Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14367614
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 51264 characters in sequence are not A, C, G, or T
File 19 of 31
Found at i:9359678 original size:19 final size:20
Alignment explanation
Indices: 9359640--9359678 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
9359630 AAAATTATTT
**
9359640 TTATATATTTTTATTTTAAA
1 TTATATATTTTTATCCTAAA
9359660 TTATATA-TTTTATCCTAAA
1 TTATATATTTTTATCCTAAA
9359679 AATTCATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATATATTTTTATCCTAAA
Found at i:9360193 original size:54 final size:53
Alignment explanation
Indices: 9360040--9360196 Score: 156
Period size: 54 Copynumber: 2.9 Consensus size: 53
9360030 TTTAATGTGG
* * *
9360040 AATTTGTAACATTTTA-CTTCACTTAATAGTGCATCTCGATGCATTAGCTATTTT
1 AATTTGTAACATTTTATCTT-AC-TAATTGTGCATCTTGATGCACTAGCTATTTT
* * * * * *
9360094 AATTTGTAATATTCTATCTCACTCAATTATGCATCGTGATGCACTAG-TGTTTT
1 AATTTGTAACATTTTATCTTACT-AATTGTGCATCTTGATGCACTAGCTATTTT
* *
9360147 AAATTTGTAACATTTTATCTTATCTAATTGTGTATCTTGATACACTAGCT
1 -AATTTGTAACATTTTATCTTA-CTAATTGTGCATCTTGATGCACTAGCT
9360197 CTTTACCCAT
Statistics
Matches: 82, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
53 6 0.07
54 71 0.87
55 5 0.06
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.45
Consensus pattern (53 bp):
AATTTGTAACATTTTATCTTACTAATTGTGCATCTTGATGCACTAGCTATTTT
Found at i:9360514 original size:42 final size:42
Alignment explanation
Indices: 9360436--9360518 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
9360426 CATCTAATTA
***
9360436 TGCATCGTGATGGCTCTTTATTTATAAAGAAAAAAGACTTTG
1 TGCATCGTGATGGCTCTTTACCCATAAAGAAAAAAGACTTTG
* * * *
9360478 TGCATCTTGATGGTTCTTTACCCATAGAGAAGAAAGACTTT
1 TGCATCGTGATGGCTCTTTACCCATAAAGAAAAAAGACTTT
9360519 TACATTAGTC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.35
Consensus pattern (42 bp):
TGCATCGTGATGGCTCTTTACCCATAAAGAAAAAAGACTTTG
Found at i:9360691 original size:118 final size:119
Alignment explanation
Indices: 9360494--9360724 Score: 270
Period size: 118 Copynumber: 1.9 Consensus size: 119
9360484 TTGATGGTTC
* **
9360494 TTTACCCATAGAGAAGAAAGACTTTTACATTAGTCCAATTTTACCCATCTCTCACATTAGTCCAA
1 TTTACCCATAGAGAAG--AGACTTTTACACTAGTCCAATTTTACCCATCTCTCACACCAGTCCAA
** * **
9360559 TCTTACTTATCTCTTACTAATATTTTTATTTATCCAATTGTACATCTCAATGGCTT
64 TCTTACCCATCTCTTACTAATACTTTTATCCATCCAATTGTACATCTCAATGGCTT
* * *
9360615 TTTACTCATAGAGAAG-GACTTTTACACTA-TCTCGATTTTACCCATCTCTTACACCAG-CCTAA
1 TTTACCCATAGAGAAGAGACTTTTACACTAGTC-CAATTTTACCCATCTCTCACACCAGTCC-AA
* * * *
9360677 TTTTACCCATCTCTTACTAATGCTTTTATCCATCTAATTGTGCATCTC
64 TCTTACCCATCTCTTACTAATACTTTTATCCATCCAATTGTACATCTC
9360725 GATGTACTAG
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
117 4 0.04
118 74 0.80
121 15 0.16
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.40
Consensus pattern (119 bp):
TTTACCCATAGAGAAGAGACTTTTACACTAGTCCAATTTTACCCATCTCTCACACCAGTCCAATC
TTACCCATCTCTTACTAATACTTTTATCCATCCAATTGTACATCTCAATGGCTT
Found at i:9360801 original size:72 final size:72
Alignment explanation
Indices: 9360720--9360859 Score: 210
Period size: 72 Copynumber: 1.9 Consensus size: 72
9360710 CTAATTGTGC
* * * *
9360720 ATCTCGATGTACT-AGTTCTTTACTCATGGAGAAAAGGGACTCTTACACTAGTTTGATTTACCTA
1 ATCTCGATGTACTGA-CTCTTTACTCATAGAGAAAAGAGACTCTTACACTAGTTCGATTTACCTA
9360784 CACTGGCT
65 CACTGGCT
* *
9360792 ATCTCGATGTACTGACTCTTTACTCATAGAGAACAGAGACTCTTATACTAGTTCGATTTACCTAC
1 ATCTCGATGTACTGACTCTTTACTCATAGAGAAAAGAGACTCTTACACTAGTTCGATTTACCTAC
9360857 ACT
66 ACT
9360860 TGTTTTTTAC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 60 0.98
73 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (72 bp):
ATCTCGATGTACTGACTCTTTACTCATAGAGAAAAGAGACTCTTACACTAGTTCGATTTACCTAC
ACTGGCT
Found at i:9361018 original size:166 final size:166
Alignment explanation
Indices: 9360738--9361101 Score: 638
Period size: 166 Copynumber: 2.2 Consensus size: 166
9360728 GTACTAGTTC
* * *
9360738 TTTACTCATGGAGAAAAGGGACTCTTACACTAGTTTGATTTACCTACACTGGCTATCTCGATGTA
1 TTTACCCATGGAGAAGAGGGACTCTTACACTAGTTTGATTTACCTACACTGGCTATCTCAATGTA
* *
9360803 CTGACTCTTTACTCATAGAGAACAGAGACTCTTATACTAGTTCGATTTACCTACACTTGTTTTTT
66 CTGACTCTTTACTCATAGAGAACAGAGACTCTTACACTAGTTCGATTTACCTACACTTGCTTTTT
*
9360868 ACTCATAAAGAAGATGGACACTTATATTAGTTCGAT
131 ACTCATAAAGAAGATGGACACTTACATTAGTTCGAT
*
9360904 TTTACCCATGGAGAAGAGGGACTTTTACACTAGTTTGATTTACCTACACTGGCTATCTCAATGTA
1 TTTACCCATGGAGAAGAGGGACTCTTACACTAGTTTGATTTACCTACACTGGCTATCTCAATGTA
*
9360969 CTGACTCTTTACTCATAGAGAATAGAGACTCTTACACTAGTTCGATTTACCTACACTTGCTTTTT
66 CTGACTCTTTACTCATAGAGAACAGAGACTCTTACACTAGTTCGATTTACCTACACTTGCTTTTT
9361034 ACTCATAAAGAAGATGGACACTTACATTAGTTCGAT
131 ACTCATAAAGAAGATGGACACTTACATTAGTTCGAT
* *
9361070 TTTACCCATAGAGAAGAAGGACTCTTACACTA
1 TTTACCCATGGAGAAGAGGGACTCTTACACTA
9361102 ATCCGGGTCT
Statistics
Matches: 187, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
166 187 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (166 bp):
TTTACCCATGGAGAAGAGGGACTCTTACACTAGTTTGATTTACCTACACTGGCTATCTCAATGTA
CTGACTCTTTACTCATAGAGAACAGAGACTCTTACACTAGTTCGATTTACCTACACTTGCTTTTT
ACTCATAAAGAAGATGGACACTTACATTAGTTCGAT
Found at i:9368636 original size:4 final size:4
Alignment explanation
Indices: 9368616--9368654 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
9368606 ATACGAACCC
* *
9368616 ATGT ATGC ATAT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
9368655 CAAGTGTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.46
Consensus pattern (4 bp):
ATGT
Found at i:9372009 original size:10 final size:10
Alignment explanation
Indices: 9371993--9372023 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9371983 ATTAAAATAA
9371993 ATTTAATTAT
1 ATTTAATTAT
*
9372003 TTTTAATTAT
1 ATTTAATTAT
9372013 ATTTAATTAT
1 ATTTAATTAT
9372023 A
1 A
9372024 ACTTGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTTAATTAT
Found at i:9372744 original size:27 final size:27
Alignment explanation
Indices: 9372664--9372746 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
9372654 GTATAACAAT
9372664 AATATTTTTTTTAACATGACGTGTAAC
1 AATATTTTTTTTAACATGACGTGTAAC
* * * * *
9372691 -AT-GTTTTTGT-ATATAGTATGTAATAAC
1 AATATTTTTTTTAACAT-G-ACGT-GTAAC
9372718 AATATTTTTTTTAACATGACGTGTAAC
1 AATATTTTTTTTAACATGACGTGTAAC
9372745 AA
1 AA
9372747 ATTAACAATA
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
24 3 0.08
25 7 0.17
26 5 0.12
27 10 0.25
28 5 0.12
29 7 0.17
30 3 0.08
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (27 bp):
AATATTTTTTTTAACATGACGTGTAAC
Found at i:9382305 original size:2 final size:2
Alignment explanation
Indices: 9382298--9382332 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9382288 AAAGAGAAAG
9382298 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9382333 GTATGTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9383037 original size:18 final size:18
Alignment explanation
Indices: 9383014--9383052 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
9383004 CATAGCATGA
9383014 TCATAGATTTGGAAAGCT
1 TCATAGATTTGGAAAGCT
9383032 TCATAGATTTGGAAAGCT
1 TCATAGATTTGGAAAGCT
9383050 TCA
1 TCA
9383053 CAAAGATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (18 bp):
TCATAGATTTGGAAAGCT
Found at i:9385576 original size:10 final size:10
Alignment explanation
Indices: 9385561--9385585 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9385551 TTTCTAATAT
9385561 AAAAAAATTA
1 AAAAAAATTA
9385571 AAAAAAATTA
1 AAAAAAATTA
9385581 AAAAA
1 AAAAA
9385586 TAAAGAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:9389156 original size:21 final size:21
Alignment explanation
Indices: 9389117--9389156 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9389107 TCCAAACAAT
*
9389117 AAAAATTAAATTATTAAAAAG
1 AAAAATTAAATTATAAAAAAG
9389138 AAAAATTAAATT-TAAAAAA
1 AAAAATTAAATTATAAAAAA
9389157 TTTTAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAAATTAAATTATAAAAAAG
Found at i:9390714 original size:19 final size:19
Alignment explanation
Indices: 9390679--9390715 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9390669 GATGTGGTGT
*
9390679 TGACATGACACTACCATGA
1 TGACATGACAATACCATGA
*
9390698 TGACATGACAATGCCATG
1 TGACATGACAATACCATG
9390716 TGCCATCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (19 bp):
TGACATGACAATACCATGA
Found at i:9390844 original size:14 final size:15
Alignment explanation
Indices: 9390820--9390848 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9390810 ATGTGGTAGA
9390820 TCAAGAAAAAAATTT
1 TCAAGAAAAAAATTT
9390835 TCAA-AAAAAAATTT
1 TCAAGAAAAAAATTT
9390849 GTATCATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (15 bp):
TCAAGAAAAAAATTT
Found at i:9390907 original size:31 final size:31
Alignment explanation
Indices: 9390864--9390948 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
9390854 ATATCATAAT
* *
9390864 GATTAAACTGAACAAAAATTTATAATA-TAGG
1 GATTAAATTGAACAAAAATTTA-AATATTAGA
*
9390895 GATTAAATTGAAC-AAAATTGAAATATTTAGA
1 GATTAAATTGAACAAAAATTTAAATA-TTAGA
*
9390926 GACTAAATTGAA-AAAAATTTAAA
1 GATTAAATTGAACAAAAATTTAAA
9390949 AAATACAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
29 4 0.09
30 7 0.15
31 35 0.76
ACGTcount: A:0.54, C:0.05, G:0.12, T:0.29
Consensus pattern (31 bp):
GATTAAATTGAACAAAAATTTAAATATTAGA
Found at i:9396019 original size:24 final size:24
Alignment explanation
Indices: 9395972--9396019 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9395962 AATTCAAACT
*
