCATATAA
* *
394087 TATATA TATATA TATATG --TATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
394133 TATATG TAT
1 TATATG TAT
394142 GTATGTATGT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
4 4 0.09
6 42 0.91
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:394103 original size:12 final size:12
Alignment explanation
Indices: 394081--394153 Score: 69
Period size: 12 Copynumber: 6.2 Consensus size: 12
394071 CACACTGTGC
*
394081 ATATAATATATAT
1 ATAT-ATATATGT
394094 ATATATATATG-
1 ATATATATATGT
*
394105 -TATGTATATGT
1 ATATATATATGT
*
394116 ATATGTATATGT
1 ATATATATATGT
*
394128 ATATGTATATGT
1 ATATATATATGT
* *
394140 ATGTATGTATGT
1 ATATATATATGT
394152 AT
1 AT
394154 GTATGTGTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.17
12 40 0.75
13 4 0.08
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (12 bp):
ATATATATATGT
Found at i:394144 original size:4 final size:4
Alignment explanation
Indices: 394135--394159 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
394125 TGTATATGTA
394135 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
394160 GTGAAAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:396389 original size:19 final size:19
Alignment explanation
Indices: 396366--396407 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
396356 ATAGTTAAAT
*
396366 TAAAAAATAGA-AATCATA
1 TAAAAAATATAGAATCATA
*
396384 TAAAAAATATAGAATTATA
1 TAAAAAATATAGAATCATA
396403 TAAAA
1 TAAAA
396408 TTAAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (19 bp):
TAAAAAATATAGAATCATA
Found at i:396659 original size:2 final size:2
Alignment explanation
Indices: 396648--396679 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
396638 ATACTATGGC
396648 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
396680 GTTTGGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:396792 original size:16 final size:16
Alignment explanation
Indices: 396773--396835 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 16
396763 CAAATATATT
396773 TTTTA-TTAATTATTTA
1 TTTTATTTAA-TATTTA
396789 TTTTATTTAATATTTA
1 TTTTATTTAATATTTA
*
396805 TTTAATTTTAA-ATTTA
1 TTTTA-TTTAATATTTA
* *
396821 -TATACTTAATATTTA
1 TTTTATTTAATATTTA
396836 AAATTTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 4 0.10
15 7 0.17
16 20 0.50
17 9 0.22
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTATTTAATATTTA
Found at i:396889 original size:104 final size:104
Alignment explanation
Indices: 396777--396989 Score: 390
Period size: 104 Copynumber: 2.0 Consensus size: 104
396767 TATATTTTTT
*
396777 ATTAATTATTTATTTTATTTAATATTTATTTAATTTTAAATTTATATACTTAATATTTAAAATTT
1 ATTAATTATTTATTTTATTTAATATTTATTTAATTTTAAAATTATATACTTAATATTTAAAATTT
*
396842 TTTAATCAAATTAAATTACTTAAATTAATTAAACTAATA
66 TTTAATCAAATTAAATTACTAAAATTAATTAAACTAATA
* *
396881 ATTAATTATTTATTTTATTTAATATTTATTTAATTTTAAAATTATATATTTAATATTTAAATTTT
1 ATTAATTATTTATTTTATTTAATATTTATTTAATTTTAAAATTATATACTTAATATTTAAAATTT
396946 TTTAATCAAATTAAATTACTAAAATTAATTAAACTAATA
66 TTTAATCAAATTAAATTACTAAAATTAATTAAACTAATA
396985 ATTAA
1 ATTAA
396990 ATTCCATACC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (104 bp):
ATTAATTATTTATTTTATTTAATATTTATTTAATTTTAAAATTATATACTTAATATTTAAAATTT
TTTAATCAAATTAAATTACTAAAATTAATTAAACTAATA
Found at i:396906 original size:16 final size:16
Alignment explanation
Indices: 396882--396939 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
396872 AAACTAATAA
396882 TTAATTATTTATTTTAT
1 TTAA-TATTTATTTTAT
*
396899 TTAATATTTATTTAATT
1 TTAATATTTATTTTA-T
* *
396916 TTAA-AATTA-TATAT
1 TTAATATTTATTTTAT
396930 TTAATATTTA
1 TTAATATTTA
396940 AATTTTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 5 0.15
15 6 0.18
16 14 0.41
17 9 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATATTTATTTTAT
Found at i:397005 original size:104 final size:103
Alignment explanation
Indices: 396793--397013 Score: 327
Period size: 104 Copynumber: 2.1 Consensus size: 103
396783 TATTTATTTT
*
396793 ATTTAATATTTATTTAATTTTAAATTTATATACTTAATATTTAAAATTTTTTAATCAAATTAAAT
1 ATTTAATATTTATTTAATTTTAAAATTATATACTTAATATTTAAAATTTTTTAATCAAATTAAAT
* * ***
396858 TACTTAAATTAATTAAACTAATAATTAATTATTTATTTT
66 TACTAAAATTAATTAAACTAATAATTAA-TATTCATCCA
* *
396897 ATTTAATATTTATTTAATTTTAAAATTATATATTTAATATTTAAATTTTTTTAATCAAATTAAAT
1 ATTTAATATTTATTTAATTTTAAAATTATATACTTAATATTTAAAATTTTTTAATCAAATTAAAT
396962 TACTAAAATTAATTAAACTAATAATTAA-ATTCCATACCA
66 TACTAAAATTAATTAAACTAATAATTAATATT-CAT-CCA
*
397001 ATTTAATTTTTAT
1 ATTTAATATTTAT
397014 GTCTTAATCT
