Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 36 of 173
Found at i:9712024 original size:15 final size:17
Alignment explanation
Indices: 9712006--9712037 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9711996 CAAAATAGAA
9712006 AGAA-CAAA-GAAACAG
1 AGAAGCAAACGAAACAG
9712021 AGAAGCAAACGAAACAG
1 AGAAGCAAACGAAACAG
9712038 GGGAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGCAAACGAAACAG
Found at i:9712806 original size:39 final size:41
Alignment explanation
Indices: 9712763--9712845 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 41
9712753 GGAATATTAG
*
9712763 ATATTGTTTTG-AGTACTG-AGTGAATTGTGAAAATACT-GA
1 ATATTGTTATGTA-TACTGCAGTGAATTGTGAAAATACTGGA
* * *
9712802 ATATTGTTATGTATATTGCATTGAATTGTGAAATTACTGGA
1 ATATTGTTATGTATACTGCAGTGAATTGTGAAAATACTGGA
9712843 ATA
1 ATA
9712846 ATAAATTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 14 0.38
40 18 0.49
41 5 0.14
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (41 bp):
ATATTGTTATGTATACTGCAGTGAATTGTGAAAATACTGGA
Found at i:9713097 original size:39 final size:39
Alignment explanation
Indices: 9713017--9713147 Score: 131
Period size: 45 Copynumber: 3.2 Consensus size: 39
9713007 ATTTGCCGGC
* * *
9713017 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTCA-GCACTTTGTGTGTCGAATACTGTTACTG
* *
9713055 TTACTGATTTAGCACTTTGTGTGTCGAATACTGTTACCG
1 TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACTG
*
9713094 TTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTG----A--TTCAGCACTTTGTGTGTCGAATACTGTTACTG
9713139 TTACTGATT
1 TTACTGATT
9713148 ACTGTATACT
Statistics
Matches: 77, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
38 11 0.14
39 29 0.38
41 1 0.01
43 1 0.01
45 35 0.45
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (39 bp):
TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:9713114 original size:45 final size:45
Alignment explanation
Indices: 9713048--9713149 Score: 150
Period size: 45 Copynumber: 2.2 Consensus size: 45
9713038 GCCGACTACT
* *
9713048 GTTACTGTTACTGATTTAGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
* * *
9713093 GTTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
9713138 GTTACTGATTAC
1 GTTACTG-TTAC
9713150 TGTATACTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 47 0.92
46 4 0.08
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
Found at i:9713275 original size:7 final size:7
Alignment explanation
Indices: 9713265--9713291 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9713255 ATGTGAAAGG
9713265 TGAAATT
1 TGAAATT
9713272 TGAAATT
1 TGAAATT
9713279 TGAAATT
1 TGAAATT
9713286 TGAAAT
1 TGAAAT
9713292 AAAGAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (7 bp):
TGAAATT
Found at i:9720992 original size:30 final size:30
Alignment explanation
Indices: 9720958--9721087 Score: 163
Period size: 30 Copynumber: 4.3 Consensus size: 30
9720948 TAACCCTGGG
* *
9720958 GTTGGTCAGCAACTCATCAGCTATCCCGGA
1 GTTGGTCAGCAACACATCAGCAATCCCGGA
* * *
9720988 GTTGGTCAGCAACACATCAACAATCCTGGT
1 GTTGGTCAGCAACACATCAGCAATCCCGGA
* *
9721018 GTTGGTCAGCAACTA-ATTAGCTATCCCGGA
1 GTTGGTCAGCAAC-ACATCAGCAATCCCGGA
* *
9721048 GTTGGTCAGCAACACATCAGCAATCCTGGT
1 GTTGGTCAGCAACACATCAGCAATCCCGGA
9721078 GTTGGTCAGC
1 GTTGGTCAGC
9721088 TCATGGGTGT
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
29 1 0.01
30 82 0.98
31 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (30 bp):
GTTGGTCAGCAACACATCAGCAATCCCGGA
Found at i:9721026 original size:60 final size:60
Alignment explanation
Indices: 9720952--9721087 Score: 236
Period size: 60 Copynumber: 2.3 Consensus size: 60
9720942 CCTCAATAAC
* *
9720952 CCTGGGGTTGGTCAGCAACTCATCAGCTATCCCGGAGTTGGTCAGCAACACATCAACAAT
1 CCTGGTGTTGGTCAGCAACTAATCAGCTATCCCGGAGTTGGTCAGCAACACATCAACAAT
* *
9721012 CCTGGTGTTGGTCAGCAACTAATTAGCTATCCCGGAGTTGGTCAGCAACACATCAGCAAT
1 CCTGGTGTTGGTCAGCAACTAATCAGCTATCCCGGAGTTGGTCAGCAACACATCAACAAT
9721072 CCTGGTGTTGGTCAGC
1 CCTGGTGTTGGTCAGC