9395972 CGATTAATAAATAAATACATGAAC
1 CGATTAATAAATAAATACACGAAC
* *
9395996 CGATTAATAAATAGATACCCGAAC
1 CGATTAATAAATAAATACACGAAC
9396020 TCTATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.23
Consensus pattern (24 bp):
CGATTAATAAATAAATACACGAAC
Found at i:9396564 original size:13 final size:13
Alignment explanation
Indices: 9396543--9396578 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
9396533 GAAAGTAAAT
* *
9396543 AAGTTTATATTTA
1 AAGTATATATTAA
9396556 AAGTATATATTAA
1 AAGTATATATTAA
9396569 AAGTATATAT
1 AAGTATATAT
9396579 ATATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
AAGTATATATTAA
Found at i:9397696 original size:31 final size:31
Alignment explanation
Indices: 9397661--9397772 Score: 115
Period size: 31 Copynumber: 3.6 Consensus size: 31
9397651 GTAATCTATC
*
9397661 GTGCCAACTTAATTAGGCTTAATTCATCTTA
1 GTGCCAACTTAATTGGGCTTAATTCATCTTA
* *
9397692 GTGCCAA-TTAAATTGGGCTTAAAATC-TCTCA
1 GTGCCAACTT-AATTGGGCTT-AATTCATCTTA
* * *
9397723 -TGCCAACTCAATTGGGCTTAATTCATTTTG
1 GTGCCAACTTAATTGGGCTTAATTCATCTTA
9397753 GTGCCAAC-TAGATTGGGCTT
1 GTGCCAACTTA-ATTGGGCTT
9397773 GGACTCTCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
29 4 0.06
30 21 0.32
31 37 0.56
32 4 0.06
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (31 bp):
GTGCCAACTTAATTGGGCTTAATTCATCTTA
Found at i:9397736 original size:30 final size:30
Alignment explanation
Indices: 9397642--9397743 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 30
9397632 TGCTAGTTAG
** * * *
9397642 ATTGGGCTTGTAATCTATCGTGCCAACTTA
1 ATTGGGCTTAAAATCTCTCATGCCAACTAA
* * * *
9397672 ATTAGGCTT-AATTCATCTTAGTGCCAATTAA
1 ATTGGGCTTAAAATC-TCTCA-TGCCAACTAA
*
9397703 ATTGGGCTTAAAATCTCTCATGCCAACTCA
1 ATTGGGCTTAAAATCTCTCATGCCAACTAA
9397733 ATTGGGCTTAA
1 ATTGGGCTTAA
9397744 TTCATTTTGG
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 3 0.05
30 29 0.52
31 20 0.36
32 4 0.07
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (30 bp):
ATTGGGCTTAAAATCTCTCATGCCAACTAA
Found at i:9397782 original size:61 final size:60
Alignment explanation
Indices: 9397494--9397772 Score: 290
Period size: 61 Copynumber: 4.6 Consensus size: 60
9397484 TCGTTCTTTA
* *
9397494 GGCTTAATTCATCTTGGTGCCAATTAGATTGGGCTTAAAATCTCTCTGCTAACTTAATAG
1 GGCTTAATTCATCTTGGTGCCAATTAGATTGGGCTTAAAATCTCTCTGCCAACTTAATTG
* * * * * * * * *
9397554 GGATTAATTCATATAGGTGTC-ATCTAGATTGGGCTCAAAATCTCCCTTTCTAACTTAACTG
1 GGCTTAATTCATCTTGGTGCCAAT-TAGATTGGGCTTAAAATCTCTC-TGCCAACTTAATTG
* * * * * ** * *
9397615 GGTTTAATTCATTTTGATGCTAGTTAGATTGGGCTTGTAATCTATCGTGCCAACTTAATTA
1 GGCTTAATTCATCTTGGTGCCAATTAGATTGGGCTTAAAATCTCTC-TGCCAACTTAATTG
* * *
9397676 GGCTTAATTCATCTTAGTGCCAATTAAATTGGGCTTAAAATCTCTCATGCCAACTCAATTG
1 GGCTTAATTCATCTTGGTGCCAATTAGATTGGGCTTAAAATCTCTC-TGCCAACTTAATTG
* *
9397737 GGCTTAATTCATTTTGGTGCCAACTAGATTGGGCTT
1 GGCTTAATTCATCTTGGTGCCAATTAGATTGGGCTT
9397773 GGACTCTCTC
Statistics
Matches: 173, Mismatches: 43, Indels: 5
0.78 0.19 0.02
Matches are distributed among these distances:
59 2 0.01
60 37 0.21
61 133 0.77
62 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (60 bp):
GGCTTAATTCATCTTGGTGCCAATTAGATTGGGCTTAAAATCTCTCTGCCAACTTAATTG
Found at i:9403177 original size:8 final size:8
Alignment explanation
Indices: 9403150--9403320 Score: 69
Period size: 8 Copynumber: 20.0 Consensus size: 8
9403140 TTATTAGAAC
9403150 ATTATTAA
1 ATTATTAA
* *
9403158 TACTAATAA
1 -ATTATTAA
9403167 ATTATTAA
1 ATTATTAA
9403175 ATTATTAA
1 ATTATTAA
* *
9403183 ATAATTGA
1 ATTATTAA
9403191 ATTGATTGAATA
1 ATT-ATT--A-A
*
9403203 ATTATTAC
1 ATTATTAA
*
9403211 ATAATTAA
1 ATTATTAA
9403219 ATTATATAA
1 ATTAT-TAA
*
9403228 A-TATTTA
1 ATTATTAA
9403235 ATTATTAATA
1 ATTATT-A-A
*
9403245 ATTTTTTAA
1 A-TTATTAA
* *
9403254 ATTACTAT
1 ATTATTAA
*
9403262 A-TATTGA
1 ATTATTAA
9403269 ATTGATTGAATA
1 ATT-ATT--A-A
*
9403281 ATTATTAC
1 ATTATTAA
*
9403289 ATAATTAA
1 ATTATTAA
9403297 ATTATATAA
1 ATTAT-TAA
*
9403306 A-TATTTA
1 ATTATTAA
9403313 ATTATTAA
1 ATTATTAA
9403321 TGATTTTTTA
Statistics
Matches: 118, Mismatches: 28, Indels: 33
0.66 0.16 0.18
Matches are distributed among these distances:
7 10 0.08
8 63 0.53
9 24 0.20
10 3 0.03
11 10 0.08
12 8 0.07
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (8 bp):
ATTATTAA
Found at i:9403214 original size:28 final size:27
Alignment explanation
Indices: 9403174--9403301 Score: 88
Period size: 28 Copynumber: 4.8 Consensus size: 27
9403164 TAAATTATTA
* *
9403174 AATTATTAAATAATTGAATTGATTGAAT
1 AATTATTACATAATTAAATT-ATTGAAT
*
9403202 AATTATTACATAATTAAATTATATAAAT
1 AATTATTACATAATTAAATTAT-TGAAT
* * **
9403230 ATTTAATTA-TTAA-T-AATT-TTTTA-
1 AATT-ATTACATAATTAAATTATTGAAT
* * *
9403253 AATTACTATAT-ATTGAATTGATTGAAT
1 AATTATTACATAATTAAATT-ATTGAAT
9403280 AATTATTACATAATTAAATTAT
1 AATTATTACATAATTAAATTAT
9403302 ATAAATATTT
Statistics
Matches: 76, Mismatches: 15, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
22 4 0.05
23 5 0.07
24 6 0.08
25 1 0.01
26 7 0.09
27 14 0.18
28 35 0.46
29 4 0.05
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (27 bp):
AATTATTACATAATTAAATTATTGAAT
Found at i:9403277 original size:78 final size:79
Alignment explanation
Indices: 9403161--9403341 Score: 310
Period size: 78 Copynumber: 2.3 Consensus size: 79
9403151 TTATTAATAC
* * * *
9403161 TAATAAATTATTAAATTATTAAATAATTGAATTGATTGAATAATTATTACATAATTAAATTATAT
1 TAATAATTTTTTAAATTACTATATAATTGAATTGATTGAATAATTATTACATAATTAAATTATAT
9403226 AAATATTTAATTAT
66 AAATATTTAATTAT
9403240 TAATAATTTTTTAAATTACTATAT-ATTGAATTGATTGAATAATTATTACATAATTAAATTATAT
1 TAATAATTTTTTAAATTACTATATAATTGAATTGATTGAATAATTATTACATAATTAAATTATAT
9403304 AAATATTTAATTAT
66 AAATATTTAATTAT
*
9403318 TAATGATTTTTTAAATTACTATAT
1 TAATAATTTTTTAAATTACTATAT
9403342 CTTTAATAAT
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
78 77 0.79
79 20 0.21
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (79 bp):
TAATAATTTTTTAAATTACTATATAATTGAATTGATTGAATAATTATTACATAATTAAATTATAT
AAATATTTAATTAT
Found at i:9411336 original size:26 final size:27
Alignment explanation
Indices: 9411302--9411353 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
9411292 TTGCAACTAA
*
9411302 ACTTCC-TTTGGATCAATCCAACTCCC
1 ACTTCCTTTTGGATCAACCCAACTCCC
* *
9411328 ACTTTCTTTTTGATCAACCCAACTCC
1 ACTTCCTTTTGGATCAACCCAACTCC
9411354 TATAGGGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.23, C:0.37, G:0.06, T:0.35
Consensus pattern (27 bp):
ACTTCCTTTTGGATCAACCCAACTCCC
Found at i:9413152 original size:28 final size:29
Alignment explanation
Indices: 9413098--9413153 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
9413088 CGTTTATATG
* *
9413098 ATTAAATTTATTTTTTATTTCATTATTTA
1 ATTAAATTTATTTCTTATTTAATTATTTA
*
9413127 ATTATATTT-TTTCTTATTTAATTATTT
1 ATTAAATTTATTTCTTATTTAATTATTT
9413154 CGGTACCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.68
Consensus pattern (29 bp):
ATTAAATTTATTTCTTATTTAATTATTTA
Found at i:9427230 original size:30 final size:30
Alignment explanation
Indices: 9427188--9427262 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
9427178 TAAAAAAAAT
*
9427188 TTAAAT-AATTTTT-TATTATTT-TATTATG
1 TTAAATAAATTTTTATATT-TTTATATTAAG
* *
9427216 TTCAATCAAATTTTTATATTTTTATTTTAAG
1 TTAAAT-AAATTTTTATATTTTTATATTAAG
9427247 TTAAATAAATTTTTAT
1 TTAAATAAATTTTTAT
9427263 GATTAATGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 5 0.13
30 20 0.51
31 14 0.36
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (30 bp):
TTAAATAAATTTTTATATTTTTATATTAAG
Found at i:9427259 original size:29 final size:29
Alignment explanation
Indices: 9427188--9427259 Score: 67
Period size: 31 Copynumber: 2.4 Consensus size: 29
9427178 TAAAAAAAAT
* *
9427188 TTAAAT-AATTTTTTATTATTTTATTATG
1 TTAAATAAATTTTATATTATTTTATTAAG
* *
9427216 TTCAATCAAATTTTTATATT-TTTATTTTAAG
1 TTAAAT-AAA-TTTTATATTATTT-TATTAAG
9427247 TTAAATAAATTTT
1 TTAAATAAATTTT
9427260 TATGATTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
28 5 0.14
29 4 0.11
30 8 0.23
31 18 0.51
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (29 bp):
TTAAATAAATTTTATATTATTTTATTAAG
Found at i:9430473 original size:103 final size:103
Alignment explanation
Indices: 9430252--9430566 Score: 400
Period size: 103 Copynumber: 3.0 Consensus size: 103
9430242 AATATCATTT
* * * *
9430252 AACTGCCTTGCCTATAGGGGTAAGTGATTTTTCTGCTCCATGACATGACATGTTCCGGTTCTTGT
1 AACTGCCTTGCATTTAGGGGTAAGTGATTTTTCTG-T---T-CCATGACATGTT-CTGTTCTTGT
* * * *
9430317 TTGTTAGCCTTTTCTGC-TGCGTTATAAGTTAGGAAATGCACTGA
60 TTGCTAGTCTTTTCT-CATGTGTTCTAAGTTAGGAAATGCACTGA
*
9430361 AGCTGCCTTGCATTTAGGGGTAAGTGATTTTTCTGTTCCATGACATGTTCTGTTCTTGTTTGCTA
1 AACTGCCTTGCATTTAGGGGTAAGTGATTTTTCTGTTCCATGACATGTTCTGTTCTTGTTTGCTA
*
9430426 GTCTTTTCTCATGTGTTCCAAGTTAGGAAATGCACTGA
66 GTCTTTTCTCATGTGTTCTAAGTTAGGAAATGCACTGA
* * * *
9430464 AACTGCCTTGCATTTAGGGGTAAGTGATTTTTTTGCTCCATGGCATGATCTGTTCTTGTTTGCTA
1 AACTGCCTTGCATTTAGGGGTAAGTGATTTTTCTGTTCCATGACATGTTCTGTTCTTGTTTGCTA
* *
9430529 GTCTTTTCTCATGTG-TCATAAGTAAGGTAATGCACTGA
66 GTCTTTTCTCATGTGTTC-TAAGTTAGGAAATGCACTGA
9430567 TAATGGTGAA
Statistics
Matches: 186, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
102 3 0.02
103 138 0.74
104 11 0.06
105 1 0.01
108 1 0.01
109 32 0.17
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.40
Consensus pattern (103 bp):
AACTGCCTTGCATTTAGGGGTAAGTGATTTTTCTGTTCCATGACATGTTCTGTTCTTGTTTGCTA
GTCTTTTCTCATGTGTTCTAAGTTAGGAAATGCACTGA
Found at i:9437091 original size:4 final size:4
Alignment explanation
Indices: 9437084--9437152 Score: 61
