Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 47 of 105
Found at i:9068889 original size:20 final size:21
Alignment explanation
Indices: 9068864--9068905 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9068854 GATATTTTTA
*
9068864 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTAAAAAAAT
9068884 AATATTTTATATTAAAAAAAT
1 AATATTTTATATTAAAAAAAT
9068905 A
1 A
9068906 TTTTATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATTTTATATTAAAAAAAT
Found at i:9068905 original size:18 final size:20
Alignment explanation
Indices: 9068863--9068911 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
9068853 TGATATTTTT
9068863 AAATA-TTTATATTTAAAAA
1 AAATATTTTATATTTAAAAA
9068882 ATAATATTTTATA-TT-AAAA
1 A-AATATTTTATATTTAAAAA
9068901 AAATATTTTAT
1 AAATATTTTAT
9068912 TAATTTTGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.36
19 6 0.21
20 6 0.21
21 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATATTTTATATTTAAAAA
Found at i:9069446 original size:13 final size:13
Alignment explanation
Indices: 9069430--9069491 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
9069420 AAAATAAAAA
9069430 TTATATATAATTT
1 TTATATATAATTT
* *
9069443 TTATTTGTAATTT
1 TTATATATAATTT
9069456 TTATATA-AATTAAT
1 TTATATATAATT--T
* *
9069470 TTTTATATAATTC
1 TTATATATAATTT
*
9069483 ATATATATA
1 TTATATATA
9069492 TATAAATTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
12 4 0.11
13 23 0.61
14 7 0.18
15 4 0.11
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (13 bp):
TTATATATAATTT
Found at i:9069504 original size:18 final size:17
Alignment explanation
Indices: 9069473--9069508 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
9069463 AATTAATTTT
9069473 TATATAATTCATATATA
1 TATATAATTCATATATA
*
9069490 TATATAAATTTATATATA
1 TATAT-AATTCATATATA
9069508 T
1 T
9069509 GTGAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TATATAATTCATATATA
Found at i:9069516 original size:16 final size:16
Alignment explanation
Indices: 9069457--9069508 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
9069447 TTGTAATTTT
* * *
9069457 TATATAAATTAATTTT
1 TATATAAATTTATATA
9069473 TATAT-AATTCATATATA
1 TATATAAATT--TATATA
9069490 TATATAAATTTATATA
1 TATATAAATTTATATA
9069506 TAT
1 TAT
9069509 GTGAATTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 4 0.13
16 14 0.47
17 8 0.27
18 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATAAATTTATATA
Found at i:9073797 original size:30 final size:30
Alignment explanation
Indices: 9073740--9073797 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
9073730 TACAATAAAT
* **
9073740 AAATAAAATTTATTAATATTTTGATAATAA
1 AAATAAAATTTATAAATATTTAAATAATAA
9073770 AAATAAAA-TTATAAATATCTTAAATAAT
1 AAATAAAATTTATAAATAT-TTAAATAAT
9073798 GTTAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (30 bp):
AAATAAAATTTATAAATATTTAAATAATAA
Found at i:9075736 original size:19 final size:19
Alignment explanation
Indices: 9075712--9075757 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
9075702 GTTTAATTCG
9075712 ATTTGACTATGTTTGACCA
1 ATTTGACTATGTTTGACCA
* *
9075731 ATTTGACTTTGTTTGATCA
1 ATTTGACTATGTTTGACCA
9075750 AGTTTGAC
1 A-TTTGAC
9075758 CAAGTTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (19 bp):
ATTTGACTATGTTTGACCA
Found at i:9076027 original size:5 final size:5
Alignment explanation
Indices: 9075996--9076077 Score: 58
Period size: 5 Copynumber: 15.6 Consensus size: 5
9075986 TGAAAGGTTA
* * * * *
9075996 TTGTT TTTTT TTTTT TTATT TGGTGTT TTGTT TTGTT TTGCT TTGAT TTGCTT
1 TTGTT TTGTT TTGTT TTGTT T--TGTT TTGTT TTGTT TTGTT TTGTT TTG-TT
*
9076049 TTGTTT TTGTTT TTGTT TT-TT TTTTT TTG
1 TTG-TT TTG-TT TTGTT TTGTT TTGTT TTG
9076078 GATTAGGCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
4 4 0.06
5 42 0.65
6 15 0.23
7 4 0.06
ACGTcount: A:0.02, C:0.02, G:0.16, T:0.79
Consensus pattern (5 bp):
TTGTT
Found at i:9076247 original size:40 final size:40
Alignment explanation
Indices: 9076203--9076352 Score: 212
Period size: 40 Copynumber: 3.7 Consensus size: 40
9076193 TTTTGTTCAA
9076203 AGGCCTTGAAAATCATTAAAAAATCTAAGGCTTTGCCCAG
1 AGGCCTTGAAAATCATTAAAAAATCTAAGGCTTTGCCCAG
* * * * *
9076243 AGGCCTTGGAAATCATTTAAAAGTCTAAGGTTTTTCCCAG
1 AGGCCTTGAAAATCATTAAAAAATCTAAGGCTTTGCCCAG
* *
9076283 AGGCCTT-ATGAATCATTAAAAAATCCTAAGGCTTTGCCAAG
1 AGGCCTTGA-AAATCATTAAAAAAT-CTAAGGCTTTGCCCAG
9076324 AGGCCTTGAAAATCATTAAAAAATCTAAG
1 AGGCCTTGAAAATCATTAAAAAATCTAAG
9076353 ATTTTGTCTG
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 59 0.63
41 34 0.36
42 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (40 bp):
AGGCCTTGAAAATCATTAAAAAATCTAAGGCTTTGCCCAG
Found at i:9077776 original size:20 final size:18
Alignment explanation
Indices: 9077732--9077770 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
9077722 TTTTGAGAAC
*
9077732 TTTATTTGAATAGATTTT
1 TTTATTTGAAAAGATTTT
9077750 TTTATTTGAAAAGATTTT
1 TTTATTTGAAAAGATTTT
9077768 TTT
1 TTT
9077771 TTATTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (18 bp):
TTTATTTGAAAAGATTTT
Found at i:9077860 original size:30 final size:28
Alignment explanation
Indices: 9077826--9077920 Score: 92
Period size: 30 Copynumber: 3.4 Consensus size: 28
9077816 ATTTATTTTC
*
9077826 AAAAATAAAATAGCAAAAATAAAATCTCTT
1 AAAAATAAAATAGCAAAAATAAAAT-AC-T
*
9077856 AAAAATAAAACTAGAAAGATAATAAAA-ACT
1 AAAAATAAAA-TAGCAA-A-AATAAAATACT
9077886 AAAAATAAAAT--CAAAAATAAAAT--T
1 AAAAATAAAATAGCAAAAATAAAATACT
9077910 AAAAATAAAAT
1 AAAAATAAAAT
9077921 GAAAAAAGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
24 12 0.21
25 7 0.12
26 1 0.02
27 2 0.03
29 1 0.02
30 21 0.36
31 6 0.10
32 1 0.02
33 7 0.12
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (28 bp):
AAAAATAAAATAGCAAAAATAAAATACT
Found at i:9077864 original size:6 final size:6
Alignment explanation
Indices: 9077855--9077919 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
9077845 TAAAATCTCT
* * * *
9077855 TAAAAA TAAAAC TAGAAA GATA-A TAAAAA CTAAAAA T-AAAA TCAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA -TAAAAA TAAAAA T-AAAAA
*
9077903 TAAAAT TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAA
9077920 TGAAAAAAGA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
5 8 0.17
6 27 0.59
7 11 0.24
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:9077901 original size:12 final size:12
Alignment explanation
Indices: 9077876--9077926 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
9077866 CTAGAAAGAT
*
9077876 AATAAAAACTAAA
1 AATAAAATC-AAA
9077889 AATAAAATCAAA
1 AATAAAATCAAA
*
9077901 AATAAAATTAAA
1 AATAAAATCAAA
*
9077913 AATAAAATGAAA
1 AATAAAATCAAA
9077925 AA
1 AA
9077927 AGAAACCTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
12 27 0.77
13 8 0.23
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (12 bp):
AATAAAATCAAA
Found at i:9077907 original size:24 final size:24
Alignment explanation
Indices: 9077880--9077926 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
9077870 AAAGATAATA
9077880 AAAACTAAAAATAAAATCAAAAAT
1 AAAACTAAAAATAAAATCAAAAAT
* *
9077904 AAAATTAAAAATAAAATGAAAAA
1 AAAACTAAAAATAAAATCAAAAA
9077927 AGAAACCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (24 bp):
AAAACTAAAAATAAAATCAAAAAT
Found at i:9077926 original size:7 final size:6
Alignment explanation
Indices: 9077876--9077919 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
9077866 CTAGAAAGAT
*
9077876 AATAAA AACTAAA AAT-AA AATCAAA AATAAA ATTAAA AATAAA A
1 AATAAA AA-TAAA AATAAA AAT-AAA AATAAA AATAAA AATAAA A
9077920 TGAAAAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 5 0.15
6 17 0.52
7 11 0.33
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:9078729 original size:3 final size:3
Alignment explanation
Indices: 9078723--9078860 Score: 157
Period size: 3 Copynumber: 48.0 Consensus size: 3
9078713 AAAAAATAAG
9078723 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
9078771 ATA ATA ATA ATA ATA GTA AT- ATA AT- ATA ATA CCAT- ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA
* * * *
9078814 CTA ATA ATA ATA AT- ATG ATA ATG AT- ATT ATA AT- ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9078858 ATA
1 ATA
9078861 CTATAATATA
Statistics
Matches: 118, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
2 16 0.14
3 100 0.85
5 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:9078869 original size:21 final size:21
Alignment explanation
Indices: 9078723--9078876 Score: 134
Period size: 24 Copynumber: 7.0 Consensus size: 21
9078713 AAAAAATAAG
9078723 ATAATAATAATAATAATAATAATA
1 ATAATAAT-ATAAT-ATAAT-ATA
9078747 ATAATAATAATAATAATAATAATA
1 ATAATAAT-ATAAT-ATAAT-ATA
9078771 ATAATAATAATAATAGTAATATA
1 ATAATAAT-ATAATA-TAATATA
**
9078794 AT-ATAATACCATATAATATA
1 ATAATAATATAATATAATATA
* *
9078814 CTAATAATAATAATAT--GATA
1 ATAATAAT-ATAATATAATATA
* *
9078834 ATGATATTATAATATAATATA
1 ATAATAATATAATATAATATA
* *
9078855 ATAATACTATAATATAACATA
1 ATAATAATATAATATAATATA
9078876 A
1 A
9078877 AACACAGACC
Statistics
Matches: 112, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
19 7 0.06
20 16 0.14
21 31 0.28
22 10 0.09
23 6 0.05
24 42 0.38
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (21 bp):
ATAATAATATAATATAATATA
Found at i:9079740 original size:64 final size:65
Alignment explanation
Indices: 9079611--9079769 Score: 194
Period size: 64 Copynumber: 2.5 Consensus size: 65
9079601 AGGTTTGAAA
* * * *
9079611 TTCACAAAGATACAAGAATCGTAAAGATTTTTAGGTTCACAAGAAAGATTTGCAAGACTCCAAGT
1 TTCACAAAGGTTCTAGATTCGTAAAGATTTTTAGGTTCACAAGAAAGATTTGCAAGACTCCAAGT
** * * * *
9079676 TTTGCAAAGGTTCTAGATTCGTAAGGATTTTTAGGTT-GCAAGAAAGATTTGTAAGACTCTAAGT
1 TTCACAAAGGTTCTAGATTCGTAAAGATTTTTAGGTTCACAAGAAAGATTTGCAAGACTCCAAGT
* * *
9079740 TTCATAAAGGTTCTAGATTTGCAAAGATTT
1 TTCACAAAGGTTCTAGATTCGTAAAGATTT
9079770 CATAACAAAA
Statistics
Matches: 78, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
64 48 0.62
65 30 0.38
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (65 bp):
TTCACAAAGGTTCTAGATTCGTAAAGATTTTTAGGTTCACAAGAAAGATTTGCAAGACTCCAAGT
Found at i:9080809 original size:20 final size:22
Alignment explanation
Indices: 9080770--9080819 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
9080760 AGTTTAAGTA
*
9080770 TTTCTTTTTCTTTCTTTGTTT-T
1 TTTC-TTTTCTTTATTTGTTTCT
9080792 TTTCTTTT-TTTATTTGTTTCT
1 TTTCTTTTCTTTATTTGTTTCT
9080813 TTT-TTTT
1 TTTCTTTT
9080820 GCCCTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 14 0.54
21 8 0.31
22 4 0.15
ACGTcount: A:0.02, C:0.10, G:0.04, T:0.84
Consensus pattern (22 bp):
TTTCTTTTCTTTATTTGTTTCT
Found at i:9080815 original size:16 final size:16
Alignment explanation
Indices: 9080776--9080818 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
9080766 AGTATTTCTT
* * *
9080776 TTTCTTTCTTTGTTTT
1 TTTCTTTTTTTATTTG
9080792 TTTCTTTTTTTATTTG
1 TTTCTTTTTTTATTTG
9080808 TTTCTTTTTTT
1 TTTCTTTTTTT
9080819 TGCCCTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.02, C:0.09, G:0.05, T:0.84
Consensus pattern (16 bp):
TTTCTTTTTTTATTTG
Found at i:9081212 original size:52 final size:51
Alignment explanation
Indices: 9081142--9081271 Score: 179
Period size: 51 Copynumber: 2.5 Consensus size: 51
