Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 238 of 279
Found at i:77650117 original size:19 final size:17
Alignment explanation
Indices: 77650065--77650117 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 17
77650055 TCTCTTTTTC
77650065 CTTTTGTTTTGTTTCAATT
1 CTTTTGTTTT-TTT-AATT
77650084 CTTTTGTTTCTTTTAATTT
1 CTTTTGTTT-TTTTAA-TT
*
77650103 TTTTTGTTTTATTTA
1 CTTTTGTTTT-TTTA
77650118 TTATTTCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.10
19 26 0.87
20 1 0.03
ACGTcount: A:0.11, C:0.08, G:0.08, T:0.74
Consensus pattern (17 bp):
CTTTTGTTTTTTTAATT
Found at i:77651726 original size:47 final size:47
Alignment explanation
Indices: 77651672--77651801 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
77651662 ATGCGAATAA
* * * *
77651672 TACCTTGATTTGGCTACCGACCATGGTATAGGTATTCATAGAGAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
* * * * *
77651719 TACCTTGATTTAGCTACGGGCTATGGTGTAGGTACTCCGAGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
77651766 TACCTTGATTTGGCTTA-GGGCCATGGTATAGGTACT
1 TACCTTGATTTGGC-TACGGGCCATGGTATAGGTACT
77651802 TATCGATTGA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
47 68 0.97
48 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:77657193 original size:46 final size:47
Alignment explanation
Indices: 77657117--77657237 Score: 172
Period size: 47 Copynumber: 2.6 Consensus size: 47
77657107 TGATGTCATA
* * * *
77657117 GTATCTTTCAACTATGGTTTTACTCGTTTT-CTATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCCATCATGTTGCCATG
* *
77657163 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCCATCATGTTGCCATG
*
77657210 GTATCTTTCAACCATGGTCTTACACATT
1 GTATCTTTCAACCATGGTCTTACTCATT
77657238 CCATATCAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 26 0.39
47 40 0.61
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (47 bp):
GTATCTTTCAACCATGGTCTTACTCATTTTCCCATCATGTTGCCATG
Found at i:77668058 original size:16 final size:18
Alignment explanation
Indices: 77668023--77668062 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
77668013 TCAGCCGCTG
77668023 CTACCCACGTTTGCCTCCA
1 CTACCCACGTTT-CCTCCA
77668042 CTACCCACG-TT-CTCCA
1 CTACCCACGTTTCCTCCA
77668058 CTACC
1 CTACC
77668063 ATGCGCCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
18 2 0.10
19 9 0.43
ACGTcount: A:0.17, C:0.50, G:0.07, T:0.25
Consensus pattern (18 bp):
CTACCCACGTTTCCTCCA
Found at i:77668321 original size:12 final size:11
Alignment explanation
Indices: 77668306--77668347 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
77668296 TATTTTCGAA
77668306 TCTTTCTTTCTT
1 TCTTTCTTT-TT
77668318 TCTTTCTTTTT
1 TCTTTCTTTTT
*
77668329 TGTTT-TTTTT
1 TCTTTCTTTTT
77668339 TCTCTTCTT
1 TCT-TTCTT
77668348 CCTTTACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 7 0.27
11 8 0.31
12 11 0.42
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (11 bp):
TCTTTCTTTTT
Found at i:77669027 original size:3 final size:3
Alignment explanation
Indices: 77669003--77669089 Score: 86
Period size: 3 Copynumber: 28.3 Consensus size: 3
77668993 TAATTAATTA
* ** *
77669003 ATT ATT CTT ATT AATGT ATT ATT ATT ACC ATT ATT ATT ACT ATT ACTT
1 ATT ATT ATT ATT -AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* *
77669051 -TT ATT TTT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
77669090 CATTTTCTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
2 2 0.03
3 59 0.87
4 6 0.09
5 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:77678382 original size:42 final size:42
Alignment explanation
Indices: 77678260--77678384 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 42
77678250 CATCTATCTG
* *
77678260 AGATA-TCGTGTAAGACCGTGTTTGGGACAGAGGCCTCGATT
1 AGATATTCGTGTAAGACCGTGTCTGGGACAGAGGCATCGATT
* *
77678301 GAGATATTACGTATAAGACCGTGTCTGGGACATCA-GCATCGTATCT
1 -AGATATT-CGTGTAAGACCGTGTCTGGGACA-GAGGCATCG-AT-T
* *
77678347 -GAT-TTCGTGTAAAACCTTGTCTGGGACAGAGGCATCGA
1 AGATATTCGTGTAAGACCGTGTCTGGGACAGAGGCATCGA
77678385 CATTGAATTA
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
41 2 0.03
42 31 0.45
43 3 0.04
44 29 0.42
45 3 0.04
46 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (42 bp):
AGATATTCGTGTAAGACCGTGTCTGGGACAGAGGCATCGATT
Found at i:77695676 original size:24 final size:25
Alignment explanation
Indices: 77695643--77695704 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
77695633 ATAAAAACAT
*
77695643 TACATAAATATATATTGAAAA-TAGA
1 TACAT-AATATATATTGAAAAGCAGA
* * *
77695668 TATATAATA-ATATTTAAAAGCATA
1 TACATAATATATATTGAAAAGCAGA
77695692 TACATAATATATA
1 TACATAATATATA
77695705 CATAACATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 9 0.30
24 14 0.47
25 7 0.23
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (25 bp):
TACATAATATATATTGAAAAGCAGA
Found at i:77695785 original size:19 final size:18
Alignment explanation
Indices: 77695746--77695786 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
77695736 ATATTAAAAC
*
77695746 ATATACATGACAAACATA
1 ATATACATGAAAAACATA
*
77695764 ATATACATGATAAAATATA
1 ATATACATGA-AAAACATA
77695783 ATAT
1 ATAT
77695787 GATATTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (18 bp):
ATATACATGAAAAACATA
Found at i:77696228 original size:11 final size:11
Alignment explanation
Indices: 77696155--77696230 Score: 57
Period size: 11 Copynumber: 6.8 Consensus size: 11
77696145 AAAAATGTCT
77696155 AAATAATAATA
1 AAATAATAATA
*
77696166 AAAT-ATATTAA
1 AAATAATAAT-A
77696177 AAATAATAATA
1 AAATAATAATA
* * *
77696188 CAAGAATAGTA
1 AAATAATAATA
77696199 AAATAGAATAAT-
1 AAAT--AATAATA
* *
77696211 GAATAATATTA
1 AAATAATAATA
77696222 AAATAATAA
1 AAATAATAA
77696231 AGAGTAAAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
10 9 0.19
11 27 0.56
12 7 0.15
13 5 0.10
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (11 bp):
AAATAATAATA
Found at i:77697410 original size:24 final size:25
Alignment explanation
Indices: 77697377--77697438 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
77697367 ATAAAAACAT
*
77697377 TACATAAATATATATTGAAAA-TAGA
1 TACAT-AATATATATTGAAAAGCAGA
* * *
77697402 TATATAATA-ATATTTAAAAGCATA
1 TACATAATATATATTGAAAAGCAGA
77697426 TACATAATATATA
1 TACATAATATATA
77697439 CATAACATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 9 0.30
24 14 0.47
25 7 0.23
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (25 bp):
TACATAATATATATTGAAAAGCAGA
Found at i:77697962 original size:11 final size:11
Alignment explanation
Indices: 77697889--77697964 Score: 57
Period size: 11 Copynumber: 6.8 Consensus size: 11
77697879 AAAAATGTCT
77697889 AAATAATAATA
1 AAATAATAATA
*
77697900 AAAT-ATATTAA
1 AAATAATAAT-A
77697911 AAATAATAATA
1 AAATAATAATA
* * *
77697922 CAAGAATAGTA
1 AAATAATAATA
77697933 AAATAGAATAAT-
1 AAAT--AATAATA
* *
77697945 GAATAATATTA
1 AAATAATAATA
77697956 AAATAATAA
1 AAATAATAA
77697965 AGAGTAAAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
10 9 0.19
11 27 0.56
12 7 0.15
13 5 0.10
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (11 bp):
AAATAATAATA
Found at i:77700869 original size:13 final size:13
Alignment explanation
Indices: 77700851--77700875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77700841 AAGTGATAAG
77700851 TAAAAAAATTAAC
1 TAAAAAAATTAAC
77700864 TAAAAAAATTAA
1 TAAAAAAATTAA
77700876 AATGTTTATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAAAATTAAC
Found at i:77705948 original size:174 final size:177
Alignment explanation
Indices: 77705762--77706082 Score: 558
Period size: 179 Copynumber: 1.8 Consensus size: 177
77705752 AAATTAAAAA
**
77705762 AAAAAAACCTTGTTTTGTTAATTCAATTGTGAGTCTAACAATTTTT-TTT-TTAAAA-TTGAGCT
1 AAAAAAACCTTGTTTTGTTAATTCAATTGTGAGTCTAACAATTTTTCTTTAAAAAAATTTGAGCT
77705824 TTAATTTGCTTCATTAATGGCAGTGAACTCAAGCTAATGAAAAATGAATTGATTAATACTAAGAG
66 TTAATTTGCTTCATTAATGGCAGTGAACTCAAGCTAATGAAAAATGAATTGATTAATACTAAGAG
77705889 ATATTAAGTTTTTGGTCATTTGAAGCATAAGAAAAACAATATATTGT
131 ATATTAAGTTTTTGGTCATTTGAAGCATAAGAAAAACAATATATTGT
77705936 AAAAAAACCTTGTTTTGTTAATTCAATTGTGAGTCTAACAATTTTTCTTTAAAAAAAAATTTGAG
1 AAAAAAACCTTGTTTTGTTAATTCAATTGTGAGTCTAACAATTTTTCTTT--AAAAAAATTTGAG
* * *
77706001 CTTTAATTTGCTTCATTAGTGGCAGTGAACTCAAGCTAATGAAAAATGAATTGATTATTATTAAG
64 CTTTAATTTGCTTCATTAATGGCAGTGAACTCAAGCTAATGAAAAATGAATTGATTAATACTAAG
77706066 AGATATTAAGTTTTTGG
129 AGATATTAAGTTTTTGG
77706083 CATAAGAAAA
Statistics
Matches: 137, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
174 46 0.34
175 3 0.02
178 4 0.03
179 84 0.61
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (177 bp):
AAAAAAACCTTGTTTTGTTAATTCAATTGTGAGTCTAACAATTTTTCTTTAAAAAAATTTGAGCT
TTAATTTGCTTCATTAATGGCAGTGAACTCAAGCTAATGAAAAATGAATTGATTAATACTAAGAG
ATATTAAGTTTTTGGTCATTTGAAGCATAAGAAAAACAATATATTGT
Found at i:77709567 original size:13 final size:13
Alignment explanation
Indices: 77709549--77709575 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77709539 GAAGTATGAG
77709549 ATATATTCCTTCT
1 ATATATTCCTTCT
77709562 ATATATTCCTTCT
1 ATATATTCCTTCT
77709575 A
1 A
77709576 AGGCAAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATTCCTTCT
Found at i:77721919 original size:21 final size:22
Alignment explanation
Indices: 77721881--77721921 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
77721871 TTGAATTGGT
77721881 CACACGGGTGTGTTGCCCCTCC
1 CACACGGGTGTGTTGCCCCTCC
77721903 CACACGGGTGT-TTGCCCCT
1 CACACGGGTGTGTTGCCCCT
77721922 GTGGCTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.10, C:0.39, G:0.27, T:0.24
Consensus pattern (22 bp):
CACACGGGTGTGTTGCCCCTCC
Found at i:77727522 original size:15 final size:16
Alignment explanation