Period size: 4 Copynumber: 17.2 Consensus size: 4
9437074 ACAAACAGAC
* * * *
9437084 ATAT ATAT ATAT ATAC ATAT ATAT ATAC ATAC ATAT ACAT ATGA- ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT AT-AT ATAT
*
9437132 GA-AT ATAT ATGT ATAT ATAT A
1 -ATAT ATAT ATAT ATAT ATAT A
9437153 ATGTCATATT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
3 2 0.04
4 49 0.92
5 2 0.04
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (4 bp):
ATAT
Found at i:9437095 original size:6 final size:6
Alignment explanation
Indices: 9437084--9437152 Score: 61
Period size: 6 Copynumber: 11.5 Consensus size: 6
9437074 ACAAACAGAC
* * * *
9437084 ATATAT ATATAT ATACAT ATATAT ATACAT ACATAT ACATAT GA-ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT -ATATAT
*
9437132 GA-ATAT ATATGT ATATAT ATA
1 -ATATAT ATATAT ATATAT ATA
9437153 ATGTCATATT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
5 1 0.02
6 52 0.96
7 1 0.02
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (6 bp):
ATATAT
Found at i:9437103 original size:10 final size:10
Alignment explanation
Indices: 9437084--9437152 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
9437074 ACAAACAGAC
9437084 ATATATATAT
1 ATATATATAT
*
9437094 ATATACATAT
1 ATATATATAT
*
9437104 ATATATACAT
1 ATATATATAT
* *
9437114 ACATATACAT
1 ATATATATAT
9437124 ATGA-ATATGA-
1 AT-ATATAT-AT
*
9437134 ATATATATGT
1 ATATATATAT
9437144 ATATATATA
1 ATATATATA
9437153 ATGTCATATT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
9 1 0.02
10 44 0.94
11 2 0.04
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (10 bp):
ATATATATAT
Found at i:9437103 original size:16 final size:16
Alignment explanation
Indices: 9437082--9437148 Score: 73
Period size: 16 Copynumber: 4.1 Consensus size: 16
9437072 ACACAAACAG
9437082 ACATATATATATATAT
1 ACATATATATATATAT
*
9437098 ACATATATATATACAT
1 ACATATATATATATAT
*
9437114 ACATATACATATGAATAT
1 ACATATATATAT--ATAT
*
9437132 GA-ATATATATGTATAT
1 -ACATATATATATATAT
9437148 A
1 A
9437149 TATAATGTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
15 1 0.02
16 30 0.70
18 11 0.26
19 1 0.02
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.39
Consensus pattern (16 bp):
ACATATATATATATAT
Found at i:9437596 original size:3 final size:3
Alignment explanation
Indices: 9437588--9437613 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9437578 GATAAAACGG
9437588 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
9437614 TAAGTCAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9439864 original size:22 final size:19
Alignment explanation
Indices: 9439827--9439875 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
9439817 AATAAAAAAA
*
9439827 TTAAAATATTTTTTATTAAT
1 TTAAAAAATTTTTTA-TAAT
*
9439847 TTAAAAAATTATTATTATATT
1 TTAAAAAATT-TT-TTATAAT
9439868 TTAAAAAA
1 TTAAAAAA
9439876 ATAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.36
21 13 0.52
22 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAAAAATTTTTTATAAT
Found at i:9444521 original size:2 final size:2
Alignment explanation
Indices: 9444514--9444539 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9444504 AGATCCTTCC
9444514 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
9444540 GGGATTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9445621 original size:10 final size:10
Alignment explanation
Indices: 9445606--9445639 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
9445596 CTTAAATAAA
9445606 ATTTTAAATT
1 ATTTTAAATT
9445616 ATTTTAAATT
1 ATTTTAAATT
*
9445626 A-TTTAAATA
1 ATTTTAAATT
9445635 ATTTT
1 ATTTT
9445640 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTTAAATT
Found at i:9445649 original size:19 final size:19
Alignment explanation
Indices: 9445607--9445649 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
9445597 TTAAATAAAA
*
9445607 TTTTAAATTATTTTAAATT
1 TTTTAAATAATTTTAAATT
* **
9445626 ATTTAAATAATTTTTTATT
1 TTTTAAATAATTTTAAATT
9445645 TTTTA
1 TTTTA
9445650 TTATATTTAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTAAATAATTTTAAATT
Found at i:9448491 original size:33 final size:33
Alignment explanation
Indices: 9448449--9448536 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 33
9448439 TCATGTCAAC
* *
9448449 TTAACATGTCATATCATTATCAATCATAATATG
1 TTAATATGTCACATCATTATCAATCATAATATG
* * * *
9448482 TTAATATGTCACATCATAATTAATTATAATATT
1 TTAATATGTCACATCATTATCAATCATAATATG
* *
9448515 TTAATATATCACATCAATATCA
1 TTAATATGTCACATCATTATCA
9448537 TACAATATAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.41
Consensus pattern (33 bp):
TTAATATGTCACATCATTATCAATCATAATATG
Found at i:9448806 original size:22 final size:19
Alignment explanation
Indices: 9448769--9448817 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
9448759 TAAGAAAAGA
*
9448769 TTAAAATATTTTTTATTAAT
1 TTAAAAAATTTTTTA-TAAT
*
9448789 TTAAAAAATTATTATTATATT
1 TTAAAAAATT-TT-TTATAAT
9448810 TTAAAAAA
1 TTAAAAAA
9448818 AAAGCACCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.36
21 13 0.52
22 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAAAAATTTTTTATAAT
Found at i:9450213 original size:15 final size:15
Alignment explanation
Indices: 9450176--9450217 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
9450166 ATAATTTTAA
*
9450176 AAAATATTAAAAAAT
1 AAAATTTTAAAAAAT
*
9450191 AAACATTTTAAAATAT
1 AAA-ATTTTAAAAAAT
9450207 AAAATTTTAAA
1 AAAATTTTAAA
9450218 CTTCCTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATTTTAAAAAAT
Found at i:9452123 original size:17 final size:17
Alignment explanation
Indices: 9452091--9452138 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
9452081 GGTAATTGTA
*
9452091 TTAAGAAATAGCTATTTT
1 TTAAG-AATAGTTATTTT
9452109 TTAAGAATAGTTATTTT
1 TTAAGAATAGTTATTTT
9452126 TTAA-AATCAGTTA
1 TTAAGAAT-AGTTA
9452139 AAAGTAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 3 0.11
17 20 0.71
18 5 0.18
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (17 bp):
TTAAGAATAGTTATTTT
Found at i:9452355 original size:27 final size:26
Alignment explanation
Indices: 9452321--9452392 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 26
9452311 TAAAATAAAA
9452321 ATAAATAATCATAATATTATTTAAATT
1 ATAAATAAT-ATAATATTATTTAAATT
* * *
9452348 ATAAATAAAATATTAATATTTTAAATT
1 ATAAATAATATAATATTA-TTTAAATT
*
9452375 ATTAAT-ATATAA-ATTATT
1 ATAAATAATATAATATTATT
9452393 ACTTATTAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
24 2 0.05
25 3 0.08
26 11 0.30
27 21 0.57
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (26 bp):
ATAAATAATATAATATTATTTAAATT
Found at i:9452387 original size:15 final size:15
Alignment explanation
Indices: 9452342--9452393 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
9452332 TAATATTATT
9452342 TAAATTA-TAA-ATA
1 TAAATTATTAATATA
*
9452355 -AAA-TATTAATATTT
1 TAAATTATTAATA-TA
9452369 TAAATTATTAATATA
1 TAAATTATTAATATA
9452384 TAAATTATTA
1 TAAATTATTA
9452394 CTTATTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 2 0.06
12 6 0.19
13 1 0.03
14 1 0.03
15 14 0.44
16 8 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAATTATTAATATA
Found at i:9452417 original size:27 final size:26
Alignment explanation
Indices: 9452369--9452447 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 26
9452359 ATTAATATTT
9452369 TAAATTATTAATA--T--ATAAATTA
1 TAAATTATTAATATTTAAATAAATTA
* *
9452391 TTACTTATTAATATTTTAAATAAATTA
1 TAAATTATTAATA-TTTAAATAAATTA
* *
9452418 TAAATTATTACTATTTAAA-AAAATA
1 TAAATTATTAATATTTAAATAAATTA
9452443 TAAAT
1 TAAAT
9452448 AAATAATCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
22 11 0.24
25 11 0.24
26 6 0.13
27 18 0.39
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (26 bp):
TAAATTATTAATATTTAAATAAATTA
Found at i:9452425 original size:34 final size:37
Alignment explanation
Indices: 9452358--9452429 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 37
9452348 ATAAATAAAA
9452358 TATTAATATTTTAAATTATTAATATATAAATTATTACT
1 TATTAATATTTTAAATTA-TAATATATAAATTATTACT
9452396 TATTAATATTTTAAA-TA-AAT-TATAAATTATTACT
1 TATTAATATTTTAAATTATAATATATAAATTATTACT
9452430 ATTTAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 14 0.41
35 3 0.09
37 2 0.06
38 15 0.44
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (37 bp):
TATTAATATTTTAAATTATAATATATAAATTATTACT
Found at i:9452441 original size:125 final size:136
Alignment explanation
Indices: 9452437--9453103 Score: 328
Period size: 154 Copynumber: 4.5 Consensus size: 136
9452427 ACTATTTAAA
* * * *
9452437 AAAATATAAATAAATAATCATAATAAGAGTTAAATTATAGATAAAATATTAATATTTCATAAAAT
1 AAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATATTT--T-AAAT
**
9452502 GATTAAATTATGAATAAAGTATTAATATTTAATGATCTATTATTAATATTTTAAAGAAATTATTC
63 GATTAAATTAT-AATAAAGTATTAATATTTAATGATCTATTA-TAATAAATT-AAGAAATTATTC
9452567 AAATTTGAACAAT
125 AAATTT-AACAAT
*
9452580 AAAATAAAAATAAGTAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTTAAAAATA
1 AAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTT--AAAT-
* * * * ** *
9452645 AAAATAAAATTATAAACAAAAGTA-TAATATTTAAATAATAAATTAT--TAATATTACACATAAA
63 --GATTAAATTAT-AA-TAAAGTATTAATATTT-AATGATCTATTATAATAA-ATT--A-AGAAA
* * *
9452707 TTA-TAAAATATTAATATTT
119 TTATTCAAAT-TTAACA-AT
* *
9452726 AAAAATAAAAATAAATAATCATAATAACATTTAAATTGTAAATAAAATATTATTATTCTATAACA
1 -AAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATATT-T-T-A-A
* * * * ** *
9452791 TTGATGATTAAATTATAAAAAAATATTAATAATTAAATTAT-TAATTAGTAATATTTTAAATAAA