9081132 TTCTTATTTT
* * *
9081142 TTAATCTTTTTTCCTTTTTTTTTTTAGGTGGAGCACATTGGCATTTTGCCCCA
1 TTAAT-TTTTTTTCTTTTTTTTTTT-GGCGGAGCACATTAGCATTTTGCCCCA
*
9081195 TTAATTTTTTTTCTTTTTTTTTTTGGCGGAGCACATTAGCATTTTGCCCTA
1 TTAATTTTTTTTCTTTTTTTTTTTGGCGGAGCACATTAGCATTTTGCCCCA
* *
9081246 TCAATTTTTTTTCCTTTTTTTATTTG
1 TTAATTTTTTTT-CTTTTTTTTTTTG
9081272 TTAGGAAAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
51 35 0.50
52 30 0.43
53 5 0.07
ACGTcount: A:0.15, C:0.16, G:0.12, T:0.57
Consensus pattern (51 bp):
TTAATTTTTTTTCTTTTTTTTTTTGGCGGAGCACATTAGCATTTTGCCCCA
Found at i:9085069 original size:15 final size:16
Alignment explanation
Indices: 9085044--9085074 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
9085034 CTTTATTTGA
9085044 AAATATTTTTTTATTT
1 AAATATTTTTTTATTT
9085060 AAAT-TTTTTTTATTT
1 AAATATTTTTTTATTT
9085075 TTATAGAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
AAATATTTTTTTATTT
Found at i:9085994 original size:3 final size:3
Alignment explanation
Indices: 9085988--9086027 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
9085978 AAAGAAAAAA
* * *
9085988 AAT AAT AAT TAT AGT AAT AAT AAT AAT AAT AAT AGT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9086028 TGATATAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:9087729 original size:20 final size:19
Alignment explanation
Indices: 9087704--9087746 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
9087694 CTTTATTTTT
9087704 TTTTTGGTTCTACTT-TTTCA
1 TTTTT-GTTCT-CTTCTTTCA
*
9087724 TTTTTGTTCTTTTCTTTCA
1 TTTTTGTTCTCTTCTTTCA
9087743 TTTT
1 TTTT
9087747 ATTCCCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 14 0.67
20 5 0.24
ACGTcount: A:0.07, C:0.14, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTTTGTTCTCTTCTTTCA
Found at i:9087775 original size:20 final size:19
Alignment explanation
Indices: 9087752--9087793 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
9087742 ATTTTATTCC
9087752 CTTTTC-CTTATTTTCTTATT
1 CTTTTCACTTATTTT-TT-TT
9087772 C-TTTCACTTATTTTTTTT
1 CTTTTCACTTATTTTTTTT
9087790 CTTT
1 CTTT
9087794 CTTTCTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.15
19 8 0.40
20 9 0.45
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (19 bp):
CTTTTCACTTATTTTTTTT
Found at i:9088348 original size:16 final size:17
Alignment explanation
Indices: 9088266--9088351 Score: 68
Period size: 17 Copynumber: 4.7 Consensus size: 17
9088256 ATATATTTTC
9088266 TTTCTCTTTCTTTTATTAT
1 TTTCT-TTTCTTTTATT-T
*
9088285 ATTTCATTTTATTTTTTATTT
1 -TTTC--TTT-TCTTTTATTT
9088306 TTTCTTTT-TTTATATTT
1 TTTCTTTTCTTT-TATTT
*
9088323 TTGCCTTTTCTTTT-TTT
1 TT-TCTTTTCTTTTATTT
9088340 TTTCTTTTCTTT
1 TTTCTTTTCTTT
9088352 GTATGCCCCT
Statistics
Matches: 57, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
16 12 0.21
17 13 0.23
18 9 0.16
19 3 0.05
20 8 0.14
21 3 0.05
22 9 0.16
ACGTcount: A:0.09, C:0.12, G:0.01, T:0.78
Consensus pattern (17 bp):
TTTCTTTTCTTTTATTT
Found at i:9091251 original size:20 final size:20
Alignment explanation
Indices: 9091226--9091265 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
9091216 GTATACCTAT
9091226 GATGCA-ACATAGTTATATGA
1 GATGCAGACATA-TTATATGA
9091246 GATGCATGACATATTATATG
1 GATGCA-GACATATTATATG
9091266 CATGAAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (20 bp):
GATGCAGACATATTATATGA
Found at i:9091767 original size:20 final size:20
Alignment explanation
Indices: 9091731--9091768 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9091721 TTAAAAAAAT
* *
9091731 TTTTGTTTTTGTTGTTTTTG
1 TTTTGTTTTTCTGGTTTTTG
9091751 TTTTGTTTTTCTGGTTTT
1 TTTTGTTTTTCTGGTTTT
9091769 GCAGGATAGT
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:0.00, C:0.03, G:0.18, T:0.79
Consensus pattern (20 bp):
TTTTGTTTTTCTGGTTTTTG
Found at i:9093437 original size:18 final size:18
Alignment explanation
Indices: 9093381--9093442 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
9093371 AATATGTGAT
9093381 GAATACATGACAATTAAA
1 GAATACATGACAATTAAA
*
9093399 G-ATGA-ATGATAA--AATA
1 GAAT-ACATGACAATTAA-A
*
9093415 TGAATGCATGACAATTAAA
1 -GAATACATGACAATTAAA
9093434 GAATACATG
1 GAATACATG
9093443 TGATAACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
15 2 0.06
16 1 0.03
17 9 0.27
18 18 0.55
19 1 0.03
20 2 0.06
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (18 bp):
GAATACATGACAATTAAA
Found at i:9093590 original size:33 final size:33
Alignment explanation
Indices: 9093553--9093616 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
9093543 TGGCTTTGGT
* *
9093553 TTAGGGTTTAGGTCTACGGTTTAGGGTTTGGGC
1 TTAGGGTTTAGGTCTAAGATTTAGGGTTTGGGC
9093586 TTAGGGTTTAGGTCTAAGATTTAGGGTTTGG
1 TTAGGGTTTAGGTCTAAGATTTAGGGTTTGG
9093617 TTTAGGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.16, C:0.06, G:0.38, T:0.41
Consensus pattern (33 bp):
TTAGGGTTTAGGTCTAAGATTTAGGGTTTGGGC
Found at i:9093609 original size:20 final size:20
Alignment explanation
Indices: 9093586--9093653 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
9093576 GGGTTTGGGC
*
9093586 TTAGGGTTTAGGTCTAAGAT
1 TTAGGGTTTAGGTTTAAGAT
*
9093606 TTAGGGTTT-GGTTTAGGAT
1 TTAGGGTTTAGGTTTAAGAT
*
9093625 TTAGTGTTTAGGTTTTAAG-T
1 TTAGGGTTTAGG-TTTAAGAT
9093645 TTAGGGTTT
1 TTAGGGTTT
9093654 GGATTTAGGG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 16 0.39
20 20 0.49
21 5 0.12
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (20 bp):
TTAGGGTTTAGGTTTAAGAT
Found at i:9093637 original size:39 final size:40
Alignment explanation
Indices: 9093586--9093662 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 40
9093576 GGGTTTGGGC
9093586 TTAGGGTTTAGG-TCTAAGATTTAGGGTTTGG-TTTAGGAT
1 TTAGGGTTTAGGTTCTAAG-TTTAGGGTTTGGATTTAGGAT
* *
9093625 TTAGTGTTTAGGTTTTAAGTTTAGGGTTTGGATTTAGG
1 TTAGGGTTTAGGTTCTAAGTTTAGGGTTTGGATTTAGG
9093663 GTTTTAGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 23 0.68
40 11 0.32
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.47
Consensus pattern (40 bp):
TTAGGGTTTAGGTTCTAAGTTTAGGGTTTGGATTTAGGAT
Found at i:9093663 original size:13 final size:13
Alignment explanation
Indices: 9093603--9093666 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
9093593 TTAGGTCTAA
9093603 GATTTAGGGTTTG
1 GATTTAGGGTTTG
*
9093616 G-TTTAGGATTTAG
1 GATTTAGGGTTT-G
*
9093629 TG-TTTA-GGTTTT
1 -GATTTAGGGTTTG
*
9093641 AAGTTTAGGGTTTG
1 GA-TTTAGGGTTTG
9093655 GATTTAGGGTTT
1 GATTTAGGGTTT
9093667 TAGAATGCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
12 9 0.22
13 20 0.50
14 11 0.28
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (13 bp):
GATTTAGGGTTTG
Found at i:9093666 original size:20 final size:19
Alignment explanation
Indices: 9093577--9093666 Score: 67
Period size: 19 Copynumber: 4.6 Consensus size: 19
9093567 TACGGTTTAG
*
9093577 GGTTT-GGGCTTAGGGTTT
1 GGTTTAGGGTTTAGGGTTT
* * *
9093595 AGGTCTAAGATTTAGGGTTT
1 -GGTTTAGGGTTTAGGGTTT
* *
9093615 GGTTTAGGATTTAGTGTTT
1 GGTTTAGGGTTTAGGGTTT
*
9093634 AGGTTTTA-AGTTTAGGGTTT
1 -GG-TTTAGGGTTTAGGGTTT
9093654 GGATTTAGGGTTT
1 GG-TTTAGGGTTT
9093667 TAGAATGCAT
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
19 26 0.47
20 25 0.45
21 4 0.07
ACGTcount: A:0.17, C:0.02, G:0.34, T:0.47
Consensus pattern (19 bp):
GGTTTAGGGTTTAGGGTTT
Found at i:9100909 original size:28 final size:28
Alignment explanation
Indices: 9100869--9100925 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
9100859 ATCAGCAAAA
*
9100869 CCAAAACAAGATGGAAAATAATGCTGCT
1 CCAAAACAAGATGAAAAATAATGCTGCT
9100897 CCAAAACAAGATGAAAAATAATGCTGCT
1 CCAAAACAAGATGAAAAATAATGCTGCT
9100925 C
1 C
9100926 ACTCACCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (28 bp):
CCAAAACAAGATGAAAAATAATGCTGCT
Found at i:9103147 original size:12 final size:12
Alignment explanation
Indices: 9103130--9103155 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9103120 ATTTATTGGT
9103130 TTAAATTTTTTA
1 TTAAATTTTTTA
9103142 TTAAATTTTTTA
1 TTAAATTTTTTA
9103154 TT
1 TT
9103156 TACTTATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTAAATTTTTTA
Found at i:9110016 original size:18 final size:18
Alignment explanation
Indices: 9109989--9110027 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9109979 TTTCCCCTTC
*
9109989 TTTTTTAATATTTTAATA
1 TTTTTAAATATTTTAATA
*
9110007 TTTTTAAATATTTTATTA
1 TTTTTAAATATTTTAATA
9110025 TTT
1 TTT
9110028 ACATTTTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTAAATATTTTAATA
Found at i:9110246 original size:28 final size:28
Alignment explanation
Indices: 9110206--9110262 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
9110196 GTTTTTGTTT
* *
9110206 ATTTTAATTTTAATTAATTAAATAAATA
1 ATTTTAATGTTAAATAATTAAATAAATA
*
9110234 ATTTTCATGTTAAATAATTAAATAAATA
1 ATTTTAATGTTAAATAATTAAATAAATA
9110262 A
1 A
9110263 ACAATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
ATTTTAATGTTAAATAATTAAATAAATA
Found at i:9115347 original size:27 final size:26
Alignment explanation
Indices: 9115308--9115384 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 26
9115298 CTTTTTTTTG
9115308 TTTAATTAGATAAAAATGAAAT-AATTT
1 TTTAATTA-ATAAAAAT-AAATAAATTT
9115335 TTTAATCTAAT-AAAATAAATAAATTT
1 TTTAAT-TAATAAAAATAAATAAATTT
9115361 TATT-ATATAATAAATTAATAAATA
1 T-TTAAT-TAATAAA--AATAAATA
9115385 TATAAAATGT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
25 4 0.09
26 17 0.40
27 12 0.28
28 2 0.05
29 8 0.19
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.42
Consensus pattern (26 bp):
TTTAATTAATAAAAATAAATAAATTT
Found at i:9115359 original size:26 final size:26
Alignment explanation
Indices: 9115320--9115383 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
9115310 TAATTAGATA
*
9115320 AAAATGAAAT-AATTTT-TTAATCTAAT
1 AAAAT-AAATAAATTTTATT-ATATAAT
9115346 AAAATAAATAAATTTTATTATATAAT
1 AAAATAAATAAATTTTATTATATAAT
*
9115372 -AAATTAATAAAT
1 AAAATAAATAAAT
9115384 ATATAAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 15 0.44
26 17 0.50
27 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
AAAATAAATAAATTTTATTATATAAT
Found at i:9115810 original size:12 final size:12
Alignment explanation
Indices: 9115777--9115811 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9115767 ATTACAGTAA
*
9115777 TTAATTTCACTT
1 TTAATTTCATTT
*
9115789 TTAATGTCATTT
1 TTAATTTCATTT
9115801 TTAATTTCATT
1 TTAATTTCATT
9115812 GAATCAATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.60
Consensus pattern (12 bp):
TTAATTTCATTT
Found at i:9118150 original size:2 final size:2
Alignment explanation
Indices: 9118143--9118179 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
9118133 CAAGTTCTTA
*
9118143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9118180 AAGGGACTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 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):
AT
Found at i:9123196 original size:6 final size:6
Alignment explanation
Indices: 9123169--9123206 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
9123159 TTTGAGTTGG
9123169 ATTGAT GATTGAT ATATGAT ATTGAT ATTGAT ATTGAT
1 ATTGAT -ATTGAT AT-TGAT ATTGAT ATTGAT ATTGAT
9123207 TCAAAGAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.60
7 12 0.40