Indices: 77727497--77727536 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
77727487 GGTTATAGGG
77727497 ATTTTATTTATTTATT
1 ATTTTATTTATTTATT
77727513 ATTTTA-TTATTTATT
1 ATTTTATTTATTTATT
77727528 -TTTCTATTT
1 ATTT-TATTT
77727537 TCCTTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 3 0.14
15 11 0.50
16 8 0.36
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTTTATTTATTTATT
Found at i:77729586 original size:27 final size:27
Alignment explanation
Indices: 77729499--77729588 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
77729489 AGTCTGACAA
* *
77729499 GACAATAAATATAGGGTAGTCCATCGG
1 GACAGTAAACATAGGGTAGTCCATCGG
* * *
77729526 GACAGTAAACATAGGGTAGTCTACCGA
1 GACAGTAAACATAGGGTAGTCCATCGG
* * *
77729553 GACAGTAACCATGGGGTAGTCCGTCGG
1 GACAGTAAACATAGGGTAGTCCATCGG
*
77729580 GATAGTAAA
1 GACAGTAAA
77729589 TACGAGGATT
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (27 bp):
GACAGTAAACATAGGGTAGTCCATCGG
Found at i:77737361 original size:17 final size:17
Alignment explanation
Indices: 77737341--77737374 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
77737331 TGTTATTAAA
*
77737341 GGTTAAAATGGTAAAAT
1 GGTTAAAATGATAAAAT
77737358 GGTTAAAATGATAAAAT
1 GGTTAAAATGATAAAAT
77737375 AATTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (17 bp):
GGTTAAAATGATAAAAT
Found at i:77737380 original size:17 final size:17
Alignment explanation
Indices: 77737343--77737383 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
77737333 TTATTAAAGG
* **
77737343 TTAAAATGGTAAAATGG
1 TTAAAATGATAAAATAA
77737360 TTAAAATGATAAAATAA
1 TTAAAATGATAAAATAA
77737377 TTAAAAT
1 TTAAAAT
77737384 AAAGCCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (17 bp):
TTAAAATGATAAAATAA
Found at i:77737716 original size:15 final size:17
Alignment explanation
Indices: 77737693--77737724 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
77737683 TGAAAATGCA
77737693 AAATGATT-AAATTATG
1 AAATGATTAAAATTATG
77737709 AAAT-ATTAAAATTATG
1 AAATGATTAAAATTATG
77737725 TGGTTAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
AAATGATTAAAATTATG
Found at i:77739677 original size:27 final size:26
Alignment explanation
Indices: 77739647--77739698 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
77739637 GGGAAAATCG
77739647 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
77739674 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
77739699 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:77740863 original size:43 final size:43
Alignment explanation
Indices: 77740816--77740897 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
77740806 GTTACCGAGA
*
77740816 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTATGGGACATTGGCATTGTAT
*
77740859 TGTGATTACGTGTAAGACCATGTATGGGACATTGGCATT
1 TGTGATTACATGTAAGACCATGTATGGGACATTGGCATT
77740898 ATTAATCGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTATGGGACATTGGCATTGTAT
Found at i:77741529 original size:29 final size:29
Alignment explanation
Indices: 77741497--77741555 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
77741487 CGAGATAGAA
77741497 TGGTGAAACCATATGAATTATATCATGTT
1 TGGTGAAACCATATGAATTATATCATGTT
*
77741526 TGGTGAAATCATATGAATTATATCATGTT
1 TGGTGAAACCATATGAATTATATCATGTT
77741555 T
1 T
77741556 TGAGTAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (29 bp):
TGGTGAAACCATATGAATTATATCATGTT
Found at i:77746921 original size:19 final size:20
Alignment explanation
Indices: 77746887--77746926 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
77746877 ATATTGAATC
77746887 AAATTAAACTTTCATGCATA
1 AAATTAAACTTTCATGCATA
* *
77746907 AAATTATAC-TTCATGTATA
1 AAATTAAACTTTCATGCATA
77746926 A
1 A
77746927 CATTGTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
AAATTAAACTTTCATGCATA
Found at i:77748101 original size:4 final size:4
Alignment explanation
Indices: 77748092--77748118 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
77748082 TCTGATCTCG
77748092 GTTA GTTA GTTA GTTA GTTA GTTA GTT
1 GTTA GTTA GTTA GTTA GTTA GTTA GTT
77748119 GACATATTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (4 bp):
GTTA
Found at i:77754135 original size:31 final size:30
Alignment explanation
Indices: 77754100--77754170 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
77754090 ACTAATTAAT
77754100 TTTAAAAAA-TTA-TAAAATGGTCATTAAATTA
1 TTTAAAAAATTTATTAAAAT--T-ATTAAATTA
*
77754131 TTTAAAAAATTTTATTTAAATTATTAAATTA
1 TTTAAAAAA-TTTATTAAAATTATTAAATTA
77754162 TTTAAAAAA
1 TTTAAAAAA
77754171 AATTATTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
31 27 0.75
32 1 0.03
33 3 0.08
34 5 0.14
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (30 bp):
TTTAAAAAATTTATTAAAATTATTAAATTA
Found at i:77754175 original size:14 final size:14
Alignment explanation
Indices: 77754125--77754180 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
77754115 AATGGTCATT
77754125 AAATTATTTAAAAA
1 AAATTATTTAAAAA
** *
77754139 ATTTTATTTAAATTATT
1 AAATTATTTAAA--A-A
77754156 AAATTATTTAAAAA
1 AAATTATTTAAAAA
77754170 AAATTATTTAA
1 AAATTATTTAA
77754181 TTTATTGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
14 21 0.64
15 1 0.03
16 1 0.03
17 10 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATTATTTAAAAA
Found at i:77754177 original size:31 final size:31
Alignment explanation
Indices: 77754122--77754186 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
77754112 TAAAATGGTC
**
77754122 ATTAAATTATTTAAAAAATTTTATTTAAATT
1 ATTAAATTATTTAAAAAAAATTATTTAAATT
*
77754153 ATTAAATTATTTAAAAAAAATTATTTAATTT
1 ATTAAATTATTTAAAAAAAATTATTTAAATT
77754184 ATT
1 ATT
77754187 GGGCTATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
ATTAAATTATTTAAAAAAAATTATTTAAATT
Found at i:77755034 original size:22 final size:22
Alignment explanation
Indices: 77754992--77755034 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
77754982 AAAATGATTT
*
77754992 AACAAATAAATTAATCTATAAA
1 AACAAATAAATTAATCAATAAA
*
77755014 AACAATTATAATTAA-CAATAA
1 AACAAATA-AATTAATCAATAA
77755035 CAATAACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (22 bp):
AACAAATAAATTAATCAATAAA
Found at i:77756899 original size:20 final size:20
Alignment explanation
Indices: 77756872--77756910 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
77756862 TGTTTATTTT
*
77756872 ATTTCAT-AATTTTTTAAAA
1 ATTTCATAAATATTTTAAAA
77756891 ATTTACATAAATATTTTAAA
1 ATTT-CATAAATATTTTAAA
77756911 TTATATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 3 0.18
21 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTCATAAATATTTTAAAA
Found at i:77756988 original size:19 final size:19
Alignment explanation
Indices: 77756964--77757002 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
77756954 TTTTTTTATA
77756964 TTTTAAAATTTATGAGAAT
1 TTTTAAAATTTATGAGAAT
* *
77756983 TTTTAAATTTTATTAGAAT
1 TTTTAAAATTTATGAGAAT
77757002 T
1 T
77757003 AGGATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTAAAATTTATGAGAAT
Found at i:77758133 original size:20 final size:22
Alignment explanation
Indices: 77758103--77758143 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
77758093 AATAACTTTT
77758103 TAAACAGGGC-ACACGCCCGTA
1 TAAACAGGGCAACACGCCCGTA
77758124 TAAA-AGGGCAACACGCCCGT
1 TAAACAGGGCAACACGCCCGT
77758144 GTGGTCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.32, G:0.24, T:0.10
Consensus pattern (22 bp):
TAAACAGGGCAACACGCCCGTA
Found at i:77758304 original size:28 final size:28
Alignment explanation
Indices: 77758267--77758390 Score: 203
Period size: 28 Copynumber: 4.4 Consensus size: 28
77758257 ACAGTCTGAC
77758267 ACACGCCCGTGTCCTTCACACGGCCATG
1 ACACGCCCGTGTCCTTCACACGGCCATG
*
77758295 ACACGTCCGTGTCCTTCACACGGCCATG
1 ACACGCCCGTGTCCTTCACACGGCCATG
** *
77758323 ACACGCCAATGTCCTTCACATGGCCATG
1 ACACGCCCGTGTCCTTCACACGGCCATG
77758351 ACACGCCCGTGTCCTTCACACGGCCATG
1 ACACGCCCGTGTCCTTCACACGGCCATG
*
77758379 ACACGCCTGTGT
1 ACACGCCCGTGT
77758391 TCTAGCCCGT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 87 1.00
ACGTcount: A:0.19, C:0.40, G:0.21, T:0.20
Consensus pattern (28 bp):
ACACGCCCGTGTCCTTCACACGGCCATG
Found at i:77759592 original size:47 final size:47
Alignment explanation
Indices: 77759349--77759611 Score: 204
Period size: 47 Copynumber: 5.6 Consensus size: 47
77759339 GTATAATACT
* * ***
77759349 GATGCCATGTCTCAGACATAGTCTTACACTGG--CTCATCCATCAAGTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGATCTCAT-AATGTGGTC
*
77759396 GATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATAATGTGGTT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGATCTCATAATGTGGTC
* * * * *
77759444 GATG-CATGTCCTAGACATGTCTTACACTGGCT-TACAT-CTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGATCT-CATAAT-GTGGTC
* * * * * *
77759490 AATG-CATTTCCCAGACATGTCTTACACTAGCTCTCGTCTCAA--T-GCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGATCTC--AT-AATGTGGTC
*
77759536 GATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATAATGTGGTT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGATCTCATAATGTGGTC
*
77759584 GATG-CATGTCCTAGACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
77759612 AGCACACAAA
Statistics
Matches: 174, Mismatches: 28, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
45 4 0.02
46 65 0.37
47 71 0.41
48 29 0.17
49 5 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGATCTCATAATGTGGTC
Found at i:77761271 original size:13 final size:13
Alignment explanation
Indices: 77761234--77761277 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
77761224 AAGATTTAGT
77761234 ATTTATTAGTATA
1 ATTTATTAGTATA
*
77761247 ATATATT--TATA