61 ---ATGATTAAATTATAATAAAGTATTAAT-ATTTAATGATCT-ATTA-TAATAAATT-AAGAAA
* *
9452855 TTATAAATTGTTAATATTTAAAAAAT
119 -T-T--A-T-TCAA-ATTT-AACAAT
*
9452881 AAAATAAAAATAAATAATCATAATAAC-TTTGAAATTATGAATAAAATATTAATATTTGAACATA
1 AAAATAAAAATAAATAATCATAATAACATTT-AAATTATAAATAAAATATTAATATTT-----TA
* * * *
9452945 TTAATGATTAAATTATAA-AAAATATTAATATTTAAACT-ATAAATTATTCATATTTTAAATAAA
60 --AATGATTAAATTATAATAAAGTATTAATATTT-AA-TGAT---CTATT-ATA--ATAAATTAA
*
9453008 TTGTAAATTATT-AATATTTAAAATAAAAT
115 --G-AAATTATTCAA-ATTT---A-ACAAT
* * **
9453037 AAAATAAAAATAAATAATCATAATACCATTTAAATTACAAATAAAATATTCCTATTTTATAAT-A
1 AAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTTA-AATGA
9453101 TTA
65 TTA
9453104 GTAATTAAAT
Statistics
Matches: 420, Mismatches: 49, Indels: 104
0.73 0.09 0.18
Matches are distributed among these distances:
141 1 0.00
142 5 0.01
143 54 0.13
144 2 0.00
145 29 0.07
146 25 0.06
147 59 0.14
148 23 0.05
149 21 0.05
150 7 0.02
151 4 0.01
152 6 0.01
153 26 0.06
154 66 0.16
155 9 0.02
156 65 0.15
157 10 0.02
158 4 0.01
159 1 0.00
160 3 0.01
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (136 bp):
AAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTTAAATGAT
TAAATTATAATAAAGTATTAATATTTAATGATCTATTATAATAAATTAAGAAATTATTCAAATTT
AACAAT
Found at i:9452655 original size:40 final size:39
Alignment explanation
Indices: 9452611--9452740 Score: 118
Period size: 40 Copynumber: 3.1 Consensus size: 39
9452601 AATAACATTT
9452611 AAATTATAAATAAAATATTAATATTTTAAAAATAAAAATA
1 AAATTATAAATAAAATATTAATA-TTTAAAAATAAAAATA
* *
9452651 AAATTATAAACAAAAGTA-TAATATTTAAATAATAAATTATTA
1 AAATTATAAATAAAA-TATTAATATTTAAA-AATAAA--AATA
*
9452693 ATATTACACATAAATTATAAAATATTAATATTTAAAAATAAAAATA
1 AAATT----AT-AA--ATAAAATATTAATATTTAAAAATAAAAATA
9452739 AA
1 AA
9452741 TAATCATAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
39 6 0.08
40 25 0.35
41 2 0.03
42 7 0.10
46 6 0.08
47 2 0.03
48 8 0.11
49 16 0.22
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (39 bp):
AAATTATAAATAAAATATTAATATTTAAAAATAAAAATA
Found at i:9452707 original size:27 final size:28
Alignment explanation
Indices: 9452676--9452741 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
9452666 GTATAATATT
* *
9452676 TAAATAATAAATTATTAATA-TTACACA
1 TAAATAATAAATTATTAATATTTAAAAA
* *
9452703 TAAATTATAAAATATTAATATTTAAAAA
1 TAAATAATAAATTATTAATATTTAAAAA
9452731 TAAA-AATAAAT
1 TAAATAATAAAT
9452742 AATCATAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 23 0.72
28 9 0.28
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (28 bp):
TAAATAATAAATTATTAATATTTAAAAA
Found at i:9452863 original size:27 final size:26
Alignment explanation
Indices: 9452824--9452880 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
9452814 TATTAATAAT
*
9452824 TAAATTATTAATTAG-TAATATTTTAAA
1 TAAATTATAAATT-GTTAATA-TTTAAA
9452851 TAAATTATAAATTGTTAATATTTAAA
1 TAAATTATAAATTGTTAATATTTAAA
9452877 -AAAT
1 TAAAT
9452881 AAAATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 4 0.14
26 7 0.25
27 17 0.61
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (26 bp):
TAAATTATAAATTGTTAATATTTAAA
Found at i:9452937 original size:301 final size:291
Alignment explanation
Indices: 9452374--9453138 Score: 819
Period size: 301 Copynumber: 2.5 Consensus size: 291
9452364 TATTTTAAAT
* * * *
9452374 TATTAATATATAAATTATTACTTATTAATATTTTAAATAAATTATAAATTATTACTATTTAAAAA
1 TATTAATATTTAAA-TATAAATTATTAATATTTTAAATAAATTATAAATTATTAATATTT-AAAA
* * * *
9452439 AATATAAATAAATAATCATAATAAGAGTTAAATTATAGATAAAATATTAATATTTCATAAA--AT
64 AATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATATTT-ATAAATTAT
* * * *
9452502 GATTAAATTATGAATAAAGTATTAAT-ATTTAATGATCTATTATTAATATTTTAAAGAAATTATT
128 GATTAAATTAT-AAAAAAATATTAATAATTAAATGATCTATTAGTAATATTTTAAAGAAATTATT
* * *
9452566 CAAATTTGAACAATAAAATAAAAATAAGTAATCATAATAACATTTAAATTATAAATAAAATATTA
192 CAAATTTAAAAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTA
*
9452631 ATATTTTAA-A-AATAAAAATAAAATTATAAACAAA
257 ATATTTGAACATAATAAAAATAAAATTATAAA-AAA
** * *
9452665 -AGTATAATATTTAAATAATAAATTATTAATATTACACATAAATTATAAAATATTAATATTT-AA
1 TA-T-TAATATTTAAAT-ATAAATTATTAATATTTTAAATAAATTATAAATTATTAATATTTAAA
* *
9452728 AAATAAAAATAAATAATCATAATAACATTTAAATTGTAAATAAAATATTATTATTCTATAACATT
63 AAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATATT-TATAA-ATT
* *
9452793 GATGATTAAATTATAAAAAAATATTAATAATTAAATTAT-TAATTAGTAATATTTTAAATAAATT
126 -ATGATTAAATTATAAAAAAATATTAATAATTAAATGATCT-ATTAGTAATATTTTAAAGAAA-T
* *
9452857 ATAAATTGTTAATATTTAAAAAATAAAATAAAAATAAATAATCATAATAAC-TTTGAAATTATGA
188 -T--A-T-TCAA-ATTTAAAAAATAAAATAAAAATAAATAATCATAATAACATTT-AAATTATAA
* ** *
9452921 ATAAAATATTAATATTTGAACATATTAATGATTAAATTATAAAAAA
246 ATAAAATATTAATATTTGAACATAATAAAAATAAAATTATAAAAAA
* *
9452967 TATTAATATTTAAACTATAAATTATTCATATTTTAAATAAATTGTAAATTATTAATATTTAAAAT
1 TATTAATATTTAAA-TATAAATTATTAATATTTTAAATAAATTATAAATTATTAATA-TT----T
* * **
9453032 AAAATAAAATAAAAATAAATAATCATAATACCATTTAAATTACAAATAAAATATTCCTATTTTAT
60 --AA-AAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATA-TTTAT
* * *
9453097 AATATTAGTAATTAAATTATAAATAAAATATAAATATTTAAA
121 AA-ATTA-TGATTAAATTATAAA-AAAATATTAATAATTAAA
9453139 AATAAGTAAA
Statistics
Matches: 395, Mismatches: 45, Indels: 48
0.81 0.09 0.10
Matches are distributed among these distances:
290 56 0.14
291 4 0.01
292 47 0.12
293 13 0.03
294 40 0.10
295 1 0.00
296 1 0.00
298 1 0.00
299 1 0.00
300 6 0.02
301 108 0.27
302 8 0.02
303 17 0.04
306 1 0.00
309 2 0.01
310 71 0.18
311 18 0.05
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.39
Consensus pattern (291 bp):
TATTAATATTTAAATATAAATTATTAATATTTTAAATAAATTATAAATTATTAATATTTAAAAAA
TAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTATAAATTATGAT
TAAATTATAAAAAAATATTAATAATTAAATGATCTATTAGTAATATTTTAAAGAAATTATTCAAA
TTTAAAAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATAT
TTGAACATAATAAAAATAAAATTATAAAAAA
Found at i:9452970 original size:24 final size:24
Alignment explanation
Indices: 9452942--9452987 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
9452932 ATATTTGAAC
*
9452942 ATATTAATGA-TTAAATTATAAAAA
1 ATATTAAT-ATTTAAACTATAAAAA
9452966 ATATTAATATTTAAACTATAAA
1 ATATTAATATTTAAACTATAAA
9452988 TTATTCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
ATATTAATATTTAAACTATAAAAA
Found at i:9463625 original size:15 final size:18
Alignment explanation
Indices: 9463586--9463626 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 18
9463576 AATATTTTTT
9463586 TATTTTAATAGTATTGAA
1 TATTTTAATAGTATTGAA
*
9463604 TAATTTAA-A-TATT-AA
1 TATTTTAATAGTATTGAA
9463619 TATTTTAA
1 TATTTTAA
9463627 GTTAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 9 0.43
16 4 0.19
17 1 0.05
18 7 0.33
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TATTTTAATAGTATTGAA
Found at i:9464891 original size:15 final size:14
Alignment explanation
Indices: 9464867--9464947 Score: 55
Period size: 13 Copynumber: 5.9 Consensus size: 14
9464857 AATTAAAAAT
9464867 AAAATATATAATATAA
1 AAAATATAT-AT-TAA
9464883 AAAAT-TATATTAA
1 AAAATATATATTAA
* *
9464896 AAAATA-AAAATAA
1 AAAATATATATTAA
* *
9464909 AATATATGACATT-A
1 AAAATAT-ATATTAA
9464923 AAAATATAT-TTAA
1 AAAATATATATTAA
*
9464936 AAGATA-ATATTA
1 AAAATATATATTA
9464948 GATAAAAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
12 4 0.08
13 28 0.54
14 9 0.17
15 6 0.12
16 5 0.10
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (14 bp):
AAAATATATATTAA
Found at i:9464895 original size:33 final size:32
Alignment explanation
Indices: 9464849--9464914 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 32
9464839 TCTTTTAAAG
*
9464849 AAAAAATAAATT-AAAAATAAAATATATAATAT
1 AAAAAATAAATTAAAAAATAAAA-ATAAAATAT
*
9464881 AAAAAATTATATTAAAAAATAAAAATAAAATAT
1 AAAAAA-TAAATTAAAAAATAAAAATAAAATAT
9464914 A
1 A
9464915 TGACATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 6 0.20
33 14 0.47
34 10 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (32 bp):
AAAAAATAAATTAAAAAATAAAAATAAAATAT
Found at i:9464907 original size:40 final size:40
Alignment explanation
Indices: 9464860--9464942 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
9464850 AAAAATAAAT
*
9464860 TAAAAATAAAATATATAATATAAAAAAT-TATATTAAAAAA
1 TAAAAATAAAATATATAACATAAAAAATATAT-TTAAAAAA
* * *
9464900 TAAAAATAAAATATATGACATTAAAAATATATTTAAAAGA
1 TAAAAATAAAATATATAACATAAAAAATATATTTAAAAAA
9464940 TAA
1 TAA
9464943 TATTAGATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 35 0.92
41 3 0.08
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (40 bp):
TAAAAATAAAATATATAACATAAAAAATATATTTAAAAAA
Found at i:9465906 original size:29 final size:28
Alignment explanation
Indices: 9465848--9465906 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
9465838 AAATACTTTA
* *
9465848 AAAAGGATATTTTGATTCTTTGTATTTT
1 AAAAGGATATTTTGATTCTTTGAATGTT
*
9465876 AAAAGGATATTTTTAGTTCTTT-AACTGTT
1 AAAAGGATATTTTGA-TTCTTTGAA-TGTT
9465905 AA
1 AA
9465907 CGTTATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (28 bp):
AAAAGGATATTTTGATTCTTTGAATGTT
Found at i:9466738 original size:18 final size:18
Alignment explanation
Indices: 9466711--9466750 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9466701 AAATATTGAT
* *
9466711 TTATAAGTTATTTATGAA
1 TTATAAGTTACTTATAAA
*
9466729 TTATATGTTACTTATAAA
1 TTATAAGTTACTTATAAA
9466747 TTAT
1 TTAT
9466751 TTGTGAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (18 bp):
TTATAAGTTACTTATAAA
Found at i:9467379 original size:45 final size:45
Alignment explanation
