Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 34 of 173
Found at i:9022726 original size:25 final size:25
Alignment explanation
Indices: 9022664--9022726 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 25
9022654 TATTTTATTT
* * *
9022664 TTTTTATAATTCACATACATATATA
1 TTTTTATATTTTATATACATATATA
* *
9022689 -TTTT-TCTTATATATACATATATA
1 TTTTTATATTTTATATACATATATA
9022712 TTTTTATATTTTATA
1 TTTTTATATTTTATA
9022727 ATTTTTATCT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
23 14 0.48
24 8 0.28
25 7 0.24
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTTTATATTTTATATACATATATA
Found at i:9027165 original size:20 final size:20
Alignment explanation
Indices: 9027140--9027182 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
9027130 CTTCGTGGAT
9027140 ATTTGCACGATTTTTATGAA
1 ATTTGCACGATTTTTATGAA
* *
9027160 ATTTGCATGGTTTTTATGAA
1 ATTTGCACGATTTTTATGAA
9027180 ATT
1 ATT
9027183 AAAATAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.49
Consensus pattern (20 bp):
ATTTGCACGATTTTTATGAA
Found at i:9027261 original size:13 final size:12
Alignment explanation
Indices: 9027229--9027262 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
9027219 AAGCCAATAG
9027229 TTTTAAAATATT
1 TTTTAAAATATT
9027241 TTTTAAAATATT
1 TTTTAAAATATT
9027253 TTTTCAAAAT
1 TTTT-AAAAT
9027263 TCTGAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTAAAATATT
Found at i:9033059 original size:27 final size:27
Alignment explanation
Indices: 9033019--9033081 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
9033009 TTTAAAATAC
* *
9033019 TTTTAAAATAAATTTTTTATTTTTTTAT
1 TTTTAAAATAAATTTTTTA-ATGTTTAT
9033047 TTTTAAAAT-AATTTTTTAATGTTTAT
1 TTTTAAAATAAATTTTTTAATGTTTAT
*
9033073 TTTAAAAAT
1 TTTTAAAAT
9033082 GGGTCGGGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 14 0.44
27 9 0.28
28 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTAAAATAAATTTTTTAATGTTTAT
Found at i:9043373 original size:45 final size:44
Alignment explanation
Indices: 9043248--9043383 Score: 150
Period size: 43 Copynumber: 3.1 Consensus size: 44
9043238 GTGGTCGAAG
* *
9043248 CCACCAATATTTGCAGACAAGA-TGCCATGTAGATTGAGGATAAA
1 CCACCAATATTCGCAGACAA-ACTGCCATGTAGATTGTGGATAAA
* * *
9043292 CCACCAA-ATTCACAGACAAACTGCCATGTAAATTGTGGACAAA
1 CCACCAATATTCGCAGACAAACTGCCATGTAGATTGTGGATAAA
* * * * *
9043335 GCCACCAATATTCGCAGACGATCTTCCGTGTAGGTTGTGGATAAA
1 -CCACCAATATTCGCAGACAAACTGCCATGTAGATTGTGGATAAA
9043380 CCAC
1 CCAC
9043384 AAATTTTGTA
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
42 1 0.01
43 29 0.38
44 18 0.24
45 28 0.37
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (44 bp):
CCACCAATATTCGCAGACAAACTGCCATGTAGATTGTGGATAAA
Found at i:9044977 original size:11 final size:11
Alignment explanation
Indices: 9044963--9044988 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9044953 TTAAAAATAA
9044963 AAAAGTATTTT
1 AAAAGTATTTT
9044974 AAAAGTATTTT
1 AAAAGTATTTT
9044985 AAAA
1 AAAA
9044989 TAAAATATAT
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:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:9046567 original size:19 final size:18
Alignment explanation
Indices: 9046540--9046613 Score: 82
Period size: 17 Copynumber: 4.2 Consensus size: 18
9046530 TTTTTAGTTC
9046540 TTTTATTT-TTTTATAAA
1 TTTTATTTATTTTATAAA
*
9046557 TTTTAGTTT-TTTTATATA
1 TTTTA-TTTATTTTATAAA
*
9046575 -TTTATATATTTTATAATA
1 TTTTATTTATTTTATAA-A
*
9046593 TTTTATTTATTTTGTAAA
1 TTTTATTTATTTTATAAA
9046611 TTT
1 TTT
9046614 GTAAATTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.04
17 16 0.33
18 16 0.33
19 14 0.29
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTATTTATTTTATAAA
Found at i:9046569 original size:26 final size:26
Alignment explanation
Indices: 9046531--9046613 Score: 78
Period size: 26 Copynumber: 3.1 Consensus size: 26
9046521 TAAACGTGTT
*
9046531 TTTTAGTTCTTTTATTTTTTTATAAA
1 TTTTAGTTATTTTATTTTTTTATAAA
* * * *
9046557 TTTTAGTTTTTTTATATATTTATATA
1 TTTTAGTTATTTTATTTTTTTATAAA
*
9046583 TTTTA-TAATATTTTATTTATTTTGTAAA
1 TTTTAGT--TATTTTATTT-TTTTATAAA
9046611 TTT
1 TTT
9046614 GTAAATTATA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
25 1 0.02
26 27 0.60
27 8 0.18
28 9 0.20
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.69
Consensus pattern (26 bp):
TTTTAGTTATTTTATTTTTTTATAAA
Found at i:9046593 original size:10 final size:9
Alignment explanation
Indices: 9046548--9046647 Score: 61
Period size: 9 Copynumber: 11.6 Consensus size: 9
9046538 TCTTTTATTT
*
9046548 TTTTATAAA
1 TTTTATATA
*
9046557 TTTTAGT-TT
1 TTTTA-TATA
9046566 TTTTATATA
1 TTTTATATA
9046575 -TTTATATA
1 TTTTATATA
9046583 TTTTATAATA
1 TTTTAT-ATA
*
9046593 TTTTATTTA
1 TTTTATATA
* *
9046602 TTTTGTAAA
1 TTTTATATA
9046611 TTTGTA-A-A
1 TTT-TATATA
*
9046619 TTATATAT-
1 TTTTATATA
*
9046627 TTTTAGATA
1 TTTTATATA
9046636 TTTT-T-TA
1 TTTTATATA
9046643 TTTTA
1 TTTTA
9046648 AAAATATGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
7 8 0.11
8 19 0.27
9 32 0.46
10 11 0.16
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (9 bp):
TTTTATATA
Found at i:9046854 original size:35 final size:35
Alignment explanation
Indices: 9046811--9046917 Score: 180
Period size: 35 Copynumber: 3.1 Consensus size: 35
9046801 GCAGGGAATA
*
9046811 TTTGTTGCAGGGAATCTCTTC-TGTTCATGCATTAT
1 TTTGTTGCAGGGAATCTC-TCATGTTCACGCATTAT
*
9046846 TTTGTTGCAGGGAATCTCTCTTGTTCACGCATTAT
1 TTTGTTGCAGGGAATCTCTCATGTTCACGCATTAT
9046881 TTTGTTGCAGGGAATCTCTCATGTTCACGCATTAT
1 TTTGTTGCAGGGAATCTCTCATGTTCACGCATTAT
9046916 TT
1 TT
9046918 CTTTTTGGAC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
34 2 0.03
35 67 0.97
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.44
Consensus pattern (35 bp):
TTTGTTGCAGGGAATCTCTCATGTTCACGCATTAT
Found at i:9050293 original size:17 final size:17
Alignment explanation
Indices: 9050249--9050296 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
9050239 GATTTTTGAA
*
9050249 TTTTAGGGTTTTG-AGG
1 TTTTAAGGTTTTGTAGG
**
9050265 TTTTAATTTTTTGTAGG
1 TTTTAAGGTTTTGTAGG
9050282 TTTTAAGGTTTTGTA
1 TTTTAAGGTTTTGTA
9050297 CATATTTAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.17, C:0.00, G:0.25, T:0.58
Consensus pattern (17 bp):
TTTTAAGGTTTTGTAGG
Found at i:9057755 original size:12 final size:12
Alignment explanation
Indices: 9057738--9057764 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9057728 CCCCACGACT
9057738 GCTCGACACAAG
1 GCTCGACACAAG
9057750 GCTCGACACAAG
1 GCTCGACACAAG
9057762 GCT
1 GCT
9057765 AACTCTCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.33, G:0.26, T:0.11
Consensus pattern (12 bp):
GCTCGACACAAG
Found at i:9061763 original size:3 final size:3
Alignment explanation
Indices: 9061755--9061795 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
9061745 GCAGAGAACT
* *
9061755 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAT CAC CAT CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
9061796 TCGTCGTCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.34, C:0.61, G:0.00, T:0.05
Consensus pattern (3 bp):
CAC
Found at i:9064176 original size:31 final size:32
Alignment explanation
Indices: 9064122--9064187 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
9064112 TTCTTTAGTT
** *
9064122 AAATTTGACAATCATCCTATT-AAAAAGTGTC
1 AAATTTGACAATCAAACTATTAAAAAAGAGTC
* *
9064153 AAATTTGACCATCAAACTTTTAAAAAAGAGTC
1 AAATTTGACAATCAAACTATTAAAAAAGAGTC
9064185 AAA
1 AAA
9064188 ATGATTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (32 bp):
AAATTTGACAATCAAACTATTAAAAAAGAGTC
Found at i:9064298 original size:18 final size:18
Alignment explanation
Indices: 9064275--9064315 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9064265 CTATGTTAAT
*
9064275 TTTTTTGAATTTTTATGA
1 TTTTTTGAATTTTTATAA
* *
9064293 TTTTTTTACTTTTTATAA
1 TTTTTTGAATTTTTATAA
9064311 TTTTT
1 TTTTT
9064316 AAATTATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTTTGAATTTTTATAA
Found at i:9064762 original size:26 final size:26
Alignment explanation
Indices: 9064728--9064780 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 26
9064718 ATTTTATATT
9064728 AATAATAATATAAGTTTAAAATAAAATAA
1 AATAATAA-AT-A-TTTAAAATAAAATAA
9064757 AATAATAAATATTTAAAATAAAAT
1 AATAATAAATATTTAAAATAAAAT
9064781 TGAATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 13 0.54
27 1 0.04
28 2 0.08
29 8 0.33
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (26 bp):
AATAATAAATATTTAAAATAAAATAA
Found at i:9085291 original size:17 final size:17
Alignment explanation
Indices: 9085257--9085314 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
9085247 TCCACACTGT
*
9085257 AGAGAAA-AA-AAAAAG
1 AGAGAAAGAAGAAGAAG
*
9085272 AGAGAAAGGAGAAGAAG
1 AGAGAAAGAAGAAGAAG
*
9085289 AGA-ATGAGAAGAAGAAG
1 AGAGA-AAGAAGAAGAAG
9085306 A-AGAAAGAA
1 AGAGAAAGAA
9085315 AAAAAAAAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 7 0.21
16 7 0.21
17 20 0.59
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (17 bp):
AGAGAAAGAAGAAGAAG
Found at i:9085500 original size:19 final size:19
Alignment explanation
Indices: 9085476--9085996 Score: 164
Period size: 19 Copynumber: 28.2 Consensus size: 19
9085466 TTTAGATTAG
*
9085476 AATTTTGTATGAATATTTT
1 AATTTTGTATGAATATTGT
*
9085495 AATTTTTTTGTATGAATATTAT
1 AA---TTTTGTATGAATATTGT
9085517 AATTTTTGTATGAATATTGT
1 AA-TTTTGTATGAATATTGT
*
9085537 AATATTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
9085556 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
9085579 -ATTTATAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
9085599 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
*
9085620 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
9085639 AAATTTT-T-TG--TA-TG-
1 -AATTTTGTATGAATATTGT
* *
9085653 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
* *
9085669 AGTTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
9085688 AATTTT-T-TG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
9085701 AATATTG--T-AATTTTGT
1 AATTTTGTATGAATATTGT
*
9085717 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
9085736 -ATTTT-T-TG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
9085748 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
*
9085764 AATTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
*
9085783 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
9085797 AATATTG--T-AATTTTGT
1 AATTTTGTATGAATATTGT
*
9085813 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
*
9085832 AATTTTTTTATGAATATTGT
1 AA-TTTTGTATGAATATTGT
*
9085852 AATGTTGTATGAATATTGTAATATTAT
1 AA--TT-T-TG--TA-TG-AATATTGT
*