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (6 bp):
ATTGAT
Found at i:9123853 original size:16 final size:16
Alignment explanation
Indices: 9123828--9123862 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9123818 AATTTACTTT
* *
9123828 TTTTATTAAATAATAA
1 TTTTAATAAATAAAAA
9123844 TTTTAATAAATAAAAA
1 TTTTAATAAATAAAAA
9123860 TTT
1 TTT
9123863 ATTAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTAATAAATAAAAA
Found at i:9123897 original size:4 final size:4
Alignment explanation
Indices: 9123888--9123934 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
9123878 TAATAATACT
* * *
9123888 TTTA TTTA TTTA TTTA TTTA TTTTA GTTA TTTA TTAA TTAA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TT
9123935 ATACAATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
4 34 0.89
5 4 0.11
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:9123917 original size:21 final size:21
Alignment explanation
Indices: 9123887--9123931 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9123877 GTAATAATAC
* * *
9123887 TTTTATTTATTTATTTATTTA
1 TTTTAGTTATTTATTAATTAA
9123908 TTTTAGTTATTTATTAATTAA
1 TTTTAGTTATTTATTAATTAA
9123929 TTT
1 TTT
9123932 ATTATACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTAGTTATTTATTAATTAA
Found at i:9123932 original size:163 final size:165
Alignment explanation
Indices: 9123723--9124073 Score: 627
Period size: 163 Copynumber: 2.1 Consensus size: 165
9123713 GAATGCATTA
*
9123723 TTTATTTATGTATTTATTTAATTTTTAGTTATTTATTAATTAATTTAATATACAATTATAAAATT
1 TTTATTTATTTATTTATTTAATTTTTAGTTATTTATTAATTAATTTAATATACAATTATAAAATT
9123788 TATTATATTAAATATAATTAAAATTTATTAAATTTACTTTTTTTATTAAATAATAATTTTAATAA
66 TATTATATTAAATATAATTAAAATTTATTAAATTTAC-TTTTTTATTAAATAATAATTTTAATAA
**
9123853 ATAAAAATTTATT-AAAATTATTTTGTAATAATACT
130 ATAAAAATTTATTAAAAAAAATTTTGTAATAATACT
*
9123888 TTTATTTATTTATTTATTT-A-TTTTAGTTATTTATTAATTAATTTATTATACAATTATAAAATT
1 TTTATTTATTTATTTATTTAATTTTTAGTTATTTATTAATTAATTTAATATACAATTATAAAATT
9123951 TATTATATTAAATATAATTAAAATTTATTAAATTTACTTTTTTATTAAATAATAATTTTAATAAA
66 TATTATATTAAATATAATTAAAATTTATTAAATTTACTTTTTTATTAAATAATAATTTTAATAAA
9124016 TAAAAATTTATTAAAAAAAATTTTGTAATAATACT
131 TAAAAATTTATTAAAAAAAATTTTGTAATAATACT
*
9124051 TTTATTTATTTATTTATATAATT
1 TTTATTTATTTATTTATTTAATT
9124074 GTTTTTATAT
Statistics
Matches: 178, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
162 40 0.22
163 117 0.66
164 2 0.01
165 19 0.11
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (165 bp):
TTTATTTATTTATTTATTTAATTTTTAGTTATTTATTAATTAATTTAATATACAATTATAAAATT
TATTATATTAAATATAATTAAAATTTATTAAATTTACTTTTTTATTAAATAATAATTTTAATAAA
TAAAAATTTATTAAAAAAAATTTTGTAATAATACT
Found at i:9124015 original size:16 final size:16
Alignment explanation
Indices: 9123990--9124039 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
9123980 AAATTTACTT
* *
9123990 TTTTATTAAATAATAA
1 TTTTAATAAATAAAAA
9124006 TTTTAATAAATAAAAA
1 TTTTAATAAATAAAAA
*
9124022 -TTTATTAAA-AAAAA
1 TTTTAATAAATAAAAA
9124036 TTTT
1 TTTT
9124040 GTAATAATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 5 0.17
15 11 0.37
16 14 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTTTAATAAATAAAAA
Found at i:9124105 original size:11 final size:11
Alignment explanation
Indices: 9124091--9124142 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
9124081 TATTAAAAAA
9124091 TAATTATTATG
1 TAATTATTATG
9124102 TAATTA-TATG
1 TAATTATTATG
*
9124112 ATTATTTATTGAT-
1 --TAATTATT-ATG
9124125 TAATTATTATG
1 TAATTATTATG
9124136 TAATTAT
1 TAATTAT
9124143 ATAATTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
10 6 0.18
11 20 0.59
12 5 0.15
13 1 0.03
14 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TAATTATTATG
Found at i:9128143 original size:395 final size:397
Alignment explanation
Indices: 9127407--9128200 Score: 1335
Period size: 395 Copynumber: 2.0 Consensus size: 397
9127397 TGCTTTGAAG
* * *
9127407 AAAAGAAGATCTTGAAAATAAACACTTTTTGTATTGAAGAAAATAATGAAAGAAATAATTTTGGT
1 AAAAGAAGATCTTGAAAATAAACACTTCTTGTATTGAAGAAAAGAATGAAAGAAACAATTTTGGT
* *
9127472 TATTGGTAAAGTCATCACCTAAGCTAATACCTTAAAGAAAACTAAAGAAAAGACTAAGAAAAGAA
66 TATTGGTAAAGTCATCACCTAAGCCAATACCTCAAAGAAAACTAAAGAAAAGACTAAGAAAAGAA
9127537 AAAAAAAAGAAGAAAAGAGAAGAATTAGATGATAGGAATGTGTGATACAAGTGAAAGGCCTCCTT
131 AAAAAAAAGAAGAAAAGAGAAGAATTAGATGATAGGAATGTGTGATACAAGTGAAAGGCCTCCTT
*
9127602 ATTTATAGAAAGGGGTTCGACCTTAGGGGGTTAGTGATTACAAGAGTTTGACTTCTATCTAAATG
196 ATTTATAGAAAGGGGTTCGACCTTAGGGGGTTAGCGATTACAAGAGTTTGACTTCTATCTAAATG
* * * *
9127667 TTAAAGGATGAAGTTTATCTTGATCTTCAAAAAGCTTTGATCGAATAGGACTTTTAGTTGTTGAA
261 CTAAAGGATGAAGTTTATCTTAATCTTCAAAAAGCTTTGATCGAATAGGACTTTTAGTTATTAAA
* *
9127732 GAGTCATAGCCGGATAGGGGTCTTGGGAAGCAATCTTGGTTGTGTGATCTTGCTTAAAGTCTATC
326 GAGTCATAACCGGATAGGGGTCTTAGGAAGCAATCTTGGTTGTGTGATCTTGCTTAAAGTCTATC
9127797 TTGATGC
391 TTGATGC
*
9127804 AAAA-AAGATCTTGAAAATAAACACTTCTTGTATTGAAGAAAAGAATGAAATAAACAATTTTGGT
1 AAAAGAAGATCTTGAAAATAAACACTTCTTGTATTGAAGAAAAGAATGAAAGAAACAATTTTGGT
9127868 TATTGGTAAAGTCATCACCTAAGCCAATACCTCAAAGAAAACTAAAGAAAAGACTAAGAAAAG-A
66 TATTGGTAAAGTCATCACCTAAGCCAATACCTCAAAGAAAACTAAAGAAAAGACTAAGAAAAGAA
** * *
9127932 AAAAAGGAGAAGAAAAGAGAAGAATTGGATGATCGGAATGTGTGATACAAGTGAAAGGCCTCCTT
131 AAAAAAAAGAAGAAAAGAGAAGAATTAGATGATAGGAATGTGTGATACAAGTGAAAGGCCTCCTT
*
9127997 ATTTATAGAAAGGGGTTCGACTTTAGGGGGTTAGCGATTACAAGAGTTTGACTTCTATCTAAATG
196 ATTTATAGAAAGGGGTTCGACCTTAGGGGGTTAGCGATTACAAGAGTTTGACTTCTATCTAAATG
* *
9128062 CTAAAGGATGAAGTTTATCTTAATTTTCAAAGAGCTTTGA-CTGAA-AGGGACTTTTAGTTATTA
261 CTAAAGGATGAAGTTTATCTTAATCTTCAAAAAGCTTTGATC-GAATA-GGACTTTTAGTTATTA
* * *
9128125 AAGAGTTATAACCGGATAGGGGTTTTAGGAAGTAATCTTGGTTGTGTGATCTTGCTTAAAGTCTA
324 AAGAGTCATAACCGGATAGGGGTCTTAGGAAGCAATCTTGGTTGTGTGATCTTGCTTAAAGTCTA
9128190 TCTTGATGC
389 TCTTGATGC
9128199 AA
1 AA
9128201 TCTTTTTCAT
Statistics
Matches: 372, Mismatches: 23, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
394 2 0.01
395 249 0.67
396 117 0.31
397 4 0.01
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.29
Consensus pattern (397 bp):
AAAAGAAGATCTTGAAAATAAACACTTCTTGTATTGAAGAAAAGAATGAAAGAAACAATTTTGGT
TATTGGTAAAGTCATCACCTAAGCCAATACCTCAAAGAAAACTAAAGAAAAGACTAAGAAAAGAA
AAAAAAAAGAAGAAAAGAGAAGAATTAGATGATAGGAATGTGTGATACAAGTGAAAGGCCTCCTT
ATTTATAGAAAGGGGTTCGACCTTAGGGGGTTAGCGATTACAAGAGTTTGACTTCTATCTAAATG
CTAAAGGATGAAGTTTATCTTAATCTTCAAAAAGCTTTGATCGAATAGGACTTTTAGTTATTAAA
GAGTCATAACCGGATAGGGGTCTTAGGAAGCAATCTTGGTTGTGTGATCTTGCTTAAAGTCTATC
TTGATGC
Found at i:9138159 original size:6 final size:6
Alignment explanation
Indices: 9138126--9138201 Score: 66
Period size: 6 Copynumber: 12.0 Consensus size: 6
9138116 CAAGTTTTCA
9138126 CTAAAC CATAAACC CTAAAC CTTAAAC CTAAAC C-AAACC CT-AAC CTAAATC
1 CTAAAC C-TAAA-C CTAAAC C-TAAAC CTAAAC CTAAA-C CTAAAC CTAAA-C
* *
9138177 CCAAACC CTAAAC CTAACC CTAAAC
1 CTAAA-C CTAAAC CTAAAC CTAAAC
9138202 ATTAACCTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
5 6 0.10
6 26 0.45
7 24 0.41
8 2 0.03
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (6 bp):
CTAAAC
Found at i:9138182 original size:19 final size:18
Alignment explanation
Indices: 9138126--9138193 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 18
9138116 CAAGTTTTCA
9138126 CTAAACCATAAACCCTAAACC
1 CTAAACC-TAAA-CC-AAACC
*
9138147 TTAAACCTAAACCAAACC
1 CTAAACCTAAACCAAACC
9138165 CT-AACCTAAATCCCAAACC
1 CTAAACCTAAA--CCAAACC
9138184 CTAAACCTAA
1 CTAAACCTAA
9138194 CCCTAAACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.19
18 6 0.14
19 11 0.26
20 11 0.26
21 6 0.14
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (18 bp):
CTAAACCTAAACCAAACC
Found at i:9139919 original size:24 final size:24
Alignment explanation
Indices: 9139892--9139938 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9139882 TGTTAGGAAT
*
9139892 AAAAA-AGAACAACAATAACAAAAC
1 AAAAAGAGAA-AACAAAAACAAAAC
*
9139916 AAAAAGAGAAAAGAAAAACAAAA
1 AAAAAGAGAAAACAAAAACAAAA
9139939 ACTCAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.79, C:0.11, G:0.09, T:0.02
Consensus pattern (24 bp):
AAAAAGAGAAAACAAAAACAAAAC
Found at i:9139930 original size:30 final size:32
Alignment explanation
Indices: 9139894--9139961 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 32
9139884 TTAGGAATAA
* * *
9139894 AAAAGAACAACAATAA-CAAAACAAAAAG-AG
1 AAAAGAAAAACAAAAACCAAAAAAAAAAGAAG
9139924 AAAAGAAAAACAAAAACTCAAAAAAAAAAGAAG
1 AAAAGAAAAACAAAAAC-CAAAAAAAAAAGAAG
9139957 AAAAG
1 AAAAG
9139962 CAATGGAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 14 0.44
32 11 0.34
33 7 0.22
ACGTcount: A:0.76, C:0.10, G:0.10, T:0.03
Consensus pattern (32 bp):
AAAAGAAAAACAAAAACCAAAAAAAAAAGAAG
Found at i:9150771 original size:162 final size:162
Alignment explanation
Indices: 9150481--9152446 Score: 1380
Period size: 161 Copynumber: 12.2 Consensus size: 162
9150471 ATGAAATGAC
* * ** * ** *
9150481 AAAGTTATTGTTTATATCCGTTT-AGCACTT-TTTGTGTCATTAAATAGCAAAAATGTAAATGTG
1 AAAGTTATCGTTTATGTCTTTTTAAG-ACTTGTTTGTGCCATTAAAGGGCAAAAATGTAAATTTG
* * * * * * *
9150544 CAATTAT-TGTT-TGTTTTAACAGTTTGGATAGCTTCAATACATTATATTAAACATGCTT-GAAT
65 TAGTTATAT-TTATGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTG-TTCGAAT
*
9150606 GATTGAACTTGGTTTCCATGATTGATATGTGTGAA
128 GATTGAACTTGGTTTCCACGATTGATATGTGTGAA
* * * * * * *
9150641 AAAG-TACCATTTATATCTTTTTAAGACTTGGTTTGTGTCATTAAAGGGAAAAAATTTAATTTTG
1 AAAGTTATCGTTTATGTCTTTTTAAGACTT-GTTTGTGCCATTAAAGGGCAAAAATGTAAATTTG
* ** * * *
9150705 TAGTTATATTTATGTTTTAATAGTTTATATAGCTTAAATGTATGCTACTAAACTTGTTCAAATGA
65 TAGTTATATTTATGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTTCGAATGA
*
9150770 TTGAACTTAGTTTCCACGATT-A-ATGTGTGAA
130 TTGAACTTGGTTTCCACGATTGATATGTGTGAA
* * * * ** * * * * *
9150801 AAAGTTATTGTTTATGTCTGTTTAGGACTT-TTTGCGCTGTTAAAAGACCAAAATGCAAAATTGC
1 AAAGTTATCGTTTATGTCTTTTTAAGACTTGTTTGTGCCATTAAAGGGCAAAAATGTAAATTTG-
* * * * *
9150865 T-TTTATTATTCTATG--TT-A-A-TTTAGATAGCTTTAATAAATGATACTAAACTTGTTTGAAT
65 TAGTTA-TATT-TATGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTTCGAAT
* * * * * *
9150924 GGTTGAACTTAGTTTGCATGGTTGATATATGTGAAA
128 GATTGAACTTGGTTTCCACGATTGATATGTGTG-AA
* * * * * ** * *
9150960 AAAGTTATCATTTATGTCTATTTAGGATTTTTTTGTGCTGTTAAAGGGCCAAAATGCAAATTTGT
1 AAAGTTATCGTTTATGTCTTTTTAAGACTTGTTTGTGCCATTAAAGGGCAAAAATGTAAATTTGT
* * * * * *
9151025 -GTTTATTATTCTA--TTTTAACAATTTAGATAGTTTCAATACATAATATTTAACTTGTTCGAAT
66 AG-TTA-TATT-TATGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTTCGAAT
* *
9151087 AATTGAACTTGGTTTCCATGATTGATATGTGTG-A
128 GATTGAACTTGGTTTCCACGATTGATATGTGTGAA
* * * * *
9151121 AAAGCTTACCGTTTATGTCTTTTTAGGACTTTGTTATGT--CGTTAAAGGGCAAAAATGTCATTT
1 AAAG-TTATCGTTTATGTCTTTTTAAGAC-TTGTT-TGTGCCATTAAAGGGCAAAAATGTAAATT
* * * * *
9151184 TGTAGTTATATTTATGTTTTAGTAGTTTAGATAGCTTAAATATATAATATTAAACTTTTTTGAAT
63 TGTAGTTATATTTATGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTTCGAAT
* * *
9151249 GATTGAACTTGGTTTCCACTATTGATATATGTAAA
128 GATTGAACTTGGTTTCCACGATTGATATGTGTGAA
* * * * * * ** * * *
9151284 AAAGTTATCTTTTATATCTGTTTAACACTT-TTTATGTCATTAAAAAGCCAAAATGCAAATTTAT
1 AAAGTTATCGTTTATGTCTTTTTAAGACTTGTTTGTGCCATTAAAGGGCAAAAATGTAAATTTGT
* * * * * * * * * *