Indices: 9467309--9467397 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
9467299 AGTTTACCAG
* * * *
9467309 TTTCAAGGTAAATATAGTTACAAATTTTTATACTTTCAAATCAAA
1 TTTCAAAGTAAATACAGTTACAAATTTTCAGACTTTCAAATCAAA
* *
9467354 TTTCAAAGTAGATACAGTTTCAAATTTTCAGACTTTCAAATCAA
1 TTTCAAAGTAAATACAGTTACAAATTTTCAGACTTTCAAATCAA
9467398 TTTTTAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (45 bp):
TTTCAAAGTAAATACAGTTACAAATTTTCAGACTTTCAAATCAAA
Found at i:9467748 original size:15 final size:15
Alignment explanation
Indices: 9467728--9467770 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
9467718 CTTCCAATGG
9467728 TTTTGGAGGGAAATC
1 TTTTGGAGGGAAATC
9467743 TTTTGGAGGGAAATC
1 TTTTGGAGGGAAATC
*
9467758 CTTTGGAGGGAAA
1 TTTTGGAGGGAAA
9467771 ATTTTAGAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.35, T:0.30
Consensus pattern (15 bp):
TTTTGGAGGGAAATC
Found at i:9468515 original size:55 final size:55
Alignment explanation
Indices: 9468437--9468580 Score: 161
Period size: 55 Copynumber: 2.6 Consensus size: 55
9468427 ATTCATCATG
* *
9468437 TTAAAAAA-A-TATTATTACATATTATATAAAAAACAAGTTACATATT-TATTATA
1 TTAAAAAATATTATTATTATATATTATATAAAAAACAAGTTACAAATTATATTA-A
* ** *
9468490 TTAAAAAATATTATTATTATATATTATATATAAAAATATTTTATAAATTATATTAA
1 TTAAAAAATATTATTATTATATATTATATA-AAAAACAAGTTACAAATTATATTAA
* *
9468546 TT-AAAAATATTATTATTATACATCATATTAAAAAA
1 TTAAAAAATATTATTATTATATATTATA-TAAAAAA
9468581 TAAATTTAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
53 8 0.10
54 1 0.01
55 46 0.59
56 18 0.23
57 5 0.06
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (55 bp):
TTAAAAAATATTATTATTATATATTATATAAAAAACAAGTTACAAATTATATTAA
Found at i:9468533 original size:27 final size:26
Alignment explanation
Indices: 9468437--9468579 Score: 108
Period size: 27 Copynumber: 5.3 Consensus size: 26
9468427 ATTCATCATG
* * *
9468437 TTAAAAAAATATTATTACATATTATA
1 TTAAAAATATTTTATTATATATTATA
* * ** * *
9468463 TAAAAAACAAGTTACATATTTATTATA
1 TTAAAAATATTTTA-TTATATATTATA
9468490 TTAAAAAATATTATTATTATATATTATA
1 TT-AAAAATATT-TTATTATATATTATA
*
9468518 TATAAAAATATTTTATAAATTATATTA-A
1 T-TAAAAATATTTTAT-TA-TATATTATA
* *
9468546 TTAAAAATATTATTATTATACATCATA
1 TTAAAAATATT-TTATTATATATTATA
9468573 TTAAAAA
1 TTAAAAA
9468580 ATAAATTTAA
Statistics
Matches: 92, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
26 15 0.16
27 33 0.36
28 33 0.36
29 11 0.12
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
TTAAAAATATTTTATTATATATTATA
Found at i:9471956 original size:40 final size:38
Alignment explanation
Indices: 9471902--9471979 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 38
9471892 TTTACATGAT
* * *
9471902 TTTAAACTTATTATTCTACATTAATTGCTAATTGAGAGAA
1 TTTAAACTTATTATTCAACATT--GTGCTAATTGACAGAA
*
9471942 TTTAAACTTTTTATTCAACATTGTGCTAATTGACAGAA
1 TTTAAACTTATTATTCAACATTGTGCTAATTGACAGAA
9471980 GTGCTCTAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 14 0.41
40 20 0.59
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (38 bp):
TTTAAACTTATTATTCAACATTGTGCTAATTGACAGAA
Found at i:9472488 original size:13 final size:15
Alignment explanation
Indices: 9472452--9472488 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
9472442 AATTACTATT
9472452 ATATATATACTTTTA
1 ATATATATACTTTTA
*
9472467 ATATGTATA-TTTTA
1 ATATATATACTTTTA
9472481 A-ATATATA
1 ATATATATA
9472489 AACATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 6 0.30
14 6 0.30
15 8 0.40
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (15 bp):
ATATATATACTTTTA
Found at i:9472744 original size:34 final size:35
Alignment explanation
Indices: 9472701--9472776 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
9472691 CTTGTAATAC
* * * *
9472701 TATTTAAGTTGTTGTTTG-GATATTTGTTTTTAAT
1 TATTTAAGTTGATATTTGAGATATATATTTTTAAT
*
9472735 TATTTAAGTTGATATTTGAGATATATATTTTTTAT
1 TATTTAAGTTGATATTTGAGATATATATTTTTAAT
9472770 TATTTAA
1 TATTTAA
9472777 ATTTAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 16 0.44
35 20 0.56
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (35 bp):
TATTTAAGTTGATATTTGAGATATATATTTTTAAT
Found at i:9473558 original size:78 final size:76
Alignment explanation
Indices: 9473468--9473717 Score: 228
Period size: 78 Copynumber: 3.2 Consensus size: 76
9473458 ATAATATTTA
9473468 AATTATCAATTATTAATATGTAAAAACAAAATAAAATGAATAGAAAACCATATATTATAATAAAA
1 AATTATCAATTATTAATATGTAAAAACAAAATAAAAT-AATAGAAAA-CATATATTATAATAAAA
9473533 AGTTTAAGTTTTT
64 AGTTTAAGTTTTT
* *** * * *
9473546 AATTAT-ATATTATTAAAAAT-TAATATTTTAAATTAAAAATAATTA-AAAAAATTAATATTTTA
1 AATTATCA-ATTATT-AATATGTAA-A-AACAAAAT-AAAATAA-TAGAAAACA-T-ATATTATA
* * *
9473608 ATCATAA---TAA-TATTTA
58 ATAAAAAGTTTAAGT-TTTT
9473624 AATTATCAATTATTAATATGTAAAAACAAAATAAAATAAATAGAAAATCATATATTATAATAAAA
1 AATTATCAATTATTAATATGTAAAAACAAAATAAAAT-AATAGAAAA-CATATATTATAATAAAA
9473689 AGTTTAAGTTTTT
64 AGTTTAAGTTTTT
9473702 AATTAT-ATATTATTAA
1 AATTATCA-ATTATTAA
9473718 AAATTAATAT
Statistics
Matches: 133, Mismatches: 20, Indels: 38
0.70 0.10 0.20
Matches are distributed among these distances:
75 19 0.14
76 11 0.08
77 9 0.07
78 56 0.42
79 8 0.06
80 11 0.08
81 19 0.14
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (76 bp):
AATTATCAATTATTAATATGTAAAAACAAAATAAAATAATAGAAAACATATATTATAATAAAAAG
TTTAAGTTTTT
Found at i:9473818 original size:156 final size:156
Alignment explanation
Indices: 9473381--9473785 Score: 735
Period size: 156 Copynumber: 2.6 Consensus size: 156
9473371 AACAAAAATG
9473381 TTAAGTTTTTAA-T-TATATTA-TAAAAATTAATATTTTAAATTTAAAATATAATTAAAATAATT
1 TTAAGTTTTTAATTATATATTATTAAAAATTAATATTTTAAA-TTAAAA-ATAATTAAAATAATT
*
9473443 AATATTTTAATCATAATAATATTTAAATTATCAATTATTAATATGTAAAAACAAAATAAAATGAA
64 AATATTTTAATCATAATAATATTTAAATTATCAATTATTAATATGTAAAAACAAAATAAAATAAA
9473508 TAGAAAACCATATATTATAATAAAAAGT
129 TAGAAAACCATATATTATAATAAAAAGT
*
9473536 TTAAGTTTTTAATTATATATTATTAAAAATTAATATTTTAAATTAAAAATAATTAAAAAAATTAA
1 TTAAGTTTTTAATTATATATTATTAAAAATTAATATTTTAAATTAAAAATAATTAAAATAATTAA
9473601 TATTTTAATCATAATAATATTTAAATTATCAATTATTAATATGTAAAAACAAAATAAAATAAATA
66 TATTTTAATCATAATAATATTTAAATTATCAATTATTAATATGTAAAAACAAAATAAAATAAATA
*
9473666 GAAAATCATATATTATAATAAAAAGT
131 GAAAACCATATATTATAATAAAAAGT
9473692 TTAAGTTTTTAATTATATATTATTAAAAATTAATATTTTAAATTAAAAATAATTAAAATAATTAA
1 TTAAGTTTTTAATTATATATTATTAAAAATTAATATTTTAAATTAAAAATAATTAAAATAATTAA
*
9473757 TATTTTAATCATTATAATATTTAAATTAT
66 TATTTTAATCATAATAATATTTAAATTAT
9473786 AACTAGAATA
Statistics
Matches: 242, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
155 12 0.05
156 198 0.82
157 13 0.05
158 19 0.08
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (156 bp):
TTAAGTTTTTAATTATATATTATTAAAAATTAATATTTTAAATTAAAAATAATTAAAATAATTAA
TATTTTAATCATAATAATATTTAAATTATCAATTATTAATATGTAAAAACAAAATAAAATAAATA
GAAAACCATATATTATAATAAAAAGT
Found at i:9473923 original size:228 final size:227
Alignment explanation
Indices: 9473622--9474057 Score: 644
Period size: 230 Copynumber: 1.9 Consensus size: 227
9473612 TAATAATATT
*
9473622 TAAATTATCAATTATTAATATGTAAAAACAAAATAAAATAAATAGAAAATCATATATTATAATAA
1 TAAATTATAAATTATTAATATGTAAAAACAAAATAAAATAAATAGAAAATCATATATTATAATAA
** * *
9473687 AAAGTTTAAGTTTTTAATTATATATTATTAAAAATTAATATTTTAAA-TTAAAAAT-AATTAAAA
66 AAAGTTTAAGTTTTTAATTATATATTACAAAAAAATAAAATTTTAAATTTAAAAATGAATTAAAA
** * * * *
9473750 TAATTAATATTTTAATCATTATAATATTTAAATTATAACTAGAATATTAA-TATTTGAAAATTTT
131 TAATTAATATTTTAATCACAATAATATTTAAATTATAAATAAAATATTAATTATTT-AAAATATA
*
9473814 AATAATTAAATTATCAATTATTAATATTTTCAA
195 AAAAATTAAATTATCAATTATTAATATTTTCAA
* * * *
9473847 TAAATTTTAAATTATTAATAGTTTAAAAATAAAATAAAATAATAATAGATAATCATATATTATAA
1 TAAATTATAAATTATTAATA-TGTAAAAACAAAATAAAAT-A-AATAGAAAATCATATATTATAA
*
9473912 TAAAAAGTTTAAGTTTTTAATTATATATTACAAAAAAATAAAATTTTAAATTTTAAAATGAATTA
63 TAAAAAGTTTAAGTTTTTAATTATATATTACAAAAAAATAAAATTTTAAATTTAAAAATGAATTA
* *
9473977 AAATGATTAATATTTTAATCACAATAATATTTATATTATAAATAAAATATTAATTATTTAAAATA
128 AAATAATTAATATTTTAATCACAATAATATTTAAATTATAAATAAAATATTAATTATTTAAAATA
9474042 TAAAAAATTAAATTAT
193 TAAAAAATTAAATTAT
9474058 AAATAAAATA
Statistics
Matches: 186, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
225 18 0.10
226 17 0.09
227 1 0.01
228 67 0.36
229 7 0.04
230 71 0.38
231 5 0.03
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (227 bp):
TAAATTATAAATTATTAATATGTAAAAACAAAATAAAATAAATAGAAAATCATATATTATAATAA
AAAGTTTAAGTTTTTAATTATATATTACAAAAAAATAAAATTTTAAATTTAAAAATGAATTAAAA
TAATTAATATTTTAATCACAATAATATTTAAATTATAAATAAAATATTAATTATTTAAAATATAA
AAAATTAAATTATCAATTATTAATATTTTCAA
Found at i:9474025 original size:23 final size:22
Alignment explanation
Indices: 9473999--9474067 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 22
9473989 TTTTAATCAC
9473999 AATAATATTTATATTATAAATAA
1 AATAATA-TTATATTATAAATAA
*
9474022 AATATTAATTAT-TTA-AAATATA
1 AATAAT-ATTATATTATAAATA-A
*
9474044 AA-AA-ATTAAATTATAAATAA
1 AATAATATTATATTATAAATAA
9474064 AATA
1 AATA
9474068 TTAATTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
19 4 0.11
20 6 0.16
21 12 0.32
22 6 0.16
23 9 0.24
24 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATAATATTATATTATAAATAA
Found at i:9492945 original size:28 final size:28
Alignment explanation
Indices: 9492914--9492973 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
9492904 TTTTAAATTA
9492914 TTTAAAAAATTTAAATAAATTTTTATAT
1 TTTAAAAAATTTAAATAAATTTTTATAT
** * *
9492942 TTTATTATATTTAATTAAATTTTTATAT
1 TTTAAAAAATTTAAATAAATTTTTATAT
9492970 TTTA
1 TTTA