9721088 TCATGGGTGT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 72 1.00
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.24
Consensus pattern (60 bp):
CCTGGTGTTGGTCAGCAACTAATCAGCTATCCCGGAGTTGGTCAGCAACACATCAACAAT
Found at i:9727642 original size:16 final size:15
Alignment explanation
Indices: 9727606--9727641 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9727596 CAAAACCAAG
9727606 ATTTTTACAACATTC
1 ATTTTTACAACATTC
* *
9727621 ATTTTTATAATATTC
1 ATTTTTACAACATTC
9727636 ATTTTT
1 ATTTTT
9727642 TTTAGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTTACAACATTC
Found at i:9728719 original size:18 final size:18
Alignment explanation
Indices: 9728698--9728735 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9728688 ATTATTTTCT
9728698 TATTTATCATAATTATTA
1 TATTTATCATAATTATTA
* *
9728716 TATTTTTCATTATTATTA
1 TATTTATCATAATTATTA
9728734 TA
1 TA
9728736 GTATTTGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTATCATAATTATTA
Found at i:9736017 original size:38 final size:38
Alignment explanation
Indices: 9735962--9736035 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
9735952 TCGATTATTA
*
9735962 TTTTTCAAGCCTCAAACGAGGAAAACACATCACTTTAG
1 TTTTCCAAGCCTCAAACGAGGAAAACACATCACTTTAG
* * **
9736000 TTTTCCAAGCCTTAAACGTGGAAAATGCATCACTTT
1 TTTTCCAAGCCTCAAACGAGGAAAACACATCACTTT
9736036 TTTGCTTCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (38 bp):
TTTTCCAAGCCTCAAACGAGGAAAACACATCACTTTAG
Found at i:9748077 original size:17 final size:17
Alignment explanation
Indices: 9748055--9748089 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9748045 CAGAGCGTGG
9748055 TAAGTCAGAAAAGATAA
1 TAAGTCAGAAAAGATAA
*
9748072 TAAGTCAGAAAAGGTAA
1 TAAGTCAGAAAAGATAA
9748089 T
1 T
9748090 TTACCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.06, G:0.20, T:0.20
Consensus pattern (17 bp):
TAAGTCAGAAAAGATAA
Found at i:9764194 original size:16 final size:17
Alignment explanation
Indices: 9764173--9764204 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9764163 AAATATGCAA
9764173 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
9764189 TCACATAACTTCATAT
1 TCACATAACTTCATAT
9764205 AATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:9764431 original size:43 final size:43
Alignment explanation
Indices: 9764365--9764534 Score: 190
Period size: 42 Copynumber: 4.0 Consensus size: 43
9764355 GACTCGTACA
* *
9764365 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACATATCG
* * *
9764408 ATGCC-ACTGTCCCAGACAG-GGTCTTACA-CAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAAACACATATCG
* * * *
9764449 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACATA-TCG
9764492 ATGCCAACGT-CCAGACGTGGTCTTACATGAAAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACATATCG
9764534 A
1 A
9764535 AATCCTATGT
Statistics
Matches: 106, Mismatches: 13, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
41 26 0.25
42 44 0.42
43 35 0.33
44 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACATATCG
Found at i:9764513 original size:42 final size:42
Alignment explanation
Indices: 9764365--9764534 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 42
9764355 GACTCGTACA
* *
9764365 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-ATCG
9764408 ATGCC-ACTGTCCCAGACAG-GGTCTTACAC--AAATCA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAA-CACAAT-CG
* *
9764449 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAA-TCG
* *
9764492 ATGCCAACGT-CCAGACGTGGTCTTACATGAAAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-ATCG
9764534 A
1 A
9764535 AATCCTATGT
Statistics
Matches: 108, Mismatches: 8, Indels: 23
0.78 0.06 0.17
Matches are distributed among these distances:
40 2 0.02
41 29 0.27
42 35 0.32
43 40 0.37
44 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAATCG
Found at i:9766179 original size:24 final size:24
Alignment explanation
Indices: 9766152--9766271 Score: 89
Period size: 26 Copynumber: 4.8 Consensus size: 24