1 ATTTATTAGTATA
*
77761258 ATTTATTAGCATA
1 ATTTATTAGTATA
77761271 ATTTATT
1 ATTTATT
77761278 TGACCTACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 10 0.38
13 16 0.62
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (13 bp):
ATTTATTAGTATA
Found at i:77761956 original size:25 final size:23
Alignment explanation
Indices: 77761928--77761973 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
77761918 ACGAGCACAA
77761928 AAGTACTAAGAAATCATGAGCACTG
1 AAGTACT-AGAAA-CATGAGCACTG
* *
77761953 AAGTGCTGGAAACATGAGCAC
1 AAGTACTAGAAACATGAGCAC
77761974 ATAAGTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 4 0.21
25 6 0.32
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (23 bp):
AAGTACTAGAAACATGAGCACTG
Found at i:77762932 original size:31 final size:31
Alignment explanation
Indices: 77762874--77762932 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
77762864 TTTAATTTAA
* *
77762874 CCCTTCAACTTTTGAATATTTATTATTTGAC
1 CCCTTCAACTTTTCAATATTTACTATTTGAC
*
77762905 CCCTTC-ACTTTTCACTAGTTTACTATTT
1 CCCTTCAACTTTTCAATA-TTTACTATTT
77762933 AGTCTATACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.22, C:0.24, G:0.05, T:0.49
Consensus pattern (31 bp):
CCCTTCAACTTTTCAATATTTACTATTTGAC
Found at i:77765677 original size:32 final size:29
Alignment explanation
Indices: 77765619--77765679 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 29
77765609 TGACTCAAGT
*
77765619 TTTTGATAATTAAAAAAATTAGAAAATAA
1 TTTTGATAATTAAAAAAATTAAAAAATAA
77765648 TTTTGATAATTTAATACAAAATTAAAAAATAA
1 TTTTGATAA-TTAA-A-AAAATTAAAAAATAA
77765680 AATAAAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 9 0.32
30 4 0.14
31 1 0.04
32 14 0.50
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (29 bp):
TTTTGATAATTAAAAAAATTAAAAAATAA
Found at i:77767454 original size:14 final size:15
Alignment explanation
Indices: 77767432--77767463 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
77767422 GAATTATGTT
77767432 AGTTGTATTATCATA
1 AGTTGTATTATCATA
77767447 AGTT-TATTATCATA
1 AGTTGTATTATCATA
77767461 AGT
1 AGT
77767464 ATAAATCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (15 bp):
AGTTGTATTATCATA
Found at i:77768475 original size:7 final size:6
Alignment explanation
Indices: 77768445--77768476 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
77768435 TTTGCAACCC
77768445 AAGGGG AAGGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
77768477 GAAGAATGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:77791822 original size:12 final size:13
Alignment explanation
Indices: 77791796--77791820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77791786 AAATGACTAA
77791796 AAATATTTTTTTT
1 AAATATTTTTTTT
77791809 AAATATTTTTTT
1 AAATATTTTTTT
77791821 AATTTTTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
AAATATTTTTTTT
Found at i:77796876 original size:14 final size:15
Alignment explanation
Indices: 77796857--77796886 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
77796847 ATGCTAATAA
77796857 ATACTAA-AAATATT
1 ATACTAATAAATATT
77796871 ATACTAATAAATATT
1 ATACTAATAAATATT
77796886 A
1 A
77796887 AATCTTCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
ATACTAATAAATATT
Found at i:77797700 original size:21 final size:21
Alignment explanation
Indices: 77797671--77797712 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
77797661 TTGGGTTGAT
* *
77797671 GTCTTGAGACAAGACGAATAA
1 GTCTCGAGACAAGAAGAATAA
*
77797692 GTCTCGAGATAAGAAGAATAA
1 GTCTCGAGACAAGAAGAATAA
77797713 AAGTTGTCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.19
Consensus pattern (21 bp):
GTCTCGAGACAAGAAGAATAA
Found at i:77799366 original size:24 final size:24
Alignment explanation
Indices: 77799338--77799398 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
77799328 TAAATATATT
*
77799338 ATATGTTATTATTATATCATTTTA
1 ATATGTTATTATTATATAATTTTA
77799362 ATATGAATT-TT-TTATATAATTTTA
1 ATATG--TTATTATTATATAATTTTA
*
77799386 ATATATTATTATT
1 ATATGTTATTATT
77799399 TAAAATAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
22 2 0.06
23 2 0.06
24 23 0.74
25 2 0.06
26 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (24 bp):
ATATGTTATTATTATATAATTTTA
Found at i:77800431 original size:30 final size:29
Alignment explanation
Indices: 77800363--77800445 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
77800353 AACTTCTTGC
* *
77800363 ATTTTTTGTAAATTAAAAATTTAGTTTTGT
1 ATTTTTT-TAATTTTAAAATTTAGTTTTGT
* *
77800393 ATTTTTTTATTTTTAATAATTTAGTTTCTTT
1 ATTTTTTTAATTTTAA-AATTTAGTTT-TGT
77800424 A-TTTTTTAATTTTAAAATTTAG
1 ATTTTTTTAATTTTAAAATTTAG
77800446 GTCTAACTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.28
30 30 0.65
31 3 0.07
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.63
Consensus pattern (29 bp):
ATTTTTTTAATTTTAAAATTTAGTTTTGT
Found at i:77800648 original size:29 final size:29
Alignment explanation
Indices: 77800581--77800636 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
77800571 CTTCAATTTT
* *
77800581 AAAATCTAAAATATAAAATTAAATTCTTG
1 AAAATATAAAATAAAAAATTAAATTCTTG
77800610 AAAATA-AAAATAAAAATATTAAATTCT
1 AAAATATAAAATAAAAA-ATTAAATTCT
77800637 AAATTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (29 bp):
AAAATATAAAATAAAAAATTAAATTCTTG
Found at i:77801562 original size:14 final size:13
Alignment explanation
Indices: 77801522--77801601 Score: 54
Period size: 13 Copynumber: 6.7 Consensus size: 13
77801512 TTATTGTATT
77801522 TATTTGATTTAAT-
1 TATTT-ATTTAATA
77801535 TATTT-TTTAA-A
1 TATTTATTTAATA
77801546 TATTATATTTAATA
1 TATT-TATTTAATA
77801560 TA-TTATTT--T-
1 TATTTATTTAATA
77801569 TA-TTATTTAA-A
1 TATTTATTTAATA
*
77801580 TATTATTTTTAATA
1 TATT-TATTTAATA
77801594 TA-TTATTT
1 TATTTATTT
77801602 TTATTATACT
Statistics
Matches: 55, Mismatches: 2, Indels: 21
0.71 0.03 0.27
Matches are distributed among these distances:
9 8 0.15
10 1 0.02
11 11 0.20
12 11 0.20
13 18 0.33
14 6 0.11
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (13 bp):
TATTTATTTAATA
Found at i:77801578 original size:34 final size:34
Alignment explanation
Indices: 77801534--77801608 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
77801524 TTTGATTTAA
*
77801534 TTATTTTTTAAATATTATATTTAATATATTATTT
1 TTATTATTTAAATATTATATTTAATATATTATTT
*
77801568 TTATTATTTAAATATTATTTTTAATATATTATTT
1 TTATTATTTAAATATTATATTTAATATATTATTT
77801602 TTATTAT
1 TTATTAT
77801609 ACTCAATAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (34 bp):
TTATTATTTAAATATTATATTTAATATATTATTT
Found at i:77801582 original size:20 final size:21
Alignment explanation
Indices: 77801551--77801590 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
77801541 TTAAATATTA
77801551 TATTTAATATATTATTTTTAT
1 TATTTAATATATTATTTTTAT
77801572 TATTTAA-ATATTATTTTTA
1 TATTTAATATATTATTTTTA
77801591 ATATATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTAATATATTATTTTTAT
Found at i:77801602 original size:14 final size:14
Alignment explanation
Indices: 77801533--77801609 Score: 66
Period size: 14 Copynumber: 5.1 Consensus size: 14
77801523 ATTTGATTTA
77801533 ATTATTTTTTAA-AT
1 ATTA-TTTTTAATAT
*
77801547 ATTATATTTAATAT
1 ATTATTTTTAATAT
77801561 ATTATTTTTATTATTTAAAT
1 ATTATTTTTA--A--T--AT
77801581 ATTATTTTTAATAT
1 ATTATTTTTAATAT
*
77801595 ATTATTTTTATTAT
1 ATTATTTTTAATAT
77801609 A
1 A
77801610 CTCAATAGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
13 6 0.11
14 31 0.58
16 2 0.04
18 2 0.04
20 12 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTATTTTTAATAT
Found at i:77805059 original size:13 final size:13
Alignment explanation
Indices: 77805043--77805067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77805033 CAAAACAAGA
77805043 CAAAAAAATAAAC
1 CAAAAAAATAAAC
77805056 CAAAAAAATAAA
1 CAAAAAAATAAA
77805068 AAACCCAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (13 bp):
CAAAAAAATAAAC
Found at i:77807842 original size:131 final size:131
Alignment explanation
Indices: 77807608--77807999 Score: 624
Period size: 131 Copynumber: 3.0 Consensus size: 131
77807598 TAGTTATTCA
* * ** *
77807608 TTTAAAAATTCTT-AAAAGCGAAGGAAATGTTCGATGTTTGGCAATTCGGGAAATCGTGCCCTAT
1 TTTAAAAACTCTTCAAAA-CGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* * *
77807672 CGTGCTGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATATTCCTTTGGAACTTCACTCATG
65 CGTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATG
77807737 TC
130 TC
*
77807739 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTGTC
1 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
77807804 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
66 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
77807869 C
131 C
**
77807870 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCACGGAATCGTGCCCTATC
1 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * * *
77807935 GTGCTGGGTTGCGATCTCCTGTTTGTTCGAAATAACCGAATATTCCTTTAGAATTTCACTCATGT
66 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
77808000 TCTCTAAATT
Statistics
Matches: 243, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
131 239 0.98
132 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (131 bp):
TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
C
Found at i:77815196 original size:3 final size:3
Alignment explanation
Indices: 77815188--77815489 Score: 68
Period size: 3 Copynumber: 99.7 Consensus size: 3
77815178 TATTTATTTC
* * * *
77815188 TAT TAT TA- TAT ATAT AAAT TAT TAT TAT TAT T-T GTTT TAT TTT TAA
1 TAT TAT TAT TAT -TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TAT TAT