9492974 TTTTGAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTAAAAAATTTAAATAAATTTTTATAT
Found at i:9492974 original size:28 final size:28
Alignment explanation
Indices: 9492922--9492975 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
9492912 TATTTAAAAA
9492922 ATTTAAATAAATTTTTATATTTTATTAT
1 ATTTAAATAAATTTTTATATTTTATTAT
*
9492950 ATTTAATTAAATTTTTATATTTTATT
1 ATTTAAATAAATTTTTATATTTTATT
9492976 TTGAATCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
ATTTAAATAAATTTTTATATTTTATTAT
Found at i:9498251 original size:19 final size:19
Alignment explanation
Indices: 9498214--9498253 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9498204 AAATTACTTT
*
9498214 AAAAAATTAAAAATTTTAA
1 AAAAAATTAAAAATATTAA
9498233 AAAAAATTAAAAGA-ATTAA
1 AAAAAATTAAAA-ATATTAA
9498252 AA
1 AA
9498254 TTTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (19 bp):
AAAAAATTAAAAATATTAA
Found at i:9498890 original size:30 final size:29
Alignment explanation
Indices: 9498835--9498892 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
9498825 ATAAGTTTTT
* *
9498835 TTTTTATTTGGTTAGATTAAGTTTTTATA
1 TTTTTATTTGGTTAGAATAAATTTTTATA
9498864 TTTTTATTTTGAGTTA-AATAAATTTTTAT
1 TTTTTA-TTTG-GTTAGAATAAATTTTTAT
9498893 GATTAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 15 0.60
31 4 0.16
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (29 bp):
TTTTTATTTGGTTAGAATAAATTTTTATA
Found at i:9508076 original size:29 final size:29
Alignment explanation
Indices: 9508021--9508076 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
9508011 ATTTCAAAAA
* *
9508021 ATTTAAATAATTTTTTATTTTTCTATTAT
1 ATTTAAATAAATTTTAATTTTTCTATTAT
*
9508050 ATTTAATTAAATTTTAATATTTT-TATT
1 ATTTAAATAAATTTTAAT-TTTTCTATT
9508077 TTAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTAAATAAATTTTAATTTTTCTATTAT
Found at i:9508104 original size:14 final size:14
Alignment explanation
Indices: 9508080--9508114 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
9508070 TTTTATTTTA
*
9508080 AATTAAATTATTATT
1 AATT-AATTATCATT
9508095 AATTAATTATCATT
1 AATTAATTATCATT
9508109 AATTAA
1 AATTAA
9508115 AATATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTAATTATCATT
Found at i:9521409 original size:22 final size:22
Alignment explanation
Indices: 9521345--9521418 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
9521335 TCAAAATAAC
*
9521345 TTTTACTATAA-TTAATAATAT
1 TTTTATTATAATTTAATAATAT
* * * **
9521366 TTTCATCAAAATACAA-ATATAT
1 TTTTATTATAATTTAATA-ATAT
9521388 TTTTATTATAATTTAATAATAT
1 TTTTATTATAATTTAATAATAT
9521410 TTTGTATTA
1 TTT-TATTA
9521419 GAAGATAATT
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
21 8 0.21
22 24 0.63
23 6 0.16
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.51
Consensus pattern (22 bp):
TTTTATTATAATTTAATAATAT
Found at i:9521427 original size:23 final size:22
Alignment explanation
Indices: 9521384--9521427 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
9521374 AAATACAAAT
* **
9521384 ATATTTTTATTATAATTTAATA
1 ATATTTTTATTAGAAGATAATA
9521406 ATATTTTGTATTAGAAGATAAT
1 ATATTTT-TATTAGAAGATAAT
9521428 TAAACCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
ATATTTTTATTAGAAGATAATA
Found at i:9521555 original size:45 final size:45
Alignment explanation
Indices: 9521495--9521588 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
9521485 ATTAAATTTA
* * *
9521495 AATAATACTAAATAATATTCTTTATTACATTTATTATA-TTCAAAT
1 AATAATACTAAATAATAGTCATTATAACATTTATTATAGTT-AAAT
* *
9521540 AATAATATTAAATAATAGTCATTATAATATTTATTATAGTTAAAT
1 AATAATACTAAATAATAGTCATTATAACATTTATTATAGTTAAAT
9521585 AATA
1 AATA
9521589 TTAATATATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 41 0.95
46 2 0.05
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (45 bp):
AATAATACTAAATAATAGTCATTATAACATTTATTATAGTTAAAT
Found at i:9521602 original size:18 final size:19
Alignment explanation
Indices: 9521540--9521608 Score: 68
Period size: 18 Copynumber: 3.5 Consensus size: 19
9521530 ATATTCAAAT
*
9521540 AATAATATTAAATAATAGTCA
1 AATAATATT-AAT-ATAGTTA
* *
9521561 TTATAATATTTATTATAGTTA
1 -AATAATA-TTAATATAGTTA
9521582 AATAATATTAATATA-TTA
1 AATAATATTAATATAGTTA
9521600 AATAATATT
1 AATAATATT
9521609 TAAATATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 12 0.29
19 7 0.17
20 6 0.15
21 6 0.15
22 8 0.20
23 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (19 bp):
AATAATATTAATATAGTTA
Found at i:9521615 original size:18 final size:18
Alignment explanation
Indices: 9521563--9521616 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
9521553 AATAGTCATT
*
9521563 ATAATATTTATTATAGTTAA
1 ATAATATTTA-AATA-TTAA
9521583 ATAATA-TTAATATATTAA
1 ATAATATTTAA-ATATTAA
9521601 ATAATATTTAAATATT
1 ATAATATTTAAATATT
9521617 TTTATTTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 15 0.48
19 10 0.32
20 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATAATATTTAAATATTAA
Found at i:9522345 original size:128 final size:128
Alignment explanation
Indices: 9522118--9522373 Score: 424
Period size: 128 Copynumber: 2.0 Consensus size: 128
9522108 GAAGCTTCTA
* * * **
9522118 AATCTAAATCGAATTAAGATATAGGTAAGTCGTAAACATCAATAAGTCTTTTGTTATTTTTGCAT
1 AATCTAAATCAAATGAAGATATAGATAAGTCGTAAACATCAATAAGTCTTTTGTTATTGATGCAT
9522183 AGATATATGCAATATTGATGTTATTATTGGTGCTGCA-CTCTTGTATTTTTAAGTTTTTTATG
66 AGATATATGCAATATTGATGTTATTATTGGTGCTGCACCTCTTGTATTTTTAAGTTTTTTATG
*
9522245 AATCTAAATCAAATGAAGATATAGATAAGTCGTAAACATCAGTAAGTCTTTTTGTTATTGATGCA
1 AATCTAAATCAAATGAAGATATAGATAAGTCGTAAACATCAATAAGTC-TTTTGTTATTGATGCA
* *
9522310 TAGATATGTGCAATATTGATGTTATTATTGGTGCTGCACCTCTTTTATTTTTAAGTTTTTTATG
65 TAGATATATGCAATATTGATGTTATTATTGGTGCTGCACCTCTTGTATTTTTAAGTTTTTTATG
9522374 CCTTCCCTTT
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
127 44 0.37
128 51 0.43
129 24 0.20
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (128 bp):
AATCTAAATCAAATGAAGATATAGATAAGTCGTAAACATCAATAAGTCTTTTGTTATTGATGCAT
AGATATATGCAATATTGATGTTATTATTGGTGCTGCACCTCTTGTATTTTTAAGTTTTTTATG
Found at i:9529756 original size:28 final size:28
Alignment explanation
Indices: 9529745--9529998 Score: 142
Period size: 28 Copynumber: 9.2 Consensus size: 28
9529735 AGTATGCAAT
*
9529745 AATTATATTTTTTAACATGACGTATAAT
1 AATTATATTTTTTAACATGACGTATAAC
* *
9529773 AATTATATTTTTCAATATGACGTATAAC
1 AATTATATTTTTTAACATGACGTATAAC
* * *
9529801 AAATA-AATTTTGAACAT-A-GTATGCAAC
1 AATTATATTTTTTAACATGACGTAT--AAC
* * * *
9529828 AATTACATTTTTTAACATGACATATGAT
1 AATTATATTTTTTAACATGACGTATAAC
* * * * * * *
9529856 GACTAAATTTTTTAATATGACATGTAAT
1 AATTATATTTTTTAACATGACGTATAAC
* * * *
9529884 AATTA-AATTTTTAACATAATGTGTAAC
1 AATTATATTTTTTAACATGACGTATAAC
* * *
9529911 GATTATATTTTTCAACATGACATATAAC
1 AATTATATTTTTTAACATGACGTATAAC
* * * ** *
9529939 AATTA-AATTTTCAACATTATTTGTAAC
1 AATTATATTTTTTAACATGACGTATAAC
* * * *
9529966 AACTACA-TTTTCAACATGACGTATAAT
1 AATTATATTTTTTAACATGACGTATAAC
9529993 AATTAT
1 AATTAT
9529999 TTCCAACATA
Statistics
Matches: 171, Mismatches: 48, Indels: 15
0.73 0.21 0.06
Matches are distributed among these distances:
25 4 0.02
26 1 0.01
27 76 0.44
28 86 0.50
29 1 0.01
30 3 0.02
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (28 bp):
AATTATATTTTTTAACATGACGTATAAC
Found at i:9529817 original size:55 final size:55
Alignment explanation
Indices: 9529753--9529998 Score: 158
Period size: 55 Copynumber: 4.5 Consensus size: 55
9529743 ATAATTATAT
* * *
9529753 TTTTTAACATGACGTATAATAATTATATTTTTCAATATGACGTATAACAAATAAA
1 TTTTCAACATGACGTATAATAATTATATTTTTCAACATGACGTATAACAACTAAA
* * * * * * **
9529808 TTTTGAACAT-A-GTATGCAACAATTACATTTTTTAACATGACATATGATGACTAAA
1 TTTTCAACATGACGTAT--AATAATTATATTTTTCAACATGACGTATAACAACTAAA
* * * * * * * * * * *
9529863 TTTTTTAATATGACATGTAATAATTAAATTTTT-AACATAATGTGTAACGATTATAT
1 -TTTTCAACATGACGTATAATAATTATATTTTTCAACATGACGTATAACAACTA-AA
* * * * ** * *
9529919 TTTTCAACATGACATATAACAATTA-AATTTTCAACATTATTTGTAACAACTACA
1 TTTTCAACATGACGTATAATAATTATATTTTTCAACATGACGTATAACAACTAAA
9529973 TTTTCAACATGACGTATAATAATTAT
1 TTTTCAACATGACGTATAATAATTAT
9529999 TTCCAACATA
Statistics
Matches: 146, Mismatches: 37, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
53 4 0.03
54 29 0.20
55 88 0.60
56 22 0.15
57 1 0.01
58 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (55 bp):
TTTTCAACATGACGTATAATAATTATATTTTTCAACATGACGTATAACAACTAAA
Found at i:9529822 original size:83 final size:83
Alignment explanation
Indices: 9529721--9529949 Score: 278
Period size: 83 Copynumber: 2.8 Consensus size: 83
9529711 GTGTAATAAC
* * * *
9529721 TAAATTTTTAATATAGTATGCAATAATTATATTTTTTAACATGACGTATAATAATTATATTTTTC
1 TAAATTTTTAACATAGTATGCAACAATTATATTTTTTAACATGACATATAATAATTAAATTTTTC
*
9529786 AATATGACGTATAACAAA
66 AATATGACATATAACAAA
* * * * * *
9529804 TAAATTTTGAACATAGTATGCAACAATTACATTTTTTAACATGACATATGATGACTAAATTTTTT
1 TAAATTTTTAACATAGTATGCAACAATTATATTTTTTAACATGACATATAATAATTAAATTTTTC
* * *
9529869 AATATGACATGTAATAAT
66 AATATGACATATAACAAA
* * * * * *
9529887 TAAATTTTTAACATAATGTGTAACGATTATATTTTTCAACATGACATATAACAATTAAATTTT
1 TAAATTTTTAACATAGTATGCAACAATTATATTTTTTAACATGACATATAATAATTAAATTTT
9529950 CAACATTATT
Statistics
Matches: 121, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
83 121 1.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (83 bp):
TAAATTTTTAACATAGTATGCAACAATTATATTTTTTAACATGACATATAATAATTAAATTTTTC
AATATGACATATAACAAA
Found at i:9530877 original size:17 final size:17
Alignment explanation
Indices: 9530851--9530884 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9530841 TATGAAATTG