9085879 AATTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
*
9085898 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
*
9085912 AATATTG--T-AATATTGT
1 AATTTTGTATGAATATTGT
9085928 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
* *
9085947 AATGTGGGATATATTGTAATATTGT
1 AAT-T---TTGTA-TG-AATATTGT
9085972 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
9085993 AATT
1 AATT
9085997 ATTTTATAAT
Statistics
Matches: 376, Mismatches: 52, Indels: 148
0.65 0.09 0.26
Matches are distributed among these distances:
13 20 0.05
14 22 0.06
15 15 0.04
16 37 0.10
17 3 0.01
18 19 0.05
19 102 0.27
20 59 0.16
21 22 0.06
22 27 0.07
23 16 0.04
24 6 0.02
25 15 0.04
26 3 0.01
27 10 0.03
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:9085514 original size:61 final size:61
Alignment explanation
Indices: 9085449--9085636 Score: 156
Period size: 61 Copynumber: 3.1 Consensus size: 61
9085439 TAAATTATCT
* *
9085449 ATATTTAGTGTTTATAGTTTAGATTAG-AATTTTGTATGAATATTTTAATTTTTTTGTATGA
1 ATATTTAGTATTTATAGTTTAGATTAGTAATTTTGTATGAATATTGTAA-TTTTTTGTATGA
* * * ** * * * *
9085510 ATATTATAATTTTTGTA-TGAATATT-GTAATATTGTATGAATATTGTAATTATTTTATAATTA
1 ATATT-TAGTATTTATAGTTTAGATTAGTAATTTTGTATGAATATTGTAATT-TTTTGT-ATGA
*
9085572 A-ATTT-GTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAA--TTTTGTATGA
1 ATATTTAGTATTTATAG-TTTAGATTAGTAA--TTTTGTATGAATATTGTAATTTTTTGTATGA
9085632 ATATT
1 ATATT
9085637 ATAAATTTTT
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
59 6 0.06
60 8 0.08
61 49 0.51
62 16 0.16
64 18 0.19
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (61 bp):
ATATTTAGTATTTATAGTTTAGATTAGTAATTTTGTATGAATATTGTAATTTTTTGTATGA
Found at i:9085582 original size:89 final size:86
Alignment explanation
Indices: 9085500--9085813 Score: 280
Period size: 95 Copynumber: 3.5 Consensus size: 86
9085490 ATTTTAATTT
* *
9085500 TTTTGTATGAATATTATAATTTTTGTATGAATATTGTAATATTGTATGAATATTGT-AATTATTT
1 TTTTGTATGAATATTA-AATTTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATT-TTT
9085564 TATAATTAAAT-TTGTA-TTTATAG
64 TAT-A-TAAATATTGTATTTTATAG
* * * *
9085587 TTTTG---GATTAGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATTTTTTG
1 TTTTGTATGAATATTAAATTTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATTTTTTA
* *
9085649 TATGAATATTGTAATATTATAG
66 TATAAATATTGT-ATTTTATAG
* * * *
9085671 TTTTGTATGAATATTGCAATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTAT
1 TTTTGTATGAATATT--AAATTTTTGTATGAATATTGTAATTTTGT-A---TGAAT-ATTA-TAA
* * * *
9085736 ATTTTTTGTATGAATATTGTAATATTATAA
58 ATTTTTTATATAAATATTGT-ATTTTATAG
*
9085766 TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATTTTGTA
1 TTTTGTATGAATATT--AA-ATTTTTGTATGAATATTGTAATTTTGTA
9085814 ATTTTGTATG
Statistics
Matches: 197, Mismatches: 14, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
81 4 0.02
82 5 0.03
83 42 0.21
84 21 0.11
87 10 0.05
89 29 0.15
90 1 0.01
93 4 0.02
94 3 0.02
95 51 0.26
96 27 0.14
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (86 bp):
TTTTGTATGAATATTAAATTTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATTTTTTA
TATAAATATTGTATTTTATAG
Found at i:9085665 original size:49 final size:48
Alignment explanation
Indices: 9085612--9085995 Score: 393
Period size: 49 Copynumber: 8.1 Consensus size: 48
9085602 TTTTTGTATG
9085612 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTAT-AATTTTTTGTATGAATATTGT
* * **
9085661 AATATTATAGTTTTGTATGAATATTGCAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
*
9085709 AATTTTGTAATTTTGTATGAATATTAT-ATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
* **
9085756 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAA-TTTTTTGTATGAATATTGT
*
9085805 AATTTTGTAATTTTGTATGAATATTATAATTTTTT-TATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
* *
9085852 AATGTTGTATGAATATTG--T-AATATTATAA--TTTTGTATGAATATTG-
1 AATATTG--T-AATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
* *
9085897 CA-ATT-T--TTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATA-T-T-ATAAT-T--TTTTGTATGAATATTGT
* * * * *
9085947 AATGTGGGATATATTG--T-AATATTGTAATTTTTTGTATGAATATTGT
1 AATATTGTA-ATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
9085993 AAT
1 AAT
9085996 TATTTTATAA
Statistics
Matches: 282, Mismatches: 30, Indels: 49
0.78 0.08 0.14
Matches are distributed among these distances:
38 4 0.01
40 1 0.00
41 5 0.02
42 1 0.00
43 1 0.00
44 5 0.02
45 5 0.02
46 31 0.11
47 71 0.25
48 52 0.18
49 87 0.31
50 8 0.03
51 2 0.01
52 4 0.01
53 1 0.00
55 4 0.01
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (48 bp):
AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
Found at i:9085680 original size:27 final size:25
Alignment explanation
Indices: 9085622--9085949 Score: 246
Period size: 27 Copynumber: 13.8 Consensus size: 25
9085612 AATATTGTAA
*
9085622 TTTTGTATGAATATTATAA-A-T-T
1 TTTTGTATGAATATTGTAATATTAT
9085644 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATTAT
*
9085669 AGTTTTGTATGAATATTG-CA-A-T-T
1 --TTTTGTATGAATATTGTAATATTAT
* *
9085692 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAA-TAT-TAT
9085719 TTTTGTATGAATA-T-T-ATA-T-T
1 TTTTGTATGAATATTGTAATATTAT
9085739 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATTAT
*
9085764 AATTTTGTATGAATATTG-CA-ATT-T
1 --TTTTGTATGAATATTGTAATATTAT
* *
9085788 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAA-TAT-TAT
9085815 TTTTGTATGAATA-T-T-ATA--AT
1 TTTTGTATGAATATTGTAATATTAT
*
9085835 TTTTTTATGAATATTG---TA--A-
1 TTTTGTATGAATATTGTAATATTAT
*
9085854 TGTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATTAT
*
9085879 AATTTTGTATGAATATTG-CA-ATT-T
1 --TTTTGTATGAATATTGTAATATTAT
*
9085903 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATA-T-TAT
9085930 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
9085950 GTGGGATATA
Statistics
Matches: 248, Mismatches: 20, Indels: 71
0.73 0.06 0.21
Matches are distributed among these distances:
19 14 0.06
20 29 0.12
21 19 0.08
22 54 0.22
23 9 0.04
24 9 0.04
25 13 0.05
26 8 0.03
27 93 0.38
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (25 bp):
TTTTGTATGAATATTGTAATATTAT
Found at i:9085817 original size:96 final size:96
Alignment explanation
Indices: 9085616--9085854 Score: 437
Period size: 96 Copynumber: 2.5 Consensus size: 96
9085606 TGTATGAATA
*
9085616 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGA
1 TTGTAATTTTGTATGAATATTAT-AATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGA
9085681 ATATTGCAATTTTTTGTATGAATATTGTAATT
65 ATATTGCAATTTTTTGTATGAATATTGTAATT
9085713 TTGTAATTTTGTATGAATATTAT-ATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
1 TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
9085777 TATTGCAATTTTTTTGTATGAATATTGTAATT
66 TATTGCAA-TTTTTTGTATGAATATTGTAATT
9085809 TTGTAATTTTGTATGAATATTATAATTTTTT-TATGAATATTGTAAT
1 TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAAT
9085855 GTTGTATGAA
Statistics
Matches: 139, Mismatches: 1, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
95 48 0.35
96 61 0.44
97 30 0.22
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.55
Consensus pattern (96 bp):
TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
TATTGCAATTTTTTGTATGAATATTGTAATT
Found at i:9085870 original size:115 final size:115
Alignment explanation
Indices: 9085741--9085949 Score: 400
Period size: 115 Copynumber: 1.8 Consensus size: 115
9085731 ATTATATTTT
9085741 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
1 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
*
9085806 ATTTTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
66 ATATTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
9085856 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
1 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
*
9085921 ATATTGTAATTTTGTATGAATATTGTAAT
66 ATATTGTAATTTTGTATGAATATTATAAT
9085950 GTGGGATATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 92 1.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (115 bp):
TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
ATATTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
Found at i:9085925 original size:8 final size:8
Alignment explanation
Indices: 9085912--9085974 Score: 54
Period size: 8 Copynumber: 7.4 Consensus size: 8
9085902 TTTTTGTATG
9085912 AATATTGT
1 AATATTGT
9085920 AATATTGT
1 AATATTGT
*
9085928 AATTTTGTAT
1 AATATTG--T
9085938 GAATATTGT
1 -AATATTGT
* * *
9085947 AATGTGGG
1 AATATTGT
9085955 ATATATTGT
1 A-ATATTGT
9085964 AATATTGT
1 AATATTGT
9085972 AAT
1 AAT
9085975 TTTTTGTATG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
8 30 0.70
9 6 0.14
10 1 0.02
11 6 0.14
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (8 bp):
AATATTGT
Found at i:9086189 original size:38 final size:38
Alignment explanation
Indices: 9086144--9086225 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
9086134 CATATAAAGT
*
9086144 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAAATAAAAATCATTTCATTAAAAGTTTAA
*
9086182 TTATAAAAAAAATAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAAATAAAAATCATTTCATTAAAAGTTTAA
9086220 TTATAA
1 TTATAA
9086226 CTGACTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (38 bp):
TTATAAAAAAAATAAAAATCATTTCATTAAAAGTTTAA
Found at i:9091310 original size:22 final size:21
Alignment explanation
Indices: 9091275--9091319 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
9091265 TACCTAATTT
*
9091275 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
9091296 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
9091318 TT
1 TT
9091320 CTTTCTTCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:9091327 original size:18 final size:18
Alignment explanation
Indices: 9091277--9091328 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 18
9091267 CCTAATTTTT
9091277 TTCTTC-TT-TTCCTTCC
1 TTCTTCTTTCTTCCTTCC
9091293 TTCTTTTCTTCTGCTTCCTTCC
1 TTC--TTCTT-T-CTTCCTTCC
9091315 TTCTTCTTTCTTCC
1 TTCTTCTTTCTTCC
9091329 GTTTTTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
16 3 0.10
18 8 0.27
19 2 0.07
20 6 0.20
22 11 0.37
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.62
Consensus pattern (18 bp):
TTCTTCTTTCTTCCTTCC
Found at i:9091434 original size:27 final size:27
Alignment explanation
Indices: 9091385--9091486 Score: 143
Period size: 27 Copynumber: 3.8 Consensus size: 27
9091375 AAAATCACAG
* *
9091385 CATTGGCGCCT-TCTAATATGGCACCAC
1 CATTGGCGCCTCCCAAATA-GGCACCAC
*
9091412 CATTGGCACCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAAATAGGCACCAC
9091439 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAAATAGGCACCAC
* *
9091466 CATTGGCGCCTTCCAGATAGG
1 CATTGGCGCCTCCCAAATAGG
9091487 TGCCAATACT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 63 0.93
28 5 0.07
ACGTcount: A:0.25, C:0.36, G:0.20, T:0.20
Consensus pattern (27 bp):
CATTGGCGCCTCCCAAATAGGCACCAC
Found at i:9098590 original size:43 final size:47
Alignment explanation
Indices: 9098501--9098597 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 47
9098491 TCATGTGTTA
* * *
9098501 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGA-ATT-AACTTAATTT
9098550 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAA-TATAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGA-ATTAACT-TAATTT
9098598 GTTTTTTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.02
48 8 0.18
49 35 0.80
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.49
Consensus pattern (47 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGAATTAACTTAATTT
Found at i:9100218 original size:47 final size:46
Alignment explanation
Indices: 9100167--9100363 Score: 125
Period size: 44 Copynumber: 4.7 Consensus size: 46
9100157 TCATATAAGA
9100167 ATATTTAATACTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTTAATACT-AGAATTTTATTAAATTATATATTTTTATTAAATT
* * *
9100214 ATATTTAATAATAG--TTATT-TTAAATTATAT-TTTATAGT--ATT
1 ATATTTAATACTAGAATT-TTATTAAATTATATATTTTTATTAAATT
* * * *
9100255 ATA--T-AT--TATAATTTTAGTAAATT-CATA----TA--AGA--
1 ATATTTAATACTAGAATTTTATTAAATTATATATTTTTATTAAATT
9100287 ATATTTAATACTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTTAATACT-AGAATTTTATTAAATTATATATTTTTATTAAATT
*
9100334 ATATTTAATA--ATAATTATT-TTAAATTATAT
1 ATATTTAATACTAGAATT-TTATTAAATTATAT
9100364 TTTATAGTAT
Statistics
Matches: 116, Mismatches: 11, Indels: 49
0.66 0.06 0.28
Matches are distributed among these distances:
32 3 0.03
34 4 0.03
35 2 0.02
36 2 0.02
37 5 0.04
38 24 0.21
39 4 0.03
41 6 0.05
43 8 0.07
44 29 0.25
45 6 0.05
46 2 0.02
47 21 0.18
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (46 bp):
ATATTTAATACTAGAATTTTATTAAATTATATATTTTTATTAAATT
Found at i:9100606 original size:26 final size:25
Alignment explanation
Indices: 9100553--9100731 Score: 76
Period size: 26 Copynumber: 7.3 Consensus size: 25
9100543 ATCAAATTAT
*
9100553 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
**
9100579 ATAATTATTTTAAATTATATTTTCTA
1 AT-ATTATTTTAAATTATATTTAATA
* *
9100605 ATATTA---TATATTATGATTTTAGTA
1 ATATTATTTTAAATTAT-A-TTTAATA
*
9100629 A-ATTCA-TATAAGA--ATATTTAATA
1 ATATT-ATTTTAA-ATTATATTTAATA
* ** *
9100652 CTAAGAATTTT--ATTA-AATT-AT-
1 AT-ATTATTTTAAATTATATTTAATA
*
9100673 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
9100699 ATAATTATTTTAAATTATATTTGATA
1 AT-ATTATTTTAAATTATATTTAATA
*
9100725 GTATTAT
1 ATATTAT
9100732 ATATTATGAT
Statistics
Matches: 113, Mismatches: 21, Indels: 39
0.65 0.12 0.23
Matches are distributed among these distances:
20 3 0.03
21 3 0.03
22 10 0.09
23 17 0.15
24 13 0.12
25 16 0.14
26 40 0.35
27 11 0.10
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:9100872 original size:475 final size:475
Alignment explanation
Indices: 9099982--9100878 Score: 1713
Period size: 475 Copynumber: 1.9 Consensus size: 475
9099972 TTATATTTAA
*
9099982 TAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTTGTAAATTCATATAAGA
1 TAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
9100047 ATATTTAATACTAAAAATTTTATCAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT
66 ATATTTAATACTAAAAATTTTATCAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT
*
9100112 TTTAAAATATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATA
131 TTTAAAATATATTTTATAATATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATA
*
9100177 CTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAGTTATTTTAAATTAT
196 CTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTAT
*
9100242 ATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTT
261 ATTTGATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTT
*
9100307 TATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
326 TATTAAATTATATATTTTTATTAAATTATATTTAATAATAATCATTTTAAATTATATTTTATAGT
9100372 ATTATATATTATGATTTTAGTAAATTCATATAAGAATACTTAATACTAAGAAATTTATTAAATTA
391 ATTATATATTATGATTTTAGTAAATTCATATAAGAATACTTAATACTAAGAAATTTATTAAATTA
9100437 TATATATTTTAAATTGTATT
456 TATATATTTTAAATTGTATT
9100457 TAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
1 TAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
*
9100522 ATATTTAATACTAAGAATTTTATCAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT
66 ATATTTAATACTAAAAATTTTATCAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT
* *
9100587 TTTAAATTATATTTTCTAATATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATA
131 TTTAAAATATATTTTATAATATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATA
9100652 CTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTAT
196 CTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTAT
*
9100717 ATTTGATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTT
261 ATTTGATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTT
9100782 TATTAAATTATATATTTTTATTAAATTATATTTAATAATAATCATTTTAAATTATATTTTATAGT
326 TATTAAATTATATATTTTTATTAAATTATATTTAATAATAATCATTTTAAATTATATTTTATAGT
9100847 ATTATATATTATGATTTTAGTAAATTCATATA
391 ATTATATATTATGATTTTAGTAAATTCATATA
9100879 TTTTTATTTA
Statistics
Matches: 413, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
475 413 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (475 bp):
TAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
ATATTTAATACTAAAAATTTTATCAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT
TTTAAAATATATTTTATAATATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATA
CTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTAT
ATTTGATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTT
TATTAAATTATATATTTTTATTAAATTATATTTAATAATAATCATTTTAAATTATATTTTATAGT
ATTATATATTATGATTTTAGTAAATTCATATAAGAATACTTAATACTAAGAAATTTATTAAATTA
TATATATTTTAAATTGTATT
Found at i:9100889 original size:120 final size:120
Alignment explanation
Indices: 9099968--9100878 Score: 1652
Period size: 120 Copynumber: 7.6 Consensus size: 120
9099958 AAGTAGATTA
*
9099968 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTTGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
* *
9100033 AAATTCATATAAGAATATTTAATACTAAAAATTTTATCAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
*
9100088 TAAATTATATTTAATAATAATTATTTTAAAATATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9100153 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
* *
9100208 TAAATTATATTTAATAATAGTTATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9100273 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
9100328 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
* * *
9100393 AAATTCATATAAGAATACTTAATACTAAGAAATTTATTAAATTATATA-TATT-T
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
*
9100446 TAAATTGTA-TT--TAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
*
9100508 AAATTCATATAAGAATATTTAATACTAAGAATTTTATCAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
* *
9100563 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTCTAATATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9100628 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
*
9100683 TAAATTATATTTAATAATAATTATTTTAAATTATATTTGATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9100748 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
*
9100803 TAAATTATATTTAATAATAATCATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9100868 AAATTCATATA
66 AAATTCATATA
9100879 TTTTTATTTA
Statistics
Matches: 760, Mismatches: 26, Indels: 10
0.95 0.03 0.01
Matches are distributed among these distances:
115 96 0.13
116 3 0.00
117 11 0.01
118 11 0.01
119 3 0.00
120 636 0.84
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
Found at i:9101106 original size:16 final size:16
Alignment explanation
Indices: 9101085--9101137 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
9101075 AAAATTACCT
9101085 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
9101101 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
9101117 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
9101133 ATTAC
1 ATTAC
9101138 AGCGAACAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.23, C:0.36, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:9105077 original size:40 final size:40
Alignment explanation
Indices: 9105027--9105161 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
9105017 ATTATGTTTA
*
9105027 GCACTTAGTGTGCGATTCGAGATAGCTTCGACTATTTATG
1 GCACTTAGTGTGCGATTCGAGATAGCTTCGACTATATATG
* * *
9105067 GCACTTAGTGTGAGATTAG-GAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGATTCGAG-ATAGCTTCGACTATATATG
* ** * *
9105107 GCACTTAGTGTGTGAGACTGAGATAGCTTC-AGCTATGTAAG
1 GCACTTAGTGTGCGATTC-GAGATAGCTTCGA-CTATATATG
9105148 GCACTTAGTGTGCG
1 GCACTTAGTGTGCG
9105162 GGATTATAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 48 0.61
41 29 0.37
42 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGAGATAGCTTCGACTATATATG
Found at i:9105174 original size:41 final size:41
Alignment explanation
Indices: 9105027--9105204 Score: 177
Period size: 41 Copynumber: 4.4 Consensus size: 41
9105017 ATTATGTTTA
* * *
9105027 GCACTTAGTGTGC--GATTCGAGATAGCTTCGACTATTTATG
1 GCACTTAGTGTGCGAGATTAGA-ATAGCTTCGGCTATGTATG
*
9105067 GCACTTAGTGT--GAGATTAGGAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGAGATTA-GAATAGCTTCGGCTATGTATG
* * * *
9105107 GCACTTAGTGTGTGAGACT-GAGATAGCTTCAGCTATGTAAG
1 GCACTTAGTGTGCGAGATTAGA-ATAGCTTCGGCTATGTATG
* * *
9105148 GCACTTAGTGTGCGGGATTATAATAGCTTCGGCTATGCGATG
1 GCACTTAGTGTGCGAGATTAGAATAGCTTCGGCTATG-TATG
*
9105190 GCATTTAGTGTGCGA
1 GCACTTAGTGTGCGA
9105205 AATATTGAGT
Statistics
Matches: 114, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
40 45 0.39
41 48 0.42
42 21 0.18
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (41 bp):
GCACTTAGTGTGCGAGATTAGAATAGCTTCGGCTATGTATG
Found at i:9105201 original size:81 final size:80
Alignment explanation
Indices: 9105027--9105201 Score: 194
Period size: 81 Copynumber: 2.1 Consensus size: 80
9105017 ATTATGTTTA
* * * *
9105027 GCACTTAGTGTGCGATTCGAGATAGCTTCGACTATTTATGGCACTTAGTGTGAGATTAGGAATAG
1 GCACTTAGTGTGAGACTCGAGATAGCTTCGACTATGTAAGGCACTTAGTGTGAGATTAGGAATAG
*
9105092 CTTCGGCTATATATG
66 CTTCGGCTATAGATG
* *
9105107 GCACTTAGTGTGTGAGACT-GAGATAGCTTC-AGCTATGTAAGGCACTTAGTGTGCGGGATTA-T
1 GCACTTA--GTGTGAGACTCGAGATAGCTTCGA-CTATGTAAGGCACTTAGTGT--GAGATTAGG