** * *
77815234 CCT TAT TTT TA- TAT TAT ATAT TA- TAT AAT TAT T-T TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
77815278 TATT TAT T-T TAT TAT TATT TAT TAT ATAT TACT T-T TCACT AAA TAT
1 TA-T TAT TAT TAT TAT TA-T TAT TAT -TAT TA-T TAT T-A-T TAT TAT
* * *
77815324 TAT TAT T-T TA- CAT TAT TAT TAT TA- TAT T-T TTT GTAT AAT ATATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TA-T
* * *
77815368 TAT TAAT TA- TAT ATAT TAT ATAT TAT TTT TACA TAT ATACT T-T CA-
1 TAT T-AT TAT TAT -TAT TAT -TAT TAT TAT TA-T TAT -TA-T TAT TAT
* * *
77815413 TAT TA- TAT TAT AAT TAT T-T TA- TAT TA- TAT TAT TTT TA- TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
77815456 TAT ATAT T-T TTT TAT CTAT ATAT TAT TAT CAT TA
1 TAT -TAT TAT TAT TAT -TAT -TAT TAT TAT TAT TA
77815490 AAGGTTTTAA
Statistics
Matches: 218, Mismatches: 39, Indels: 84
0.64 0.11 0.25
Matches are distributed among these distances:
2 36 0.17
3 127 0.58
4 52 0.24
5 3 0.01
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:77815392 original size:16 final size:16
Alignment explanation
Indices: 77815243--77815481 Score: 78
Period size: 16 Copynumber: 14.9 Consensus size: 16
77815233 ACCTTATTTT
77815243 TATATTATATATTATA
1 TATATTATATATTATA
77815259 TA-ATTAT-T-TTATTA
1 TATATTATATATTA-TA
* *
77815273 TATATTATTTATTTTA
1 TATATTATATATTATA
*
77815289 T-TATTATTTA-T-TA
1 TATATTATATATTATA
77815302 TATATTACT-T-TTCACTA
1 TATATTA-TATATT-A-TA
*
77815319 AATATTAT-TATT-T-
1 TATATTATATATTATA
*
77815332 TACATTAT-TATTATTA
1 TATATTATATATTA-TA
* * * *
77815348 TATTTTTTGTATAATA
1 TATATTATATATTATA
77815364 TAT-TTAT-TAATTATA
1 TATATTATAT-ATTATA
*
77815379 TATATTATATATTATT
1 TATATTATATATTATA
* *
77815395 TTTACATATATACTTTCATA
1 TATA-TTATATA--TT-ATA
*
77815415 TTATATTATA-ATTATTT
1 -TATATTATATATTA-TA
*
77815432 TATATTATATTATTTTTA
1 TATATTATA-TA-TTATA
*
77815450 TACTATTATATATT-TT
1 TA-TATTATATATTATA
*
77815466 TTTATCTATATATTAT
1 TATAT-TATATATTAT
77815482 TATCATTAAA
Statistics
Matches: 172, Mismatches: 21, Indels: 59
0.68 0.08 0.23
Matches are distributed among these distances:
13 16 0.09
14 15 0.09
15 35 0.20
16 50 0.29
17 29 0.17
18 6 0.03
19 12 0.07
20 6 0.03
21 3 0.02
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (16 bp):
TATATTATATATTATA
Found at i:77815429 original size:84 final size:82
Alignment explanation
Indices: 77815250--77815463 Score: 194
Period size: 84 Copynumber: 2.6 Consensus size: 82
77815240 TTTTATATTA
* * *
77815250 TATATTATATAATTATTTTATTATATATTATTTATTTTATTATTATTTATTATATATTACTTTTC
1 TATATTATATTATTATTTTATTATATATTATTTATTTAATTATTATATATTATATATTACTTTTC
* *
77815315 ACTAAATATTATTATTT
66 ACTAAATATTATCATAT
* * *
77815332 TACATTATTATTATTATATTTTTTGTATAATATATTTA-TTAATTA-TATATATTATATATTA-T
1 TATATTA-TATTATTAT-TTTATTATAT-AT-TATTTATTTAATTATTATATATTATATATTACT
* *
77815394 TTTTACATATATACTT-TCATAT
62 TTTCAC-TAAATA-TTATCATAT
*
77815416 TATATTATA--ATTATTTTA-TATTATATTA-TT-TTTATACTATTATATATT
1 TATATTATATTATTATTTTATTA-TATATTATTTATTTA-ATTATTATATATT
77815464 TTTTTATCTA
Statistics
Matches: 108, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
77 5 0.05
78 5 0.05
79 11 0.10
80 6 0.06
81 5 0.05
82 6 0.06
83 16 0.15
84 38 0.35
85 10 0.09
86 6 0.06
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (82 bp):
TATATTATATTATTATTTTATTATATATTATTTATTTAATTATTATATATTATATATTACTTTTC
ACTAAATATTATCATAT
Found at i:77815450 original size:21 final size:21
Alignment explanation
Indices: 77815240--77815481 Score: 83
Period size: 20 Copynumber: 10.8 Consensus size: 21
77815230 TTAACCTTAT
*
77815240 TTTTATATTATATATTATATAA
1 TTTT-TATTATATATTATATTA
77815262 TTATTTTATTATATATTAT-TTA
1 -T-TTTTATTATATATTATATTA
77815284 -TTTTATTAT-TATT-TATTA
1 TTTTTATTATATATTATATTA
* * *
77815302 TATATTACTTTTCACTAAATATTATTA
1 T-TTTTA-TTAT-A-T-ATTA-TATTA
*
77815329 TTTTACATTATTATTATTATATT-
1 TTTT-TATTA-TA-TATTATATTA
*
77815352 TTTTGTATAATATATT-TATTA
1 TTTT-TATTATATATTATATTA
* *
77815373 ATTATA-TATAT-TATATATTA
1 TTTTTATTATATAT-TATATTA
*
77815393 TTTTTACATATATACTTTCATATTATA
1 TTTTTA-TTATATA--TT-ATA-T-TA
*
77815420 TTATAATTATTTTATATTATATTA
1 TT-T--TTATTATATATTATATTA
77815444 TTTTTA-TACTAT-TATATATT-
1 TTTTTATTA-TATAT-TATATTA
77815464 TTTTTATCTATATATTAT
1 TTTTTAT-TATATATTAT
77815482 TATCATTAAA
Statistics
Matches: 167, Mismatches: 20, Indels: 66
0.66 0.08 0.26
Matches are distributed among these distances:
17 1 0.01
18 8 0.05
19 14 0.08
20 27 0.16
21 27 0.16
22 12 0.07
23 22 0.13
24 13 0.08
25 10 0.06
26 10 0.06
27 14 0.08
28 1 0.01
29 5 0.03
30 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTATTATATATTATATTA
Found at i:77815458 original size:14 final size:15
Alignment explanation
Indices: 77815240--77815447 Score: 77
Period size: 15 Copynumber: 14.3 Consensus size: 15
77815230 TTAACCTTAT
77815240 TTTTATATTATA-TA
1 TTTTATATTATATTA
* *
77815254 TTATATAATTATTTTA
1 TTTTAT-ATTATATTA
*
77815270 TTATATATTAT-TTA
1 TTTTATATTATATTA
77815284 TTTTATTATTAT-TTA
1 TTTTA-TATTATATTA
* *
77815299 TTATATA-T-TACT-
1 TTTTATATTATATTA
* *
77815311 TTTCACTA-AATATTA
1 TTTTA-TATTATATTA
* *
77815326 --TTATTTTACATTA
1 TTTTATATTATATTA
* *
77815339 TTAT-TATTATATTT
1 TTTTATATTATATTA
*
77815353 TTTGTATAATATATT-
1 TTT-TATATTATATTA
*
77815368 TATTA-ATTATATATA
1 TTTTATATTATAT-TA
*
77815383 TTATATATTAT-TT-
1 TTTTATATTATATTA
**
77815396 TTACATA-TATACTTTCA
1 TTTTATATTATA--TT-A
*
77815413 TATTATATTATAATTA
1 TTTTATATTAT-ATTA
77815429 TTTTATATTATATTA
1 TTTTATATTATATTA
77815444 TTTT
1 TTTT
77815448 TATACTATTA
Statistics
Matches: 144, Mismatches: 28, Indels: 43
0.67 0.13 0.20
Matches are distributed among these distances:
12 8 0.06
13 23 0.16
14 30 0.21
15 41 0.28
16 32 0.22
17 6 0.04
18 3 0.02
19 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTATATTATATTA
Found at i:77815470 original size:26 final size:26
Alignment explanation
Indices: 77815427--77815484 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
77815417 ATATTATAAT
* * *
77815427 TATTTTATATTATATTATTTTTATAC
1 TATTATATATTATATTATCTATATAC
* * *
77815453 TATTATATATTTTTTTATCTATATAT
1 TATTATATATTATATTATCTATATAC
77815479 TATTAT
1 TATTAT
77815485 CATTAAAGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (26 bp):
TATTATATATTATATTATCTATATAC
Found at i:77827176 original size:41 final size:41
Alignment explanation
Indices: 77827116--77827254 Score: 136
Period size: 41 Copynumber: 3.3 Consensus size: 41
77827106 AAGACATAGC
* *
77827116 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGA
1 TGATTTGGCATTCACGTGCTTACGATGAAGCAAATCTAAGA
** * * *
77827157 TGATTTGGCATTCTTGTGCTTACAAGGAA-CAAATCGAAGACA
1 TGATTTGGCATTCACGTGCTTACGATGAAGCAAATCTAAG--A
* *
77827199 TAGCTAATTTGGCTTTCGCGTGCTTACGATGAAGCAAATCTAAGA
1 T-G---ATTTGGCATTCACGTGCTTACGATGAAGCAAATCTAAGA
77827244 TGATTTGGCAT
1 TGATTTGGCAT
77827255 CTCTGTATTG
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
40 9 0.12
41 31 0.40
42 2 0.03
43 1 0.01
44 1 0.01
45 2 0.03
46 22 0.29
47 9 0.12
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (41 bp):
TGATTTGGCATTCACGTGCTTACGATGAAGCAAATCTAAGA
Found at i:77827198 original size:87 final size:87
Alignment explanation
Indices: 77827052--77827255 Score: 327
Period size: 87 Copynumber: 2.3 Consensus size: 87
77827042 AGAAGATCTG
* * * * *
77827052 GTTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTATAAGGAGCAAATCGAAGACATAGCT
1 GTTGAAGCAAATCTAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
77827117 GATTTGGCTTTCACGTGCTTAC
66 AATTTGGCTTTCACGTGCTTAC
*
77827139 GTTGAAGCAAATCTAAGATGATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 GTTGAAGCAAATCTAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
77827204 AATTTGGCTTTCGCGTGCTTAC
66 AATTTGGCTTTCACGTGCTTAC
*
77827226 GATGAAGCAAATCTAAGATGATTTGGCATC
1 GTTGAAGCAAATCTAAGATGATTTGGCATC
77827256 TCTGTATTGT
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 107 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (87 bp):
GTTGAAGCAAATCTAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
AATTTGGCTTTCACGTGCTTAC
Found at i:77827274 original size:87 final size:87
Alignment explanation
Indices: 77827054--77827283 Score: 304
Period size: 87 Copynumber: 2.6 Consensus size: 87
77827044 AAGATCTGGT
* * * * * * * *
77827054 TGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTATAAGGAGCAAATCGAAGACATAGCTGA
1 TGAAGCAAATCTAAGATGATTTGGCATTCTTGTGATTACAAGGAACAAATCGAAGACATAGCTAA
*
77827119 TTTGGCTTTCACGTGCTTACGT
66 TTTGGCTTTCACGTGCTTACGA
*
77827141 TGAAGCAAATCTAAGATGATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTAA
1 TGAAGCAAATCTAAGATGATTTGGCATTCTTGTGATTACAAGGAACAAATCGAAGACATAGCTAA
*
77827206 TTTGGCTTTCGCGTGCTTACGA
66 TTTGGCTTTCACGTGCTTACGA
*
77827228 TGAAGCAAATCTAAGATGATTTGGCA-TCTCTGT-ATTGTC-AGAGAACAAATCGAAGA
1 TGAAGCAAATCTAAGATGATTTGGCATTCT-TGTGATT-ACAAG-GAACAAATCGAAGA
77827284 AGCAGATTTG
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
86 7 0.05
87 122 0.95
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (87 bp):
TGAAGCAAATCTAAGATGATTTGGCATTCTTGTGATTACAAGGAACAAATCGAAGACATAGCTAA
TTTGGCTTTCACGTGCTTACGA
Found at i:77827490 original size:4 final size:4
Alignment explanation
Indices: 77827481--77827513 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
77827471 AACCGGGCCT
77827481 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
77827514 GTTTATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:77829017 original size:3 final size:3
Alignment explanation
Indices: 77829011--77829116 Score: 51
Period size: 3 Copynumber: 35.0 Consensus size: 3
77829001 ATATATAAAT
* * *** *