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
102 3 0.03
103 2 0.02
104 101 0.95
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (103 bp):
ATTTAATATTTATTTAATTTTAAAATTATATACTTAATATTTAAAATTTTTTAATCAAATTAAAT
TACTAAAATTAATTAAACTAATAATTAATATTCATCCA
Found at i:397119 original size:16 final size:16
Alignment explanation
Indices: 397098--397157 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
397088 ATGATTATAT
397098 AAATATAAAATAATTA
1 AAATATAAAATAATTA
*
397114 AAATATAATAT-ATTA
1 AAATATAAAATAATTA
* *
397129 TAAAAAT-AAATAAATAA
1 -AAATATAAAAT-AATTA
*
397146 AAATATATAATA
1 AAATATAAAATA
397158 TAAATTATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
15 7 0.21
16 21 0.62
17 6 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAAATAATTA
Found at i:397130 original size:34 final size:34
Alignment explanation
Indices: 397085--397159 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
397075 TATTATATTA
* *
397085 AATATGATTATATAAATATA-AAATAATTAAA-ATAT
1 AATAT-ATTATAAAAATAAATAAATAA--AAATATAT
397120 AATATATTATAAAAATAAATAAATAAAAATATAT
1 AATATATTATAAAAATAAATAAATAAAAATATAT
397154 AATATA
1 AATATA
397160 AATTATTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
33 3 0.08
34 22 0.61
35 11 0.31
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (34 bp):
AATATATTATAAAAATAAATAAATAAAAATATAT
Found at i:397134 original size:27 final size:28
Alignment explanation
Indices: 397093--397168 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 28
397083 TAAATATGAT
*
397093 TATATAAATATAAAATAATTAAAAT-ATAA
1 TATAT-AATA-AAAATAATTAAAATAAAAA
* *
397122 TATATTATAAAAATAAAT-AAATAAAAA
1 TATATAATAAAAATAATTAAAATAAAAA
* *
397149 TATATAATATAAATTATTAA
1 TATATAATAAAAATAATTAA
397169 TTTATTAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
26 4 0.11
27 25 0.66
28 4 0.11
29 5 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
TATATAATAAAAATAATTAAAATAAAAA
Found at i:397138 original size:32 final size:32
Alignment explanation
Indices: 397085--397201 Score: 89
Period size: 31 Copynumber: 3.6 Consensus size: 32
397075 TATTATATTA
397085 AATATGATTATATAAATATAAAATAATTAAAATAT
1 AATAT-ATTATA-AAA-ATAAAATAATTAAAATAT
*
397120 AATATATTATAAAAAT-AAATAAATAAAA-AT
1 AATATATTATAAAAATAAAATAATTAAAATAT
* * * * *
397150 -ATATAATATAAATTATTAATTTATTAAAAATAT
1 AATATATTATAAA-AATAAAATAATT-AAAATAT
* *
397183 AA-AAATTATAATAATAAAA
1 AATATATTATAAAAATAAAA
397202 AAAATAATAT
Statistics
Matches: 65, Mismatches: 12, Indels: 13
0.72 0.13 0.14
Matches are distributed among these distances:
29 11 0.17
30 4 0.06
31 16 0.25
32 10 0.15
33 12 0.18
34 7 0.11
35 5 0.08
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (32 bp):
AATATATTATAAAAATAAAATAATTAAAATAT
Found at i:397176 original size:62 final size:59
Alignment explanation
Indices: 397084--397213 Score: 145
Period size: 62 Copynumber: 2.1 Consensus size: 59
397074 TTATTATATT
* *
397084 AAATATGATTATATAAATATAAAATAATT-AAAATATAATATATTATAAAAATAAATAAATAA
1 AAATAT-ATAATATAAATATAAAATAATTAAAAATATAA-AAATTATAAAAATAAA-AAA-AA
* * * *
397146 AAATATATAATATAAATTATTAATTTATTAAAAATATAAAAATTATAATAATAAAAAAAA
1 AAATATATAATATAAA-TATAAAATAATTAAAAATATAAAAATTATAAAAATAAAAAAAA
*
397206 TAATATAT
1 AAATATAT
397214 TGAAATTGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
60 9 0.15
61 12 0.20
62 29 0.49
63 9 0.15
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (59 bp):
AAATATATAATATAAATATAAAATAATTAAAAATATAAAAATTATAAAAATAAAAAAAA
Found at i:399412 original size:16 final size:14
Alignment explanation
Indices: 399389--399429 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 14
399379 TTTTAAGTTT
399389 ATTTATATTTTTAAA
1 ATTTATATTTTT-AA
*
399404 ATATTATATTTTTAT
1 AT-TTATATTTTTAA
399419 ATTTATATTTT
1 ATTTATATTTT
399430 CAGATATGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 9 0.38
15 5 0.21
16 10 0.42
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTATATTTTTAA
Found at i:402564 original size:15 final size:14
Alignment explanation
Indices: 402534--402582 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
402524 AAAATATAAC
*
402534 ATAACATAAA-TAT
1 ATAATATAAATTAT
*
402547 ATAATTTAAAATTAT
1 ATAATAT-AAATTAT
402562 ATAATATAAATTAT
1 ATAATATAAATTAT
402576 -TAATATA
1 ATAATATA
402583 TTAAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 12 0.39
14 10 0.32
15 9 0.29
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATATAAATTAT
Found at i:404457 original size:11 final size:11
Alignment explanation