9766142 AAACTCATGC
*
9766152 GAGCCAATATCGGGTAGCTCCGAA
1 GAGCCAATATCGGGAAGCTCCGAA
* * * *
9766176 GAGCCATTAGCAGGAAGCTCCGGA
1 GAGCCAATATCGGGAAGCTCCGAA
* * *
9766200 TAGCTTAATATCGGGAAGCTCACAAA
1 GAGC-CAATATCGGGAAGCTC-CGAA
* * *
9766226 GAGCCAATTAACGAGAAGCTCACAAA
1 GAGCCAA-TATCGGGAAGCTC-CGAA
9766252 GAGCC-ATAATCGGGAAGCTC
1 GAGCCAAT-ATCGGGAAGCTC
9766272 ATAAGAACTG
Statistics
Matches: 74, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
24 23 0.31
25 25 0.34
26 26 0.35
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (24 bp):
GAGCCAATATCGGGAAGCTCCGAA
Found at i:9767892 original size:19 final size:19
Alignment explanation
Indices: 9767868--9767904 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9767858 ATAATAAATG
9767868 TAAAATTAAATTAAATAAC
1 TAAAATTAAATTAAATAAC
*
9767887 TAAAATTAAATTAGATAA
1 TAAAATTAAATTAAATAA
9767905 TCAAATATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
TAAAATTAAATTAAATAAC
Found at i:9769235 original size:6 final size:6
Alignment explanation
Indices: 9769216--9769246 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
9769206 GGGTTTGTAT
*
9769216 TTTCTG TTTTTG TTTCTG TTTCTG TTTCTG T
1 TTTCTG TTTCTG TTTCTG TTTCTG TTTCTG T
9769247 GGGAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.16, T:0.71
Consensus pattern (6 bp):
TTTCTG
Found at i:9773572 original size:27 final size:27
Alignment explanation
Indices: 9773507--9773576 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
9773497 CAGATTTTAG
* *
9773507 ATTGTTGGATTTTGATATATGTCTTGA
1 ATTGTTGGATATTGATATATGTCTTAA
* *
9773534 ATTGGTTAGATATTGAT-TATGTTTTAA
1 ATT-GTTGGATATTGATATATGTCTTAA
9773561 CATTGTTGGATATTGA
1 -ATTGTTGGATATTGA
9773577 ATTGATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (27 bp):
ATTGTTGGATATTGATATATGTCTTAA
Found at i:9773581 original size:32 final size:33
Alignment explanation
Indices: 9773545--9773612 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 33
9773535 TTGGTTAGAT
9773545 ATTG-ATTATGTTTTAA-CATTGTTGGATATTGA
1 ATTGTATTATGTTTTAAGC-TTGTTGGATATTGA
9773577 ATTGATTATTATGTTTTAAGCTTGTTGGATATTGA
1 ATTG--TATTATGTTTTAAGCTTGTTGGATATTGA
9773612 A
1 A
9773613 ATTATTGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 4 0.12
35 27 0.84
36 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.50
Consensus pattern (33 bp):
ATTGTATTATGTTTTAAGCTTGTTGGATATTGA
Found at i:9774987 original size:34 final size:35
Alignment explanation
Indices: 9774921--9774987 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
9774911 CAAACACCAG
9774921 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
* *
9774956 AAAATATTTTCCAG-AATTCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAGTCATTTTACAGAAAA
9774988 CATTTTACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
Found at i:9775086 original size:21 final size:22
Alignment explanation
Indices: 9775061--9775105 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
9775051 AAAATAATTT
9775061 TTAAAAAATATAAA-TTAAAAA
1 TTAAAAAATATAAAGTTAAAAA
* *
9775082 TTAAAAAATCTAAAGTTTAAAA
1 TTAAAAAATATAAAGTTAAAAA
9775104 TT
1 TT
9775106 CATAAGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TTAAAAAATATAAAGTTAAAAA
Found at i:9788596 original size:13 final size:13
Alignment explanation
Indices: 9788578--9788639 Score: 88
Period size: 13 Copynumber: 4.8 Consensus size: 13
9788568 GTAAAATGAT
*
9788578 CTTTTGAGAAGTA
1 CTTTTGAGAAGTG
9788591 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
* *
9788604 CTTTTAAGAAATG
1 CTTTTGAGAAGTG
9788617 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
*
9788630 CTTTCGAGAA
1 CTTTTGAGAA
9788640 ATTTGAGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (13 bp):
CTTTTGAGAAGTG
Found at i:9789303 original size:22 final size:23
Alignment explanation
Indices: 9789273--9789340 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 23
9789263 ATAGCATACT
9789273 TATATTTGATAAGCATATGAAAA