9151348 -GTT-TGCTCCTCTATTTTAACAATTTTGATAGCTTCAATACATGATATTAAATTTG-TCTAAAT
66 AGTTAT-AT-TTATGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTTC-GAAT
* * *
9151410 GATTGAACTTGGTTTTCACGGTTGATATGTATGAA
128 GATTGAACTTGGTTTCCACGATTGATATGTGTGAA
* * * * * * *
9151445 AATGTTAGC-TTGTATGTCTTTCT-AGACTT-TGTTATGCCGTTAAAGGGAAAAAATATAAATTT
1 AAAGTTATCGTT-TATGTCTTTTTAAGACTTGT-TTGTGCCATTAAAGGGCAAAAATGTAAATTT
* * * * *
9151507 GCAATTATATTTATGTTTTAATAGTTTAGATTGCTTAAATACATGATATTAAACTTTTTTGAATG
64 GTAGTTATATTTATGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTTCGAATG
* * * *
9151572 ATTAAACTTGGTTTTCACAATTAATATGTGTGAA
129 ATTGAACTTGGTTTCCACGATTGATATGTGTGAA
* * ** * **
9151606 AAAGTTA-C-TGTT-TGTCTGTTT-AGCACTTTTTTGTGCTGTT-AAGAGGCCAAAATACAAATT
1 AAAGTTATCGT-TTATGTCTTTTTAAG-ACTTGTTTGTGCCATTAAAG-GGCAAAAATGTAAATT
* * ** * *
9151666 TGTATTTGTTATTCTA--TTTTAATAGTTTAGATAGCTTTTATGCATAATATTAAACTTG-TCTG
63 TGTAGTT-ATATT-TATGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTTC-G
* * * **
9151728 AATAATTAAATTTGGTTTCCACGGCTGATATGTGTGAA
125 AATGATTGAACTTGGTTTCCACGATTGATATGTGTGAA
* * * * *
9151766 AATGTTATCGTGTATGTCTTTTTAGGACTTTGTTACAT-TG---TTAAAGGG-AAAAATATAAAA
1 AAAGTTATCGTTTATGTCTTTTTAAGAC-TTGTT---TGTGCCATTAAAGGGCAAAAATGTAAAT
** *
9151826 TTGTAGTTATATTTATGTTTTAGCAGTTTAGATAGCTTAAATACATGATATTAAACTT-TTTGAA
62 TTGTAGTTATATTTATGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTTCG-A
* * *
9151890 ATGGTTGAACTTGGTTTCCCCGACTGATA-GATGTGAA
126 ATGATTGAACTTGGTTTCCACGATTGATATG-TGTGAA
* * * * * *
9151927 AAAGTTA-CTGTTTATTTCTATTT-AGCACTTTTTTGTGCCATTAAAAGGCCAAAATGCAAATTT
1 AAAGTTATC-GTTTATGTCTTTTTAAG-ACTTGTTTGTGCCATTAAAGGGCAAAAATGTAAATTT
* *
9151990 GT-GCTTATTATTCTA--TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGA
64 GTAG-TTA-TATT-TATGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTTCGA
* * * ** *
9152052 ATAATTAAACTTGGTTTCCATGGCTAATATGTGTGAA
126 ATGATTGAACTTGGTTTCCACGATTGATATGTGTGAA
* * * *** * *
9152089 AATGTTACCGTTTATGTCTTTTAAAGACTT-TGTTACACCATTAAAGGGTAAAAATGTAATTTTG
1 AAAGTTATCGTTTATGTCTTTTTAAGACTTGT-TTGTGCCATTAAAGGGCAAAAATGTAAATTTG
* * * *
9152153 TAGTTATTTTTATGATTTTACA-A-TTTAGATAGCTTCAATACATGATATTAAACTT-ATCTAAA
65 TAGTTATATTTATG-TTTTA-ATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTTC-GAA
* *
9152215 TGATTGAACTTGGTTTCCATGATTGATATATGTGAA
127 TGATTGAACTTGGTTTCCACGATTGATATGTGTGAA
** * * * * * *
9152251 AAACATATCGTTTATGTCTTTTTTAGACTT-TATGTACCATTAAA-GGTAAAAATGTAATTTTAT
1 AAAGTTATCGTTTATGTCTTTTTAAGACTTGTTTGTGCCATTAAAGGGCAAAAATGTAAATTTGT
* * * *
9152314 AGTTATATTCATGTTTTAATAGTTTAGGTAGCTTAAATACATGATATTAAGCTTATTCGAATGAT
66 AGTTATATTTATGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTTCGAATGAT
* * *
9152379 TGAACTTGGTTTTCACGATTTGATATGTATGAC
131 TGAACTTGGTTTCCACGA-TTGATATGTGTGAA
* * * *
9152412 TAAGTTA-AGATTTATGTCTATTTAGGACTT-TTTGT
1 AAAGTTATCG-TTTATGTCTTTTTAAGACTTGTTTGT
9152447 AATGTTAAAA
Statistics
Matches: 1428, Mismatches: 294, Indels: 167
0.76 0.16 0.09
Matches are distributed among these distances:
156 52 0.04
157 3 0.00
158 10 0.01
159 96 0.07
160 285 0.20
161 443 0.31
162 433 0.30
163 97 0.07
164 6 0.00
165 2 0.00
166 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (162 bp):
AAAGTTATCGTTTATGTCTTTTTAAGACTTGTTTGTGCCATTAAAGGGCAAAAATGTAAATTTGT
AGTTATATTTATGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTTCGAATGAT
TGAACTTGGTTTCCACGATTGATATGTGTGAA
Found at i:9150944 original size:19 final size:18
Alignment explanation
Indices: 9150911--9150948 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
9150901 AATGATACTA
9150911 AACTTGTTTGAATGGTTG
1 AACTTGTTTGAATGGTTG
*
9150929 AACTTAGTTTGCATGGTTG
1 AACTT-GTTTGAATGGTTG
9150948 A
1 A
9150949 TATATGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (18 bp):
AACTTGTTTGAATGGTTG
Found at i:9151397 original size:161 final size:159
Alignment explanation
Indices: 9150557--9152473 Score: 1190
Period size: 162 Copynumber: 11.9 Consensus size: 159
9150547 TTATTGTTTG
* * * *
9150557 TTTTAACAGTTTGGATAGCTTCAATACATTATATTAAACATGCTTGAATGATTGAACTTGGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTC
* * * * * * *
9150622 CA-TGATTGATATGTGTGAAAAAG-TACCATTTATATCTTTTTAAGACTTGGTTTGTGTCATTAA
66 CACT-ATTGATATGTGTGAAAAAGTTATCTTTTATGTC-TTTTAGGACTTTG-TTATGTCGTTAA
* * ** * * *
9150685 AGGGAAAAAATTTAATTTTGTAGTTATATTTATG
128 AAGGCAAAAATGCAAATTTGT-GTT-TTTTTATA
* * * ** * * ** *
9150719 TTTTAATAGTTTATATAGCTTAAATGTATGCTACTAAACTTGTTCAAATGATTGAACTTAGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTC
* **
9150784 CACGATT-A-ATGTGTGAAAAAGTTAT-TGTTTATGTCTGTTTAGGACTTT-TTGCG-CTGTTAA
66 CACTATTGATATGTGTGAAAAAGTTATCT-TTTATGTCT-TTTAGGACTTTGTTATGTC-GTTAA
* * * *
9150844 AAGACCAAAATGCAAAATTGCT-TTTATTATTCTA
128 AAGGCAAAAATGCAAATTTG-TGTTT-TT-TTATA
* * * * * * *
9150878 TGTT-A-A-TTTAGATAGCTTTAATAAATGATACTAAACTTGTTTGAATGGTTGAACTTAGTTTG
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTC
* * * *
9150940 CA-TGGTTGATATATGTGAAAAAAGTTATCATTTATGTCTATTTAGGA-TTT-TTTTGTGCTGTT
66 CACT-ATTGATATGTGTG-AAAAAGTTATCTTTTATGTCT-TTTAGGACTTTGTTATGT-C-GTT
* * *
9151002 AAAGGGCCAAAATGCAAATTTGTGTTTATTATTCTA
126 AAAAGGCAAAAATGCAAATTTGTGTTT-TT-TTATA
* * * * * *
9151038 TTTTAACAATTTAGATAGTTTCAATACATAATATTTAACTTGTTCGAATAATTGAACTTGGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTC
* *
9151103 CA-TGATTGATATGTGTG-AAAAGCTTACCGTTTATGTCTTTTTAGGACTTTGTTATGTCGTTAA
66 CACT-ATTGATATGTGTGAAAAAG-TTATCTTTTATGTC-TTTTAGGACTTTGTTATGTCGTTAA
* * * *
9151166 AGGGCAAAAATGTC-ATTTTGTAGTTATATTTATG
128 AAGGCAAAAATG-CAAATTTGT-GTT-TTTTTATA
** * * * *
9151200 TTTTAGTAGTTTAGATAGCTTAAATATATAATATTAAACTTTTTTGAATGATTGAACTTGGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTC
* * * ** *
9151265 CACTATTGATATATGTAAAAAAGTTATCTTTTATATCTGTTTAACACTTT-TTATGTCATTAAAA
66 CACTATTGATATGTGTGAAAAAGTTATCTTTTATGTCT-TTTAGGACTTTGTTATGTCGTTAAAA
* * * ** *
9151329 AGCCAAAATGCAAATTTATGTTTGCTCCTCTA
130 GGCAAAAATGCAAATTTGTGTTT--TTTTATA
* * * * * *
9151361 TTTTAACAATTTTGATAGCTTCAATACATGATATTAAATTTGTCTAAATGATTGAACTTGGTTTT
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTC
** * * * * * *
9151426 CACGGTTGATATGTATGAAAATGTTAGCTTGTATGTCTTTCTA-GACTTTGTTATGCCGTTAAAG
66 CACTATTGATATGTGTGAAAAAGTTATCTTTTATGTCTTT-TAGGACTTTGTTATGTCGTTAAAA
* ** ** * *
9151490 GGAAAAAATATAAATTTGCAATTATATTTATG
130 GGCAAAAATGCAAATTTG-TGTT-TTTTTATA
* * * * * *
9151522 TTTTAATAGTTTAGATTGCTTAAATACATGATATTAAACTTTTTTGAATGATTAAACTTGGTTTT
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTC
* * * *
9151587 CACAATTAATATGTGTGAAAAAGTTA-CTGTT-TGTCTGTTTAGCACTTT-TT-TGTGCTGTTAA
66 CACTATTGATATGTGTGAAAAAGTTATCTTTTATGTCT-TTTAGGACTTTGTTATGT-C-GTTAA
* * * * *
9151648 GAGGCCAAAATACAAATTTGTATTTGTTATTCTA
128 AAGGCAAAAATGCAAATTTGTGTTT-TT-TTATA
* ** * * * * * *
9151682 TTTTAATAGTTTAGATAGCTTTTATGCATAATATTAAACTTGTCTGAATAATTAAATTTGGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTC
*** * * * ** *
9151747 CACGGCTGATATGTGTGAAAATGTTATCGTGTATGTCTTTTTAGGACTTTGTTACATTGTT-AAA
66 CACTATTGATATGTGTGAAAAAGTTATCTTTTATGTC-TTTTAGGACTTTGTTATGTCGTTAAAA
* ** * * *
9151811 GGGAAAAATATAAAATTGTAGTTATATTTATG
130 GGCAAAAATGCAAATTTGT-GTT-TTTTTATA
* * *
9151843 TTTTAGCAGTTTAGATAGCTTAAATACATGATATTAAACTT-TTTGAAATGGTTGAACTTGGTTT
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTG-AATGATTGAACTTGGTTT
* * * * * * * * *
9151907 CCCCGACTGATA-GATGTGAAAAAGTTA-CTGTTTATTTCTATTTAGCACTTTTTTGTGCCATTA
65 CCACTATTGATATG-TGTGAAAAAGTTATCT-TTTATGTCT-TTTAGGACTTTGTTATGTCGTTA
* * *
9151970 AAAGGCCAAAATGCAAATTTGTGCTTATTATTCTA
127 AAAGGCAAAAATGCAAATTTGTG-TT-TTTTTATA
* * *
9152005 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATAATTAAACTTGGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTC
** * * * * * *** *
9152070 CA-TGGCTAATATGTGTGAAAATGTTACCGTTTATGTCTTTTAAAGACTTTGTTACACCATTAAA
66 CACT-ATTGATATGTGTGAAAAAGTTATCTTTTATGTCTTTT-AGGACTTTGTTATGTCGTTAAA
* * * *
9152134 GGGTAAAAATGTAATTTTGTAGTTATTTTTATGA
129 AGGCAAAAATGCAAATTTGT-GTT-TTTTTAT-A
* * * *
9152168 TTTT-ACAATTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTGAACTTGGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTC
* ** * *
9152232 CA-TGATTGATATATGTGAAAAACATATCGTTTATGTCTTTTTTA-GAC--T-TTATGTACCATT
66 CACT-ATTGATATGTGTGAAAAAGTTATCTTTTATGTC--TTTTAGGACTTTGTTATGT--CGTT
* * * * * * *
9152292 -AAAGGTAAAAATGTAATTTTATAGTTATATTCATG
126 AAAAGGCAAAAATGCAAATTTGT-GTT-TTTTTATA
* * * * * * *
9152327 TTTTAATAGTTTAGGTAGCTTAAATACATGATATTAAGCTTATTCGAATGATTGAACTTGGTTTT
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTC
* * ** *** * *
9152392 CACGATTTGATATGTATGACTAAGTTAAGATTTATGTCTATTTAGGACTTT-TTGTAAT-GTTAA
66 CACTA-TTGATATGTGTGAAAAAGTTATCTTTTATGTCT-TTTAGGACTTTGTTAT-GTCGTTAA
* *
9152455 AAAGCAAGAATGCAAATTT
128 AAGGCAAAAATGCAAATTT
9152474 ACAATTATTG
Statistics
Matches: 1370, Mismatches: 310, Indels: 150
0.75 0.17 0.08
Matches are distributed among these distances:
156 51 0.04
157 3 0.00
158 20 0.01
159 76 0.06
160 269 0.20
161 387 0.28
162 455 0.33
163 97 0.07
164 12 0.01
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (159 bp):
TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTC
CACTATTGATATGTGTGAAAAAGTTATCTTTTATGTCTTTTAGGACTTTGTTATGTCGTTAAAAG
GCAAAAATGCAAATTTGTGTTTTTTTATA
Found at i:9151417 original size:323 final size:322
Alignment explanation
Indices: 9150555--9152395 Score: 1617
Period size: 323 Copynumber: 5.7 Consensus size: 322
9150545 AATTATTGTT
* * * * * **
9150555 TGTTTTAACAGTTTGGATAGCTTCAATACATTATATTAAACATGCTTGAATGATTGAACTTGGTT
1 TGTTTTAGCAGTTTAGATAGCTTAAATACATGATATTAAACTTTTTTGAATGATTGAACTTGGTT
* * * * *
9150620 TCCA-TGATTGATATGTGTGAAAAAG-TACCATTTATATCTTTTTAAG-ACTTGGTTTGTG-TCA
66 TCCACT-ATTGATATATGTGAAAAAGTTA-CTTTTATGTCTATTT-AGCACTT-TTTTGTGCT-A
* ** ** * * * * *
9150681 TTAAAGGGAAAAAATTTAATTTTGTAG-TTA-TATT-TATGTTTTAATAGTTTATATAGCTTAAA
126 TTAAAAGGCCAAAATGCAAATTTGT-GTTTATTATTCTA--TTTTAACAATTTAGATAGCTTCAA
** ** * * * * * * * *
9150743 TGTATGCTACTAAACTTGTTCAAATGATTGAACTTAGTTTCCAC-GATTA-ATGTGTGAAAAAGT
188 TACATAATATTAAACTTGTTCGAATAATTAAACTTGGTTTCCACGGCTGATATGTGTGAAAATGT
** * * * * * ** * *
9150806 TATTGTTTATGTCTGTTTAGGACTTT-TTGCGCTGTTAAA-AGACCAAAATGCAAAATTGCT-TT
253 TACCGTTTATGTCTTTTTAGGACTTTGTTACACCGTTAAAGGGA--AAAATATAAATTTG-TAGT
9150868 TATTATTCTA
315 TA-TATT-TA
* * * * * *
9150878 TG--TTA--A-TTTAGATAGCTTTAATAAATGATACTAAACTTGTTTGAATGGTTGAACTTAGTT
1 TGTTTTAGCAGTTTAGATAGCTTAAATACATGATATTAAACTTTTTTGAATGATTGAACTTGGTT
* * * * * *
9150938 TGCA-TGGTTGATATATGTGAAAAAAGTTATCATTTATGTCTATTTAGGATTTTTTTGTGCTGTT
66 TCCACT-ATTGATATATGTG-AAAAAGTTA-CTTTTATGTCTATTTAGCACTTTTTTGTGCTATT
* *
9151002 AAAGGGCCAAAATGCAAATTTGTGTTTATTATTCTATTTTAACAATTTAGATAGTTTCAATACAT
128 AAAAGGCCAAAATGCAAATTTGTGTTTATTATTCTATTTTAACAATTTAGATAGCTTCAATACAT
* * * **
9151067 AATATTTAACTTGTTCGAATAATTGAACTTGGTTTCCATGATTGATATGTGTGAAAA-GCTTACC
193 AATATTAAACTTGTTCGAATAATTAAACTTGGTTTCCACGGCTGATATGTGTGAAAATG-TTACC
*** * * *
9151131 GTTTATGTCTTTTTAGGACTTTGTTATGTCGTTAAAGGGCAAAAATGTCATTTTGTAGTTATATT
257 GTTTATGTCTTTTTAGGACTTTGTTACACCGTTAAAGGG-AAAAATATAAATTTGTAGTTATATT
9151196 TA
321 TA
* * *
9151198 TGTTTTAGTAGTTTAGATAGCTTAAATATATAATATTAAACTTTTTTGAATGATTGAACTTGGTT