Indices: 404441--404466 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
404431 TGTTAATTTA
404441 ATAATTTAATT
1 ATAATTTAATT
404452 ATAATTTAATT
1 ATAATTTAATT
404463 ATAA
1 ATAA
404467 AGTAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATAATTTAATT
Found at i:405762 original size:20 final size:19
Alignment explanation
Indices: 405737--405779 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
405727 TATATTAAAC
405737 ATATTTAATTTTATTATATT
1 ATATTTAATTTTATTAT-TT
*
405757 ATATTTATTTTTATTATTT
1 ATATTTAATTTTATTATTT
405776 ATAT
1 ATAT
405780 ATATATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATATTTAATTTTATTATTT
Found at i:405776 original size:13 final size:14
Alignment explanation
Indices: 405756--405797 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
405746 TTTATTATAT
405756 TATATTTATTTTTA
1 TATATTTATTTTTA
* *
405770 T-TATTTATATATA
1 TATATTTATTTTTA
405783 TATATTATATTTTTA
1 TATATT-TATTTTTA
405798 CATCATGTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 11 0.50
14 5 0.23
15 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATATTTATTTTTA
Found at i:407062 original size:9 final size:9
Alignment explanation
Indices: 407048--407087 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
407038 ATATATATAT
407048 ATTAAATAA
1 ATTAAATAA
407057 ATTAAA-AA
1 ATTAAATAA
407065 ATT-AATCAA
1 ATTAAAT-AA
407074 ATTAAATAA
1 ATTAAATAA
407083 ATTAA
1 ATTAA
407088 TCAAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 2 0.07
8 5 0.18
9 18 0.64
10 3 0.11
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (9 bp):
ATTAAATAA
Found at i:407086 original size:18 final size:17
Alignment explanation
Indices: 407055--407092 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
407045 TATATTAAAT
407055 AAATTAAAAAATTAATC
1 AAATTAAAAAATTAATC
407072 AAATTAAATAAATTAATC
1 AAATTAAA-AAATTAATC
407090 AAA
1 AAA
407093 AAATTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATTAAAAAATTAATC
Found at i:407102 original size:18 final size:18
Alignment explanation
Indices: 407062--407106 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
407052 AATAAATTAA
407062 AAAATTAATCAAATTAAAT
1 AAAATTAATCAAA-TAAAT
407081 -AAATTAATCAAA-AAATT
1 AAAATTAATCAAATAAA-T
407098 AAAATTAAT
1 AAAATTAAT
407107 TTAAATCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 1 0.04
18 20 0.83
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATTAATCAAATAAAT
Found at i:407418 original size:10 final size:9
Alignment explanation
Indices: 407294--407420 Score: 59
Period size: 9 Copynumber: 14.2 Consensus size: 9
407284 ATCAATTTAA
407294 AAATTAA-T
1 AAATTAATT
*
407302 -AATAAATT
1 AAATTAATT
*
407310 AAACTAATT
1 AAATTAATT
*
407319 AAATAAATT
1 AAATTAATT
* * *
407328 GAATCAAAT
1 AAATTAATT
407337 AAATTAATT
1 AAATTAATT
*
407346 AATTTAA--
1 AAATTAATT
*
407353 AAATTGATT
1 AAATTAATT
* *
407362 AAATCAAAAT
1 AAAT-TAATT
*
407372 AAATCAATT
1 AAATTAATT
407381 AAATT--TT
1 AAATTAATT
407388 ATCAATATAATT
1 A--AAT-TAATT
*
407400 AAATCAATT
1 AAATTAATT
407409 CAAATTAATT
1 -AAATTAATT
407419 AA
1 AA
407421 TGTTGACTTT
Statistics
Matches: 86, Mismatches: 22, Indels: 21
0.67 0.17 0.16
Matches are distributed among these distances:
7 13 0.15
8 1 0.01
9 51 0.59
10 18 0.21
12 3 0.03
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.36
Consensus pattern (9 bp):
AAATTAATT
Found at i:409335 original size:14 final size:15
Alignment explanation
Indices: 409292--409335 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
409282 AATGAATTAA
*
409292 AAATAAATAAATACAT
1 AAAT-AATAAATATAT
409308 AAATAATAAA-ATAT
1 AAATAATAAATATAT
409322 AAAT-ATAAATATAT
1 AAATAATAAATATAT
409336 GTTATTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 5 0.19
14 11 0.42
15 6 0.23
16 4 0.15
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATAATAAATATAT
Found at i:410067 original size:3 final size:3
Alignment explanation
Indices: 410061--410089 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
410051 TTTTTAACTC
410061 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
410090 AAATTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:410136 original size:17 final size:17
Alignment explanation
Indices: 410116--410157 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
410106 TATTTTTATC
*
410116 ATTTAAAT-ATTATTTTT
1 ATTTAAATAATT-TTTGT
410133 ATTTAAATAATTTTTGT
1 ATTTAAATAATTTTTGT
410150 ATTTAAAT
1 ATTTAAAT
410158 TTAAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
ATTTAAATAATTTTTGT
Found at i:410910 original size:27 final size:26