77829011 TTA TTA TTA TTA TTA TTA TT- TGTT TTA TTT TTA ACC TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* *
77829056 -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA ATA TT- TATA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA
77829100 TTA TTTA TTA TATA TTA
1 TTA -TTA TTA T-TA TTA
77829117 CTTTTCACAA
Statistics
Matches: 77, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
2 8 0.10
3 56 0.73
4 13 0.17
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:77829066 original size:7 final size:7
Alignment explanation
Indices: 77829054--77829116 Score: 60
Period size: 7 Copynumber: 9.0 Consensus size: 7
77829044 ACCTTATTTT
77829054 TATATTA
1 TATATTA
77829061 TATATTA
1 TATATTA
77829068 TATAATTA
1 TAT-ATTA
77829076 T-T-TTA
1 TATATTA
*
77829081 TTATATAA
1 -TATATTA
77829089 TAT-TTA
1 TATATTA
77829095 TATTATTA
1 TA-TATTA
*
77829103 TTTATTA
1 TATATTA
77829110 TATATTA
1 TATATTA
77829117 CTTTTCACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
5 3 0.07
6 5 0.11
7 27 0.59
8 11 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATATTA
Found at i:77829082 original size:23 final size:26
Alignment explanation
Indices: 77829047--77829116 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
77829037 ATTTTTAACC
*
77829047 TTATTTTTATATTATATATTATATA-A
1 TTATTATT-TATTATATATTATATATA
* *
77829073 TTA-T-TTTATTATATAATATTTATA
1 TTATTATTTATTATATATTATATATA
77829097 TTATTATTTATTATATATTA
1 TTATTATTTATTATATATTA
77829117 CTTTTCACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 14 0.37
24 6 0.16
25 2 0.05
26 16 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTATTATTTATTATATATTATATATA
Found at i:77829084 original size:16 final size:16
Alignment explanation
Indices: 77829055--77829100 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
77829045 CCTTATTTTT
77829055 ATATTATATATTATATA
1 ATATT-TATATTATATA
77829072 ATTATTT-TATTATATA
1 A-TATTTATATTATATA
77829088 ATATTTATATTAT
1 ATATTTATATTAT
77829101 TATTTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.19
16 16 0.59
17 2 0.07
18 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTTATATTATATA
Found at i:77829179 original size:27 final size:24
Alignment explanation
Indices: 77829128--77829266 Score: 74
Period size: 26 Copynumber: 5.4 Consensus size: 24
77829118 TTTTCACAAA
77829128 ATATTATTTTACATTATTATTTAT
1 ATATTATTTTACATTATTATTTAT
* *
77829152 ATATTATTATTACATT-TTTTCTTGT
1 ATATTATT-TTACATTATTAT-TTAT
77829177 ATAATATATTTATTA-ATTATATATATTAT
1 AT-AT-TA-TT-TTACATTAT-TAT-TTAT
77829206 ATATTATTTTTACA-TATATACTTTCAT
1 ATATTA-TTTTACATTAT-TA-TTT-AT
*
77829233 AT-TATATTATA-ATTATT-TTATATT
1 ATAT-TATTTTACATTATTATT-TA-T
77829257 ATATTATTTT
1 ATATTATTTT
77829267 TATACTATTA
Statistics
Matches: 93, Mismatches: 7, Indels: 30
0.72 0.05 0.23
Matches are distributed among these distances:
23 3 0.03
24 20 0.22
25 15 0.16
26 21 0.23
27 18 0.19
28 9 0.10
29 7 0.08
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (24 bp):
ATATTATTTTACATTATTATTTAT
Found at i:77829211 original size:16 final size:16
Alignment explanation
Indices: 77829180--77829300 Score: 52
Period size: 16 Copynumber: 7.1 Consensus size: 16
77829170 TTCTTGTATA
77829180 ATATAT-TTAT-TAATT
1 ATATATATTATAT-ATT
77829195 ATATATATTATATATT
1 ATATATATTATATATT
* * *
77829211 ATTTTTACATATATACTTT
1 ATATATA-TTATATA--TT
77829230 CATATTATATTATA-ATT
1 -ATA-TATATTATATATT
*
77829247 ATTTTATATTATATTATTT
1 A-TATATATTATA-TA-TT
*
77829266 TTATACTATTATATATT
1 ATATA-TATTATATATT
* *
77829283 -TTTTTATCTATATATT
1 ATATATAT-TATATATT
77829299 AT
1 AT
77829301 TATCATTAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
15 9 0.11
16 32 0.40
17 13 0.16
18 6 0.07
19 12 0.15
20 6 0.07
21 3 0.04
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATATATTATATATT
Found at i:77829239 original size:54 final size:53
Alignment explanation
Indices: 77829047--77829268 Score: 151
Period size: 54 Copynumber: 4.2 Consensus size: 53
77829037 ATTTTTAACC
* *
77829047 TTATTTTTATATTATATA-TTAT-ATAAT-TATTTTATT-A-TATAATATT-TATA
1 TTATTTTTACA-TATATACTT-TCATAATATA-TTTATTAATTATTATATTATATA
* * * *
77829097 TTATTATTTATTATATATTACTTTTCACAAAATATTATTTTACATTATTAT-TTATATA
1 TTATT-TTTA-CATATA-TAC-TTTCATAATATATT-TATTA-ATTATTATATTATATA
* * * *
77829155 TTATTATTACATTTTTTCTTGT-ATAATATATTTATTAATTATATATATTATATA
1 TTATTTTTACATATATACTT-TCATAATATATTTATTAATTAT-TATATTATATA
* *
77829209 TTATTTTTACATATATACTTTCATATTATA-TTA-TAATTATTTTA-TATTATA
1 TTATTTTTACATATATACTTTCATAATATATTTATTAATTATTATATTA-TATA
77829260 TTATTTTTA
1 TTATTTTTA
77829269 TACTATTATA
Statistics
Matches: 137, Mismatches: 18, Indels: 33
0.73 0.10 0.18
Matches are distributed among these distances:
50 7 0.05
51 24 0.18
52 16 0.12
53 12 0.09
54 47 0.34
55 8 0.06
56 3 0.02
57 6 0.04
58 14 0.10
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (53 bp):
TTATTTTTACATATATACTTTCATAATATATTTATTAATTATTATATTATATA
Found at i:77829269 original size:21 final size:21
Alignment explanation
Indices: 77829231--77829300 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
77829221 ATATACTTTC
** *
77829231 ATATTATATTATAATTATTTT
1 ATATTATATTATTTTTATTAT
77829252 ATATTATATTATTTTTA-TACT
1 ATATTATATTATTTTTATTA-T
77829273 AT-TATATATT-TTTTTATCTAT
1 ATAT-TATATTATTTTTAT-TAT
77829294 ATATTAT
1 ATATTAT
77829301 TATCATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
20 8 0.20
21 30 0.73
22 3 0.07
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATTATATTATTTTTATTAT
Found at i:77829277 original size:19 final size:20
Alignment explanation
Indices: 77829253--77829301 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
77829243 AATTATTTTA
77829253 TATTATATTATTTTTATA-C
1 TATTATATTATTTTTATATC
*
77829272 TATTATA-TATTTTTTTATC
1 TATTATATTATTTTTATATC
77829291 TA-TATATTATT
1 TATTATATTATT
77829302 ATCATTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTATATTATTTTTATATC
Found at i:77829289 original size:26 final size:26
Alignment explanation
Indices: 77829246--77829303 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
77829236 ATATTATAAT
* * *
77829246 TATTTTATATTATATTATTTTTATAC
1 TATTATATATTATATTATCTATATAC
* * *
77829272 TATTATATATTTTTTTATCTATATAT
1 TATTATATATTATATTATCTATATAC
77829298 TATTAT
1 TATTAT
77829304 CATTAAAGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (26 bp):
TATTATATATTATATTATCTATATAC
Found at i:77831440 original size:154 final size:154
Alignment explanation
Indices: 77831160--77831470 Score: 595
Period size: 154 Copynumber: 2.0 Consensus size: 154
77831150 CACTTAAAGA
* *
77831160 AAAACTGTGCCAAGTTTAAAAGTTGGCTTGAGAAGAAAGGTAAATCAATCTCACTTGTTTGTTTT
1 AAAACTGTGCCAAGTTTAAAAGCTGGCTTGAGAAGAAAGGTAAATCAATCTCACTTGTTTGCTTT
*
77831225 GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGATTCTGGTTCTACAATCTATAT
66 GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGAGTCTGGTTCTACAATCTATAT
77831290 ATCAAATTCCTTACATGGATTAAG
131 ATCAAATTCCTTACATGGATTAAG
77831314 AAAACTGTGCCAAGTTTAAAAGCTGGCTTGAGAAGAAAGGTAAATCAATCTCACTTGTTTGCTTT
1 AAAACTGTGCCAAGTTTAAAAGCTGGCTTGAGAAGAAAGGTAAATCAATCTCACTTGTTTGCTTT
77831379 GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGAGTCTGGTTCTACAATCTATAT
66 GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGAGTCTGGTTCTACAATCTATAT
77831444 ATCAAATTCCTTACATGGATTAAG
131 ATCAAATTCCTTACATGGATTAAG
77831468 AAA
1 AAA
77831471 CCTGAGGGAA
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
154 154 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (154 bp):
AAAACTGTGCCAAGTTTAAAAGCTGGCTTGAGAAGAAAGGTAAATCAATCTCACTTGTTTGCTTT
GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGAGTCTGGTTCTACAATCTATAT
ATCAAATTCCTTACATGGATTAAG
Found at i:77835697 original size:13 final size:13
Alignment explanation
Indices: 77835681--77835705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77835671 CTCTTTGGAT
77835681 TTTTATTTTGTTC
1 TTTTATTTTGTTC
77835694 TTTTATTTTGTT
1 TTTTATTTTGTT
77835706 TTGCTTCCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.04, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTATTTTGTTC
Found at i:77846745 original size:31 final size:31
Alignment explanation
Indices: 77846710--77846770 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
77846700 AGAAGAGGTG
* *
77846710 GCACCTAATGGTCATGCCTTGGGCACAGGCA
1 GCACCCAATGGTCATGCCTTCGGCACAGGCA
* *
77846741 GCACCCACTGGTCATGCCTTCGGCAGAGGC
1 GCACCCAATGGTCATGCCTTCGGCACAGGC
77846771 GGCGCCACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.18
Consensus pattern (31 bp):
GCACCCAATGGTCATGCCTTCGGCACAGGCA
Found at i:77846781 original size:30 final size:31
Alignment explanation
Indices: 77846718--77846784 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
77846708 TGGCACCTAA
*
77846718 TGGTCATGCCTTGGGCACAGGCAGCACCCAC
1 TGGTCATGCCTTCGGCACAGGCAGCACCCAC
* * *
77846749 TGGTCATGCCTTCGGCAGAGGCGGC-GCCAC
1 TGGTCATGCCTTCGGCACAGGCAGCACCCAC
77846779 TGGTCA
1 TGGTCA
77846785 CACCATCTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 10 0.31
31 22 0.69
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (31 bp):
TGGTCATGCCTTCGGCACAGGCAGCACCCAC
Found at i:77848973 original size:20 final size:20
Alignment explanation
Indices: 77848950--77849003 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
77848940 GATTTAGGAT
*
77848950 TTATTTTTATTTATCTTCAA
1 TTATTTTTATTTATATTCAA
* * *
77848970 TTATCTTTAATTATATTTAA
1 TTATTTTTATTTATATTCAA
*
77848990 TTATTTGTATTTAT
1 TTATTTTTATTTAT
77849004 TTCTAGGAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.65
Consensus pattern (20 bp):
TTATTTTTATTTATATTCAA
Found at i:77852748 original size:18 final size:18