*
9105169 AATAGCTTCGGCTATGCGATG
61 AATAGCTTCGGCTAT-AGATG
*
9105190 GCATTTAGTGTG
1 GCACTTAGTGTG
9105202 CGAAATATTG
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
80 8 0.10
81 34 0.43
82 23 0.29
83 15 0.19
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.33
Consensus pattern (80 bp):
GCACTTAGTGTGAGACTCGAGATAGCTTCGACTATGTAAGGCACTTAGTGTGAGATTAGGAATAG
CTTCGGCTATAGATG
Found at i:9105982 original size:34 final size:35
Alignment explanation
Indices: 9105911--9105983 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
9105901 TACAATGATA
* *
9105911 TCCAAATGTGGTTGTTTTTAAATGTTATAATGTTG
1 TCCAAATGTGGTTGTCTTTAAATGTTATAATGCTG
*
9105946 TCCAAATGTGGTTG-CTTTACATG-TATTAATGCTG
1 TCCAAATGTGGTTGTCTTTAAATGTTA-TAATGCTG
9105980 TCCA
1 TCCA
9105984 TTTTTTGTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 2 0.06
34 18 0.53
35 14 0.41
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (35 bp):
TCCAAATGTGGTTGTCTTTAAATGTTATAATGCTG
Found at i:9106031 original size:20 final size:20
Alignment explanation
Indices: 9106006--9106048 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
9105996 ATCTATGATC
*
9106006 TCCGAATGTTATTAATGTTG
1 TCCGAATGTTATTAATGCTG
9106026 TCCGAATGTTATTAATGCTG
1 TCCGAATGTTATTAATGCTG
9106046 TCC
1 TCC
9106049 AAATTAGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (20 bp):
TCCGAATGTTATTAATGCTG
Found at i:9107146 original size:25 final size:25
Alignment explanation
Indices: 9107118--9107167 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
9107108 ATATAGTTTT
9107118 TATATTAT-TTATGAAGGTTATAATA
1 TATATTATATTAT-AAGGTTATAATA
*
9107143 TATATTATATTATAATGTTATAATA
1 TATATTATATTATAAGGTTATAATA
9107168 AAACAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (25 bp):
TATATTATATTATAAGGTTATAATA
Found at i:9108109 original size:43 final size:43
Alignment explanation
Indices: 9108043--9108171 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 43
9108033 CATAGGATTC
* *
9108043 CGATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATGTGTTTACGTGTAAGACCACGTCTGGGAAGTTGGCAT
*
9108086 CGACT-TGTGTTTACGTGTAAGACC-CTATCTGGGACAG-TGGCAT
1 CGA-TATGTGTTTACGTGTAAGACCAC-GTCTGGGA-AGTTGGCAT
* * *
9108129 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGTTTACGTGTAAGACCACGTCTGGGAAGTTGGCAT
9108172 TATACGAGCC
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.04
43 67 0.92
44 3 0.04
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (43 bp):
CGATATGTGTTTACGTGTAAGACCACGTCTGGGAAGTTGGCAT
Found at i:9113710 original size:18 final size:18
Alignment explanation
Indices: 9113689--9113734 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
9113679 AAGAATATAT
9113689 TTAATATTA-AGAATTTTA
1 TTAA-ATTATAGAATTTTA
* *
9113707 TTAAATTATATATTTTTA
1 TTAAATTATAGAATTTTA
9113725 TTAAATTATA
1 TTAAATTATA
9113735 TTTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TTAAATTATAGAATTTTA
Found at i:9113771 original size:63 final size:61
Alignment explanation
Indices: 9113584--9113771 Score: 145
Period size: 63 Copynumber: 3.0 Consensus size: 61
9113574 CAAACTTTAG
* *
9113584 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATAATTTTAAATTAT-ATT--TT
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTA-TTTAAAATATGATTAATT
* * * ** * * * * * *
9113643 A-TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATATTTAATATTAAGAATT--T
1 ATTA-AATTATATATTTTTATTAAATTATATTTA-ATAATAAT-TATTTAA-AATATG-ATTAAT
9113705 T
61 T
9113706 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAATT
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT-TTAAAATATGATT-AATT
9113769 ATT
1 ATT
9113772 TATTACTGAT
Statistics
Matches: 96, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
58 2 0.02
59 22 0.23
60 15 0.16
61 12 0.12
62 11 0.11
63 32 0.33
64 2 0.02
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (61 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTAAAATATGATTAATT
Found at i:9113944 original size:16 final size:16
Alignment explanation
Indices: 9113923--9113959 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
9113913 TAAGAATACT
9113923 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
9113939 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
9113955 ATTAC
1 ATTAC
9113960 AGCGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.35, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:9115281 original size:31 final size:31
Alignment explanation
Indices: 9115207--9115288 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
9115197 TTGCTCTCTC
*
9115207 ATATTTAAAATAGTCCTCAAAATTTCAAAAAAT
1 ATATTTAAAA-AGTTCT-AAAATTTCAAAAAAT
* * *
9115240 ATA-TTAAAAAGTTCTAAAGTTTTATAAAAT
1 ATATTTAAAAAGTTCTAAAATTTCAAAAAAT
9115270 ATATTTAAAAAGTTCTAAA
1 ATATTTAAAAAGTTCTAAA
9115289 TACGGTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
30 15 0.34
31 20 0.45
32 6 0.14
33 3 0.07
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (31 bp):
ATATTTAAAAAGTTCTAAAATTTCAAAAAAT
Found at i:9115298 original size:30 final size:30
Alignment explanation
Indices: 9115235--9115298 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
9115225 AAAATTTCAA
***
9115235 AAAATATATTAAAAAGTTCTAAAGTTTTAT
1 AAAATATATTAAAAAGTTCTAAAGTACGAT
*
9115265 AAAATATATTTAAAAAGTTCTAAA-TACGGT
1 AAAATATA-TTAAAAAGTTCTAAAGTACGAT
9115295 AAAA
1 AAAA
9115299 AAGATGTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (30 bp):
AAAATATATTAAAAAGTTCTAAAGTACGAT
Found at i:9125315 original size:22 final size:22
Alignment explanation
Indices: 9125290--9125340 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
9125280 CTCATATTTC
9125290 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
9125312 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
9125334 CTCTCAA
1 CTCTCAA
9125341 ATCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:9125376 original size:51 final size:51
Alignment explanation
Indices: 9125312--9125427 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
9125302 TTCCAAAATT
*
9125312 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATAGTTAATTTCAATTTC
* *
9125363 TTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATAGTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATAGTTAATTTCAATTTC
9125414 CTCTCAATTTCCTT
1 CTCTCAATTTCCTT
9125428 TGTTAAAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.27, G:0.01, T:0.45
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATAGTTAATTTCAATTTC
Found at i:9127759 original size:25 final size:25
Alignment explanation
Indices: 9127731--9127778 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
9127721 TATTTTGATA
9127731 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
9127756 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
9127779 ATTTTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:9127795 original size:9 final size:9
Alignment explanation
Indices: 9127781--9127817 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
9127771 AAATAGAAAT
9127781 TTTTGAATA
1 TTTTGAATA
9127790 TTTTGAATA
1 TTTTGAATA
9127799 TTTTGAATA
1 TTTTGAATA
9127808 TTTTG-ATA
1 TTTTGAATA
9127816 TT
1 TT
9127818 ATTTGAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 5 0.18
9 23 0.82
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (9 bp):
TTTTGAATA
Found at i:9127896 original size:51 final size:50
Alignment explanation
Indices: 9127832--9128314 Score: 354
Period size: 51 Copynumber: 9.8 Consensus size: 50
9127822 GAGAATTCTA
9127832 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAACCCTAAACC
1 CTAACCTAATTAAATT-AAAAGAAAACCCTAACCTAATTAAACCCTAAACC
* * **
9127883 CTAACCTACTTAAATTGAAAAGAAAACCCTAACCTAATTAAA--TTGAAAAA
1 CTAACCTAATTAAATT-AAAAGAAAACCCTAACCTAATTAAACCCT-AAACC
** * ***
9127933 AAAACCCTAACCT-AATTAAACCCTAAACCCTAACCTAATTAAACCCTAAACC
1 CTAA-CCTAA-TTAAATTAAA-AGAAAACCCTAACCTAATTAAACCCTAAACC
* * ****
9127985 CTAACCTAATTAAATTAAATTGAAAACCCTAACCTAGTTAAATTGAAAACC
1 CTAACCTAATTAAATTAAA-AGAAAACCCTAACCTAATTAAACCCTAAACC
* ****
9128036 CTAACCTAGTTAAATT---A-AAAACCCTAACCTAATTAAATTGAAAAGAAAACC
1 CTAACCTAATTAAATTAAAAGAAAACCCTAACCTAATT--A---AACCCTAAACC
*
9128087 CTAACCTAATTAAATT---A-AAAACCCTAACCTAATTAAACCCTAAAAACT
1 CTAACCTAATTAAATTAAAAGAAAACCCTAACCTAATTAAACCCT--AAACC
*
9128135 CTAACCTAATTAAATT---A-AAAACTCTAACCTAATTAAACCCTAAACC
1 CTAACCTAATTAAATTAAAAGAAAACCCTAACCTAATTAAACCCTAAACC
****
9128181 CTAACCTAATTAAATT----GAAAACCCTAACCTAATTAAATTGAAAAGAAAACC
1 CTAACCTAATTAAATTAAAAGAAAACCCTAACCTAATT--A---AACCCTAAACC
*
9128232 CTAACCTTATTAAATT----GAAAACCCTAACCTAATTAAACCCTAAACC
1 CTAACCTAATTAAATTAAAAGAAAACCCTAACCTAATTAAACCCTAAACC
9128278 CTAACCTAATTAAATT----GAAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTAAAAGAAAACCCTAACCTAATTAAA
9128315 TTAAAAATCC
Statistics
Matches: 362, Mismatches: 50, Indels: 45
0.79 0.11 0.10
Matches are distributed among these distances:
46 97 0.27
48 46 0.13
49 3 0.01
50 9 0.02
51 200 0.55
52 6 0.02
53 1 0.00
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.24
Consensus pattern (50 bp):
CTAACCTAATTAAATTAAAAGAAAACCCTAACCTAATTAAACCCTAAACC
Found at i:9127995 original size:74 final size:74
Alignment explanation
Indices: 9127832--9128367 Score: 601
Period size: 74 Copynumber: 7.3 Consensus size: 74
9127822 GAGAATTCTA
****
9127832 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAACCCTAAACCCTAACCTACTTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAA-C--C-T-AA
***
9127897 TTGAAA-AGAAAACC
61 TT-AAACCCTAAACC
* ****
9127911 CTAACCTAATTAAATTGAAAAAAAAACCCTAACCTAATTAAACCCTAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
9127976 CCCTAAACC
66 CCCTAAACC
* * * *
9127985 CTAACCTAATTAAATT-AAATTGAAAACCCTAACCTAGTTAAATTGAAAACCCTAACCTAGTTAA
1 CTAACCTAATTAAATTGAAA-AGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAA
****
9128049 ATTAAAAACC
65 ACCCTAAACC
9128059 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
*
9128124 CCCTAAAAACT
66 CCCT--AAACC
* ****
9128135 CTAACCTAATTAAATT----A-AAAACTCTAACCTAATTAAACCCTAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
****
9128195 TTGAAAACC
66 CCCTAAACC
* *
9128204 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTTATTAAATTGAAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
9128269 CCCTAAACC
66 CCCTAAACC
* *
9128278 CTAACCTAATTAAATT-----GAAAACCCTAACCTAATTAAATTAAAAATCCTAACCTAATTATA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
9128338 CCCTAAACC
66 CCCTAAACC
9128347 CTAACCTAATTAAATTGAAAA
1 CTAACCTAATTAAATTGAAAA
9128368 CCCTAACTCT
Statistics
Matches: 393, Mismatches: 49, Indels: 35
0.82 0.10 0.07
Matches are distributed among these distances:
69 85 0.22
71 38 0.10
72 1 0.00
73 7 0.02
74 182 0.46
75 4 0.01
76 21 0.05
78 1 0.00
79 54 0.14
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.25
Consensus pattern (74 bp):
CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
CCCTAAACC
Found at i:9128331 original size:28 final size:23
Alignment explanation
Indices: 9127854--9128379 Score: 458
Period size: 23 Copynumber: 21.7 Consensus size: 23
9127844 AATTGAAAAG
***
9127854 AAAACCCTAACCTAATTAAACCC
1 AAAACCCTAACCTAATTAAATTA
* *
9127877 TAAACCCTAACCTACTTAAATTGAAAA
1 AAAACCCTAACCTAATTAAATT----A
9127904 GAAAACCCTAACCTAATTAAATTGAAAAA
1 -AAAACCCTAACCTAATTAAATT-----A
***
9127933 AAAACCCTAACCTAATTAAACCC
1 AAAACCCTAACCTAATTAAATTA
* ***
9127956 TAAACCCTAACCTAATTAAACCC
1 AAAACCCTAACCTAATTAAATTA
*
9127979 TAAACCCTAACCTAATTAAATTAAA
1 AAAACCCTAACCTAATTAAATT--A
* *
9128004 TTGAAAACCCTAACCTAGTTAAATTG
1 ---AAAACCCTAACCTAATTAAATTA
*
9128030 AAAACCCTAACCTAGTTAAATTA
1 AAAACCCTAACCTAATTAAATTA
9128053 AAAACCCTAACCTAATTAAATTGAAAA
1 AAAACCCTAACCTAATTAAATT----A
9128080 GAAAACCCTAACCTAATTAAATTA
1 -AAAACCCTAACCTAATTAAATTA
*
9128104 AAAACCCTAACCTAATTAAACCCTA
1 AAAACCCTAACCTAATTAAA--TTA
*
9128129 AAAACTCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTA
* ***
9128152 AAAACTCTAACCTAATTAAACCC
1 AAAACCCTAACCTAATTAAATTA
* *
9128175 TAAACCCTAACCTAATTAAATTG
1 AAAACCCTAACCTAATTAAATTA
9128198 AAAACCCTAACCTAATTAAATTGAAAA
1 AAAACCCTAACCTAATTAAATT----A
* *
9128225 GAAAACCCTAACCTTATTAAATTG
1 -AAAACCCTAACCTAATTAAATTA
***
9128249 AAAACCCTAACCTAATTAAACCC
1 AAAACCCTAACCTAATTAAATTA
* *
9128272 TAAACCCTAACCTAATTAAATTG
1 AAAACCCTAACCTAATTAAATTA
9128295 AAAACCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTA
* * ***
9128318 AAAATCCTAACCTAATTATACCC
1 AAAACCCTAACCTAATTAAATTA
* *
9128341 TAAACCCTAACCTAATTAAATTG
1 AAAACCCTAACCTAATTAAATTA
9128364 AAAACCCTAACTCTAA
1 AAAACCCTAAC-CTAA
9128380 ACCCTTAAAA
Statistics
Matches: 422, Mismatches: 57, Indels: 47
0.80 0.11 0.09
Matches are distributed among these distances:
23 288 0.68
24 5 0.01
25 21 0.05
27 1 0.00
28 103 0.24
29 4 0.01
ACGTcount: A:0.48, C:0.25, G:0.03, T:0.25
Consensus pattern (23 bp):
AAAACCCTAACCTAATTAAATTA
Found at i:9128585 original size:115 final size:116
Alignment explanation
Indices: 9128403--9128632 Score: 367
Period size: 115 Copynumber: 2.0 Consensus size: 116
9128393 CTAACCCTTA
* ** *
9128403 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTTTCTGGTACTAACAATTAATAATTTTATA
1 ACATTCACATAATGTTAAATTTGGAAAAATGTTTTTCACTGGTACTAACAAATAATAATTTTATA
*
9128468 TAATTTGATAA-TTTTACTAACAATTAATACAATTTATCAGA-TAATAATTTT
66 TAAATTGA-AATTTTTACTAACAATTAATACAATTTATCA-ATTAATAATTTT
9128519 ACATTCACATAATGTTAAATTTGGAAAAATG-TTTTCACTGGTACTAACAAATAATAATTTTATA
1 ACATTCACATAATGTTAAATTTGGAAAAATGTTTTTCACTGGTACTAACAAATAATAATTTTATA
*
9128583 TAAATTGAAATTTTTACTAACCATTAATACAATTTATCAATTAATAATTT
66 TAAATTGAAATTTTTACTAACAATTAATACAATTTATCAATTAATAATTT
9128633 CACAAACTTA
Statistics
Matches: 106, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
114 3 0.03
115 73 0.69
116 30 0.28
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (116 bp):
ACATTCACATAATGTTAAATTTGGAAAAATGTTTTTCACTGGTACTAACAAATAATAATTTTATA
TAAATTGAAATTTTTACTAACAATTAATACAATTTATCAATTAATAATTTT
Found at i:9131889 original size:123 final size:124
Alignment explanation
Indices: 9131591--9131952 Score: 554
Period size: 123 Copynumber: 2.9 Consensus size: 124
9131581 CCCAAACATG
*
9131591 CTACTGTAGCAAAAGCGCG-TCTACGAGGGCGCGATTTTCATAAATTCTTCTCAAATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTTC-ACGAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCT
9131655 GCTAGAAGCGATTTTATACTATTTGCTCAGAAACGGT-AAAAAAAATTATTTCATCCATGAC
64 GCTAGAAGCGATTTTATACTATTTGCTCAGAAAC-GTCAAAAAAAATTATTTCATCCATGAC
* * * *
9131716 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTATTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
9131781 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAA-TATTTCATCCATGGC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCATCCATGAC
* *
9131839 CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGT
1 CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* **
9131904 TAGAAGCGA-TTT-TACTATTTGATCAGAAACGTCAACTCAAAATTATTTC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAAATTATTTC
9131953 TTCTCGGACC
Statistics
Matches: 218, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
121 22 0.10
122 7 0.03
123 90 0.41
124 68 0.31
125 30 0.14
126 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCATCCATGAC
Found at i:9145751 original size:29 final size:29
Alignment explanation
Indices: 9145709--9145777 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
9145699 AACTTTTGGC
* *
9145709 GTGCT-CTCTATTCTATTAATGTACTTTG
1 GTGCTACTCTATTCTATTAATGCACTTCG
* *
9145737 GTGCTACTCTGTTCTGTTAATGCACTTCG
1 GTGCTACTCTATTCTATTAATGCACTTCG
9145766 GTGC-ACTCTATT
1 GTGCTACTCTATT
9145778 TTAATGACGC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 12 0.34
29 23 0.66
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (29 bp):
GTGCTACTCTATTCTATTAATGCACTTCG
Found at i:9145818 original size:29 final size:30
Alignment explanation
Indices: 9145786--9145855 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
9145776 TTTTAATGAC
* *
9145786 GCACTTTTGG-GCCATTTTGTTTTGGTATT
1 GCACTTTCGGTGCCACTTTGTTTTGGTATT
* *
9145815 GCAC-TTCGGTGCTACTTTGTTTTGTTATT
1 GCACTTTCGGTGCCACTTTGTTTTGGTATT
9145844 GCAC-TTCGGTGC
1 GCACTTTCGGTGC
9145856 ATCCTTGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 4 0.11
29 32 0.89
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (30 bp):
GCACTTTCGGTGCCACTTTGTTTTGGTATT
Found at i:9145863 original size:29 final size:29
Alignment explanation
Indices: 9145802--9145863 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
9145792 TTGGGCCATT
*
9145802 TTGTTTTGGTATTGCACTTCGGTGCTACT
1 TTGTTTTGGTATTGCACTTCGGTGCTACC
*
9145831 TTGTTTTGTTATTGCACTTCGGTGC-ATCC
1 TTGTTTTGGTATTGCACTTCGGTGCTA-CC
9145860 TTGT
1 TTGT
9145864 ATTATTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.10, C:0.18, G:0.23, T:0.50
Consensus pattern (29 bp):
TTGTTTTGGTATTGCACTTCGGTGCTACC
Found at i:9146738 original size:23 final size:24
Alignment explanation
Indices: 9146694--9146738 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
9146684 CAACTCAAAA
9146694 ATTCAATCCAACCTTTAAACAAGT
1 ATTCAATCCAACCTTTAAACAAGT
*
9146718 ATTCAATCCAATC-TTAAACAA
1 ATTCAATCCAACCTTTAAACAA
9146739 AAATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.29
Consensus pattern (24 bp):
ATTCAATCCAACCTTTAAACAAGT
Found at i:9153442 original size:24 final size:24
Alignment explanation
Indices: 9153415--9153528 Score: 86
Period size: 24 Copynumber: 4.6 Consensus size: 24
9153405 GAGCTGTAAA
*
9153415 CGGGAAGCTCATATGAGCCAATAT
1 CGGGAAGCTCATAAGAGCCAATAT
**
9153439 CGGGAAGCTCATGAAAGAGCCTTTAAT
1 CGGGAAGCTCAT--AAGAGCCAAT-AT
* *
9153466 CGGGAAGTTCA-AGCGAGCCAATAT
1 CGGGAAGCTCATA-AGAGCCAATAT
*** *
9153490 CGGGAAGCTCCGGAGAGCCATTAAT
1 CGGGAAGCTCATAAGAGCCAAT-AT
*
9153515 CGGGAATCTCATAA
1 CGGGAAGCTCATAA
9153529 AAGCTATGGT
Statistics
Matches: 68, Mismatches: 16, Indels: 11
0.72 0.17 0.12
Matches are distributed among these distances:
24 31 0.46
25 18 0.26
26 7 0.10
27 12 0.18
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.19
Consensus pattern (24 bp):
CGGGAAGCTCATAAGAGCCAATAT
Found at i:9167356 original size:20 final size:21
Alignment explanation
Indices: 9167331--9167371 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
9167321 ACAAAGTTGC
*
9167331 AGAGAAGAACAAGA-AAAATT
1 AGAGAAAAACAAGAGAAAATT
*
9167351 AGAGAAAAAGAAGAGAAAATT
1 AGAGAAAAACAAGAGAAAATT
9167372 TTGTGAGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.66, C:0.02, G:0.22, T:0.10
Consensus pattern (21 bp):
AGAGAAAAACAAGAGAAAATT
Found at i:9173278 original size:15 final size:16
Alignment explanation
Indices: 9173258--9173290 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
9173248 TCAATAACAT
9173258 TTTTTAAAA-TTATTA
1 TTTTTAAAATTTATTA
9173273 TTTTTAAAATTTATTA
1 TTTTTAAAATTTATTA
9173289 TT
1 TT
9173291 AAAATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTAAAATTTATTA
Found at i:9173324 original size:20 final size:22
Alignment explanation
Indices: 9173299--9173343 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
9173289 TTAAAATAAA
*
9173299 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
9173319 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
9173341 ATT
1 ATT
9173344 TTATGACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:9174532 original size:10 final size:10
Alignment explanation
Indices: 9174517--9174559 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
9174507 GTATCAACTG
9174517 GAAAAGAGAA
1 GAAAAGAGAA
9174527 GAAAAGAG-A
1 GAAAAGAGAA
*
9174536 GAAAGGAGAA
1 GAAAAGAGAA
9174546 GAAGAAGA-AA
1 GAA-AAGAGAA
9174556 GAAA
1 GAAA
9174560 GAAAGAAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 9 0.31
10 17 0.59
11 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:9174544 original size:19 final size:20
Alignment explanation
Indices: 9174517--9174560 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
9174507 GTATCAACTG
* *
9174517 GAAAAGAGAAGAA-AAGAGA
1 GAAAGGAGAAGAAGAAGAAA
9174536 GAAAGGAGAAGAAGAAGAAA
1 GAAAGGAGAAGAAGAAGAAA
9174556 GAAAG
1 GAAAG
9174561 AAAGAAGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
GAAAGGAGAAGAAGAAGAAA
Found at i:9174755 original size:60 final size:59
Alignment explanation
Indices: 9174689--9174815 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 59
9174679 ATAGTTTTGG
* * *
9174689 ATTAGTATTTTGTATGAATGTAAT-TTTTTTTGCT-TTTTATAATTATTTTAAAATTAATTT
1 ATTAGTATTTGGGAT-AATGTAATAATTTTTTG-TGTTTT-TAATTATTTTAAAATTAATTT
* * *
9174749 GTTAGTAATTTGGGATTATGTTATAATTTTTTGTGTTTTTAATTATTTTAAAATTAATTT
1 ATTAGT-ATTTGGGATAATGTAATAATTTTTTGTGTTTTTAATTATTTTAAAATTAATTT
9174809 ATTAGTA
1 ATTAGTA
9174816 ATTTAAATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
59 1 0.02
60 38 0.67
61 18 0.32
ACGTcount: A:0.30, C:0.01, G:0.11, T:0.58
Consensus pattern (59 bp):
ATTAGTATTTGGGATAATGTAATAATTTTTTGTGTTTTTAATTATTTTAAAATTAATTT
Found at i:9174850 original size:21 final size:21
Alignment explanation
Indices: 9174824--9174867 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
9174814 TAATTTAAAT
*
9174824 TTGTAAGACTTCAATATTATA
1 TTGTAAGACTTCAATATCATA
9174845 TTGTAAGACTTCAATATCATA
1 TTGTAAGACTTCAATATCATA
9174866 TT
1 TT
9174868 CGAAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (21 bp):