1 TGTTTTAGCAGTTTAGATAGCTTAAATACATGATATTAAACTTTTTTGAATGATTGAACTTGGTT
* * * *
9151263 TCCACTATTGATATATGTAAAAAAGTTATCTTTTATATCTGTTTAACACTTTTTATGT-C-ATTA
66 TCCACTATTGATATATGTGAAAAAGTTA-CTTTTATGTCTATTTAGCACTTTTT-TGTGCTATTA
* * ** ** * *
9151326 AAAAGCCAAAATGCAAATTTATGTTTGCTCCTCTATTTTAACAATTTTGATAGCTTCAATACATG
129 AAAGGCCAAAATGCAAATTTGTGTTTATTATTCTATTTTAACAATTTAGATAGCTTCAATACATA
* * * * * * * *
9151391 ATATTAAATTTG-TCTAAATGATTGAACTTGGTTTTCACGGTTGATATGTATGAAAATGTTAGC-
194 ATATTAAACTTGTTC-GAATAATTAAACTTGGTTTCCACGGCTGATATGTGTGAAAATGTTACCG
* ** * *
9151454 TTGTATGTCTTTCTA-GACTTTGTTATGCCGTTAAAGGGAAAAAATATAAATTTGCAATTATATT
258 TT-TATGTCTTTTTAGGACTTTGTTACACCGTTAAAGGG-AAAAATATAAATTTGTAGTTATATT
9151518 TA
321 TA
** * *
9151520 TGTTTTAATAGTTTAGATTGCTTAAATACATGATATTAAACTTTTTTGAATGATTAAACTTGGTT
1 TGTTTTAGCAGTTTAGATAGCTTAAATACATGATATTAAACTTTTTTGAATGATTGAACTTGGTT
* * * * * * * *
9151585 TTCACAATTAATATGTGTGAAAAAGTTACTGTT-TGTCTGTTTAGCACTTTTTTGTGCTGTTAAG
66 TCCACTATTGATATATGTGAAAAAGTTACTTTTATGTCTATTTAGCACTTTTTTGTGCTATTAAA
* * * * * ** *
9151649 AGGCCAAAATACAAATTTGTATTTGTTATTCTATTTTAATAGTTTAGATAGCTTTTATGCATAAT
131 AGGCCAAAATGCAAATTTGTGTTTATTATTCTATTTTAACAATTTAGATAGCTTCAATACATAAT
* * *
9151714 ATTAAACTTG-TCTGAATAATTAAATTTGGTTTCCACGGCTGATATGTGTGAAAATGTTATCGTG
196 ATTAAACTTGTTC-GAATAATTAAACTTGGTTTCCACGGCTGATATGTGTGAAAATGTTACCGTT
** *
9151778 TATGTCTTTTTAGGACTTTGTTACATTGTTAAAGGGAAAAATATAAAATTGTAGTTATATTTA
260 TATGTCTTTTTAGGACTTTGTTACACCGTTAAAGGGAAAAATATAAATTTGTAGTTATATTTA
*
9151841 TGTTTTAGCAGTTTAGATAGCTTAAATACATGATATTAAAC-TTTTTGAAATGGTTGAACTTGGT
1 TGTTTTAGCAGTTTAGATAGCTTAAATACATGATATTAAACTTTTTTG-AATGATTGAACTTGGT
* * * * * *
9151905 TTCCCCGACTGATAGATGTGAAAAAGTTACTGTTTATTTCTATTTAGCACTTTTTTGTGCCATTA
65 TTCCACTATTGATATATGTGAAAAAGTTACT-TTTATGTCTATTTAGCACTTTTTTGTGCTATTA
* * *
9151970 AAAGGCCAAAATGCAAATTTGTGCTTATTATTCTATTTTAACAGTTTAGATAGCTTCAATACATG
129 AAAGGCCAAAATGCAAATTTGTGTTTATTATTCTATTTTAACAATTTAGATAGCTTCAATACATA
* *
9152035 ATATTAAACTTGTTCGAATAATTAAACTTGGTTTCCATGGCTAATATGTGTGAAAATGTTACCGT
194 ATATTAAACTTGTTCGAATAATTAAACTTGGTTTCCACGGCTGATATGTGTGAAAATGTTACCGT
* * * * * *
9152100 TTATGTCTTTTAAAGACTTTGTTACACCATTAAAGGGTAAAAATGTAATTTTGTAGTTATTTTTA
259 TTATGTCTTTTTAGGACTTTGTTACACCGTTAAAGGG-AAAAATATAAATTTGTAGTTATATTTA
* * * * *
9152165 TGATTTTA-CAATTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTGAACTTGGT
1 TG-TTTTAGCAGTTTAGATAGCTTAAATACATGATATTAAACTTTTTTGAATGATTGAACTTGGT
** * * * * *
9152229 TTCCA-TGATTGATATATGTGAAAAACATATCGTTTATGTCTTTTTTAG-AC-TTTATGTACCAT
65 TTCCACT-ATTGATATATGTGAAAAAGTTA-CTTTTATGTC-TATTTAGCACTTTTTTGTGCTAT
** * * * * * * * *
9152291 T-AAAGGTAAAAATGTAATTTTATAG-TTA-TATTCATGTTTTAATAGTTTAGGTAGCTTAAATA
127 TAAAAGGCCAAAATGCAAATTTGT-GTTTATTATTC-TATTTTAACAATTTAGATAGCTTCAATA
* * * * * *
9152353 CATGATATTAAGCTTATTCGAATGATTGAACTTGGTTTTCACG
190 CATAATATTAAACTTGTTCGAATAATTAAACTTGGTTTCCACG
9152396 ATTTGATATG
Statistics
Matches: 1260, Mismatches: 218, Indels: 81
0.81 0.14 0.05
Matches are distributed among these distances:
318 62 0.05
319 94 0.07
320 54 0.04
321 272 0.22
322 259 0.21
323 302 0.24
324 137 0.11
325 79 0.06
326 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (322 bp):
TGTTTTAGCAGTTTAGATAGCTTAAATACATGATATTAAACTTTTTTGAATGATTGAACTTGGTT
TCCACTATTGATATATGTGAAAAAGTTACTTTTATGTCTATTTAGCACTTTTTTGTGCTATTAAA
AGGCCAAAATGCAAATTTGTGTTTATTATTCTATTTTAACAATTTAGATAGCTTCAATACATAAT
ATTAAACTTGTTCGAATAATTAAACTTGGTTTCCACGGCTGATATGTGTGAAAATGTTACCGTTT
ATGTCTTTTTAGGACTTTGTTACACCGTTAAAGGGAAAAATATAAATTTGTAGTTATATTTA
Found at i:9152647 original size:88 final size:85
Alignment explanation
Indices: 9152536--9152702 Score: 289
Period size: 88 Copynumber: 1.9 Consensus size: 85
9152526 CATGTGTCCA
*
9152536 ATCATTATTGCCATGCTTGATATGCATAAATAAGTTATGGTTGATGTGTGTTTAACAATAATAGT
1 ATCATTATTGCCACGCTTGATATGCATAAATAAGTTATGGTTGATGTGTGTTTAACAAT--TAG-
*
9152601 TTTTTTTTATGTAGGAGTTTACG
63 TGTTTTTTATGTAGGAGTTTACG
9152624 ATCATTATTGCCACGCTTGATATGCATAAATAAGTTATGGTTGATGTGTGTTTAACAATTAGTGT
1 ATCATTATTGCCACGCTTGATATGCATAAATAAGTTATGGTTGATGTGTGTTTAACAATTAGTGT
9152689 TTTTTATGTAGGAG
66 TTTTTATGTAGGAG
9152703 ATTAAGTTGG
Statistics
Matches: 77, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
85 16 0.21
86 3 0.04
88 58 0.75
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.43
Consensus pattern (85 bp):
ATCATTATTGCCACGCTTGATATGCATAAATAAGTTATGGTTGATGTGTGTTTAACAATTAGTGT
TTTTTATGTAGGAGTTTACG
Found at i:9161733 original size:13 final size:13
Alignment explanation
Indices: 9161717--9161850 Score: 101
Period size: 13 Copynumber: 10.2 Consensus size: 13
9161707 CCAAAACTCG
* *
9161717 AAACCCAAATCTT
1 AAACCTAAACCTT
9161730 AAACCTAAA-CTCT
1 AAACCTAAACCT-T
* *
9161743 AACCCTAAACCCT
1 AAACCTAAACCTT
9161756 AAACCTAAACCTT
1 AAACCTAAACCTT
9161769 AAACCTAAATCC-T
1 AAACCTAAA-CCTT
* *
9161782 AATCTTAAACCTT
1 AAACCTAAACCTT
* * * *
9161795 AATCTTGAACCCT
1 AAACCTAAACCTT
* *
9161808 AACCCTAAACCCT
1 AAACCTAAACCTT
*
9161821 AAACCTTAAACCCTA
1 AAACC-TAAA-CCTT
9161836 AAACCTAAACCTT
1 AAACCTAAACCTT
9161849 AA
1 AA
9161851 TGTTAAACTA
Statistics
Matches: 99, Mismatches: 16, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
12 4 0.04
13 77 0.78
14 11 0.11
15 7 0.07
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.23
Consensus pattern (13 bp):
AAACCTAAACCTT
Found at i:9161739 original size:26 final size:26
Alignment explanation
Indices: 9161704--9161903 Score: 86
Period size: 26 Copynumber: 7.3 Consensus size: 26
9161694 CTTAAACTTC
* * *
9161704 AAACCAAAACTCGAAACCC-AAATCTT
1 AAACCTAAACTC-AAACCCTAAACCCT
*
9161730 AAACCTAAACTCTAACCCTAAACCCT
1 AAACCTAAACTCAAACCCTAAACCCT
*
9161756 AAACCTAAACCTTAAA-CCTAAATCCTAATCTT
1 AAACCTAAA-CTCAAACCCTAAA-CC----C-T
* **
9161788 AAACCTTAATCTTGAACCCT-AACCCT
1 AAACC-TAAACTCAAACCCTAAACCCT
* *
9161814 AAACCCTAAACCTTAAACCCTAAAACCT
1 AAA-CCTAAA-CTCAAACCCTAAACCCT
** * *
9161842 AAACCTTAATGTTAAA--CTAAACCTT
1 AAACC-TAAACTCAAACCCTAAACCCT
* *
9161867 AAATCTTGAAACTCAAAACCTAAACCCT
1 AAA-CCT-AAACTCAAACCCTAAACCCT
*
9161895 AAACTTAAA
1 AAACCTAAA
9161904 ACCCGAAGCC
Statistics
Matches: 136, Mismatches: 20, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
25 16 0.12
26 48 0.35
27 28 0.21
28 22 0.16
31 3 0.02
32 13 0.10
33 6 0.04
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (26 bp):
AAACCTAAACTCAAACCCTAAACCCT
Found at i:9161753 original size:7 final size:7
Alignment explanation
Indices: 9161729--9161846 Score: 88
Period size: 7 Copynumber: 17.9 Consensus size: 7
9161719 ACCCAAATCT
9161729 TAAA-CC
1 TAAACCC
*
9161735 TAAACTC
1 TAAACCC
9161742 T-AACCC
1 TAAACCC
9161748 TAAACCC
1 TAAACCC
9161755 TAAA-CC
1 TAAACCC
*
9161761 TAAACCT
1 TAAACCC
9161768 TAAA-CC
1 TAAACCC
*
9161774 TAAATCC
1 TAAACCC
* *
9161781 T-AATCT
1 TAAACCC
9161787 TAAA-CC
1 TAAACCC
* * *
9161793 TTAATCT
1 TAAACCC
*
9161800 TGAACCC
1 TAAACCC
9161807 T-AACCC
1 TAAACCC
9161813 TAAACCC
1 TAAACCC
*
9161820 TAAACCT
1 TAAACCC
9161827 TAAACCC
1 TAAACCC
*
9161834 TAAAACC
1 TAAACCC
9161841 TAAACC
1 TAAACC
9161847 TTAATGTTAA
Statistics
Matches: 90, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
6 35 0.39
7 55 0.61
ACGTcount: A:0.42, C:0.34, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:9161898 original size:13 final size:13
Alignment explanation
Indices: 9161729--9161846 Score: 119
Period size: 13 Copynumber: 8.9 Consensus size: 13
9161719 ACCCAAATCT
*
9161729 TAAACCTAAACTC
1 TAAACCTAAACCC
*
9161742 TAACCCTAAACCC
1 TAAACCTAAACCC
*
9161755 TAAACCTAAACCT
1 TAAACCTAAACCC
*
9161768 TAAACCTAAATCC
1 TAAACCTAAACCC
* * *
9161781 TAATCTTAAACCT
1 TAAACCTAAACCC
* * *
9161794 TAATCTTGAACCC
1 TAAACCTAAACCC
*
9161807 TAACCCTAAACCC
1 TAAACCTAAACCC
9161820 TAAACCTTAAACCC
1 TAAACC-TAAACCC
9161834 TAAAACCTAAACC
1 T-AAACCTAAACC
9161847 TTAATGTTAA
Statistics
Matches: 87, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
13 68 0.78
14 14 0.16
15 5 0.06
ACGTcount: A:0.42, C:0.34, G:0.01, T:0.23
Consensus pattern (13 bp):
TAAACCTAAACCC
Found at i:9161903 original size:46 final size:46
Alignment explanation
Indices: 9161812--9161903 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 46
9161802 AACCCTAACC
* **
9161812 CTAAACCCTAAACCTTAAACCCTAAAACCTAAACCTTAATGTTAAA
1 CTAAACCCTAAACCTTAAACCCTAAAACCTAAACCCTAAACTTAAA
* * *
9161858 CTAAACCTTAAATCTTGAAACTC-AAAACCTAAACCCTAAACTTAAA
1 CTAAACCCTAAACCTT-AAACCCTAAAACCTAAACCCTAAACTTAAA
9161904 ACCCGAAGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 34 0.87
47 5 0.13
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (46 bp):
CTAAACCCTAAACCTTAAACCCTAAAACCTAAACCCTAAACTTAAA
Found at i:9169458 original size:22 final size:21
Alignment explanation
Indices: 9169429--9169470 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
9169419 AAGAATAAGT
9169429 AATGAAAAAACGATGATGAAA
1 AATGAAAAAACGATGATGAAA
*
9169450 AATGAAAAAAATGATGATGAA
1 AATG-AAAAAACGATGATGAA
9169471 TGAAAAGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.62, C:0.02, G:0.19, T:0.17
Consensus pattern (21 bp):
AATGAAAAAACGATGATGAAA
Found at i:9169512 original size:26 final size:27
Alignment explanation
Indices: 9169457--9169544 Score: 94
Period size: 26 Copynumber: 3.4 Consensus size: 27
9169447 AAAAATGAAA
* *
9169457 AAAATG-AT-GATGAATGAAAAGATGGG
1 AAAATGAATGGATGAAAG-AAAGATGAG
*
9169483 AAAATGAATGGATGAAAGAATGATGA-
1 AAAATGAATGGATGAAAGAAAGATGAG
* *
9169509 AAAATTAATGGATGAGAGAAAGATGAG
1 AAAATGAATGGATGAAAGAAAGATGAG
9169536 AAAA-GAATG
1 AAAATGAATG
9169545 AATAAATGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 33 0.63
27 12 0.23
28 7 0.13
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.18
Consensus pattern (27 bp):
AAAATGAATGGATGAAAGAAAGATGAG
Found at i:9169726 original size:20 final size:20
Alignment explanation
Indices: 9169701--9169739 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
9169691 AAAAAATAAT
9169701 GATGAATGGATGATTGGAAA
1 GATGAATGGATGATTGGAAA
9169721 GATGAATGGATGATTGGAA
1 GATGAATGGATGATTGGAA
9169740 TAAGTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (20 bp):
GATGAATGGATGATTGGAAA
Found at i:9169799 original size:11 final size:11
Alignment explanation
Indices: 9169783--9169823 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
9169773 ATGGAAAAAT
9169783 GATGAATGAAG
1 GATGAATGAAG
9169794 GATGAATGAAG
1 GATGAATGAAG
* *
9169805 GGTGAATGAAT
1 GATGAATGAAG
9169816 GATGAATG
1 GATGAATG
9169824 GTGATGATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.37, T:0.22
Consensus pattern (11 bp):
GATGAATGAAG
Found at i:9170903 original size:23 final size:23
Alignment explanation
Indices: 9170849--9170893 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
9170839 GATAAATTTA
9170849 CTAGTATTTCTTTGGTATTTTTG
1 CTAGTATTTCTTTGGTATTTTTG
*
9170872 CTAGTATTTCTTTGGTGTTTTT
1 CTAGTATTTCTTTGGTATTTTT
9170894 TTTCGTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.11, C:0.09, G:0.18, T:0.62
Consensus pattern (23 bp):
CTAGTATTTCTTTGGTATTTTTG
Found at i:9171979 original size:64 final size:60
Alignment explanation
Indices: 9171911--9172180 Score: 188
Period size: 64 Copynumber: 4.3 Consensus size: 60