Alignment explanation
Indices: 77852725--77852804 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
77852715 TTTATTTCTC
* *
77852725 TTTATTTTTATTTTTTAT
1 TTTATTTTAATTATTTAT
77852743 TTTATTTTAATTATTTATTAT
1 TTTATTTTAATTA--T-TTAT
* *
77852764 TTTATCTTAATGATTTA-
1 TTTATTTTAATTATTTAT
* *
77852781 -TTA-TGTAATTATTAAT
1 TTTATTTTAATTATTTAT
77852797 TTTATTTT
1 TTTATTTT
77852805 GGATATTAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
15 8 0.17
16 3 0.06
17 3 0.06
18 16 0.34
19 1 0.02
20 1 0.02
21 15 0.32
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTATTTTAATTATTTAT
Found at i:77852756 original size:21 final size:21
Alignment explanation
Indices: 77852732--77852784 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
77852722 CTCTTTATTT
* *
77852732 TTATTTTTTATTTTATTTTAA
1 TTATTTATTATTTTATCTTAA
77852753 TTATTTATTATTTTATCTTAA
1 TTATTTATTATTTTATCTTAA
*
77852774 TGATTTATTAT
1 TTATTTATTAT
77852785 GTAATTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTATTTATTATTTTATCTTAA
Found at i:77853878 original size:96 final size:94
Alignment explanation
Indices: 77853697--77853887 Score: 269
Period size: 94 Copynumber: 2.0 Consensus size: 94
77853687 ATTAATTTTA
*
77853697 AGAATATGTTGAGCTGAGTAACCGGGGTGAGGTGGTTGGCTGTCATCTCTCTTCGCGTCAAAAGG
1 AGAATATGTTGAGCTGAGTAACCGGGGT-AGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGG
* * *
77853762 TTCGATATGTTCTTAAGAAAAATAAA-AATT
65 TTCAATATATTCCTAAG-AAAATAAATAATT
* *
77853792 AGAAGTATGTTGGGCTGAGTAACTGGGGT-GGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGG
1 AGAA-TATGTTGAGCTGAGTAACCGGGGTAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGG
77853856 TTCAATATATTCCTAAGTGAAAATAAATAATT
65 TTCAATATATTCCTAA--GAAAATAAATAATT
77853888 TAAATTAAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
94 47 0.55
95 12 0.14
96 27 0.31
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (94 bp):
AGAATATGTTGAGCTGAGTAACCGGGGTAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGT
TCAATATATTCCTAAGAAAATAAATAATT
Found at i:77854659 original size:30 final size:30
Alignment explanation
Indices: 77854624--77854683 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
77854614 TATTTTATTA
*
77854624 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
77854654 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
77854684 CTTATTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:77855249 original size:10 final size:10
Alignment explanation
Indices: 77855234--77855285 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
77855224 TAAATTTAGG
77855234 ATTTATTTTT
1 ATTTATTTTT
* *
77855244 ATTTATCTTC
1 ATTTATTTTT
* *
77855254 AATTATCTTT
1 ATTTATTTTT
*
77855264 ATTTATTTAT
1 ATTTATTTTT
77855274 ATTTATCTTTT
1 ATTTAT-TTTT
77855285 A
1 A
77855286 GAATTTAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
10 29 0.88
11 4 0.12
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:77855283 original size:20 final size:21
Alignment explanation
Indices: 77855234--77855283 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
77855224 TAAATTTAGG
*
77855234 ATTTATTTTTATTTATCTTCA
1 ATTTATCTTTATTTATCTTCA
77855255 A-TTATCTTTATTTAT-TT-A
1 ATTTATCTTTATTTATCTTCA
77855273 TATTTATCTTT
1 -ATTTATCTTT
77855284 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 21 0.81
21 1 0.04
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTATCTTTATTTATCTTCA
Found at i:77856021 original size:17 final size:18
Alignment explanation
Indices: 77855993--77856026 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
77855983 TATTCTCCAT
77855993 TTTAATTTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
77856011 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
77856027 CAATTCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:77858336 original size:20 final size:20
Alignment explanation
Indices: 77858313--77858371 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
77858303 TAAACATGGT
77858313 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
77858333 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
77858353 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
77858372 GGTATTCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:77858353 original size:11 final size:11
Alignment explanation
Indices: 77858317--77858371 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
77858307 CATGGTATGT
77858317 ATGATATGCAC
1 ATGATATGCAC
* *
77858328 ATGACATG--T
1 ATGATATGCAC
77858337 ATGATATGCAC
1 ATGATATGCAC
*
77858348 ATGATATG--T
1 ATGATATGCAC
77858357 ATGATATGCAC
1 ATGATATGCAC
77858368 ATGA
1 ATGA
77858372 GGTATTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:77858450 original size:24 final size:24
Alignment explanation
Indices: 77858422--77858661 Score: 356
Period size: 24 Copynumber: 10.0 Consensus size: 24
77858412 GAGGAAGTGC
77858422 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
77858446 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
77858470 AAAAGGGCTTCTGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
77858494 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * * *
77858518 AAAAGGGCTTCTGTCCCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATT
77858542 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
77858566 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
77858590 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
77858614 AAAAGGACTTTTGCCCCAGTTTTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
77858638 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
77858662 ATGATAAAGC
Statistics
Matches: 193, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
24 184 0.95
25 9 0.05
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:77868776 original size:22 final size:21
Alignment explanation
Indices: 77868742--77868790 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
77868732 AGTAGCACCC
* *
77868742 TCCCCCTCATTTTCCTTCTTCCT
1 TCCCCTTCATTTT-CATCTT-CT
77868765 TCCCCTTC-TTTTCATCTTCT
1 TCCCCTTCATTTTCATCTTCT
77868785 TCCCCT
1 TCCCCT
77868791 ACCCCAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 5 0.21
22 4 0.17
23 7 0.29
ACGTcount: A:0.04, C:0.47, G:0.00, T:0.49
Consensus pattern (21 bp):
TCCCCTTCATTTTCATCTTCT
Found at i:77870200 original size:27 final size:27
Alignment explanation
Indices: 77870169--77870237 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
77870159 TTAGTTTACC
* * *
77870169 AAATTATTAAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCCCGACTTATA
* * *
77870196 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAAATACCCCCGACTTATA
77870223 AAATTACTAAAATAC
1 AAATTACTAAAATAC
77870238 TCCTGTAAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (27 bp):
AAATTACTAAAATACCCCCGACTTATA
Found at i:77870277 original size:27 final size:27
Alignment explanation
Indices: 77870249--77870461 Score: 241
Period size: 27 Copynumber: 7.9 Consensus size: 27
77870239 CCTGTAAGAT
* *
77870249 AGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
77870276 AGAATTATCGTTTTACTCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
77870303 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* * *
77870330 AGAATTATCGTTTTACTCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
* **
77870357 AGAATTACCATTTTACCCTTAATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
77870384 AAAATTACCGTTTTACCCTC-AGTTTAC
1 AGAATTACCGTTTTACCCTCGA-TTTAC
*
77870411 AAAATTACCGTTTTACCCTC-AGTTTAC
1 AGAATTACCGTTTTACCCTCGA-TTTAC
* * * *
77870438 AAAATTATCATTTTACCCTTGATT
1 AGAATTACCGTTTTACCCTCGATT
77870462 GTGAAATTAC
Statistics
Matches: 163, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 161 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
AGAATTACCGTTTTACCCTCGATTTAC
Found at i:77870309 original size:81 final size:81
Alignment explanation
Indices: 77870181--77870392 Score: 194
Period size: 81 Copynumber: 2.6 Consensus size: 81
77870171 ATTATTAAAA
* * * *** * * *
77870181 TACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACTAAAATACTCCT-G-T
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATAC-CCTCGAT
*
77870244 AAGATAGAATTATCGTTT
65 -AGACAGAATTATCGTTT
* * * * *** *
77870262 TACCCTCGATTTATAGAATTATCGTTTTACTCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATA
*
77870327 TACAGAATTATCGTTT
66 GACAGAATTATCGTTT
* **
77870343 TACTCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACC
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACC
77870393 GTTTTACCCT
Statistics
Matches: 103, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
80 3 0.03
81 99 0.96
82 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATA
GACAGAATTATCGTTT
Found at i:77870398 original size:81 final size:81
Alignment explanation
Indices: 77870249--77870457 Score: 278
Period size: 81 Copynumber: 2.6 Consensus size: 81
77870239 CCTGTAAGAT
* * ** *
77870249 AGAATTATCGTTTTACCCTCGATTTATAGAATTATCGTTTTACTCTCGATTTACAGAATTACCAT
1 AGAATTATCGTTTTACCCTCGATTTATAGAATTATCATTTTACCCTTAATTTACAAAATTACCAT
77870314 TTTACCCTC-GATTTAC
66 TTTACCCTCAG-TTTAC
* * *
77870330 AGAATTATCGTTTTACTCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCGT
1 AGAATTATCGTTTTACCCTCGATTTATAGAATTATCATTTTACCCTTAATTTACAAAATTACCAT
77870395 TTTACCCTCAGTTTAC
66 TTTACCCTCAGTTTAC
* * * *
77870411 AAAATTACCGTTTTACCCTC-AGTTTACAAAATTATCATTTTACCCTT
1 AGAATTATCGTTTTACCCTCGA-TTTATAGAATTATCATTTTACCCTT
77870458 GATTGTGAAA
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 110 0.98
82 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (81 bp):