Alignment explanation
Indices: 410873--410935 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
410863 CTTCATTTAA
*
410873 AAATATATATTATCAAAATTATTATAT
1 AAATATTTATT-TCAAAATTATTATAT
***
410900 AAATATTTATTTTTTAATTATTATAT
1 AAATATTTATTTCAAAATTATTATAT
410926 ATAATATTTA
1 A-AATATTTA
410936 ATATTAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 13 0.42
27 18 0.58
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
AAATATTTATTTCAAAATTATTATAT
Found at i:410942 original size:26 final size:26
Alignment explanation
Indices: 410889--410950 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
410879 ATATTATCAA
* *
410889 AATTATTATATAAATATTTATTTTTT
1 AATTATTATATAAATATTTATATATT
410915 AATTATTATATATAATATTTA-ATATT
1 AATTATTATATA-AATATTTATATATT
410941 AATTAATTAT
1 AATT-ATTAT
410951 TTTAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
AATTATTATATAAATATTTATATATT
Found at i:411144 original size:13 final size:13
Alignment explanation
Indices: 411114--411188 Score: 64
Period size: 13 Copynumber: 5.6 Consensus size: 13
411104 TGGTTTAATT
411114 AATTTAATTGATTA
1 AATTTAATT-ATTA
*
411128 AATTTAATTATTT
1 AATTTAATTATTA
* *
411141 AATTAAATAATTA
1 AATTTAATTATTA
*
411154 AATATTAACTATT-
1 AAT-TTAATTATTA
411167 AATTATAA-TATTA
1 AATT-TAATTATTA
411180 AATATTAAT
1 AAT-TTAAT
411189 AAAAAATATA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
12 5 0.10
13 28 0.57
14 16 0.33
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (13 bp):
AATTTAATTATTA
Found at i:411153 original size:26 final size:26
Alignment explanation
Indices: 411111--411188 Score: 90
Period size: 26 Copynumber: 3.0 Consensus size: 26
411101 TATTGGTTTA
411111 ATTAATT-TAATTGATTAAAT-TTAATT
1 ATTAATTATAA-T-ATTAAATATTAATT
*
411137 ATTTAATTA-AATAATTAAATATTAACT
1 A-TTAATTATAAT-ATTAAATATTAATT
411164 ATTAATTATAATATTAAATATTAAT
1 ATTAATTATAATATTAAATATTAAT
411189 AAAAAATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
26 28 0.62
27 17 0.38
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
ATTAATTATAATATTAAATATTAATT
Found at i:411166 original size:7 final size:7
Alignment explanation
Indices: 411142--411187 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
411132 TAATTATTTA
411142 ATTAAAT
1 ATTAAAT
411149 AATTAAAT
1 -ATTAAAT
*
411157 ATTAACT
1 ATTAAAT
*
411164 ATTAATT
1 ATTAAAT
411171 A-T-AAT
1 ATTAAAT
411176 ATTAAAT
1 ATTAAAT
411183 ATTAA
1 ATTAA
411188 TAAAAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 21 0.64
8 7 0.21
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (7 bp):
ATTAAAT
Found at i:411176 original size:19 final size:18
Alignment explanation
Indices: 411148--411188 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
411138 TTTAATTAAA
*
411148 TAATTAAATATTAACTAT
1 TAATTAAATATTAAATAT
411166 TAATTATAATATTAAATAT
1 TAATTA-AATATTAAATAT
411185 TAAT
1 TAAT
411189 AAAAAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATTAAATATTAAATAT
Found at i:411782 original size:30 final size:30
Alignment explanation
Indices: 411748--411810 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
411738 ATTAAGAGTG
* *
411748 TATTTGAATAAAAATTAAATATTAAAAATT
1 TATTTAAACAAAAATTAAATATTAAAAATT
* *
411778 TATTTAAACATAAATTAAATGTTAAAAATT
1 TATTTAAACAAAAATTAAATATTAAAAATT
411808 TAT
1 TAT
411811 GTGAGTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (30 bp):
TATTTAAACAAAAATTAAATATTAAAAATT
Found at i:411862 original size:27 final size:28
Alignment explanation
Indices: 411831--411885 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
411821 ATAAAAAGTG
*
411831 TAAAT-AAAAGATAAAAAAATATTTAAA
1 TAAATAAAAACATAAAAAAATATTTAAA
**
411858 TAAATAAAAACATAAAAATCTATTTAAA
1 TAAATAAAAACATAAAAAAATATTTAAA
411886 AATGATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (28 bp):
TAAATAAAAACATAAAAAAATATTTAAA
Found at i:412721 original size:2 final size:2
Alignment explanation
Indices: 412681--412706 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
412671 TAAATTAGAA
412681 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
412707 GAAAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:416255 original size:2 final size:2
Alignment explanation
Indices: 416248--416296 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
416238 AACCATATCC
*
416248 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
416290 TA TA TA T
1 TA TA TA T
416297 GAAAAACTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:416681 original size:2 final size:2
Alignment explanation