9171901 TTTATGAGGG
* * *
9171911 GATTATTAAAGGTATTTTTGGTTAAAAACACCTTTAATGACCTCATTAAAATTTTTTTTTTTAA
1 GATTATTAAAGGCATTTTTGGTTAAAAACACCTTCAATAACC-CATTAAAA---TTTTTTTTAA
* ** *
9171975 GATTATTCAAGGCATTTTTGG-CCAAAATACCTTCAATAACCCATTAAAATTTTTTTTAA
1 GATTATTAAAGGCATTTTTGGTTAAAAACACCTTCAATAACCCATTAAAATTTTTTTTAA
* * * * * *
9172034 GATAATTGAAGGCATTTTTGGTTAAAAATCA-CTT-AAGTAATCACATCATAAAA-ATTTATGAG
1 GATTATTAAAGGCATTTTTGGTTAAAAA-CACCTTCAA-TAA-CCCAT--TAAAATTTTTTTTA-
9172096 A
60 A
* ** * * * * * *
9172097 GGATTATTGAAGGTGTTTTGGGTCAAAAACACCTTTAATTACCCCACTAAAATTTTTTTCCAA
1 -GATTATTAAAGGCATTTTTGGTTAAAAACACCTTCAA-TAACCCATTAAAATTTTTTT-TAA
*
9172160 GATTATTCAAGGCATTTTTGG
1 GATTATTAAAGGCATTTTTGG
9172181 CCAAAAAATG
Statistics
Matches: 162, Mismatches: 32, Indels: 26
0.74 0.15 0.12
Matches are distributed among these distances:
59 31 0.19
60 10 0.06
61 5 0.03
62 35 0.22
63 28 0.17
64 49 0.30
65 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (60 bp):
GATTATTAAAGGCATTTTTGGTTAAAAACACCTTCAATAACCCATTAAAATTTTTTTTAA
Found at i:9172251 original size:127 final size:125
Alignment explanation
Indices: 9171976--9172432 Score: 417
Period size: 127 Copynumber: 3.6 Consensus size: 125
9171966 TTTTTTTAAG
* * ** * *
9171976 ATTATTCAAGGCATTTTTGGCC-AAAATACCTTCAATAA-CCCATTAAAATTTTTTTTAAGATAA
1 ATTATTGAAAGCATTTTTGGCCAAAAATACCTTCAATAACCCCATTAAAAAATTTTTTCAGATTA
* ** **
9172039 TTGAAGGCATTTTTGGTTAAAAAT-CACTTAAGTAATCACATCATAAAAATTTATGAGAGG
66 TTCAAGGCATTTTTGGCAAAAAATGC-CTTAAGTAATCACATCATAAAAATTTATGAGAAA
* ** * * * * * * *
9172099 ATTATTGAAGGTGTTTTGGGTCAAAAACACCTTTAATTACCCCACT-AAAATTTTTTTCCAAGAT
1 ATTATTGAAAGCATTTTTGGCCAAAAATACCTTCAATAACCCCATTAAAAAATTTTTT-C-AGAT
* * *
9172163 TATTCAAGGCATTTTTGGCCAAAAAATGCCTTGACTAATCACATCATAAAAATTCATGAGAAA
64 TATTCAAGGCATTTTTGG-CAAAAAATGCCTTAAGTAATCACATCATAAAAATTTATGAGAAA
* * * * *
9172226 ATTATTGAAAGCATTTTTAGCCAAAAATACCTTTAATAACCCCATGAAAAAAAATTTTT-GGATT
1 ATTATTGAAAGCATTTTTGGCCAAAAATACCTTCAATAACCCCAT-TAAAAAATTTTTTCAGATT
* * * * * ** *
9172290 ATTGAAAGCGTTTTTTGCGAAAAATGCCTTAAGTAATCATGTCATAAAAATTTATGAGGAA
65 ATTCAAGGCATTTTTGGCAAAAAATGCCTTAAGTAATCACATCATAAAAATTTATGAGAAA
*
9172351 ATTATT-AAAGGCATTTTTTGG-CAAAAA-ACTCATTCAATAACCCTATTAAAAAATTTTTTCAG
1 ATTATTGAAA-GCA-TTTTTGGCCAAAAATAC-C-TTCAATAACCCCATTAAAAAATTTTTTCAG
*
9172413 TATTATTCAAGGTATTTTTG
62 -ATTATTCAAGGCATTTTTG
9172433 ACCAAAAACA
Statistics
Matches: 265, Mismatches: 55, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
123 17 0.06
124 28 0.11
125 69 0.26
126 56 0.21
127 85 0.32
128 1 0.00
129 9 0.03
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (125 bp):
ATTATTGAAAGCATTTTTGGCCAAAAATACCTTCAATAACCCCATTAAAAAATTTTTTCAGATTA
TTCAAGGCATTTTTGGCAAAAAATGCCTTAAGTAATCACATCATAAAAATTTATGAGAAA
Found at i:9172368 original size:64 final size:63
Alignment explanation
Indices: 9172161--9172378 Score: 169
Period size: 65 Copynumber: 3.4 Consensus size: 63
9172151 TTTTTCCAAG
* * * * ** * *
9172161 ATTATTCAAGGCATTTTTGGCCAAAAAATGCCTTGACTAATCACATCATAAAAATTCATGAGAAA
1 ATTATTGAAAGCATTTTTTG-CAAAAAATGCCTT-AATAATCATGTCATAAAAATTTATGAGGAA
* * * * * * *
9172226 ATTATTGAAAGCATTTTTAGCCAAAAATACCTTTAATAACCCCATG-AAAAAAAATTT-T-TGG-
1 ATTATTGAAAGCATTTTTTGCAAAAAATGCC-TTAATAA--TCATGTCATAAAAATTTATGAGGA
9172287 -
63 A
* *
9172287 ATTATTGAAAGCGTTTTTTGCGAAAAATGCCTTAAGTAATCATGTCATAAAAATTTATGAGGAA
1 ATTATTGAAAGCATTTTTTGCAAAAAATGCCTTAA-TAATCATGTCATAAAAATTTATGAGGAA
9172351 ATTATT-AAAGGCATTTTTTGGCAAAAAA
1 ATTATTGAAA-GCATTTTTT-GCAAAAAA
9172379 CTCATTCAAT
Statistics
Matches: 118, Mismatches: 24, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
59 4 0.03
60 13 0.11
61 31 0.26
62 2 0.02
63 4 0.03
64 28 0.24
65 34 0.29
66 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (63 bp):
ATTATTGAAAGCATTTTTTGCAAAAAATGCCTTAATAATCATGTCATAAAAATTTATGAGGAA
Found at i:9175302 original size:14 final size:14
Alignment explanation
Indices: 9175251--9175374 Score: 61
Period size: 14 Copynumber: 9.4 Consensus size: 14
9175241 ATTCCCCATG
9175251 TAAATCCTAAA-CC
1 TAAATCCTAAACCC
*
9175264 -AAA-CCGTAAACCT
1 TAAATCC-TAAACCC
*
9175277 TATAT-C-AAACCC
1 TAAATCCTAAACCC
9175289 TAAATCCTAAACCC
1 TAAATCCTAAACCC
**
9175303 TAAATTTTAAA-CC
1 TAAATCCTAAACCC
*
9175316 -AAAACCTTAAACCC
1 TAAATCC-TAAACCC
* *
9175330 TAAA-CCT-TACCA
1 TAAATCCTAAACCC
* *
9175342 TAAAT-CAAAACCA
1 TAAATCCTAAACCC
* *
9175355 TAAACCCTAAACCT
1 TAAATCCTAAACCC
9175369 TAAATC
1 TAAATC
9175375 AACCTTAAGC
Statistics
Matches: 82, Mismatches: 17, Indels: 23
0.67 0.14 0.19
Matches are distributed among these distances:
11 2 0.02
12 27 0.33
13 17 0.21
14 33 0.40
15 3 0.04
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.23
Consensus pattern (14 bp):
TAAATCCTAAACCC
Found at i:9175359 original size:32 final size:32
Alignment explanation
Indices: 9175310--9175370 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
9175300 CCCTAAATTT
*
9175310 TAAACCAAAACCTTAAACCCTAAACCTTACCA
1 TAAACCAAAACCATAAACCCTAAACCTTACCA
*
9175342 TAAATCAAAACCATAAACCCTAAACCTTA
1 TAAACCAAAACCATAAACCCTAAACCTTA
9175371 AATCAACCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (32 bp):
TAAACCAAAACCATAAACCCTAAACCTTACCA
Found at i:9183815 original size:21 final size:19
Alignment explanation
Indices: 9183779--9183820 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
9183769 TGAAAAAAAC
*
9183779 AAGAAAATAAGAAATGGGA
1 AAGAAAATAAGAAATGAGA
9183798 AAGAAAATGAATGAAATGAGA
1 AAGAAAAT-AA-GAAATGAGA
9183819 AA
1 AA
9183821 ATAAAAAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 2 0.10
21 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (19 bp):
AAGAAAATAAGAAATGAGA
Found at i:9183870 original size:15 final size:14
Alignment explanation
Indices: 9183852--9183881 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
9183842 CAAAAGTAAA
9183852 GGAAAAGAAAGAAAT
1 GGAAAAGAAA-AAAT
9183867 GGAAAAGAAAAAAT
1 GGAAAAGAAAAAAT
9183881 G
1 G
9183882 ATTAAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (14 bp):
GGAAAAGAAAAAAT
Found at i:9185108 original size:10 final size:10
Alignment explanation
Indices: 9185093--9185139 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
9185083 ATTTTTGGTA
9185093 ATTCTTGAAG
1 ATTCTTGAAG
9185103 ATTCTTGAAG
1 ATTCTTGAAG
*
9185113 TTTCTTGATA-
1 ATTCTTGA-AG
*
9185123 ATTGTTGAATG
1 ATTCTTGAA-G
9185134 ATTCTT
1 ATTCTT
9185140 TATCATATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
9 1 0.03
10 23 0.77
11 6 0.20
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.49
Consensus pattern (10 bp):
ATTCTTGAAG
Found at i:9185198 original size:17 final size:18
Alignment explanation
Indices: 9185165--9185198 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9185155 AGTTGAGATG
*
9185165 TTCTTGAAAGTTCTTGAT
1 TTCTTGAAAGATCTTGAT
9185183 TTCTTGAAA-ATCTTGA
1 TTCTTGAAAGATCTTGA
9185199 AGTTCAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (18 bp):
TTCTTGAAAGATCTTGAT
Found at i:9187565 original size:26 final size:25
Alignment explanation
Indices: 9187536--9187677 Score: 89
Period size: 26 Copynumber: 5.7 Consensus size: 25
9187526 TTCATCTTTA
*
9187536 TATTTGCATTTGCATCATGAAAAAGG
1 TATTTACATTTGCATCATG-AAAAGG
9187562 TATTTACATTTGCATCATGTAAAAGG
1 TATTTACATTTGCATCATG-AAAAGG
* * * * **
9187588 AATGTACTTTTCCATCATGGCAAGG
1 TATTTACATTTGCATCATGAAAAGG
* * **
9187613 ATCTTTGCATATT-CATC-T--TTA--
1 -TATTTACAT-TTGCATCATGAAAAGG
*
9187634 TATTTGCATTTGCATCATGAAAAAGG
1 TATTTACATTTGCATCATG-AAAAGG
9187660 TATTTACATTTGCATCAT
1 TATTTACATTTGCATCAT
9187678 TGGAAGACAT
Statistics
Matches: 88, Mismatches: 19, Indels: 18
0.70 0.15 0.14
Matches are distributed among these distances:
19 2 0.02
20 12 0.14
21 1 0.01
23 1 0.01
24 1 0.01
25 5 0.06
26 64 0.73
27 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (25 bp):
TATTTACATTTGCATCATGAAAAGG
Found at i:9187638 original size:98 final size:98
Alignment explanation
Indices: 9187469--9187677 Score: 409
Period size: 98 Copynumber: 2.1 Consensus size: 98
9187459 CTTTATAGAG
*
9187469 ACATTTGCATCATGTAAAAGGAATGTGCTTTTCCATCATGGCAAGGATCTTTGCATATTCATCTT
1 ACATTTGCATCATGTAAAAGGAATGTACTTTTCCATCATGGCAAGGATCTTTGCATATTCATCTT
9187534 TATATTTGCATTTGCATCATGAAAAAGGTATTT
66 TATATTTGCATTTGCATCATGAAAAAGGTATTT
9187567 ACATTTGCATCATGTAAAAGGAATGTACTTTTCCATCATGGCAAGGATCTTTGCATATTCATCTT
1 ACATTTGCATCATGTAAAAGGAATGTACTTTTCCATCATGGCAAGGATCTTTGCATATTCATCTT
9187632 TATATTTGCATTTGCATCATGAAAAAGGTATTT
66 TATATTTGCATTTGCATCATGAAAAAGGTATTT
9187665 ACATTTGCATCAT
1 ACATTTGCATCAT
9187678 TGGAAGACAT
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 110 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (98 bp):
ACATTTGCATCATGTAAAAGGAATGTACTTTTCCATCATGGCAAGGATCTTTGCATATTCATCTT
TATATTTGCATTTGCATCATGAAAAAGGTATTT
Found at i:9188091 original size:14 final size:15
Alignment explanation
Indices: 9188072--9188100 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9188062 CTTAAGACAA
9188072 GAAATGG-AAATTTT
1 GAAATGGAAAATTTT
9188086 GAAATGGAAAATTTT
1 GAAATGGAAAATTTT
9188101 CAAACTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (15 bp):
GAAATGGAAAATTTT
Found at i:9188226 original size:40 final size:40
Alignment explanation
Indices: 9188174--9188326 Score: 189
Period size: 40 Copynumber: 3.8 Consensus size: 40
9188164 ATCCTTTTTT
*
9188174 TTTTTTAATGATTTCCAAGACCTCTAAGCAAAATCTTAGA
1 TTTTTTAATGATTTCCAAGACCTCTAAGCAAAATCTTAAA
* * * * * *
9188214 TTTTTGAATGATTTTCAAGACCTCCAGGCAAAGTCTTATAT
1 TTTTTTAATGATTTCCAAGACCTCTAAGCAAAATCTTA-AA
* *
9188255 TTTTTTAAATGATTTCCAAGACCTCTAGGCAAAATTTTAAA
1 TTTTTT-AATGATTTCCAAGACCTCTAAGCAAAATCTTAAA
* *
9188296 TTTTTTAATGATTTTCAAGTCCTCTAAGCAA
1 TTTTTTAATGATTTCCAAGACCTCTAAGCAA
9188327 GATTTGTAAG
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 55 0.58
41 12 0.13
42 28 0.29
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (40 bp):
TTTTTTAATGATTTCCAAGACCTCTAAGCAAAATCTTAAA
Found at i:9188622 original size:37 final size:36
Alignment explanation
Indices: 9188581--9188659 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
9188571 TCAATAAGAA
* *
9188581 AAATTTACCCCTCAAAACCTTTGGGCATTAAGATGAG
1 AAATTTACCCC-CAAAACCTTTGAGCATCAAGATGAG
* * * *
9188618 AAATTTATCTCCAAGATCTTTGAGCATCAAGATGAG
1 AAATTTACCCCCAAAACCTTTGAGCATCAAGATGAG
9188654 AAATTT
1 AAATTT
9188660 GTTTCTAAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 27 0.75
37 9 0.25
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (36 bp):
AAATTTACCCCCAAAACCTTTGAGCATCAAGATGAG
Found at i:9188860 original size:50 final size:49
Alignment explanation
Indices: 9188766--9189059 Score: 340
Period size: 50 Copynumber: 5.9 Consensus size: 49
9188756 AATGTTTAGT
* * *
9188766 TTTCAAGCTTTTATTTAGAGGAGCTTTTTCAAAGATGAGATTTTAAAAG
1 TTTCAAGCCTCTATTTAGAAGAGCTTTTTCAAAGATGAGATTTTAAAAG
*
9188815 TTTCAAGCCTCTATTTAGAAGAGCTTTTTCAAAAACTGAGATTTTAAAAG
1 TTTCAAGCCTCTATTTAGAAGAGCTTTTTCAAAGA-TGAGATTTTAAAAG
* * * *
9188865 TTTCTAAGCCTCTATTTAGAAGAGTTTTTTCAAAGATAAAATTTTTTTAATAG
1 TTTC-AAGCCTCTATTTAGAAGAGCTTTTTCAAAGATGAGA---TTTTAAAAG
* * * * **
9188918 CTTCCAAGTCTCTATTTAGAGGAGCTTTTTCAACA-ATAAGATTTTTGAAG
1 -TTTCAAGCCTCTATTTAGAAGAGCTTTTTCAA-AGATGAGATTTTAAAAG
*