TTGTAAGACTTCAATATCATA
Found at i:9175593 original size:57 final size:57
Alignment explanation
Indices: 9175457--9175630 Score: 246
Period size: 57 Copynumber: 3.1 Consensus size: 57
9175447 AAATGGTATG
* * * * *
9175457 TTTTTTGTAATCGTGCCTATCTGACAGGCGCCAATCAATTTTTTATAGT--AAAA-A
1 TTTTTTTTAATTGCGCCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAAATA
* *
9175511 TTTTTTTTAATTGCGTCTATCTGACAGACGCGAATCAATTTTTTATATTAAAAAATA
1 TTTTTTTTAATTGCGCCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAAATA
* *
9175568 TTTTTTTTAATTGCGCCTATCTGACAGGCTCGAATAAATTTTTTATATTAAAAAATA
1 TTTTTTTTAATTGCGCCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAAATA
9175625 TTTTTT
1 TTTTTT
9175631 GTTTAAATAA
Statistics
Matches: 106, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
54 42 0.40
56 4 0.04
57 60 0.57
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (57 bp):
TTTTTTTTAATTGCGCCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAAATA
Found at i:9175906 original size:16 final size:16
Alignment explanation
Indices: 9175885--9175923 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
9175875 TTAACTCATT
*
9175885 TAATTTTTATATAATG
1 TAATTTTTATATAATA
9175901 TAATTTTTATATAATA
1 TAATTTTTATATAATA
9175917 TAATTTT
1 TAATTTT
9175924 ATTTGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TAATTTTTATATAATA
Found at i:9181522 original size:57 final size:57
Alignment explanation
Indices: 9181408--9181525 Score: 164
Period size: 57 Copynumber: 2.1 Consensus size: 57
9181398 ATATTTTATT
* * * * * *
9181408 AAAAGAAAAAAAATTAATATAAAAAATTTATTGGCGCCTGTCAGATAGGCGCGATTA
1 AAAAGAAAAAAAATTAATATAAAAAATTCATTGGCACCGGTCAGATAGACACCATTA
* *
9181465 AAAAGAAAAAATATTAATATAAAAAATTCATTGGCACCGGTGAGATAGACACCATTA
1 AAAAGAAAAAAAATTAATATAAAAAATTCATTGGCACCGGTCAGATAGACACCATTA
9181522 AAAA
1 AAAA
9181526 AACATACTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.51, C:0.11, G:0.15, T:0.23
Consensus pattern (57 bp):
AAAAGAAAAAAAATTAATATAAAAAATTCATTGGCACCGGTCAGATAGACACCATTA
Found at i:9184769 original size:72 final size:72
Alignment explanation
Indices: 9184652--9184797 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
9184642 ATAACTTGGC
9184652 TGGCATAAATAATAACTAAAACATGATAGAACACGAAAAAGTAACACGAACAAGACTCAAAACAT
1 TGGCATAAATAATAACTAAAACATGATAGAACACGAAAAAGTAACACGAACAAGACTCAAAACAT
9184717 ATTAAAT
66 ATTAAAT
*
9184724 TGGCATAAATAATAACTAAAACATGATAGAACATGAAAAAGTAACACGAACAAGACTCAAAACAT
1 TGGCATAAATAATAACTAAAACATGATAGAACACGAAAAAGTAACACGAACAAGACTCAAAACAT
*
9184789 TTTAAAT
66 ATTAAAT
9184796 TG
1 TG
9184798 TTAAATTTAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.54, C:0.14, G:0.12, T:0.20
Consensus pattern (72 bp):
TGGCATAAATAATAACTAAAACATGATAGAACACGAAAAAGTAACACGAACAAGACTCAAAACAT
ATTAAAT
Found at i:9190822 original size:17 final size:17
Alignment explanation
Indices: 9190782--9190819 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
9190772 CATGAAAAAT
9190782 ATTTTTAAATAAAATGA
1 ATTTTTAAATAAAATGA
9190799 ATTTTTAAAT-AAA-GA
1 ATTTTTAAATAAAATGA
9190814 ATTTTT
1 ATTTTT
9190820 TTACTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.38
16 3 0.14
17 10 0.48
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
ATTTTTAAATAAAATGA
Found at i:9193162 original size:22 final size:23
Alignment explanation
Indices: 9193120--9193179 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
9193110 TCTCCGATTC
* *
9193120 AATTTTTAAA-TTATGTCAAAAT
1 AATTATTAAATTTATGTAAAAAT
9193142 AATTATTAAATTTAT-TAAAAAT
1 AATTATTAAATTTATGTAAAAAT
9193164 -A-TATTAAAATTTATGT
1 AATTATT-AAATTTATGT
9193180 TAATTAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 4 0.12
21 9 0.27
22 16 0.48
23 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (23 bp):
AATTATTAAATTTATGTAAAAAT
Found at i:9205934 original size:20 final size:19
Alignment explanation
Indices: 9205901--9205938 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
9205891 TTATTTCAAT
9205901 AAAATAATTAAATTTATATA
1 AAAATAATTAAA-TTATATA
9205921 AAAATATATT-AATTATAT
1 AAAATA-ATTAAATTATAT
9205939 TTTATTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 8 0.47
21 3 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATAATTAAATTATATA
Found at i:9206184 original size:88 final size:85
Alignment explanation
Indices: 9206010--9206239 Score: 240
Period size: 88 Copynumber: 2.7 Consensus size: 85
9206000 TTAAGGGTGT
* * * *
9206010 AAAAA-GCCCTCAAACTTTTAAAAAAAAGCAATTAA--TCTCATTTTTTT-CACTTAATTAGGTA
1 AAAAAGGCCCTCAAACTTTT-AAAAAAAGCAATTAAGCCCTCTTTTTTTTGCACTCAATTGGGTA
* * *
9206071 CTTGAACTTTCCAAATGCATC
65 CTTAAACTGTCAAAATGCATC
9206092 AAAAAGGCCCTCAAACTTTTAAAAAAAGCAATTAAGGCCCTGCTTTTTTTTAGCACTCAATTGGG
1 AAAAAGGCCCTCAAACTTTTAAAAAAAGCAATTAA-GCCCT-CTTTTTTTT-GCACTCAATTGGG
9206157 TACTTAAACTGTCAAAATGCATC
63 TACTTAAACTGTCAAAATGCATC
* * ** *
9206180 AAAAAGACCCACAAA-TTTTTTAAAAA--AATTAAGCCCCTACTTTTTTTTTGCACTCGATTG
1 AAAAAGGCCCTCAAACTTTTAAAAAAAGCAATTAAG-CCCT-C-TTTTTTTTGCACTCAATTG
9206240 TCAAAATGCA
Statistics
Matches: 126, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
82 20 0.16
83 14 0.11
84 1 0.01
85 23 0.18
86 16 0.13
87 9 0.07
88 43 0.34
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (85 bp):
AAAAAGGCCCTCAAACTTTTAAAAAAAGCAATTAAGCCCTCTTTTTTTTGCACTCAATTGGGTAC
TTAAACTGTCAAAATGCATC
Found at i:9206418 original size:20 final size:21
Alignment explanation
Indices: 9206393--9206443 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
9206383 AGTAAAAGTT
9206393 ATAAAAATTA-TTAAATTTTA
1 ATAAAAATTATTTAAATTTTA
*
9206413 ATAAAAAATATTTAAATTTTA
1 ATAAAAATTATTTAAATTTTA
*
9206434 CTAAAAATTA
1 ATAAAAATTA
9206444 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAAAATTATTTAAATTTTA
Found at i:9206782 original size:30 final size:31
Alignment explanation
Indices: 9206686--9206810 Score: 91
Period size: 30 Copynumber: 4.0 Consensus size: 31
9206676 CTTTTACGAA
* *
9206686 TTTTATATTTCTTTACAT-TTTTTATCA-TTT
1 TTTTATATTTCTATA-ATATTTTTATAATTTT
* * * *
9206716 TCTTACTACTT-TATAAAATTTTATATGTACTTTT
1 TTTTA-TATTTCTATAATATTTT-TA--TAATTTT
9206750 TTTCTATATTTCTAT-ATA-TTTTATAA-TTT
1 TTT-TATATTTCTATAATATTTTTATAATTTT
*
9206779 TTTTATATTTTTATAATATTTTTATAATTTT
1 TTTTATATTTCTATAATATTTTTATAATTTT
9206810 T
1 T
9206811 AATAAAAATT
Statistics
Matches: 73, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
28 10 0.14
29 10 0.14
30 21 0.29
31 10 0.14
32 2 0.03
33 4 0.05
34 11 0.15
35 5 0.07
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (31 bp):
TTTTATATTTCTATAATATTTTTATAATTTT
Found at i:9206784 original size:11 final size:11
Alignment explanation
Indices: 9206768--9206810 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
9206758 TTTCTATATA
9206768 TTTTATAATTT
1 TTTTATAATTT
9206779 TTTTAT-A--T
1 TTTTATAATTT
*
9206787 TTTTATAATAT
1 TTTTATAATTT
9206798 TTTTATAATTT
1 TTTTATAATTT
9206809 TT
1 TT
9206811 AATAAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
8 7 0.25
9 1 0.04
10 1 0.04
11 19 0.68
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:9206790 original size:19 final size:19
Alignment explanation
Indices: 9206755--9206811 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
9206745 CTTTTTTTCT
*
9206755 ATATTTCTATATATTTTATA
1 ATATTTTTATAT-TTTTATA
*
9206775 ATTTTTTTATATTTTTATA
1 ATATTTTTATATTTTTATA
9206794 ATATTTTTATAATTTTTA
1 ATATTTTTAT-ATTTTTA
9206812 ATAAAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
ATATTTTTATATTTTTATA
Found at i:9206810 original size:10 final size:11
Alignment explanation
Indices: 9206755--9206815 Score: 62
Period size: 10 Copynumber: 6.1 Consensus size: 11
9206745 CTTTTTTTCT
*
9206755 ATATTTCTAT-
1 ATATTTTTATA
9206765 ATA-TTTTATA
1 ATATTTTTATA
9206775 AT-TTTTT-T-
1 ATATTTTTATA
9206783 ATATTTTTATA
1 ATATTTTTATA
9206794 ATATTTTTATA
1 ATATTTTTATA
*
9206805 AT-TTTTAATA
1 ATATTTTTATA
9206815 A
1 A
9206816 AAATTAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
8 2 0.05
9 11 0.25
10 18 0.41
11 13 0.30
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
ATATTTTTATA
Found at i:9206854 original size:29 final size:29
Alignment explanation
Indices: 9206792--9206854 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
9206782 TATATTTTTA
9206792 TAATATTTTTATAATTTTTAATAAAAATT
1 TAATATTTTTATAATTTTTAATAAAAATT
* * * *
9206821 AAATATTTCTTAT-ATTTTTTATTAAAGTT
1 TAATATTT-TTATAATTTTTAATAAAAATT
9206850 TAATA
1 TAATA
9206855 ATATTATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (29 bp):
TAATATTTTTATAATTTTTAATAAAAATT
Found at i:9207987 original size:25 final size:25
Alignment explanation
Indices: 9207933--9207993 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
9207923 CTCACGAGCC
*
9207933 ATATAACAGGAAGTTCATGTGAGGT
1 ATATAACAGGAAGTTCATCTGAGGT
*
9207958 GTATAACAGGAAGCTT-ATCTG-GGCT
1 ATATAACAGGAAG-TTCATCTGAGG-T
9207983 ATATAAC-GGAA
1 ATATAACAGGAA
9207994 AGCTCATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 6 0.19
25 23 0.74
26 2 0.06
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.26
Consensus pattern (25 bp):
ATATAACAGGAAGTTCATCTGAGGT
Found at i:9208081 original size:73 final size:74
Alignment explanation
Indices: 9207993--9208188 Score: 202
Period size: 73 Copynumber: 2.6 Consensus size: 74
9207983 ATATAACGGA
* * * *
9207993 AAGCTCA-TAAGAGCCATAATCAGGAAGCTCATGCGAGCCAATAACTGGTAGCTCC-GAAGAGCC
1 AAGCTCACAAAGAGCCATAATCGGGAAGCTCATGCGAGCCAATAACGGGAAGCTCCAG-AGAGCC
9208056 ATTAAATAGG
65 ATTAAATAGG
* * * * * *
9208066 AAGCTC-CGAATAGCCATGTATCGGGAAGTTCAAGCGAGCC-ATATCGGGAAGCTCCAGAGAGCC
1 AAGCTCACAAAGAGCCAT-AATCGGGAAGCTCATGCGAGCCAATAACGGGAAGCTCCAGAGAGCC
*
9208129 ATTAATTAGG
65 ATTAAATAGG
* *
9208139 AAGCTCACAAAGAGCCTTTAATCGGGAAGCTCATGAAGAGCCATATAACG
1 AAGCTCACAAAGAGCC-ATAATCGGGAAGCTCATG-CGAGCCA-ATAACG
9208189 AGACTCACAT
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
73 47 0.48
74 39 0.40
75 6 0.06
77 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (74 bp):
AAGCTCACAAAGAGCCATAATCGGGAAGCTCATGCGAGCCAATAACGGGAAGCTCCAGAGAGCCA
TTAAATAGG
Found at i:9208105 original size:25 final size:24
Alignment explanation
Indices: 9208077--9208182 Score: 88
Period size: 26 Copynumber: 4.2 Consensus size: 24
9208067 AGCTCCGAAT
* *
9208077 AGCCATGTATCGGGAAGTTCAAGCG
1 AGCCAT-TATCGGGAAGCTCAAGAG
*
9208102 AGCCA-TATCGGGAAGCTCCAGAG
1 AGCCATTATCGGGAAGCTCAAGAG
** *
9208125 AGCCATTAATTAGGAAGCTCACAAAG
1 AGCCATT-ATCGGGAAGCTCA-AGAG
* *
9208151 AGCCTTTAATCGGGAAGCTCATGAAG
1 AGCCATT-ATCGGGAAGCTCAAG-AG
9208177 AGCCAT
1 AGCCAT
9208183 ATAACGAGAC
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
23 20 0.31
24 1 0.02