Indices: 416674--416714 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
416664 TATATTCTAC
416674 TA TA TA TA TA TA TA 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 TA TA TA T
416715 TTTCAATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:417895 original size:19 final size:19
Alignment explanation
Indices: 417853--417897 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
417843 TGTTTGATTG
*
417853 AATTTTGCCACTAAATTTT
1 AATTTTGCCACTAAACTTT
* * *
417872 GATTTTGCTACTCAACTTT
1 AATTTTGCCACTAAACTTT
417891 AATTTTG
1 AATTTTG
417898 AATGATTTGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.49
Consensus pattern (19 bp):
AATTTTGCCACTAAACTTT
Found at i:418113 original size:16 final size:15
Alignment explanation
Indices: 418085--418124 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
418075 AATTCCTACG
*
418085 TTAATTT-TTTATTT
1 TTAATTTATTTATTA
418099 TTAATATTATTTATTA
1 TTAAT-TTATTTATTA
418115 TTAATTTATT
1 TTAATTTATT
418125 GTTGTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 7 0.30
16 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTAATTTATTTATTA
Found at i:418367 original size:14 final size:14
Alignment explanation
Indices: 418348--418398 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
418338 AATATCAATG
418348 ATAATATTTTTAAA
1 ATAATATTTTTAAA
418362 ATAATA---TTAAA
1 ATAATATTTTTAAA
* *
418373 A-ATTATTTTTATA
1 ATAATATTTTTAAA
418386 ATAATATTTTTAA
1 ATAATATTTTTAA
418399 TTAAAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
10 3 0.10
11 6 0.21
13 5 0.17
14 15 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATAATATTTTTAAA
Found at i:420842 original size:6 final size:7
Alignment explanation
Indices: 420825--420850 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
420815 TTTCAGTTTA
420825 AAAAAAT
1 AAAAAAT
420832 AAAAAAT
1 AAAAAAT
420839 AAAAAAT
1 AAAAAAT
420846 AAAAA
1 AAAAA
420851 CAATGGCGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:432372 original size:20 final size:20
Alignment explanation
Indices: 432344--432389 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
432334 ATGTTAAAAT
*
432344 TTTAATAAAAATATGATATA
1 TTTATTAAAAATATGATATA
* * *
432364 TTTATTAAATATATTATATT
1 TTTATTAAAAATATGATATA
432384 TTTATT
1 TTTATT
432390 TTATATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTATTAAAAATATGATATA
Found at i:432449 original size:3 final size:3
Alignment explanation
Indices: 432437--432466 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
432427 TATTTTTACG
432437 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
432467 TTAAATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:432766 original size:12 final size:12
Alignment explanation
Indices: 432742--432785 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
432732 TTGTATTATG
*
432742 TTTATTTTATTT
1 TTTATATTATTT
*
432754 TTTATATT-GTT
1 TTTATATTATTT
432765 TTTA-ATTATTT
1 TTTATATTATTT
432776 TTTATATTAT
1 TTTATATTAT
432786 GTTCATATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 3 0.11
11 12 0.44
12 12 0.44
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:432776 original size:10 final size:11
Alignment explanation
Indices: 432735--432785 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
432725 TGTATATTTG
*
432735 TATTATGTTTA
1 TATTATTTTTA
*
432746 TTTTATTTTTTA
1 TATTA-TTTTTA
*
432758 TATTGTTTTTA
1 TATTATTTTTA
432769 -ATTATTTTTTA
1 TATTA-TTTTTA
432780 TATTAT
1 TATTAT
432786 GTTCATATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
10 3 0.09
11 17 0.53
12 12 0.38
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:437645 original size:14 final size:14
Alignment explanation
Indices: 437626--437652 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
437616 TCTTTTTGAA
437626 AAACTACTCAAATC
1 AAACTACTCAAATC
437640 AAACTACTCAAAT
1 AAACTACTCAAAT
437653 AAAGGTAGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACTACTCAAATC
Found at i:438585 original size:21 final size:21
Alignment explanation
Indices: 438556--438595 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
438546 TGTATGTTGT
*
438556 TATATTTTTAAATTAAAATAA
1 TATAATTTTAAATTAAAATAA
* *
438577 TATAATTTTTAATTTAAAT
1 TATAATTTTAAATTAAAAT
438596 TTAATTATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATAATTTTAAATTAAAATAA
Found at i:440336 original size:21 final size:21
Alignment explanation
Indices: 440297--440336 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
440287 TTGTCACATA
* **
440297 TTTTATTTTATTTTTAAATTT
1 TTTTATTATATTTAAAAATTT