9188968 TTTTCAAGCCTCTATTTAGAAGAGCTTTTTCAAAGATGAGATTTTTAAAG
1 -TTTCAAGCCTCTATTTAGAAGAGCTTTTTCAAAGATGAGATTTTAAAAG
* *
9189018 TTTTATAGCCTCTATTTAGAAAAGCTTTTT-AAAGATGAGATT
1 TTTCA-AGCCTCTATTTAGAAGAGCTTTTTCAAAGATGAGATT
9189060 ATTTGTTTTA
Statistics
Matches: 211, Mismatches: 25, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
49 48 0.23
50 92 0.44
51 29 0.14
53 38 0.18
54 4 0.02
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (49 bp):
TTTCAAGCCTCTATTTAGAAGAGCTTTTTCAAAGATGAGATTTTAAAAG
Found at i:9190487 original size:19 final size:17
Alignment explanation
Indices: 9190465--9190534 Score: 61
Period size: 19 Copynumber: 3.9 Consensus size: 17
9190455 ATCCTAAATC
9190465 AAACTGAACCCTATAACCT
1 AAACT-AACCCTA-AACCT
9190484 AAACTAAACCCTAAACCT
1 AAACT-AACCCTAAACCT
**
9190502 AGTCTAACCCCTAAAACCT
1 AAACTAA-CCCT-AAACCT
*
9190521 AAACCAACCC-AAAC
1 AAACTAACCCTAAAC
9190535 TGAACCAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
16 4 0.09
17 2 0.05
18 15 0.35
19 22 0.51
ACGTcount: A:0.46, C:0.36, G:0.03, T:0.16
Consensus pattern (17 bp):
AAACTAACCCTAAACCT
Found at i:9190502 original size:18 final size:18
Alignment explanation
Indices: 9190451--9190524 Score: 69
Period size: 19 Copynumber: 4.1 Consensus size: 18
9190441 AACACAAACC
* *
9190451 CTAAATCCTAAATC-AAA
1 CTAAACCCTAAACCTAAA
*
9190468 CTGAACCCTATAACCTAAA
1 CTAAACCCTA-AACCTAAA
**
9190487 CTAAACCCTAAACCTAGT
1 CTAAACCCTAAACCTAAA
*
9190505 CTAACCCCTAAAACCTAAA
1 CTAAACCCT-AAACCTAAA
9190524 C
1 C
9190525 CAACCCAAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
17 8 0.18
18 17 0.38
19 20 0.44
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.20
Consensus pattern (18 bp):
CTAAACCCTAAACCTAAA
Found at i:9191420 original size:21 final size:23
Alignment explanation
Indices: 9191390--9191431 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
9191380 ATAGATTGTT
*
9191390 TTTATTTTCAA-A-ATAAAATGA
1 TTTATGTTCAAGACATAAAATGA
9191411 TTTATGTTCAAGACATAAAAT
1 TTTATGTTCAAGACATAAAAT
9191432 TTGGAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 1 0.06
23 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (23 bp):
TTTATGTTCAAGACATAAAATGA
Found at i:9192914 original size:38 final size:38
Alignment explanation
Indices: 9192872--9192944 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
9192862 CATGGAAATT
9192872 GTAAATTGCTATAAATATGATAATCAAATGTCAATATA
1 GTAAATTGCTATAAATATGATAATCAAATGTCAATATA
9192910 GTAAATTGCTATAAATATGATAATCAAATGTCAAT
1 GTAAATTGCTATAAATATGATAATCAAATGTCAAT
9192945 CTATCTAACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (38 bp):
GTAAATTGCTATAAATATGATAATCAAATGTCAATATA
Found at i:9200869 original size:19 final size:19
Alignment explanation
Indices: 9200847--9200890 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
9200837 TGAAAAACCA
9200847 TTTTAAAATTTAAAAAATG
1 TTTTAAAATTTAAAAAATG
***
9200866 TTTTAAAATTTTCTAAATG
1 TTTTAAAATTTAAAAAATG
9200885 TTTTAA
1 TTTTAA
9200891 GGAGCTAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (19 bp):
TTTTAAAATTTAAAAAATG
Found at i:9203005 original size:4 final size:4
Alignment explanation
Indices: 9202989--9203023 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
9202979 TCTCAAAAAC
* *
9202989 AAAT AAAT GAAT AAAT AAAT AAGT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
9203024 AGAAGTTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:9214350 original size:27 final size:26
Alignment explanation
Indices: 9214320--9214378 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
9214310 TTTATCTAAC
*
9214320 TTTTATGTTTTCGTC-ATTTTTAAAGTT
1 TTTTATGTTTTCATCTATTTTT-AA-TT
* *
9214347 TTTTATTTTTTTATCTATTTTTAATT
1 TTTTATGTTTTCATCTATTTTTAATT
9214373 TTTTAT
1 TTTTAT
9214379 ATTTCAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.29
27 14 0.50
28 6 0.21
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (26 bp):
TTTTATGTTTTCATCTATTTTTAATT
Found at i:9218078 original size:24 final size:25
Alignment explanation
Indices: 9218046--9218097 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
9218036 AAATCGAAAT
9218046 TGGGTTAAGTGT-AAAAAAAGGAGG
1 TGGGTTAAGTGTAAAAAAAAGGAGG
*
9218070 TGGGTTAAGTGTAAAAAAAAGGTGG
1 TGGGTTAAGTGTAAAAAAAAGGAGG
9218095 TGG
1 TGG
9218098 TTGCGACAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (25 bp):
TGGGTTAAGTGTAAAAAAAAGGAGG
Found at i:9218092 original size:22 final size:23
Alignment explanation
Indices: 9218046--9218094 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 23
9218036 AAATCGAAAT
9218046 TGGGTTAAGTGTAAAAAAAGGAGG
1 TGGGTTAAGTGTAAAAAAA-GAGG
9218070 TGGGTTAAGTGTAAAAAAA-AGG
1 TGGGTTAAGTGTAAAAAAAGAGG
9218092 TGG
1 TGG
9218095 TGGTTGCGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 6 0.24
24 19 0.76
ACGTcount: A:0.41, C:0.00, G:0.37, T:0.22
Consensus pattern (23 bp):
TGGGTTAAGTGTAAAAAAAGAGG
Found at i:9218331 original size:21 final size:20
Alignment explanation
Indices: 9218306--9218385 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
9218296 TTATAATAAA
9218306 ATGTAAATTATTTTATTTATC
1 ATGTAAATTA-TTTATTTATC
*
9218327 ATGTAAATTATTTATTTATTT
1 ATGTAAATTATTTATTTA-TC
* *
9218348 AT-TTACTTATTTATTTCAT-
1 ATGTAAATTATTTATTT-ATC
* *
9218367 ATGCAAGTTATTTATTTAT
1 ATGTAAATTATTTATTTAT
9218386 TTACTTATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
19 4 0.08
20 32 0.64
21 14 0.28
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (20 bp):
ATGTAAATTATTTATTTATC
Found at i:9218341 original size:4 final size:4
Alignment explanation
Indices: 9218334--9218418 Score: 57
Period size: 4 Copynumber: 20.5 Consensus size: 4
9218324 ATCATGTAAA
* * *
9218334 TTAT TTAT TTAT TTAT TTAC TTAT TTAT TTCAT ATGCAAG TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT-AT -T--TAT TTAT TTAT
* * *
9218382 TTAT TTAC TTAT TT-T TTAA TCATT TTAT TT-T TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TT
9218419 TACATTATTT
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
3 6 0.10
4 49 0.79
5 4 0.06
6 2 0.03
7 1 0.02
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (4 bp):
TTAT
Found at i:9218349 original size:24 final size:21
Alignment explanation
Indices: 9218306--9218345 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
9218296 TTATAATAAA
9218306 ATGTAAATTATTTTATTTATC
1 ATGTAAATTATTTTATTTATC
9218327 ATGTAAATTA-TTTATTTAT
1 ATGTAAATTATTTTATTTAT
9218346 TTATTTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (21 bp):
ATGTAAATTATTTTATTTATC
Found at i:9218410 original size:32 final size:35
Alignment explanation
Indices: 9218336--9218430 Score: 117
Period size: 36 Copynumber: 2.7 Consensus size: 35
9218326 CATGTAAATT
9218336 ATTTATTTATTTATTTACTTATTTATTTCATATGCA
1 ATTTATTTATTTATTTACTTATTT-TTTCATATGCA
*
9218372 AGTTATTTATTTATTTACTTATTTTTT-A-AT-CA
1 ATTTATTTATTTATTTACTTATTTTTTCATATGCA
*
9218404 TTTTATTT-TTTATTTTACATTATTTTT
1 ATTTATTTATTTA-TTTAC-TTATTTTT
9218431 ATTATTATAT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
31 4 0.07
32 13 0.24
33 10 0.19
34 1 0.02
35 3 0.06
36 23 0.43
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.66
Consensus pattern (35 bp):
ATTTATTTATTTATTTACTTATTTTTTCATATGCA
Found at i:9218481 original size:22 final size:23
Alignment explanation
Indices: 9218458--9218502 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9218448 TTGTTCGAAA
9218458 TTAAAACATAAAA-TTTAA-AAAAT
1 TTAAAA-A-AAAACTTTAACAAAAT
9218481 TTAAAAAAAAACTTTAACAAAA
1 TTAAAAAAAAACTTTAACAAAA
9218503 ATAGAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
22 6 0.30
23 10 0.50
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
TTAAAAAAAAACTTTAACAAAAT
Found at i:9218778 original size:16 final size:16
Alignment explanation
Indices: 9218748--9218790 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
9218738 CAAGAAATTG
* *
9218748 TAATCTATTTCTTTTC
1 TAATTTATTTATTTTC
*
9218764 TTATTTATTTATTTTC
1 TAATTTATTTATTTTC
9218780 TAATTT-TTTAT
1 TAATTTATTTAT
9218791 ATGTTAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (16 bp):
TAATTTATTTATTTTC
Found at i:9225780 original size:22 final size:22
Alignment explanation
Indices: 9225755--9225796 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9225745 TAAGTATCAT
*
9225755 AACAATGCATCACATGTCAATA
1 AACAATACATCACATGTCAATA
*
9225777 AACAATATATCACATGTCAA
1 AACAATACATCACATGTCAA
9225797 GGATCATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (22 bp):
AACAATACATCACATGTCAATA
Found at i:9225975 original size:26 final size:26
Alignment explanation
Indices: 9225946--9226018 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 26
9225936 TTTACGATTT
9225946 TTTTCTTTTTCAATTTTTGTTTTTTC
1 TTTTCTTTTTCAATTTTTGTTTTTTC
* *
9225972 TTTTCTTTTGCAAGCTTACTTTTTTTTTTC
1 TTTTCTTTTTCAA--TT--TTTGTTTTTTC
9226002 TTTT-TTTTTCAATTTTT
1 TTTTCTTTTTCAATTTTT
9226019 CATTCTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
25 3 0.08
26 12 0.30
27 2 0.05
28 2 0.05
29 7 0.17
30 14 0.35
ACGTcount: A:0.10, C:0.12, G:0.04, T:0.74
Consensus pattern (26 bp):
TTTTCTTTTTCAATTTTTGTTTTTTC
Found at i:9228517 original size:21 final size:21
Alignment explanation
Indices: 9228491--9228532 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9228481 GGTAGTGATA
9228491 GGTCAAAGGTATACCTATATT
1 GGTCAAAGGTATACCTATATT
9228512 GGTCAAAGGTATACCTATATT
1 GGTCAAAGGTATACCTATATT
9228533 TAATGGCCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
GGTCAAAGGTATACCTATATT
Found at i:9230148 original size:14 final size:13
Alignment explanation
Indices: 9230125--9230168 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
9230115 TAGGGCTTTG
9230125 TTTTAAGGTTTACA
1 TTTTAAGGTTTA-A
*
9230139 TTTTAGGGTTTAA
1 TTTTAAGGTTTAA
9230152 TTTTAAGGTTTTAA
1 TTTTAAGG-TTTAA
9230166 TTT
1 TTT
9230169 AAAGTTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.57
Consensus pattern (13 bp):
TTTTAAGGTTTAA
Found at i:9230156 original size:13 final size:13
Alignment explanation
Indices: 9230125--9230207 Score: 60
Period size: 14 Copynumber: 6.2 Consensus size: 13
9230115 TAGGGCTTTG
*
9230125 TTTTAAGGTTTACA
1 TTTTAGGGTTTA-A
9230139 TTTTAGGGTTTAA
1 TTTTAGGGTTTAA
*
9230152 TTTTAAGGTTTTAA
1 TTTT-AGGGTTTAA
** *
9230166 -TTTAAAGTTTTA
1 TTTTAGGGTTTAA
*
9230178 GTTTAGGGTTTCAA
1 TTTTAGGGTTT-AA
*
9230192 TTTCAGGGTTTCAA
1 TTTTAGGGTTT-AA
9230206 TT
1 TT
9230208 AATAAATTCA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
12 5 0.09
13 16 0.29
14 34 0.62
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.52
Consensus pattern (13 bp):
TTTTAGGGTTTAA
Found at i:9230177 original size:27 final size:26
Alignment explanation
Indices: 9230125--9230194 Score: 61
Period size: 27 Copynumber: 2.7 Consensus size: 26
9230115 TAGGGCTTTG
* *
9230125 TTTTAAGG-TTTACATTTTAGGGTTTAA
1 TTTTAAGGTTTTA-ATTTAAAGGTTT-A
*
9230152 TTTTAAGGTTTTAATTTAAAGTTTTA
1 TTTTAAGGTTTTAATTTAAAGGTTTA
* * *
9230178 GTTTAGGGTTTCAATTT
1 TTTTAAGGTTTTAATTT
9230195 CAGGGTTTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 15 0.42
27 17 0.47
28 4 0.11
ACGTcount: A:0.26, C:0.03, G:0.17, T:0.54
Consensus pattern (26 bp):
TTTTAAGGTTTTAATTTAAAGGTTTA
Found at i:9231705 original size:22 final size:22