* *
9530851 ACTTTGTATGATATCTA
1 ACTTTATATGACATCTA
9530868 ACTTTATATGACATCTA
1 ACTTTATATGACATCTA
9530885 TTTTGTAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (17 bp):
ACTTTATATGACATCTA
Found at i:9531147 original size:27 final size:27
Alignment explanation
Indices: 9531109--9531175 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
9531099 CTATTCTCGA
9531109 AAGTGAATGGATACTTTTACTTACTAG
1 AAGTGAATGGATACTTTTACTTACTAG
* *
9531136 AAGTGGATGGATATTTTTACTTACTA-
1 AAGTGAATGGATACTTTTACTTACTAG
*
9531162 AATATGAATGGATA
1 AA-GTGAATGGATA
9531176 ACTAGAAGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.37
Consensus pattern (27 bp):
AAGTGAATGGATACTTTTACTTACTAG
Found at i:9531287 original size:72 final size:72
Alignment explanation
Indices: 9531109--9531287 Score: 218
Period size: 72 Copynumber: 2.5 Consensus size: 72
9531099 CTATTCTCGA
* * * * *
9531109 AAGTGAATGGATACTTTTACTTACTAGAAGTGGATGGATATTTTTACTTACTAAATATGAATGGA
1 AAGTGAATGGATACATTTACTTACTAGAAGTGGATGGATATCTTCACCTACTAAATATGAATAGA
*
9531174 TAACTAG
66 TAACCAG
* **
9531181 AAGTGAATTGATACATTTA-TCGGCTAGAAGTGGATGGATATCTTCACCTACTAAA-AGTGAATA
1 AAGTGAATGGATACATTTACT-TACTAGAAGTGGATGGATATCTTCACCTACTAAATA-TGAATA
9531244 GATAACCAG
64 GATAACCAG
* * *
9531253 AAGTGGATGGATACATTTACTTACCAGAAATGGAT
1 AAGTGAATGGATACATTTACTTACTAGAAGTGGAT
9531288 AAATACATAT
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
71 2 0.02
72 86 0.97
73 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (72 bp):
AAGTGAATGGATACATTTACTTACTAGAAGTGGATGGATATCTTCACCTACTAAATATGAATAGA
TAACCAG
Found at i:9552653 original size:13 final size:13
Alignment explanation
Indices: 9552635--9552659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9552625 TTAAATTTTT
9552635 TTTAAAAAAAATC
1 TTTAAAAAAAATC
9552648 TTTAAAAAAAAT
1 TTTAAAAAAAAT
9552660 AAAAAAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTAAAAAAAATC
Found at i:9552932 original size:21 final size:21
Alignment explanation
Indices: 9552908--9552947 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9552898 TGTATTCAAG
*
9552908 TATTTT-TTTTGTTTTATTTCT
1 TATTTTATTTT-TATTATTTCT
9552929 TATTTTATTTTTATTATTT
1 TATTTTATTTTTATTATTT
9552948 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (21 bp):
TATTTTATTTTTATTATTTCT
Found at i:9557454 original size:19 final size:19
Alignment explanation
Indices: 9557426--9557462 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9557416 CAAATCTTCC
9557426 AACTTGTCAATAGTTTAAT
1 AACTTGTCAATAGTTTAAT
*
9557445 AACTTTTCAATAGTTTAA
1 AACTTGTCAATAGTTTAA
9557463 GATTTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (19 bp):
AACTTGTCAATAGTTTAAT
Found at i:9559694 original size:38 final size:38
Alignment explanation
Indices: 9559640--9559717 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
9559630 AGAATTTACA
* *
9559640 TATTATTACTTTGTTTCATATTCAT-TCATCAAACTTTC
1 TATTATTACGTAGTTTCATATTCATGT-ATCAAACTTTC
9559678 TATTATTACGTAGTTTCATATTCATGTATCAAACTTTC
1 TATTATTACGTAGTTTCATATTCATGTATCAAACTTTC
9559716 TA
1 TA
9559718 AAATTAAACT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 36 0.97
39 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.05, T:0.50
Consensus pattern (38 bp):
TATTATTACGTAGTTTCATATTCATGTATCAAACTTTC
Found at i:9580101 original size:72 final size:72
Alignment explanation
Indices: 9580025--9580191 Score: 183
Period size: 72 Copynumber: 2.3 Consensus size: 72
9580015 TCACCAAGAC
* *
9580025 CAAGCTTCTCAAAATGTA-CTCAACGGTCATTCATATATCAATGACTGGCTACAAGAAAATCAAA
1 CAAGCTTCTCAAAATGTAGC-CAACGGCCATTCATATATCAATGACTGGCTACAAGAAAATAAAA
* * *
9580089 AGCTTGAG
65 AACTAGAA
* * * * ** * * *
9580097 CAAGCTTCTCACAATGTAGCCAATGGCCATTCGTATCTTGATGACTGGTTGCAAGAAGATAAAAA
1 CAAGCTTCTCAAAATGTAGCCAACGGCCATTCATATATCAATGACTGGCTACAAGAAAATAAAAA
9580162 ACTAGAA
66 ACTAGAA
*
9580169 CAAGCTTCTCAAATTGTAGCCAA
1 CAAGCTTCTCAAAATGTAGCCAA
9580192 TGACCACTCC
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
72 77 0.99
73 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (72 bp):
CAAGCTTCTCAAAATGTAGCCAACGGCCATTCATATATCAATGACTGGCTACAAGAAAATAAAAA
ACTAGAA
Found at i:9604769 original size:31 final size:31
Alignment explanation
Indices: 9604731--9604791 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
9604721 TTTTTCACAA
9604731 GATACCCAAAATACATGAATTCTCATATCAT
1 GATACCCAAAATACATGAATTCTCATATCAT
9604762 GATACCCAAAATACATGAATTCTCATATCA
1 GATACCCAAAATACATGAATTCTCATATCA
9604792 ACTTCAGCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.28
Consensus pattern (31 bp):
GATACCCAAAATACATGAATTCTCATATCAT
Found at i:9610058 original size:93 final size:93
Alignment explanation
Indices: 9609898--9610186 Score: 366
Period size: 103 Copynumber: 3.0 Consensus size: 93
9609888 AAAATCTAAA
* * * *
9609898 ATCTCAATAAATGATCAGAATAAATTAGATTA-TCCTTATTTGGTTTTAAATTTTCTATACAAGT
1 ATCTCAATAAGTGATCGGAATAAACTAGATTACT-CTTATTTGGTTTTAAATTTTCTATACAAAT
*
9609962 ATATAAAGGCAGCTACGCTATATGTATAT
65 ATATAAAGGCAGCTACGCTATATATATAT
*
9609991 ATCTCAATAAGTGATTGGAATAAACTAGATTACTCTTATTTGGTTTTAAATTTTCTATACAAATA
1 ATCTCAATAAGTGATCGGAATAAACTAGATTACTCTTATTTGGTTTTAAATTTTCTATACAAATA
9610056 TATAAAGGCCA-CTACGCTATATATATATACACACACAT
66 TATAAAGG-CAGCTACGC--TATATATAT--------AT
* *
9610094 ATCTCAATAAGTGATCGGAATAAACTAGATTACCCTTATTTGGTTTTAAATTTTCTATACAAATT
1 ATCTCAATAAGTGATCGGAATAAACTAGATTACTCTTATTTGGTTTTAAATTTTCTATACAAATA
* *
9610159 TATAAAAGCAGCTACACTATATATATAT
66 TATAAAGGCAGCTACGCTATATATATAT
9610187 CAATGATTTT
Statistics
Matches: 172, Mismatches: 11, Indels: 26
0.82 0.05 0.12
Matches are distributed among these distances:
93 74 0.43
94 3 0.02
95 8 0.05
101 9 0.05
102 2 0.01
103 76 0.44
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.37
Consensus pattern (93 bp):
ATCTCAATAAGTGATCGGAATAAACTAGATTACTCTTATTTGGTTTTAAATTTTCTATACAAATA
TATAAAGGCAGCTACGCTATATATATAT
Found at i:9610651 original size:21 final size:20
Alignment explanation
Indices: 9610609--9610652 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
9610599 AGGTCTCATC
*
9610609 ATTTTATAATAATATAATTA
1 ATTTTATAAGAATATAATTA
9610629 ATTTATATAAGAA-ATAATATA
1 ATTT-TATAAGAATATAAT-TA
9610650 ATT
1 ATT
9610653 ATTTATTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTTTATAAGAATATAATTA
Found at i:9611165 original size:35 final size:35
Alignment explanation
Indices: 9611124--9611194 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
9611114 TTTAAATACA
9611124 TTAACCCTACTAAATATTTTTCATTTAAAAAAAAC
1 TTAACCCTACTAAATATTTTTCATTTAAAAAAAAC
9611159 TTAACCCTACTAAATATTTTTCATTTAAAAAAAAC
1 TTAACCCTACTAAATATTTTTCATTTAAAAAAAAC
9611194 T
1 T
9611195 ATTTTTCACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (35 bp):
TTAACCCTACTAAATATTTTTCATTTAAAAAAAAC
Found at i:9613773 original size:90 final size:91
Alignment explanation
Indices: 9613616--9613799 Score: 291
Period size: 90 Copynumber: 2.0 Consensus size: 91
9613606 ATCTATAATT
*
9613616 TCATCATCTTGCGGGAGCATATTGGAGGAAAAAAATCTATTACTATTCAACCTGAATAACGATGA
1 TCATCATCTTGCGGGAGCATATTGGAGGAAAAAAATCTATTACAATTCAACCTGAATAACGATGA
*
9613681 TAAGAAGTAGTAGCTCAAATCTGCTG
66 TAAGAAGTAGCAGCTCAAATCTGCTG
* *
9613707 TCATCATCTTGCGGGAGCATATTGGAGG-TAAAAATCTATTAGAATTCAACCTGAATCAA-GATG
1 TCATCATCTTGCGGGAGCATATTGGAGGAAAAAAATCTATTACAATTCAACCTGAAT-AACGATG
* *
9613770 ATAAGAATTAGCAGCTTAAATCTGCTG
65 ATAAGAAGTAGCAGCTCAAATCTGCTG
9613797 TCA
1 TCA
9613800 CACCTCNNNN
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
90 56 0.65
91 30 0.35
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (91 bp):
TCATCATCTTGCGGGAGCATATTGGAGGAAAAAAATCTATTACAATTCAACCTGAATAACGATGA
TAAGAAGTAGCAGCTCAAATCTGCTG
Found at i:9614044 original size:42 final size:42
Alignment explanation
Indices: 9613956--9614058 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 42
9613946 AATTGGTAAT
**
9613956 TTAAATATTAATATTTTATTCATAATTTAATCATTAAAATTT
1 TTAAATATTAATATTTTATTCATAATTTAATCATTAAAATGA
* * **
9613998 TTAAATATCAATATTTTATTTATAATTTAGAT-ATTATTATGA
1 TTAAATATTAATATTTTATTCATAATTTA-ATCATTAAAATGA
*
9614040 TTAAAATATTAATACTTTA
1 TT-AAATATTAATATTTTA
9614059 AATTAATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 35 0.69
43 16 0.31
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (42 bp):
TTAAATATTAATATTTTATTCATAATTTAATCATTAAAATGA
Found at i:9614286 original size:16 final size:16
Alignment explanation
Indices: 9614265--9614295 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9614255 AATATTTTAT
*
9614265 TTATAATTTAAATATA
1 TTATAATTAAAATATA
9614281 TTATAATTAAAATAT
1 TTATAATTAAAATAT
9614296 GAAAATATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATAATTAAAATATA
Found at i:9614303 original size:22 final size:22
Alignment explanation
Indices: 9614245--9614305 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
9614235 TTTAATATTT
* *
9614245 TTAAAATATG--AATATTTTAT
1 TTAAAATATGAAAATATTATAA
* *
9614265 TTATAAT-TTAAATATATTATAA
1 TTAAAATATGAAA-ATATTATAA
9614287 TTAAAATATGAAAATATTA
1 TTAAAATATGAAAATATTA
9614306 ATAAATTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
19 1 0.03
20 6 0.19
21 1 0.03
22 19 0.61
23 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (22 bp):
TTAAAATATGAAAATATTATAA
Found at i:9614361 original size:21 final size:21
Alignment explanation
Indices: 9614308--9614350 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
9614298 AAATATTAAT
*
9614308 AAAT-TTAAATTTATAATTTA
1 AAATATTAATTTTATAATTTA
9614328 AAATATTAATTTTATAAGTTTA
1 AAATATTAATTTTATAA-TTTA