25 15 0.23
26 28 0.44
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (24 bp):
AGCCATTATCGGGAAGCTCAAGAG
Found at i:9208159 original size:26 final size:26
Alignment explanation
Indices: 9207993--9208182 Score: 89
Period size: 25 Copynumber: 7.7 Consensus size: 26
9207983 ATATAACGGA
*
9207993 AAGCTCA-TAAGAGCCA-TAATCAGG
1 AAGCTCACAAAGAGCCATTAATCAGG
*** * *
9208017 AAGCTCA-TGCGAGCCAATAA-CTGG
1 AAGCTCACAAAGAGCCATTAATCAGG
* *
9208041 TAGCTC-CGAAGAGCCATTAAAT-AGG
1 AAGCTCACAAAGAGCCATT-AATCAGG
* * *
9208066 AAGCTC-CGAATAGCCATGT-ATCGGG
1 AAGCTCACAAAGAGCCAT-TAATCAGG
* ** *
9208091 AAGTTCA-AGCGAGCCA-T-ATCGGG
1 AAGCTCACAAAGAGCCATTAATCAGG
* *
9208114 AAGCTC-CAGAGAGCCATTAATTAGG
1 AAGCTCACAAAGAGCCATTAATCAGG
* *
9208139 AAGCTCACAAAGAGCCTTTAATCGGG
1 AAGCTCACAAAGAGCCATTAATCAGG
**
9208165 AAGCTCATGAAGAGCCAT
1 AAGCTCACAAAGAGCCAT
9208183 ATAACGAGAC
Statistics
Matches: 127, Mismatches: 28, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
23 20 0.16
24 32 0.25
25 44 0.35
26 31 0.24
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
AAGCTCACAAAGAGCCATTAATCAGG
Found at i:9212951 original size:116 final size:116
Alignment explanation
Indices: 9212742--9212976 Score: 398
Period size: 116 Copynumber: 2.0 Consensus size: 116
9212732 TTTTATCCAC
* * *
9212742 CATCACATACTGGCTTAGGGGGTTTGATACTTTAACCACAAATTTAGTGGACTCAACAGATAAAT
1 CATCACATACTAGCCTAGGGGGTTTGATACTTTAACCACAAATTTAGTGGACGCAACAGATAAAT
9212807 TTTTATTAGACACTAAATTTGTGCATATGTATGAATGTGTCAAACCAGGAT
66 TTTTATTAGACACTAAATTTGTGCATATGTATGAATGTGTCAAACCAGGAT
* *
9212858 CATCACATACTAGCCTAGGGGGTTTGATACTTTAACCACGAATTTAGTGGACGCGACAGATAAAT
1 CATCACATACTAGCCTAGGGGGTTTGATACTTTAACCACAAATTTAGTGGACGCAACAGATAAAT
* * *
9212923 TTTTATTAGACACTAAATTTGTGTATATGTATGAATGTGTCGAACCATGAT
66 TTTTATTAGACACTAAATTTGTGCATATGTATGAATGTGTCAAACCAGGAT
9212974 CAT
1 CAT
9212977 TTAAAGCAGT
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 111 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (116 bp):
CATCACATACTAGCCTAGGGGGTTTGATACTTTAACCACAAATTTAGTGGACGCAACAGATAAAT
TTTTATTAGACACTAAATTTGTGCATATGTATGAATGTGTCAAACCAGGAT
Found at i:9215802 original size:26 final size:26
Alignment explanation
Indices: 9215762--9215826 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
9215752 CCATATTGAG
*
9215762 AAGCTC-CAGAGAGCATTTAATCAAA
1 AAGCTCACAAAGAGCATTTAATCAAA
**
9215787 AAGCTCACAAAGAGCATTTAATCAGG
1 AAGCTCACAAAGAGCATTTAATCAAA
*
9215813 AAGCTCACGAAGAG
1 AAGCTCACAAAGAG
9215827 TAATATAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
25 6 0.17
26 29 0.83
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (26 bp):
AAGCTCACAAAGAGCATTTAATCAAA
Found at i:9235431 original size:22 final size:21
Alignment explanation
Indices: 9235396--9235436 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
9235386 TGGTGGTTTC
*
9235396 AATTTGAATATATATTTTTGG
1 AATTTGAATATATAATTTTGG
9235417 AATTTGATATATATAATTTT
1 AATTTGA-ATATATAATTTT
9235437 CCTGGACGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (21 bp):
AATTTGAATATATAATTTTGG
Found at i:9241964 original size:68 final size:67
Alignment explanation
Indices: 9241864--9242062 Score: 191
Period size: 68 Copynumber: 3.0 Consensus size: 67
9241854 ATTTTAATAG
* * *
9241864 ATTTAATATTAAATTTAATTTAATACTAATCTTAAT-AGTATTTTATTAATTTAATATTAAAGCG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAG-G
9241928 ATT
65 ATT
* * * *
9241931 ATCTTAATATTGAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTT-A-A-T-A
1 AT-TTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAGTATTATATTAATTTAATATTAA
9241992 A-G---
62 AGGATT
* * *
9241994 ATTTAAGATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAG-G
9242059 ATT
65 ATT
9242062 A
1 A
9242063 AGTTTAATCA
Statistics
Matches: 105, Mismatches: 13, Indels: 27
0.72 0.09 0.19
Matches are distributed among these distances:
59 17 0.16
60 2 0.02
61 2 0.02
62 26 0.25
63 4 0.04
65 1 0.01
66 1 0.01
67 2 0.02
68 28 0.27
69 2 0.02
70 3 0.03
71 3 0.03
72 14 0.13
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.49
Consensus pattern (67 bp):
ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGGA
TT
Found at i:9242049 original size:59 final size:62
Alignment explanation
Indices: 9241934--9242050 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
9241924 AGCGATTATC
* * * * *
9241934 TTAATATTGAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
*
9241996 TTAAGATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAATA
1 TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATA
9242051 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 22 0.45
60 1 0.02
61 1 0.02
62 25 0.51
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (62 bp):
TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
Found at i:9267808 original size:21 final size:21
Alignment explanation
Indices: 9267736--9267809 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
9267726 TCTAAAAGCA
* *
9267736 GAAGAGACATGATCGTGTGGCT
1 GAAG-GACATGACCGTGTAGCT
* * * *
9267758 GAAAGACACGCCCGTGTAACT
1 GAAGGACATGACCGTGTAGCT
*
9267779 GAAGCACATGACCGTGTAGCT
1 GAAGGACATGACCGTGTAGCT
*
9267800 GAGGGACATG
1 GAAGGACATG
9267810 CCTATGTACG
Statistics
Matches: 39, Mismatches: 13, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
21 36 0.92
22 3 0.08
ACGTcount: A:0.30, C:0.20, G:0.32, T:0.18
Consensus pattern (21 bp):
GAAGGACATGACCGTGTAGCT
Found at i:9275274 original size:18 final size:19
Alignment explanation
Indices: 9275234--9275276 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
9275224 TTTCAGAATT
* *
9275234 ATGGGCCCACATGCCTTTG
1 ATGGGCCCACACGCCTTAG
9275253 -TGGGCCCACACGCC-TAG
1 ATGGGCCCACACGCCTTAG
9275270 ATGGGCC
1 ATGGGCC
9275277 TTGCCTATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.16, C:0.35, G:0.30, T:0.19
Consensus pattern (19 bp):
ATGGGCCCACACGCCTTAG
Found at i:9280877 original size:21 final size:21
Alignment explanation
Indices: 9280824--9280880 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
9280814 TAGCTTTCAC
*
9280824 GAGCTTCTGTTTAACTCGTAT
1 GAGCTTCTGTTCAACTCGTAT
* * *
9280845 GAGTTTCCGTTCAGCTC-TATT
1 GAGCTTCTGTTCAACTCGTA-T
9280866 GAGCTTCTGTTCAAC
1 GAGCTTCTGTTCAAC
9280881 CCTTATGGGT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (21 bp):
GAGCTTCTGTTCAACTCGTAT
Found at i:9280926 original size:21 final size:21
Alignment explanation
Indices: 9280866--9280926 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 21
9280856 CAGCTCTATT
* *
9280866 GAGCTTCTGTTCAACCCTTAT
1 GAGCTTCCGTTCAACCCTTAC
* * * *
9280887 GGGTTTTCGTCCAA-CCTTAC
1 GAGCTTCCGTTCAACCCTTAC
9280907 GAGCTTCCGTTCAACCCTTA
1 GAGCTTCCGTTCAACCCTTA
9280927 TGGGTTTCTG
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.34
Consensus pattern (21 bp):
GAGCTTCCGTTCAACCCTTAC
Found at i:9290313 original size:26 final size:26
Alignment explanation
Indices: 9290284--9290343 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
9290274 ATTTTTCTAG
*
9290284 AAATTTTACCAATGA-TAAAATCATCA
1 AAATTTTACC-ACGAGTAAAATCATCA
**
9290310 AAATTTTACCACGAGTAAAATTGTCA
1 AAATTTTACCACGAGTAAAATCATCA
9290336 AAATTTTA
1 AAATTTTA
9290344 TTAGGATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 27 0.90
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (26 bp):
AAATTTTACCACGAGTAAAATCATCA
Found at i:9294773 original size:11 final size:11
Alignment explanation
Indices: 9294757--9294781 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9294747 GCTATAACTA
9294757 TGAATTTCTTC
1 TGAATTTCTTC
9294768 TGAATTTCTTC
1 TGAATTTCTTC
9294779 TGA
1 TGA
9294782 GCCGTGGCTA
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:0.20, C:0.16, G:0.12, T:0.52
Consensus pattern (11 bp):
TGAATTTCTTC
Found at i:9300252 original size:26 final size:26
Alignment explanation
Indices: 9300223--9300279 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
9300213 CCGATATATA
*
9300223 GCTCTTCGTGAGCTTCCCAATTAAAG
1 GCTCTTCGTGACCTTCCCAATTAAAG
* ** *
9300249 GCTCTTTGTGACCTTCCTGATTAATG
1 GCTCTTCGTGACCTTCCCAATTAAAG
9300275 GCTCT
1 GCTCT
9300280 CCGAAGCTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (26 bp):
GCTCTTCGTGACCTTCCCAATTAAAG
Found at i:9301704 original size:42 final size:42
Alignment explanation
Indices: 9301658--9301741 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
9301648 TTTCGAATGC
*
9301658 CCACACGGCCTATGACACGGTTGTGTCTCTTCGTCATGTGAG
1 CCACACGGCCTATGACACGGGTGTGTCTCTTCGTCATGTGAG
* *
9301700 CCACACGGCCTATTACACGGGTGTGTCTCTTCGTCGTGTGAG
1 CCACACGGCCTATGACACGGGTGTGTCTCTTCGTCATGTGAG
9301742 TCGCACAGCC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (42 bp):
CCACACGGCCTATGACACGGGTGTGTCTCTTCGTCATGTGAG
Found at i:9301753 original size:42 final size:42
Alignment explanation
Indices: 9301658--9301753 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
9301648 TTTCGAATGC
* *
9301658 CCACACGGCCTATGACACGGTTGTGTCTCTTCGTCATGTGAG
1 CCACACAGCCTATGACACGGGTGTGTCTCTTCGTCATGTGAG
* * *
9301700 CCACACGGCCTATTACACGGGTGTGTCTCTTCGTCGTGTGAG
1 CCACACAGCCTATGACACGGGTGTGTCTCTTCGTCATGTGAG
* *
9301742 TCGCACAGCCTA
1 CCACACAGCCTA
9301754 ACCACACCGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.17, C:0.30, G:0.26, T:0.27
Consensus pattern (42 bp):
CCACACAGCCTATGACACGGGTGTGTCTCTTCGTCATGTGAG
Found at i:9309365 original size:8 final size:8
Alignment explanation
Indices: 9309313--9309389 Score: 56
Period size: 8 Copynumber: 9.9 Consensus size: 8
9309303 TTTAATTTAA
9309313 ATTATA-T
1 ATTATATT
9309320 ATTATATT
1 ATTATATT
*
9309328 ATGTTTACTT
1 AT-TATA-TT
*
9309338 AATTA-ATA
1 -ATTATATT
* *
9309346 AGTATGTT
1 ATTATATT
9309354 ATTATATT
1 ATTATATT
9309362 A-T-TA-T
1 ATTATATT
9309367 ATTATATT
1 ATTATATT
9309375 ATTATATT
1 ATTATATT
9309383 ATTATAT
1 ATTATAT
9309390 ATATATAACA
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
5 2 0.04
6 3 0.06
7 12 0.22
8 28 0.52
9 4 0.07
10 3 0.06
11 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (8 bp):
ATTATATT
Found at i:9309371 original size:13 final size:13
Alignment explanation
Indices: 9309353--9309384 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
9309343 ATAAGTATGT
9309353 TATTATATTATTA
1 TATTATATTATTA
9309366 TATTATATTATTA
1 TATTATATTATTA
9309379 TATTAT
1 TATTAT
9309385 TATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:9309378 original size:21 final size:21
Alignment explanation
Indices: 9309313--9309395 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 21
9309303 TTTAATTTAA
*
9309313 ATTATA-TATTATATTATGTTT
1 ATTATATTATTATATTAT-ATT
* * *
9309334 ACTTA-ATTAATA-AGTATGTT