Alignment explanation
Indices: 9231679--9231720 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9231669 CTCTTCCTCC
9231679 TTTTTCCTTTTGGTTATCTTTT
1 TTTTTCCTTTTGGTTATCTTTT
** *
9231701 TTTTTTTTTTTGGTTGTCTT
1 TTTTTCCTTTTGGTTATCTT
9231721 CATTTCCTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.02, C:0.10, G:0.12, T:0.76
Consensus pattern (22 bp):
TTTTTCCTTTTGGTTATCTTTT
Found at i:9233069 original size:31 final size:33
Alignment explanation
Indices: 9233030--9233114 Score: 111
Period size: 31 Copynumber: 2.6 Consensus size: 33
9233020 CAACATCATA
*
9233030 AATCAGAAATAAAGGACGACCTTGATAACAC-C
1 AATCAGAAATAAAGGACGACCTGGATAACACGC
*
9233062 -ATCAGAAATAAAGGATGACCTGGATAACACTGC
1 AATCAGAAATAAAGGACGACCTGGATAACAC-GC
*
9233095 AAGTTAGAAATAAAGGACGA
1 AA-TCAGAAATAAAGGACGA
9233115 TCGGGACAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
31 28 0.62
33 1 0.02
34 1 0.02
35 15 0.33
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.16
Consensus pattern (33 bp):
AATCAGAAATAAAGGACGACCTGGATAACACGC
Found at i:9233180 original size:36 final size:36
Alignment explanation
Indices: 9233133--9233225 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 36
9233123 ACATCATTAA
* *
9233133 TCAAAATATAAAGAATGACTGAGATAACACTATAAG
1 TCAAAAGATAAAGAATGACTGAGATAACACTACAAG
* * * *
9233169 TTAGAAGATAAAAAATGA-TCGGGATAACACTACAAG
1 TCAAAAGATAAAGAATGACT-GAGATAACACTACAAG
*
9233205 TCAAAAGATAACGAATGACTG
1 TCAAAAGATAAAGAATGACTG
9233226 GAACAACACC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
35 1 0.02
36 43 0.96
37 1 0.02
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (36 bp):
TCAAAAGATAAAGAATGACTGAGATAACACTACAAG
Found at i:9233314 original size:14 final size:14
Alignment explanation
Indices: 9233295--9233321 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9233285 TTAGATTGGG
9233295 CTTAAATTTTCCTT
1 CTTAAATTTTCCTT
9233309 CTTAAATTTTCCT
1 CTTAAATTTTCCT
9233322 GGTTGCCAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (14 bp):
CTTAAATTTTCCTT
Found at i:9233467 original size:99 final size:95
Alignment explanation
Indices: 9233325--9233583 Score: 244
Period size: 99 Copynumber: 2.7 Consensus size: 95
9233315 TTTTCCTGGT
* *
9233325 TGCCAGCT-AATCGAGCTTAAAT-TCTTCATT-GAATGCCAA-CTAAACTTGGCTTAAATTTTCA
1 TGCCAGCTAAATTGAGCTTAAATCT-TTTATTAG-ATG-CAAGCTAAACTTGGCTTAAATTTTCA
* *
9233386 TTAGAGT-CAAG-TAATCTAGGCTTAAATTCTCATTGAG
63 TTA-A-TACAAGTTAAACTAGGCTTAAA-AC-C--TGAG
9233423 TGCCAGCTAAATTGAGCTTAAATCTTTTATTAGATGCAAGCTAAAC-TGAGCTTAAATTTTCATT
1 TGCCAGCTAAATTGAGCTTAAATCTTTTATTAGATGCAAGCTAAACTTG-GCTTAAATTTTCATT
* * *
9233487 AATACCAGTTAAACTGGGCTTAAAACCTGGG
65 AATACAAGTTAAACTAGGCTTAAAACCTGAG
* * * * * *
9233518 TGCCAACTAAACTGGGCTTAAATCCTTTTATGATATGCTAGCTAAACTTGGCTTAAATGTTTCAT
1 TGCCAGCTAAATTGAGCTTAAAT-CTTTTATTAGATGCAAGCTAAACTTGGCTTAAAT-TTTCAT
9233583 T
64 T
9233584 GATTCCAGTC
Statistics
Matches: 138, Mismatches: 13, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
95 23 0.17
96 28 0.20
97 11 0.08
98 18 0.13
99 56 0.41
100 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (95 bp):
TGCCAGCTAAATTGAGCTTAAATCTTTTATTAGATGCAAGCTAAACTTGGCTTAAATTTTCATTA
ATACAAGTTAAACTAGGCTTAAAACCTGAG
Found at i:9233508 original size:32 final size:32
Alignment explanation
Indices: 9233325--9233639 Score: 160
Period size: 32 Copynumber: 9.7 Consensus size: 32
9233315 TTTTCCTGGT
* *
9233325 TGCCAGCTAATC-GAGCTTAAATTCTTCATTGAA
1 TGCCAGCTAAACTGGGCTTAAATT-TTCATT-AA
* *
9233358 TGCCAACTAAACTTGGCTTAAATTTTCATTAGA
1 TGCCAGCTAAACTGGGCTTAAATTTTCATTA-A
* * * * *
9233391 -GTCAAG-TAATCTAGGCTTAAATTCTCATTGAG
1 TG-CCAGCTAAACTGGGCTTAAATTTTCATT-AA
* * *
9233423 TGCCAGCTAAATTGAGCTTAAATCTTTTATTAGA
1 TGCCAGCTAAACTGGGCTTAAAT-TTTCATTA-A
* *
9233457 TGCAAGCTAAACTGAGCTTAAATTTTCATTAA
1 TGCCAGCTAAACTGGGCTTAAATTTTCATTAA
* * * * ***
9233489 TACCAGTTAAACTGGGCTTAAA---ACCTGGG
1 TGCCAGCTAAACTGGGCTTAAATTTTCATTAA
* * *
9233518 TGCCAACTAAACTGGGCTTAAATCCTTTTATGATA
1 TGCCAGCTAAACTGGGCTTAAAT--TTTCATTA-A
* * *
9233553 TGCTAGCTAAACTTGGCTTAAATGTTTCATTGA
1 TGCCAGCTAAACTGGGCTTAAAT-TTTCATTAA
* *
9233586 TTCCAG-TCAAA-TGGGCTTAAATCTTTCATTGA
1 TGCCAGCT-AAACTGGGCTTAAAT-TTTCATTAA
** * *
9233618 TGTTAGTTAAACTGAGCTTAAA
1 TGCCAGCTAAACTGGGCTTAAA
9233640 ACCTAAGTGC
Statistics
Matches: 212, Mismatches: 53, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
29 21 0.10
32 70 0.33
33 59 0.28
34 42 0.20
35 20 0.09
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (32 bp):
TGCCAGCTAAACTGGGCTTAAATTTTCATTAA
Found at i:9233575 original size:96 final size:97
Alignment explanation
Indices: 9233364--9233607 Score: 257
Period size: 96 Copynumber: 2.5 Consensus size: 97
9233354 TGAATGCCAA
* * * *
9233364 CTAAACTTGGCTTAAATTTTCATTAGAGTCAAG-TAATCTAGGCTTAAATTCTCATTGAGTGCCA
1 CTAAACTTGGCTTAAATTTTCATTA-A-TCCAGTTAAACTGGGCTTAAATACTCA-TGAGTGCCA
* * *
9233428 GCTAAATTGAGCTTAAATCTTTTATTAGATGCAAG
63 ACTAAACTGAGCTTAAATCTTTTATGAGATGCAAG
*
9233463 CTAAAC-TGAGCTTAAATTTTCATTAATACCAGTTAAACTGGGCTTAAA-AC-C-TGGGTGCCAA
1 CTAAACTTG-GCTTAAATTTTCATTAAT-CCAGTTAAACTGGGCTTAAATACTCATGAGTGCCAA
* * *
9233524 CTAAACTGGGCTTAAATCCTTTTATGATATGCTAG
64 CTAAACTGAGCTTAAAT-CTTTTATGAGATGCAAG
* *
9233559 CTAAACTTGGCTTAAATGTTTCATTGATTCCAGTCAAA-TGGGCTTAAAT
1 CTAAACTTGGCTTAAAT-TTTCATT-AATCCAGTTAAACTGGGCTTAAAT
9233608 CTTTCATTGA
Statistics
Matches: 124, Mismatches: 13, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
95 23 0.19
96 38 0.31
97 19 0.15
98 9 0.07
99 35 0.28
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (97 bp):
CTAAACTTGGCTTAAATTTTCATTAATCCAGTTAAACTGGGCTTAAATACTCATGAGTGCCAACT
AAACTGAGCTTAAATCTTTTATGAGATGCAAG
Found at i:9233605 original size:128 final size:128
Alignment explanation
Indices: 9233472--9233703 Score: 324
Period size: 129 Copynumber: 1.8 Consensus size: 128
9233462 GCTAAACTGA
* ** **
9233472 GCTTAAAT-TTTCATTAATACCAGTTAAACTGGGCTTAAAACCTGGGTGCCAACTAAACTGGGCT
1 GCTTAAATCTTTCATTAATACCAGTTAAACTGAGCTTAAAACCTAAGTGCCAACTAAACTAAGCT
* *
9233536 TAAATCCTTTTATGATATGCTAGCTAAACTT-GGCTTAAATGTTTCATTGATTCCAGTCAAATGG
66 TAAAT-CTTTTATGATATGCCAGC-AAAATTAGGCTTAAATGTTTCATTGATTCCAGTCAAATGG
* *** *
9233600 GCTTAAATCTTTCATTGATGTTAGTTAAACTGAGCTTAAAACCTAAGTGCCAGCTAAACTAAGCT
1 GCTTAAATCTTTCATTAATACCAGTTAAACTGAGCTTAAAACCTAAGTGCCAACTAAACTAAGCT
9233665 TAAATCTTTTATGATATGCCAGCAAAATTAGGCTTAAAT
66 TAAATCTTTTATGATATGCCAGCAAAATTAGGCTTAAAT
9233704 TCTTTAATGG
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
127 5 0.06
128 34 0.38
129 51 0.57
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (128 bp):
GCTTAAATCTTTCATTAATACCAGTTAAACTGAGCTTAAAACCTAAGTGCCAACTAAACTAAGCT
TAAATCTTTTATGATATGCCAGCAAAATTAGGCTTAAATGTTTCATTGATTCCAGTCAAATGG
Found at i:9233720 original size:35 final size:33
Alignment explanation
Indices: 9233645--9233720 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 33
9233635 TTAAAACCTA
* *
9233645 AGTGCCAGCTAAACTAAGCTTAAATCTTTTATG
1 AGTGCCAGCAAAACTAAGCTTAAATCTTTAATG
* * *
9233678 ATATGCCAGCAAAATTAGGCTTAAATTCTTTAATGG
1 A-GTGCCAGCAAAACTAAGCTTAAA-TCTTTAAT-G
9233714 AGTGCCA
1 AGTGCCA
9233721 ACTAAACTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
33 1 0.03
34 19 0.56
35 12 0.35
36 2 0.06
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (33 bp):
AGTGCCAGCAAAACTAAGCTTAAATCTTTAATG
Found at i:9233762 original size:69 final size:68
Alignment explanation
Indices: 9233645--9233772 Score: 152
Period size: 69 Copynumber: 1.9 Consensus size: 68
9233635 TTAAAACCTA
*
9233645 AGTGCCAGCTAAACTAAGCTTAAATCTTTTATGATATGCCAGCAAAATTAGGCTTAAATTCTTTA
1 AGTGCCAACTAAACTAAGCTTAAATCTTTTATGATATGCCAGCAAAATT-GGCTTAAATTCTTTA
9233710 ATGG
65 ATGG
* * * * * *
9233714 AGTGCCAACTAAACT-GGACTTACATCTTTTCATGA-ATGTCGGCTAAATTGGTTTAAATT
1 AGTGCCAACTAAACTAAG-CTTAAATCTTTT-ATGATATGCCAGCAAAATTGGCTTAAATT
9233773 TTCATTGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
68 10 0.20
69 36 0.72
70 4 0.08
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (68 bp):
AGTGCCAACTAAACTAAGCTTAAATCTTTTATGATATGCCAGCAAAATTGGCTTAAATTCTTTAA
TGG
Found at i:9233896 original size:97 final size:95
Alignment explanation
Indices: 9233794--9234029 Score: 264
Period size: 97 Copynumber: 2.5 Consensus size: 95
9233784 TAATCAAATT
* *
9233794 TGGCTTAAATTTTCATTAGTGCTAGTTAATACTGGGTTTAAAAC-ATGGATGT-AAGCTAAATTG
1 TGGCTTAAATTTTCATTAGTGCTAGTTAATACTGGGCTTAAAACTA-GG-TGTCAA-CTAAACTG
* **
9233857 GGCTTAAATCTTTTTCATGA-GTGTTAGCTAAAC
63 GACTTAAATC-TTTTCATGATGTGCCAGCTAAAC
* * *
9233890 TAGGCTTAAATTTCCATTGGTGCTAGTTAATACTGGGCTTAAAACTAGGTGTCAATTAAACTGGA
1 T-GGCTTAAATTTTCATTAGTGCTAGTTAATACTGGGCTTAAAACTAGGTGTCAACTAAACTGGA
9233955 CTTAAATCTTTTCATGATGTGCCAGCTAAAC
65 CTTAAATCTTTTCATGATGTGCCAGCTAAAC
* * * * *
9233986 TGGACTTAAATCTTTTATTAATGCCAATCAA-ACTGGGCTTAAAA
1 TGG-CTTAAAT-TTTCATTAGTGCTAGTTAATACTGGGCTTAAAA
9234030 ATTTAAAGTT
Statistics
Matches: 119, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
95 11 0.09
96 51 0.43
97 56 0.47
98 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.36
Consensus pattern (95 bp):
TGGCTTAAATTTTCATTAGTGCTAGTTAATACTGGGCTTAAAACTAGGTGTCAACTAAACTGGAC
TTAAATCTTTTCATGATGTGCCAGCTAAAC
Found at i:9234019 original size:33 final size:35
Alignment explanation
Indices: 9233942--9234028 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
9233932 AACTAGGTGT
* *
9233942 CAATTAAACTGGACTTAAATCTTTTCATGATGTGC
1 CAATCAAACTGGACTTAAATCTTTTCATGATATGC
* *
9233977 C-AGCTAAACTGGACTTAAATCTTTT-ATTA-ATGC
1 CAATC-AAACTGGACTTAAATCTTTTCATGATATGC
*
9234010 CAATCAAACTGGGCTTAAA
1 CAATCAAACTGGACTTAAA
9234029 AATTTAAAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
33 17 0.39
34 6 0.14
35 21 0.48
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (35 bp):
CAATCAAACTGGACTTAAATCTTTTCATGATATGC
Found at i:9234203 original size:33 final size:33
Alignment explanation
Indices: 9234157--9234221 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
9234147 GGTGCCAACT
* *
9234157 AAACTAGGCTTAAATCTTTTATTAATGCTAGTC
1 AAACTAGGATTAAATCTTTCATTAATGCTAGTC
* *
9234190 AAACTATGATTAAATCTTTCATTGATGCTAGT
1 AAACTAGGATTAAATCTTTCATTAATGCTAGT
9234222 TAAATTGAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (33 bp):
AAACTAGGATTAAATCTTTCATTAATGCTAGTC
Found at i:9234373 original size:34 final size:34
Alignment explanation
Indices: 9234320--9234397 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 34
9234310 TAATCTGAGT
*
9234320 TTAAATC-TTTCATTGATGCTAGTTAAACTGGGC
1 TTAAATCTTTTCATTGATGCTAGCTAAACTGGGC
*
9234353 TTAAATCTTTTCA-TGAATGCTGGCTAAACTGGGC
1 TTAAATCTTTTCATTG-ATGCTAGCTAAACTGGGC
*
9234387 TTAAATTTTTT
1 TTAAATCTTTT
9234398 TTTTATGAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
33 9 0.22
34 31 0.77
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (34 bp):
TTAAATCTTTTCATTGATGCTAGCTAAACTGGGC
Found at i:9235389 original size:17 final size:18
Alignment explanation
Indices: 9235367--9235400 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9235357 TTTTTCCTTT
9235367 TTCTTT-ATTCTTTTTCA
1 TTCTTTCATTCTTTTTCA
*
9235384 TTCTTTCATTTTTTTTC
1 TTCTTTCATTCTTTTTC
9235401 CTCACCTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTTTCATTCTTTTTCA
Done.