AGAATTATCGTTTTACCCTCGATTTATAGAATTATCATTTTACCCTTAATTTACAAAATTACCAT
TTTACCCTCAGTTTAC
Found at i:77870523 original size:27 final size:27
Alignment explanation
Indices: 77870493--77870618 Score: 157
Period size: 27 Copynumber: 4.7 Consensus size: 27
77870483 TGTAGGATAG
77870493 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
77870520 AATTACTAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
77870547 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
77870574 AATTA-CATAAATA-CCCTCAATTTGTAA
1 AATTACCA-AAATACCCCT-AGTTTGTAA
77870601 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
77870619 GATTTACAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.05
27 72 0.88
28 6 0.07
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:77870534 original size:54 final size:54
Alignment explanation
Indices: 77870460--77870615 Score: 156
Period size: 54 Copynumber: 2.9 Consensus size: 54
77870450 TTACCCTTGA
* * *
77870460 TTGTGAAATTACTTAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACTAAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* * ** * *
77870514 TTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACTAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* **
77870568 TTGTGAAATTAC-ATAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACTA-AAATACCCCT-AGTAGGTAAAATTACCAAAATACC
77870616 CCTGATTTAC
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
53 4 0.05
54 79 0.92
55 3 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
TTGTGAAATTACTAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:77870586 original size:81 final size:81
Alignment explanation
Indices: 77870493--77870643 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
77870483 TGTAGGATAG
* * * ** *
77870493 AATTACCAAAATACCC-CTAGTTTGTAAAATTACTAAAATA-CCCTTAGTTTGTAAAATTACCGA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGA-TTTACAAAATTACAGA
77870556 AATACCACTGGTTTGTGA
64 AATACCACTGGTTTGTGA
77870574 AATTA-CATAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAA
1 AATTACCA-AAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAA
77870638 ATACCA
65 ATACCA
77870644 TTGACTTTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
80 2 0.03
81 53 0.87
82 6 0.10
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:77870623 original size:27 final size:27
Alignment explanation
Indices: 77870493--77870642 Score: 139
Period size: 27 Copynumber: 5.6 Consensus size: 27
77870483 TGTAGGATAG
77870493 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* *
77870520 AATTACTAAAATA-CCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * * *
77870547 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
*
77870574 AATTA-CATAAATA-CCCTCAATTTGTAA
1 AATTACCA-AAATACCCCT-GATTTGTAA
**
77870601 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
77870628 AATTA-CAGAAATACC
1 AATTACCA-AAATACC
77870643 ATTGACTTTC
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
26 10 0.10
27 82 0.81
28 9 0.09
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:77870631 original size:54 final size:54
Alignment explanation
Indices: 77870493--77870642 Score: 187
Period size: 54 Copynumber: 2.8 Consensus size: 54
77870483 TGTAGGATAG
* *
77870493 AATTACCAAAATACCCCT-AGTTTGTAAAATTAC-TAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAAAATTACAT-AAATACCCTCAATTTGTAA
* * * *
77870547 AATTACCGAAATACCACTGGTTTGTGAAATTACATAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACATAAATACCCTCAATTTGTAA
** *
77870601 AATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACC
1 AATTACCAAAATACCCCTGATTTGTAAAATTACATAAATACC
77870643 ATTGACTTTC
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 80 0.99
55 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACATAAATACCCTCAATTTGTAA
Found at i:77870661 original size:29 final size:27
Alignment explanation
Indices: 77870599--77870698 Score: 105
Period size: 27 Copynumber: 3.6 Consensus size: 27
77870589 CTCAATTTGT
** *
77870599 AAAATTACCA-AAATACCCCTGATTTAC
1 AAAATTA-CAGAAATACCATTGTTTTAC
77870626 AAAATTACAGAAATACCATTGACTTTCTA-
1 AAAATTACAGAAATACCATTG--TTT-TAC
*
77870655 AAAATTATAGAAATACCATTGTTTTAC
1 AAAATTACAGAAATACCATTGTTTTAC
*
77870682 AAAATTACTGAAATACC
1 AAAATTACAGAAATACC
77870699 CTTGGTTTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
26 4 0.06
27 34 0.55
29 22 0.35
30 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (27 bp):
AAAATTACAGAAATACCATTGTTTTAC
Found at i:77871472 original size:25 final size:25
Alignment explanation
Indices: 77871434--77871503 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
77871424 AGGAAGTGCT
* *
77871434 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
77871459 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
77871484 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
77871504 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:77871516 original size:24 final size:24
Alignment explanation
Indices: 77871433--77871528 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
77871423 GAGGAAGTGC
*
77871433 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
77871458 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
77871482 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
77871506 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
77871529 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:77871527 original size:50 final size:50
Alignment explanation
Indices: 77871434--77871528 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
77871424 AGGAAGTGCT
**
77871434 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
77871484 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
77871529 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:77871712 original size:42 final size:42
Alignment explanation
Indices: 77871650--77871741 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
77871640 TAGTCTCCCC
* *
77871650 AAATGGGTTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATAAATTCATTGACATTACATGTGATATTG
*
77871692 AAATGGGCTTGCATAAATTCATTGACTTTACATGTGATATTG
1 AAATGGGCTTGCATAAATTCATTGACATTACATGTGATATTG
77871734 AAATGGGC
1 AAATGGGC
77871742 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATAAATTCATTGACATTACATGTGATATTG
Found at i:77875885 original size:30 final size:30
Alignment explanation
Indices: 77875850--77875906 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
77875840 TAGGCACTTC
*
77875850 CACACGGGTAAACCACACGCTCGTGTGAGG
1 CACACGGGCAAACCACACGCTCGTGTGAGG
*
77875880 CACACGGGCAATCCACACGCTCGTGTG
1 CACACGGGCAAACCACACGCTCGTGTG
77875907 TTATGGCCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.33, G:0.28, T:0.14
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCTCGTGTGAGG
Found at i:77878482 original size:16 final size:17
Alignment explanation
Indices: 77878463--77878505 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
77878453 TATTTTAATG
77878463 TATTGTTATTTCTAG-T
1 TATTGTTATTTCTAGAT
*
77878479 TATTATTATTTCTAGTAT
1 TATTGTTATTTCTAG-AT
77878497 TATTGTTAT
1 TATTGTTAT
77878506 AATATTAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 14 0.61
18 9 0.39
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.63
Consensus pattern (17 bp):
TATTGTTATTTCTAGAT
Found at i:77878727 original size:35 final size:36
Alignment explanation
Indices: 77878687--77878768 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 36
77878677 TTATATTTAT
77878687 TATTATATTATTT-ACT-T-TCACTATATTTTTTTAAA
1 TATTATATTATTTCA-TATATCA-TATATTTTTTTAAA
* * *
77878722 TATTATATT-TTTCATATATTATGTATTTTTTTATA
1 TATTATATTATTTCATATATCATATATTTTTTTAAA
77878757 TATTATATTATT
1 TATTATATTATT
77878769 CGTATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
34 4 0.10
35 32 0.80
36 4 0.10
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (36 bp):
TATTATATTATTTCATATATCATATATTTTTTTAAA
Found at i:77878740 original size:16 final size:16
Alignment explanation
Indices: 77878721--77878781 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
77878711 ATTTTTTTAA
77878721 ATATTATATTTTTCAT
1 ATATTATATTTTTCAT
*
77878737 ATATTATGTATTTTTTTAT
1 ATATTA--TA-TTTTTCAT
* *
77878756 ATATTATATTATTCGT
1 ATATTATATTTTTCAT
*
77878772 ATATTTTATT
1 ATATTATATT
77878782 GTATTTTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
16 20 0.54
17 2 0.05
18 2 0.05
19 13 0.35
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
ATATTATATTTTTCAT
Found at i:77878757 original size:19 final size:18
Alignment explanation
Indices: 77878710--77878762 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 18
77878700 ACTTTCACTA
*
77878710 TATTTTTTTAAATATTA-
1 TATTTTTTTATATATTAT
*
77878727 TA-TTTTTCATATATTAT
1 TATTTTTTTATATATTAT
77878744 GTATTTTTTTATATATTAT
1 -TATTTTTTTATATATTAT
77878763 ATTATTCGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 12 0.40
17 2 0.07
18 2 0.07
19 14 0.47
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TATTTTTTTATATATTAT
Found at i:77878775 original size:35 final size:33
Alignment explanation
Indices: 77878710--77878800 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 33
77878700 ACTTTCACTA
* *
77878710 TATTTTTTTAAATATTATATTTTTCATATATTAT
1 TATTTTTTTATATATTATATTATTCATATATT-T
*
77878744 GTATTTTTTTATATATTATATTATTCGTATATTT
1 -TATTTTTTTATATATTATATTATTCATATATTT
77878778 TATTGTATTTTATATATATATAT
1 TATT-T-TTTTATATAT-TATAT
77878801 ATTAAATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
33 4 0.08
34 2 0.04
35 39 0.78
36 5 0.10
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (33 bp):
TATTTTTTTATATATTATATTATTCATATATTT