1 A-TTATATTATTATATTATATT
9309354 ATTATATTATTATATTATATT
1 ATTATATTATTATATTATATT
9309375 ATTATATTATTATATATATAT
1 ATTATATTATTATAT-TATAT
9309396 AACAAAAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.06
20 9 0.18
21 27 0.53
22 12 0.24
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.57
Consensus pattern (21 bp):
ATTATATTATTATATTATATT
Found at i:9310057 original size:22 final size:22
Alignment explanation
Indices: 9310032--9310098 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
9310022 TATCTGATTA
*
9310032 TTAGCACGTCAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
* * *
9310054 TTAGCACATCTGTGTTCTTTGT
1 TTAGCACATCAGTGCTCTCTGT
* * *
9310076 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
9310098 T
1 T
9310099 CATTAGTGCA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.43
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGT
Found at i:9312128 original size:28 final size:27
Alignment explanation
Indices: 9312096--9312155 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
9312086 CAGGCATAGT
*
9312096 ATCAGGT-GAGCCTTAGCCCATTAACAGA
1 ATCAGGTGGA-CCTAAGCCCATT-ACAGA
9312124 ATCAGGTGGACCTAAGCCCATTACAGA
1 ATCAGGTGGACCTAAGCCCATTACAGA
9312151 ATCAG
1 ATCAG
9312156 TATCAGATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 10 0.33
28 18 0.60
29 2 0.07
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (27 bp):
ATCAGGTGGACCTAAGCCCATTACAGA
Found at i:9312644 original size:27 final size:28
Alignment explanation
Indices: 9312612--9312709 Score: 114
Period size: 27 Copynumber: 3.6 Consensus size: 28
9312602 TTACCCCATG
* *
9312612 GGGTATTTTAGTTATTTT-CCCTTTCG-
1 GGGTATTTTGGTAATTTTACCCTTTCGA
*
9312638 GAGGTATTTCGGTAATTTTACCC-TTCGA
1 G-GGTATTTTGGTAATTTTACCCTTTCGA
9312666 GGGTATTTTGGTAATTTTACCC-TTCGA
1 GGGTATTTTGGTAATTTTACCCTTTCGA
* *
9312693 GGGTATTTCGATAATTT
1 GGGTATTTTGGTAATTT
9312710 AACAACTTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
26 1 0.02
27 58 0.92
28 4 0.06
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.46
Consensus pattern (28 bp):
GGGTATTTTGGTAATTTTACCCTTTCGA
Found at i:9317414 original size:16 final size:16
Alignment explanation
Indices: 9317380--9317426 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
9317370 ACATTATAAA
*
9317380 AATA-TAAAGATTAAAT
1 AATATTAAAAATT-AAT
*
9317396 AATGTTAAAAATTAAT
1 AATATTAAAAATTAAT
*
9317412 AATATTAAATATTAA
1 AATATTAAAAATTAA
9317427 AGTATAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (16 bp):
AATATTAAAAATTAAT
Found at i:9317449 original size:7 final size:7
Alignment explanation
Indices: 9317412--9317475 Score: 50
Period size: 7 Copynumber: 9.7 Consensus size: 7
9317402 AAAAATTAAT
9317412 AATATTA
1 AATATTA
9317419 AATATTA
1 AATATTA
9317426 AAGTA-TA
1 AA-TATTA
*
9317433 AAGATTA
1 AATATTA
*
9317440 AATATCA
1 AATATTA
9317447 AAT-TTA
1 AATATTA
9317453 AACTA--A
1 AA-TATTA
9317459 AAT-TTA
1 AATATTA
9317465 AAT-TTA
1 AATATTA
9317471 AATAT
1 AATAT
9317476 ATATTAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
5 1 0.02
6 18 0.39
7 25 0.54
8 2 0.04
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (7 bp):
AATATTA
Found at i:9318365 original size:19 final size:19
Alignment explanation
Indices: 9318341--9318397 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
9318331 GGTCCTGAAA
*
9318341 ACCTTGCGAGTTGAGGATC
1 ACCTTGCGAGTTGGGGATC
9318360 ACCTTGCGAGTTGGGGATC
1 ACCTTGCGAGTTGGGGATC
9318379 ACCTTGCGAGTTGGGGATC
1 ACCTTGCGAGTTGGGGATC
9318398 TAGGATGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.18, C:0.21, G:0.35, T:0.26
Consensus pattern (19 bp):
ACCTTGCGAGTTGGGGATC
Found at i:9328190 original size:332 final size:328
Alignment explanation
Indices: 9327544--9328204 Score: 819
Period size: 332 Copynumber: 2.0 Consensus size: 328
9327534 CATCTGCTTC
* *
9327544 AGCTTCCTTTAGCTTTGTCTCTTCTGGTTCCACTGCAGCCAGTGCAGATTCCCTGTCAGCAGCAT
1 AGCTTCCTTTAGCTTTGTCTCTTCTGATTCCACTGCAGCCAGTGCAGATTCCCGGTCAGCAGCAT
* * *
9327609 CGATACTTTCTTCTACTAAGGTTTTCTCTTCAGCATCCTTGTTCAATTCCTCAAGCTCAGATGAA
66 CGATACTTCCTTCTACTAAGGTTCTCTCTTCAGCATCCTTGTTCAAGTCCTCAAGCTCAGATGAA
* * * *
9327674 GAGCTTGCCTGTAAAAAGATTGGATGTGCAAGTTAGCAACTAACAATGGTCAAAAAGAACACATT
131 GAGCTTGCCTGTAAAAACATTGAATGTGCAAGTTAGCAACTAACAATGGTAAAAAAGAACAAATT
* * * *
9327739 TTTGGACCCAAATCGACTTTCATTTATATTAGCTGACCTTTTCTGTTACCTTCAATGGGGTGCTT
196 TTTGGACCCAAATCAACTTTCATTTATATTAGCTGACATTTTCTGTTAACTTCAATGGGATGCTT
* * *
9327804 TCATCTTCCTTTGTGCTTTCCTTCACAGTTTCATCACTAATCATTGAGCTCGAGATGTCAGATAT
261 TCATCTTCCTCTGTGCTTTCCTTCACAGTTTCATCACCAATCATTGAACTCGAGATGTCAGATAT
9327869 AGG
326 AGG
** * * * *
9327872 AGCTTCCTTTAGCTTTGTCTCTTCTGATTCTGCTGCAGCCGGTGCCGATTCCGGGTCAGCAGTAT
1 AGCTTCCTTTAGCTTTGTCTCTTCTGATTCCACTGCAGCCAGTGCAGATTCCCGGTCAGCAGCAT
* * ** * * **
9327937 CGATACTTCCTTCTACTAAGGTTCTCTCTTCAGTATCCTTTTTTGAGTCTTGAATTTCTA-ATGA
66 CGATACTTCCTTCTACTAAGGTTCTCTCTTCAGCATCCTTGTTCAAGTCCTCAAGCTC-AGATGA
* ** *
9328001 AG-GACTTGCCTGT-AAATCATTGAATGTTTAAGTTAGCAACTAACAATGGTAAAAAAAAAATTA
130 AGAG-CTTGCCTGTAAAAACATTGAATGTGCAAGTTAGCAACTAACAATGGT----AAAAAA-GA
* * *
9328064 ACAAATTTTTGGGCCCAAATCAATTTTCATTTGTATTAGCTGACATTTTCTGTTAACTTCAATGG
189 ACAAATTTTTGGACCCAAATCAACTTTCATTTATATTAGCTGACATTTTCTGTTAACTTCAATGG
* * * * *
9328129 GATGCTTTCATTTTCCTCTGTGCTTTCTTTCA-TGATTTCATCGCCAGTCGA-TGAACTCGAGAT
254 GATGCTTTCATCTTCCTCTGTGCTTTCCTTCACAG-TTTCATCACCAATC-ATTGAACTCGAGAT
*
9328192 GTCAGCTATAGG
317 GTCAGATATAGG
9328204 A
1 A
9328205 TGTTCCTCCA
Statistics
Matches: 281, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
327 33 0.12
328 119 0.42
329 1 0.00
331 6 0.02
332 121 0.43
333 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.36
Consensus pattern (328 bp):
AGCTTCCTTTAGCTTTGTCTCTTCTGATTCCACTGCAGCCAGTGCAGATTCCCGGTCAGCAGCAT
CGATACTTCCTTCTACTAAGGTTCTCTCTTCAGCATCCTTGTTCAAGTCCTCAAGCTCAGATGAA
GAGCTTGCCTGTAAAAACATTGAATGTGCAAGTTAGCAACTAACAATGGTAAAAAAGAACAAATT
TTTGGACCCAAATCAACTTTCATTTATATTAGCTGACATTTTCTGTTAACTTCAATGGGATGCTT
TCATCTTCCTCTGTGCTTTCCTTCACAGTTTCATCACCAATCATTGAACTCGAGATGTCAGATAT
AGG
Found at i:9331292 original size:16 final size:16
Alignment explanation
Indices: 9331273--9331303 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9331263 ATATTAACAT
*
9331273 TATTTAATTTTAAAGA
1 TATTTAATATTAAAGA
9331289 TATTTAATATTAAAG
1 TATTTAATATTAAAG
9331304 TAATACAAAA
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:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAGA
Found at i:9334618 original size:22 final size:22
Alignment explanation
Indices: 9334591--9334634 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9334581 GTATCTAAGT
*
9334591 TAATAATTGAATTAATG-AATTA
1 TAATAATT-AAATAATGCAATTA
9334613 TAATAATTAAATAATGCAATTA
1 TAATAATTAAATAATGCAATTA
9334635 AAGTAGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (22 bp):
TAATAATTAAATAATGCAATTA
Found at i:9337009 original size:13 final size:13
Alignment explanation
Indices: 9336991--9337020 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9336981 AGACTAGATT
*
9336991 TTAACTAAGTAAA
1 TTAACTAAGAAAA
9337004 TTAACTAAGAAAA
1 TTAACTAAGAAAA
9337017 TTAA
1 TTAA
9337021 AAGATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:9337375 original size:105 final size:105
Alignment explanation
Indices: 9337193--9337402 Score: 411
Period size: 105 Copynumber: 2.0 Consensus size: 105
9337183 AACATATTAC
9337193 TATGCCAATTCAAACAATTAATCAAATTTAATAAACAAGTAAAAGATTAAGTGAAGTAACAACAT
1 TATGCCAATTCAAACAATTAATCAAATTTAATAAACAAGTAAAAGATTAAGTGAAGTAACAACAT
9337258 ATTCCTACATCGAAATAGTTTAACCACAATAATCTTGCAA
66 ATTCCTACATCGAAATAGTTTAACCACAATAATCTTGCAA
*
9337298 TATGCCAATTCAAACAATTAATCAAATTTAATAAGCAAGTAAAAGATTAAGTGAAGTAACAACAT
1 TATGCCAATTCAAACAATTAATCAAATTTAATAAACAAGTAAAAGATTAAGTGAAGTAACAACAT
9337363 ATTCCTACATCGAAATAGTTTAACCACAATAATCTTGCAA
66 ATTCCTACATCGAAATAGTTTAACCACAATAATCTTGCAA
9337403 GTTATGCAAG
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (105 bp):
TATGCCAATTCAAACAATTAATCAAATTTAATAAACAAGTAAAAGATTAAGTGAAGTAACAACAT
ATTCCTACATCGAAATAGTTTAACCACAATAATCTTGCAA
Found at i:9338396 original size:16 final size:17
Alignment explanation
Indices: 9338375--9338407 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9338365 AAAAATTAAA
*
9338375 ATTAAT-TTTATTATTT
1 ATTAATATTTATAATTT
9338391 ATTAATATTTATAATTT
1 ATTAATATTTATAATTT
9338408 GGACTATACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTAATATTTATAATTT
Found at i:9338585 original size:22 final size:22
Alignment explanation
Indices: 9338533--9338582 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
9338523 AAAATAAATC
* * * *
9338533 AAAATTTATGAAAATTTATTAT
1 AAAATTAATCAAAATTAAATAT
9338555 AAAATTAATCAAAATTAAATAT
1 AAAATTAATCAAAATTAAATAT
9338577 ATAAAT
1 A-AAAT
9338583 AATTTAAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATTAATCAAAATTAAATAT
Found at i:9340683 original size:19 final size:20
Alignment explanation
Indices: 9340649--9340686 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9340639 AATAATTTTT
*
9340649 AATTTAATTATTAAATATAA
1 AATTTAATTATAAAATATAA
9340669 AATTT-ATTATAAAATATA
1 AATTTAATTATAAAATATA
9340687 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTAATTATAAAATATAA
Found at i:9340887 original size:19 final size:18
Alignment explanation
Indices: 9340854--9340891 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
9340844 CATATTTAAA
9340854 ATAAAATTTTATTTATTT
1 ATAAAATTTTATTTATTT
*
9340872 ATAAATTTTATATTTATTT
1 ATAAAATTT-TATTTATTT
9340891 A
1 A
9340892 ATTAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATAAAATTTTATTTATTT
Found at i:9340904 original size:23 final size:23
Alignment explanation
Indices: 9340861--9340904 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
9340851 AAAATAAAAT
* *
9340861 TTTATTTATTTATAAATTTTATA
1 TTTATTTAATTATAAAATTTATA
9340884 TTTATTTAATTA-AAACATTTA
1 TTTATTTAATTATAAA-ATTTA
9340905 CTTATAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTATTTAATTATAAAATTTATA
Found at i:9344300 original size:42 final size:42
Alignment explanation
Indices: 9344231--9344323 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
9344221 CGGTATATTT
* **
9344231 GATGATGCACTTATGTGCCAGTATGATTAC-TCAAATTTATCC
1 GATGATGCAATTACATGCCAGTATGATTACTTC-AATTTATCC
* * * * *
9344273 GATGATGCAATTACATGTCAGTGTGATTGCTTCGATTTATCT
1 GATGATGCAATTACATGCCAGTATGATTACTTCAATTTATCC
9344315 GATGATGCA
1 GATGATGCA
9344324 CTACGTGTAC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 40 0.95
43 2 0.05
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (42 bp):
GATGATGCAATTACATGCCAGTATGATTACTTCAATTTATCC
Done.