440318 TTTTATTATATTTAAAAAT
1 TTTTATTATATTTAAAAAT
440337 ATATATCGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTATTATATTTAAAAATTT
Found at i:440992 original size:4 final size:4
Alignment explanation
Indices: 440983--441016 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
440973 TTCACATTAT
440983 ATAA ATAA ATAA ATAA ATAA ATAA TATAA TATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA -ATAA -ATAA
441017 TATATAAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 20 0.69
5 9 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAA
Found at i:441000 original size:12 final size:13
Alignment explanation
Indices: 440981--441024 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
440971 CATTCACATT
440981 ATATAAATAAATA
1 ATATAAATAAATA
440994 A-ATAAATAAATA
1 ATATAAATAAATA
441006 ATAT-AATATAAT-
1 ATATAAATA-AATA
441018 ATATAAA
1 ATATAAA
441025 GCTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 20 0.71
13 8 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATAAATAAATA
Found at i:442280 original size:30 final size:29
Alignment explanation
Indices: 442245--442335 Score: 112
Period size: 30 Copynumber: 3.1 Consensus size: 29
442235 AAATTAATTT
* *
442245 ATATTAAAGATCTATTTAAATATAAATAAA
1 ATATTAAAG-TTTATTTAAGTATAAATAAA
*
442275 ATATTAAAGTTTATTTAAGTAAAAATTAAA
1 ATATTAAAGTTTATTTAAGTATAAA-TAAA
* *
442305 AAATAAAAGTTTATTTAAGTATAAA-AAA
1 ATATTAAAGTTTATTTAAGTATAAATAAA
442333 ATA
1 ATA
442336 AGGATTTAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 5 0.09
29 13 0.25
30 35 0.66
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.36
Consensus pattern (29 bp):
ATATTAAAGTTTATTTAAGTATAAATAAA
Found at i:443072 original size:21 final size:21
Alignment explanation
Indices: 443046--443108 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
443036 GACGAAGGGG
443046 AATTTTTCCTTTTAAAGACTT
1 AATTTTTCCTTTTAAAGACTT
*
443067 AATTTTTCGTTTT----A-TT
1 AATTTTTCCTTTTAAAGACTT
* *
443083 CATATTTCCTTTTAAAGACTT
1 AATTTTTCCTTTTAAAGACTT
443104 AATTT
1 AATTT
443109 GATCCCCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
16 12 0.39
17 1 0.03
20 1 0.03
21 17 0.55
ACGTcount: A:0.27, C:0.13, G:0.05, T:0.56
Consensus pattern (21 bp):
AATTTTTCCTTTTAAAGACTT
Found at i:445460 original size:20 final size:22
Alignment explanation
Indices: 445435--445485 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
445425 TGCTTGGAAA
445435 ATATTAAATA-GTTTATA-TTT
1 ATATTAAATATGTTTATATTTT
*
445455 ATATT-AATATTTTTATATTTT
1 ATATTAAATATGTTTATATTTT
445476 ATAATTAAAT
1 AT-ATTAAAT
445486 TTAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.15
20 11 0.42
21 5 0.19
22 3 0.12
23 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATATTAAATATGTTTATATTTT
Found at i:446157 original size:12 final size:12
Alignment explanation
Indices: 446128--446210 Score: 53
Period size: 12 Copynumber: 6.8 Consensus size: 12
446118 TTATATAATT
* *
446128 TAATTTGAATTA
1 TAATTTAAATAA
*
446140 TTATTTAAATAA
1 TAATTTAAATAA
446152 TAATTTTAAA-AA
1 TAA-TTTAAATAA
*
446164 TAATTATAAAAAA
1 TAATT-TAAATAA
**
446177 TAATTTTTA-AA
1 TAATTTAAATAA
*
446188 TTATTATAAATAA
1 TAATT-TAAATAA
*
446201 TAATATAAAT
1 TAATTTAAAT
446211 TTTTGAATCG
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
11 8 0.15
12 29 0.53
13 18 0.33
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (12 bp):
TAATTTAAATAA
Found at i:446161 original size:13 final size:13
Alignment explanation
Indices: 446143--446204 Score: 60
Period size: 12 Copynumber: 5.0 Consensus size: 13
446133 TGAATTATTA
446143 TTTAAATAATAAT
1 TTTAAATAATAAT
446156 TTTAAA-AATAAT
1 TTTAAATAATAAT
* *
446168 TATAAAAAATAATT
1 TTTAAATAATAA-T
446182 TTTAAAT--T-AT
1 TTTAAATAATAAT
*
446192 TATAAATAATAAT
1 TTTAAATAATAAT
446205 ATAAATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
10 7 0.17
11 1 0.03
12 13 0.32
13 13 0.32
14 6 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAATAATAAT
Found at i:446193 original size:24 final size:25
Alignment explanation
Indices: 446139--446204 Score: 91
Period size: 24 Copynumber: 2.7 Consensus size: 25
446129 AATTTGAATT
446139 ATTATT-TAAATAATAATTTTAAAA
1 ATTATTATAAATAATAATTTTAAAA
* * *
446163 ATAATTATAAAAAATAATTTT-TAA
1 ATTATTATAAATAATAATTTTAAAA
446187 ATTATTATAAATAATAAT
1 ATTATTATAAATAATAAT
446205 ATAAATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
24 23 0.64
25 13 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTATTATAAATAATAATTTTAAAA
Found at i:453636 original size:37 final size:37