Found at i:77878876 original size:24 final size:23
Alignment explanation
Indices: 77878847--77878909 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 23
77878837 CATACTATTC
* *
77878847 ATATATTTTATTGTTATTTCATAT
1 ATATATTTTATTATTAGTT-ATAT
77878871 ATATATATGTATATTATTAGTTATAT
1 ATATAT-T-T-TATTATTAGTTATAT
77878897 ATATATTTT-TTAT
1 ATATATTTTATTAT
77878910 ACTATTTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 7 0.21
25 2 0.06
26 11 0.32
27 9 0.26
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (23 bp):
ATATATTTTATTATTAGTTATAT
Found at i:77888637 original size:22 final size:22
Alignment explanation
Indices: 77888612--77888657 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
77888602 CTTTGTGCAA
*
77888612 TTTAATTTTTC-TTTTATGTTCT
1 TTTAACTTTTCATTTT-TGTTCT
*
77888634 TTTAACTTTTCATTTTTTTTCT
1 TTTAACTTTTCATTTTTGTTCT
77888656 TT
1 TT
77888658 ATTTTCTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTAACTTTTCATTTTTGTTCT
Found at i:77889016 original size:41 final size:41
Alignment explanation
Indices: 77888969--77889298 Score: 347
Period size: 41 Copynumber: 8.1 Consensus size: 41
77888959 ATTTGCAATA
* * * *
77888969 AAACGCCGCAAAAAACTGAGCAATAGCGGCGTTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* ** *
77889010 AAACGCCACCAAAAACTGAGCAATAGTTGCGTTTCTGATCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * *
77889051 AAACGCCACTAAAAACTGAGCTATAGCGGCATTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* *
77889092 AAACGCCTCTAAAAATTGAGCAATAGCGGCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * * * * *
77889133 AAACACCACTAAAAACTTATCTATATCGGCGTTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * *
77889174 AAATGCCACTAAAAACTGGGTAATAGCGCCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * ** *
77889215 AAACGCCACT-AAAACTAAACTATAGCGATGTTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
** *
77889255 AAACGCTGCTAAAAACTGAGCAATAGCGGCATTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
77889296 AAA
1 AAA
77889299 TGCTACAAAA
Statistics
Matches: 231, Mismatches: 57, Indels: 2
0.80 0.20 0.01
Matches are distributed among these distances:
40 30 0.13
41 201 0.87
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
Found at i:77889106 original size:82 final size:82
Alignment explanation
Indices: 77888969--77889339 Score: 422
Period size: 82 Copynumber: 4.5 Consensus size: 82
77888959 ATTTGCAATA
* * * *
77888969 AAACGCCGCAAAAAACTGAGCAATAGCGGCGTTTTTGTTCCAAACGCCACCAAAAACTGAGCAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
** *
77889034 AGTTGCGTTTCTGATCC
66 AGCGGCGTTTCTGGTCC
* * *
77889051 AAACGCCACTAAAAACTGAGCTATAGCGGCATTTTTGTTCCAAACGCCTCTAAAAATTGAGCAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
77889116 AGCGGCGTTTCTGGTCC
66 AGCGGCGTTTCTGGTCC
* * * * * * *
77889133 AAACACCACTAAAAACTTATCTATATCGGCGTTTTTGTTCCAAATGCCACTAAAAACTGGGTAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
*
77889198 AGCGCCGTTTCTGGTCC
66 AGCGGCGTTTCTGGTCC
* * ** * **
77889215 AAACGCCACT-AAAACTAAACTATAGCGATGTTTTTGGTCCAAACGCTGCTAAAAACTGAGCAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
*
77889279 AGCGGCATTTCTGGTCC
66 AGCGGCGTTTCTGGTCC
* * * ** * *
77889296 AAATGCTAC-AAAAAGTTGATATATAGCGACGTTTTTGGTCCAAA
1 AAACGCCACTAAAAA-CTGAGCTATAGCGGCGTTTTTGTTCCAAA
77889340 TACCGTAAAA
Statistics
Matches: 245, Mismatches: 42, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
81 69 0.28
82 176 0.72
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (82 bp):
AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
AGCGGCGTTTCTGGTCC
Found at i:77889331 original size:163 final size:164
Alignment explanation
Indices: 77888991--77889340 Score: 447
Period size: 163 Copynumber: 2.1 Consensus size: 164
77888981 AAACTGAGCA
* *
77888991 ATAGCGGCGTTTTTGTTCCAAACGCCACCAAAAACTGAGCAATAGTTGCGTTTCTGATCCAAACG
1 ATAGCGGCGTTTTTGTTCCAAATGCCACCAAAAACTGAGCAATAGTCGCGTTTCTGATCCAAACG
* * * * *
77889056 CCACTAAAAACTGAGCTATAGCGGCATTTTTGTTCCAAACGCCTCTAAAAATTGAGCAATAGCGG
66 CCACTAAAAACTAAACTATAGCGACATTTTTGGTCCAAACGCCTCTAAAAACTGAGCAATAGCGG
* *
77889121 CGTTTCTGGTCCAAACACCACTAAAAACTTATCT
131 CATTTCTGGTCCAAACACCACTAAAAACTTATAT
* * * * *
77889155 ATATCGGCGTTTTTGTTCCAAATGCCACTAAAAACTGGGTAATAG-CGCCGTTTCTGGTCCAAAC
1 ATAGCGGCGTTTTTGTTCCAAATGCCACCAAAAACTGAGCAATAGTCG-CGTTTCTGATCCAAAC
**
77889219 GCCACT-AAAACTAAACTATAGCGATGTTTTTGGTCCAAACG-CTGCTAAAAACTGAGCAATAGC
65 GCCACTAAAAACTAAACTATAGCGACATTTTTGGTCCAAACGCCT-CTAAAAACTGAGCAATAGC
** * *
77889282 GGCATTTCTGGTCCAAATGCTAC-AAAAAGTTGATAT
129 GGCATTTCTGGTCCAAACACCACTAAAAACTT-ATAT
* *
77889318 ATAGCGACGTTTTTGGTCCAAAT
1 ATAGCGGCGTTTTTGTTCCAAAT
77889341 ACCGTAAAAA
Statistics
Matches: 160, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
162 9 0.06
163 90 0.56
164 61 0.38
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (164 bp):
ATAGCGGCGTTTTTGTTCCAAATGCCACCAAAAACTGAGCAATAGTCGCGTTTCTGATCCAAACG
CCACTAAAAACTAAACTATAGCGACATTTTTGGTCCAAACGCCTCTAAAAACTGAGCAATAGCGG
CATTTCTGGTCCAAACACCACTAAAAACTTATAT
Found at i:77889646 original size:21 final size:21
Alignment explanation
Indices: 77889622--77889696 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
77889612 TGGCTTTATC
77889622 TAAACCCTAAACCTTAAATCT
1 TAAACCCTAAACCTTAAATCT
* * * *
77889643 TAAACCCTAAATTCTAAAAACA
1 TAAACCCTAAA-CCTTAAATCT
* *
77889665 TAGACCCTAAACATT-AATCT
1 TAAACCCTAAACCTTAAATCT
77889685 ATAAACCCTAAA
1 -TAAACCCTAAA
77889697 ACCCTAAACC
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 3 0.07
21 22 0.54
22 16 0.39
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACCTTAAATCT
Found at i:77889831 original size:7 final size:7
Alignment explanation
Indices: 77889820--77889883 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
77889810 ATTATTTTTG
*
77889820 GGTTTAG
1 GGTTTAA
77889827 GGTTTAA
1 GGTTTAA
**
77889834 TATTTAA
1 GGTTTAA
77889841 GGTTTAA
1 GGTTTAA
* *
77889848 GGTCTAT
1 GGTTTAA
*
77889855 GGTTTAG
1 GGTTTAA
*
77889862 GGTTGTAT
1 GGTT-TAA
77889870 GGTTTAA
1 GGTTTAA
77889877 GGTTTAA
1 GGTTTAA
77889884 TAGTTATTAT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:77889872 original size:15 final size:15
Alignment explanation
Indices: 77889841--77889880 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
77889831 TAATATTTAA
*
77889841 GGTTTAAGG-TCTAT
1 GGTTTAAGGTTGTAT
*
77889855 GGTTTAGGGTTGTAT
1 GGTTTAAGGTTGTAT
77889870 GGTTTAAGGTT
1 GGTTTAAGGTT
77889881 TAATAGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.45
Consensus pattern (15 bp):
GGTTTAAGGTTGTAT
Found at i:77890232 original size:22 final size:22
Alignment explanation
Indices: 77890207--77890252 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
77890197 CTTTGTGCAA
*
77890207 TTTAATTTTTC-TTTTATGTTCT
1 TTTAACTTTTCATTTT-TGTTCT
*
77890229 TTTAACTTTTCATTTTTTTTCT
1 TTTAACTTTTCATTTTTGTTCT
77890251 TT
1 TT
77890253 ATTTTCTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTAACTTTTCATTTTTGTTCT
Found at i:77890611 original size:41 final size:41
Alignment explanation
Indices: 77890564--77890893 Score: 347
Period size: 41 Copynumber: 8.1 Consensus size: 41
77890554 ATTTGCAATA
* * * *
77890564 AAACGCCGCAAAAAACTGAGCAATAGCGGCGTTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* ** *
77890605 AAACGCCACCAAAAACTGAGCAATAGTTGCGTTTCTGATCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * *
77890646 AAACGCCACTAAAAACTGAGCTATAGCGGCATTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* *
77890687 AAACGCCTCTAAAAATTGAGCAATAGCGGCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * * * * *
77890728 AAACACCACTAAAAACTTATCTATATCGGCGTTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * *
77890769 AAATGCCACTAAAAACTGGGTAATAGCGCCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * ** *
77890810 AAACGCCACT-AAAACTAAACTATAGCGATGTTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
** *
77890850 AAACGCTGCTAAAAACTGAGCAATAGCGGCATTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
77890891 AAA
1 AAA
77890894 TGCTACAAAA
Statistics
Matches: 231, Mismatches: 57, Indels: 2
0.80 0.20 0.01
Matches are distributed among these distances:
40 30 0.13
41 201 0.87
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
Found at i:77890701 original size:82 final size:82
Alignment explanation
Indices: 77890564--77890934 Score: 422
Period size: 82 Copynumber: 4.5 Consensus size: 82
77890554 ATTTGCAATA
* * * *
77890564 AAACGCCGCAAAAAACTGAGCAATAGCGGCGTTTTTGTTCCAAACGCCACCAAAAACTGAGCAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
** *
77890629 AGTTGCGTTTCTGATCC
66 AGCGGCGTTTCTGGTCC
* * *
77890646 AAACGCCACTAAAAACTGAGCTATAGCGGCATTTTTGTTCCAAACGCCTCTAAAAATTGAGCAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
77890711 AGCGGCGTTTCTGGTCC
66 AGCGGCGTTTCTGGTCC
* * * * * * *
77890728 AAACACCACTAAAAACTTATCTATATCGGCGTTTTTGTTCCAAATGCCACTAAAAACTGGGTAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
*
77890793 AGCGCCGTTTCTGGTCC
66 AGCGGCGTTTCTGGTCC
* * ** * **
77890810 AAACGCCACT-AAAACTAAACTATAGCGATGTTTTTGGTCCAAACGCTGCTAAAAACTGAGCAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
*
77890874 AGCGGCATTTCTGGTCC
66 AGCGGCGTTTCTGGTCC
* * * ** * *
77890891 AAATGCTAC-AAAAAGTTGATATATAGCGACGTTTTTGGTCCAAA
1 AAACGCCACTAAAAA-CTGAGCTATAGCGGCGTTTTTGTTCCAAA
77890935 TACCGTAAAA
Statistics
Matches: 245, Mismatches: 42, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
81 69 0.28
82 176 0.72
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (82 bp):
AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
AGCGGCGTTTCTGGTCC
Done.