9614350 A
1 A
9614351 GTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATATTAATTTTATAATTTA
Found at i:9616709 original size:15 final size:15
Alignment explanation
Indices: 9616681--9616741 Score: 72
Period size: 15 Copynumber: 4.2 Consensus size: 15
9616671 TATAGCTAAT
9616681 TTTCCC-CC-AAATA
1 TTTCCCTCCAAAATA
9616694 TTTCCCTCCAAAATA
1 TTTCCCTCCAAAATA
**
9616709 TTTCATTCCAAAATA
1 TTTCCCTCCAAAATA
* *
9616724 TTTTCCTCTAAAATA
1 TTTCCCTCCAAAATA
9616739 TTT
1 TTT
9616742 AGAAGGGAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
13 6 0.15
14 2 0.05
15 32 0.80
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTCCCTCCAAAATA
Found at i:9616863 original size:24 final size:22
Alignment explanation
Indices: 9616836--9616881 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
9616826 CCTGGTGGGT
9616836 CTGGGCAGCTCACAGGCTGTGTGC
1 CTGGGC-GCTCACAGGCTG-GTGC
* *
9616860 CTGGGCGCTGACGGGCTGGTGC
1 CTGGGCGCTCACAGGCTGGTGC
9616882 GCAGGGGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 10 0.50
24 6 0.30
ACGTcount: A:0.09, C:0.28, G:0.43, T:0.20
Consensus pattern (22 bp):
CTGGGCGCTCACAGGCTGGTGC
Found at i:9627795 original size:22 final size:23
Alignment explanation
Indices: 9627770--9627817 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
9627760 TATAAGTTTG
*
9627770 TGCAAACTATAAGAAA-GTCTAA
1 TGCAAACTATAAAAAAGGTCTAA
9627792 TGCAAACTATAAAAAATGGTCTAA
1 TGCAAACTATAAAAAA-GGTCTAA
9627816 TG
1 TG
9627818 AATTATAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.65
24 8 0.35
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (23 bp):
TGCAAACTATAAAAAAGGTCTAA
Found at i:9628781 original size:5 final size:5
Alignment explanation
Indices: 9628771--9628800 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
9628761 CTCCAACAAC
9628771 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
9628801 TGGTCAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:9630242 original size:2 final size:2
Alignment explanation
Indices: 9630235--9630278 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
9630225 TGATCTTGTA
9630235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9630277 AT
1 AT
9630279 CAGGTCTGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9630540 original size:39 final size:39
Alignment explanation
Indices: 9630486--9630564 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
9630476 GGCCTTGTTA
9630486 TGACATTGTAGCTTTTGATTCAATAAAATTTATTTTTTT
1 TGACATTGTAGCTTTTGATTCAATAAAATTTATTTTTTT
9630525 TGACATTGTAGCTTTTGATTCAATAAAATTTATTTTTTT
1 TGACATTGTAGCTTTTGATTCAATAAAATTTATTTTTTT
9630564 T
1 T
9630565 TTAAAAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (39 bp):
TGACATTGTAGCTTTTGATTCAATAAAATTTATTTTTTT
Found at i:9636100 original size:2 final size:2
Alignment explanation
Indices: 9636093--9636117 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9636083 ATGAATCATA
9636093 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9636118 GCTTGGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9641391 original size:20 final size:20
Alignment explanation
Indices: 9641366--9641403 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9641356 GGAAACTATT
*
9641366 TTTTTTTTAAATGCATTTTC
1 TTTTTTTGAAATGCATTTTC
*
9641386 TTTTTTTGAAATGTATTT
1 TTTTTTTGAAATGCATTT
9641404 AAGGAAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (20 bp):
TTTTTTTGAAATGCATTTTC
Found at i:9649509 original size:27 final size:27
Alignment explanation
Indices: 9649492--9649564 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 27
9649482 TCATCATGAC
* *
9649492 ATATAATAATTAAATTTTAAACATTAT
1 ATATAATAATTAAATTTTAAACATCAA
* * *
9649519 ATACAATAATTATATTTTTTAACATCAA
1 ATATAATAATTA-AATTTTAAACATCAA
*
9649547 ATGTAATAATTAAATTTT
1 ATATAATAATTAAATTTT
9649565 TTATAATTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 16 0.43
28 21 0.57
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (27 bp):
ATATAATAATTAAATTTTAAACATCAA
Found at i:9649572 original size:15 final size:15
Alignment explanation
Indices: 9649552--9649582 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9649542 ATCAAATGTA
9649552 ATAATTAAATTTTTT
1 ATAATTAAATTTTTT
*
9649567 ATAATTATATTTTTT
1 ATAATTAAATTTTTT
9649582 A
1 A
9649583 ATATGATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATAATTAAATTTTTT
Found at i:9649594 original size:43 final size:43
Alignment explanation
Indices: 9649524--9649608 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
9649514 ATTATATACA
9649524 ATAATTATATTTTTTAACATCAAATGTAATAATTAAATTTTTT
1 ATAATTATATTTTTTAACATCAAATGTAATAATTAAATTTTTT
* * *
9649567 ATAATTATATTTTTTAATATGATATGTAATAATTAAATTTTT
1 ATAATTATATTTTTTAACATCAAATGTAATAATTAAATTTTT
9649609 AACATGATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (43 bp):
ATAATTATATTTTTTAACATCAAATGTAATAATTAAATTTTTT
Found at i:9649636 original size:21 final size:22
Alignment explanation
Indices: 9649588--9649637 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
9649578 TTTTAATATG
*
9649588 ATATG-TAATAATTAAATTTTTA
1 ATATGATAATAATT-AATTTTCA
*
9649610 ACATGATAATAATT-ATTTTCA
1 ATATGATAATAATTAATTTTCA
9649631 ATATGAT
1 ATATGAT
9649638 GTGTAACAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 12 0.50
22 4 0.17
23 8 0.33
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (22 bp):
ATATGATAATAATTAATTTTCA
Found at i:9649643 original size:48 final size:45
Alignment explanation
Indices: 9649530--9649664 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 45
9649520 TACAATAATT
* * * * * *
9649530 ATATTTTTTAACATCAAATGTAATAATTAAATTTTT--TATAATT
1 ATATTTTTTAATATGATATGTAATAATTAAATTTTTAACATGATA
9649573 ATATTTTTTAATATGATATGTAATAATTAAATTTTTAACATGATA
1 ATATTTTTTAATATGATATGTAATAATTAAATTTTTAACATGATA
* * * *
9649618 ATAATTATTTTCAATATGATGTGTAACAACTAAATTTTAAAACATGA
1 AT-ATT-TTTT-AATATGATATGTAATAATTAAATTTT-TAACATGA
9649665 AACATTACAA
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
43 33 0.43
45 6 0.08
46 3 0.04
47 4 0.05
48 23 0.30
49 7 0.09
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (45 bp):
ATATTTTTTAATATGATATGTAATAATTAAATTTTTAACATGATA
Found at i:9656449 original size:28 final size:31
Alignment explanation
Indices: 9656384--9656454 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 31
9656374 TTAAGACAAC
*
9656384 TCTTGTCTTTAATTAAGACAAAAATATGTTAT
1 TCTTGTC-TAAATTAAGACAAAAATATGTTAT
*
9656416 T-TTGTCTAAATTGAGAC-AAAA-ATGTT-T
1 TCTTGTCTAAATTAAGACAAAAATATGTTAT
*
9656443 TCTTGTCAAAAT
1 TCTTGTCTAAAT
9656455 ATATTTTTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
28 14 0.40
29 4 0.11
30 9 0.26
31 5 0.14
32 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (31 bp):
TCTTGTCTAAATTAAGACAAAAATATGTTAT
Found at i:9656517 original size:29 final size:28
Alignment explanation
Indices: 9656451--9656568 Score: 146
Period size: 28 Copynumber: 4.1 Consensus size: 28
9656441 TTTCTTGTCA
* *
9656451 AAATATATTTTTCCTGTCTTAAATTAAGAT
1 AAATATA-TTTTCTTGTC-TAAATTAAGAC
* * *
9656481 AAACATATTTTCTTATTTAAATTAAGATC
1 AAATATATTTTCTTGTCTAAATTAAGA-C
9656510 AAATATATTTTCTTGTCTAAATTAAGAC
1 AAATATATTTTCTTGTCTAAATTAAGAC
* *
9656538 AAATGTATTTTTTTGTCTAAATTAAGAC
1 AAATATATTTTCTTGTCTAAATTAAGAC
9656566 AAA
1 AAA
9656569 CATGTTTAAG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
28 40 0.52
29 31 0.40
30 6 0.08
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (28 bp):
AAATATATTTTCTTGTCTAAATTAAGAC
Found at i:9656547 original size:57 final size:58
Alignment explanation
Indices: 9656451--9656568 Score: 150
Period size: 57 Copynumber: 2.1 Consensus size: 58
9656441 TTTCTTGTCA
* *
9656451 AAATATATTTTTCCTGTCTTAAATTAAGATAAACATATTTTCTTATTTAAATTAAGATC
1 AAATATATTTTTCCTGTCTTAAATTAAGACAAACATATTTTCTTATCTAAATTAAGA-C
* ** * *
9656510 AAATATA-TTTTCTTGTC-TAAATTAAGACAAATGTATTTTTTTGTCTAAATTAAGAC
1 AAATATATTTTTCCTGTCTTAAATTAAGACAAACATATTTTCTTATCTAAATTAAGAC
9656566 AAA
1 AAA
9656569 CATGTTTAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 4 0.08
57 32 0.62
58 9 0.17
59 7 0.13
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (58 bp):
AAATATATTTTTCCTGTCTTAAATTAAGACAAACATATTTTCTTATCTAAATTAAGAC
Found at i:9658755 original size:19 final size:19
Alignment explanation
Indices: 9658714--9658755 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
9658704 CTATGATATA
*
9658714 TATATATATATACTTTTAG
1 TATATATATATACTTTTAC
*
9658733 TATATATATGTA-TTTTGAC
1 TATATATATATACTTTT-AC
9658752 TATA
1 TATA
9658756 AGCATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (19 bp):
TATATATATATACTTTTAC
Found at i:9659234 original size:42 final size:43
Alignment explanation
Indices: 9659144--9659224 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 43
9659134 AACCTTAGCC
* *
9659144 CTCTTTTCTTCTTTTTCTCTTTTCTTCCCCTAGCCACTTACTA
1 CTCTTTTCTTCTTTTTCTCTTTTCTTCCACAAGCCACTTACTA
*
9659187 CTC-TTTCTTCTTTTTGTCTTTTCTTCCACAAGCCACTT
1 CTCTTTTCTTCTTTTTCTCTTTTCTTCCACAAGCCACTT
9659225 TTTCTTCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.10, C:0.33, G:0.04, T:0.53
Consensus pattern (43 bp):
CTCTTTTCTTCTTTTTCTCTTTTCTTCCACAAGCCACTTACTA
Found at i:9660119 original size:19 final size:19
Alignment explanation
Indices: 9660095--9660132 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9660085 ATTGAACAAT
9660095 GCTTTGAAAGGCAAATGCA
1 GCTTTGAAAGGCAAATGCA
9660114 GCTTTGAAAGGCAAATGCA
1 GCTTTGAAAGGCAAATGCA
9660133 ACTTGGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (19 bp):
GCTTTGAAAGGCAAATGCA
Done.