Alignment explanation
Indices: 453586--453656 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
453576 CCCAAGTCTT
453586 CTTAATACCATAAATGCATATATATATATATATAAGA
1 CTTAATACCATAAATGCATATATATATATATATAAGA
453623 CTTAATACCATAAATGCATATATATATATATATA
1 CTTAATACCATAAATGCATATATATATATATATA
453657 TATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (37 bp):
CTTAATACCATAAATGCATATATATATATATATAAGA
Found at i:453647 original size:2 final size:2
Alignment explanation
Indices: 453640--453668 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
453630 CCATAAATGC
453640 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
453669 GGTTAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:455608 original size:2 final size:2
Alignment explanation
Indices: 455601--455625 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
455591 CGGAACTAGA
455601 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
455626 ATGTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:457553 original size:24 final size:22
Alignment explanation
Indices: 457526--457570 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
457516 GAAGATTTAT
457526 AAGAAAAATGGAATCTCCAATAAC
1 AAGAAAAAT-GAATC-CCAATAAC
*
457550 AAGAACAATGAATCCCAATAA
1 AAGAAAAATGAATCCCAATAA
457571 GAATTGCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 5 0.25
24 8 0.40
ACGTcount: A:0.56, C:0.18, G:0.11, T:0.16
Consensus pattern (22 bp):
AAGAAAAATGAATCCCAATAAC
Found at i:458424 original size:19 final size:18
Alignment explanation
Indices: 458379--458425 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
458369 CAATATAAAT
*
458379 TTTTATTAATTTTTACTA
1 TTTTATTAATTTTTACGA
*
458397 TTTAAATTAATTTTATACGA
1 TTT-TATTAATTTT-TACGA
458417 TTTTATTAA
1 TTTTATTAA
458426 ACAATGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 3 0.12
19 14 0.58
20 7 0.29
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTATTAATTTTTACGA
Found at i:466515 original size:21 final size:19
Alignment explanation
Indices: 466475--466515 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
466465 TCAAAAAAAT
*
466475 AAATATAAAAATATTTTTA
1 AAATATAAAAATATTATTA
466494 AAATATAATAAATTATTATTA
1 AAATATAA-AAA-TATTATTA
466515 A
1 A
466516 TTAAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 3 0.16
21 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATATAAAAATATTATTA
Found at i:466763 original size:16 final size:17
Alignment explanation
Indices: 466737--466769 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
466727 TAAATTGATA
466737 TAAATATTATTTTATTT
1 TAAATATTATTTTATTT
466754 TAAA-ATTATTTTATTT
1 TAAATATTATTTTATTT
466770 CTCAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TAAATATTATTTTATTT
Found at i:467167 original size:24 final size:24
Alignment explanation
Indices: 467134--467186 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
467124 TAGATATAAA
* *
467134 TATATTTATTTTTTAAAAAT-TTTT
1 TATATATA-TTTTAAAAAATATTTT
467158 TATATATATTTTAAAAAATATTTT
1 TATATATATTTTAAAAAATATTTT
467182 TATAT
1 TATAT
467187 TTATATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATATATTTTAAAAAATATTTT
Found at i:467198 original size:22 final size:22
Alignment explanation
Indices: 467131--467200 Score: 58
Period size: 24 Copynumber: 3.3 Consensus size: 22
467121 TATTAGATAT
*
467131 AAATATATTTAT-TTT-T-TAA
1 AAATATTTTTATATTTATATAA
* *
467150 AAAT-TTTTTATATATATTTTAAA
1 AAATATTTTTATATTTA-TAT-AA
*
467173 AAATATTTTTATATTTATATAT
1 AAATATTTTTATATTTATATAA
467195 AAATAT
1 AAATAT
467201 ATATCTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
18 6 0.15
19 6 0.15
21 1 0.03
22 8 0.20
23 8 0.20
24 11 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AAATATTTTTATATTTATATAA
Found at i:468499 original size:20 final size:20
Alignment explanation
Indices: 468474--468511 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
468464 TAAGTAAGAG
468474 CTAAGAACTGTTTCACAGAA
1 CTAAGAACTGTTTCACAGAA
468494 CTAAGAACTGTTTCACAG
1 CTAAGAACTGTTTCACAG
468512 CCAAAGGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (20 bp):
CTAAGAACTGTTTCACAGAA
Found at i:469031 original size:13 final size:13
Alignment explanation
Indices: 469005--469038 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
468995 TTTATAAGAT
*
469005 TATAAATATCAAA
1 TATAAATATAAAA
*
469018 TATGAATATAAAA
1 TATAAATATAAAA
469031 TATAAATA
1 TATAAATA
469039 CTTTAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (13 bp):
TATAAATATAAAA
Found at i:471441 original size:6 final size:6
Alignment explanation
Indices: 471430--471472 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
471420 TCTTTTGATG
* * *
471430 TGTATA TGTATA TGCATA TGTATA TGTATA TATATA TATATA T
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA T
471473 ATTATTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (6 bp):
TGTATA
Found at i:471926 original size:16 final size:15
Alignment explanation
Indices: 471905--471963 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 15
471895 TAACATTAAA
*
471905 AATTTAAAATTATTTT
1 AATTTAAAATTA-ATT
471921 AATTT-AAATTAATT
1 AATTTAAAATTAATT
*
471935 AATTT--AATTAATA
1 AATTTAAAATTAATT
471948 AATTATATAAATTAAT
1 AATT-TA-AAATTAAT
471964 AATCATAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
13 11 0.30
14 8 0.22
15 6 0.16
16 5 0.14
17 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTTAAAATTAATT
Found at i:472142 original size:5 final size:5
Alignment explanation
Indices: 472132--472210 Score: 54
Period size: 5 Copynumber: 15.4 Consensus size: 5
472122 TCATTTAATA
* * * * *
472132 AATTT AATTT ATATTA AATTA AATTA AATTA AATTA AATTT ATATTT ATATTTT
1 AATTT AATTT A-ATTT AATTT AATTT AATTT AATTT AATTT A-ATTT A-A-TTT
*
472186 AA--T AATTT AAATT AATTT AATTT AA
1 AATTT AATTT AATTT AATTT AATTT AA
472211 ATTATTATTT
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
3 3 0.05
5 46 0.71
6 12 0.18
7 4 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (5 bp):
AATTT
Found at i:472203 original size:10 final size:10
Alignment explanation
Indices: 472130--472210 Score: 65
Period size: 10 Copynumber: 7.8 Consensus size: 10
472120 ACTCATTTAA
472130 TAAATTTAATT
1 TAAA-TTAATT
* *
472141 TATATTAAAT
1 TAAATTAATT
*
472151 TAAATTAAAT
1 TAAATTAATT
472161 TAAATTAAATT
1 TAAATT-AATT
*
472172 TATATTTATATT
1 TA-AATTA-ATT
*
472184 TTAA-TAATT
1 TAAATTAATT
472193 TAAATTAATT
1 TAAATTAATT
*
472203 TAATTTAA
1 TAAATTAA
472211 ATTATTATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
9 6 0.11
10 34 0.60
11 10 0.18
12 7 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TAAATTAATT
Found at i:472206 original size:15 final size:15
Alignment explanation
Indices: 472130--472214 Score: 68
Period size: 15 Copynumber: 5.5 Consensus size: 15
472120 ACTCATTTAA
472130 TAAATTTAATTT-ATAT
1 TAAA-TTAATTTAAT-T
* *
472146 TAAATTAAATTAAAT
1 TAAATTAATTTAATT
472161 TAAATTAAATTTATATT
1 TAAATT-AATTTA-ATT
*
472178 TATATT--TTAATAATT
1 TAAATTAATT--TAATT
472193 TAAATTAATTTAATT
1 TAAATTAATTTAATT
472208 TAAATTA
1 TAAATTA
472215 TTATTTATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
14 2 0.04
15 33 0.59
16 12 0.21
17 9 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAAATTAATTTAATT
Found at i:472459 original size:28 final size:26
Alignment explanation
Indices: 472426--472489 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 26
472416 ATATAAAAAA
* *
472426 TTTAAATTTAATTTAATTAATTTATAT
1 TTTAAATTTAA-TTAATAAATTTAAAT
**
472453 TATTAAAAAATAATTAATAAATTTAAAT
1 T-TT-AAATTTAATTAATAAATTTAAAT
472481 TTTAAATTT
1 TTTAAATTT
472490 TAATATTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 4 0.14
27 3 0.10
28 16 0.55
29 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTAAATTTAATTAATAAATTTAAAT
Found at i:472781 original size:20 final size:20
Alignment explanation
Indices: 472748--472787 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
472738 ATTTTTTATT
472748 TAAATTTAATTATAAAAATA
1 TAAATTTAATTATAAAAATA
472768 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
472788 ATATTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAATTTAATTATAAAAATA
Found at i:473109 original size:22 final size:22
Alignment explanation
Indices: 473062--473109 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
473052 CAAATTAAAT
* *
473062 AAATTTTAATTATTTATATTTT
1 AAATTTTAATTATTTATAATTC
* *
473084 AAATTTTATTTTTTTATAATTC
1 AAATTTTAATTATTTATAATTC
473106 AAAT
1 AAAT
473110 AAATATAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
AAATTTTAATTATTTATAATTC
Found at i:473276 original size:28 final size:28
Alignment explanation
Indices: 473218--473281 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
473208 AAAAAATAAA
* *
473218 AATTATATTTTATATATTTTAAGTAATTT
1 AATTA-ATTTTATATAATTAAAGTAATTT
*
473247 AATTAATTTTATATAATTAAATTGAA-TT
1 AATTAATTTTATATAATTAAAGT-AATTT
473275 AATTAAT
1 AATTAAT
473282 AATTAATCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 24 0.77
29 7 0.23
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (28 bp):
AATTAATTTTATATAATTAAAGTAATTT
Done.