1 TATATTTGATAAGCATATGAAAA
* *
9789296 TA-ATTTGATTA--ATAT-AATACT
1 TATATTTGATAAGCATATGAA-A-A
9789317 TATATTTGATAAGCATATGAAAA
1 TATATTTGATAAGCATATGAAAA
9789340 T
1 T
9789341 GAAAGTCGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 2 0.06
22 16 0.46
23 3 0.09
24 5 0.14
25 2 0.06
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (23 bp):
TATATTTGATAAGCATATGAAAA
Found at i:9790325 original size:12 final size:12
Alignment explanation
Indices: 9790308--9790332 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9790298 CTCTATACCT
9790308 CAAAAACTAAAG
1 CAAAAACTAAAG
9790320 CAAAAACTAAAG
1 CAAAAACTAAAG
9790332 C
1 C
9790333 TGATATACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (12 bp):
CAAAAACTAAAG
Found at i:9794461 original size:23 final size:22
Alignment explanation
Indices: 9794434--9794525 Score: 103
Period size: 23 Copynumber: 4.0 Consensus size: 22
9794424 GAACTCACCA
9794434 CAGCTCGTATGAGCTTACCATTT
1 CAGCTC-TATGAGCTTACCATTT
*
9794457 TAGCTCTATGGAGCTTACCATTT
1 CAGCTCTAT-GAGCTTACCATTT
* * *
9794480 CAGCTTTACGGAGCTTACCGTTT
1 CAGCTCTA-TGAGCTTACCATTT
*
9794503 CAGCTCAATAGAGCTTACCATTT
1 CAGCTCTAT-GAGCTTACCATTT
9794526 ATAAGCTCGG
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
22 3 0.05
23 54 0.95
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (22 bp):
CAGCTCTATGAGCTTACCATTT
Found at i:9801372 original size:23 final size:23
Alignment explanation
Indices: 9801346--9801427 Score: 128
Period size: 23 Copynumber: 3.6 Consensus size: 23
9801336 CAGCTCGTAT
9801346 GAGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCTCTACG
*
9801369 GAGCTTACTGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCTCTACG
* **
9801392 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACCGTTTCAGCTCTACG
9801415 GAGCTTACCGTTT
1 GAGCTTACCGTTT
9801428 ATCAGCACGG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.33
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCTACG
Found at i:9801450 original size:26 final size:23
Alignment explanation
Indices: 9801346--9801450 Score: 77
Period size: 23 Copynumber: 4.4 Consensus size: 23
9801336 CAGCTCGTAT
* * **
9801346 GAGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCACAATA
* * * **
9801369 GAGCTTACTGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCACAATA
*
9801392 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACCGTTTCAGCACAATA
9801415 GAGCTTACCGTTTATCAGCACGGAAT-
1 GAGCTTACCG-TT-TCAGCAC--AATA
9801441 GAGCTTACCG
1 GAGCTTACCG
9801451 ATCATGGCTC
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
23 51 0.71
24 2 0.03
25 6 0.08
26 10 0.14
27 3 0.04
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCACAATA
Found at i:9802735 original size:46 final size:44
Alignment explanation
Indices: 9802676--9802780 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 44
9802666 GAATGAATAG
* *
9802676 AAATAGAGAAATGAGAAACATTCAAAAATGATTATGGCTTTCTCCA
1 AAATGGAGAAATGA-AAACATTCAAAAATGAATATGGCTTTCT-CA
* ** * *
9802722 AAATGGAGAAATGAAATCATTTGAAAATGAATGTGGTTTTCTCA
1 AAATGGAGAAATGAAAACATTCAAAAATGAATATGGCTTTCTCA
9802766 AAAT-G-GAAATGAAAA
1 AAATGGAGAAATGAAAA
9802781 TGAGAAATGA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 9 0.18
43 1 0.02
44 6 0.12
45 22 0.43
46 13 0.25
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.27
Consensus pattern (44 bp):
AAATGGAGAAATGAAAACATTCAAAAATGAATATGGCTTTCTCA
Found at i:9809607 original size:15 final size:15
Alignment explanation
Indices: 9809586--9809675 Score: 126
Period size: 15 Copynumber: 6.0 Consensus size: 15
9809576 AGGGCCCCTC
*
9809586 TGCTGAAGGATCCGA
1 TGCTGAAGGACCCGA
*
9809601 GGCTGAAGGACCCGA
1 TGCTGAAGGACCCGA
*
9809616 TACTGAAGGACCCGA
1 TGCTGAAGGACCCGA
9809631 TGCTGAAGGACCCGA
1 TGCTGAAGGACCCGA
* *
9809646 TGCCGATGGACCCGA
1 TGCTGAAGGACCCGA
*
9809661 TGTTGAAGGACCCGA
1 TGCTGAAGGACCCGA
9809676 AGGTGATGAC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 65 1.00
ACGTcount: A:0.27, C:0.26, G:0.33, T:0.14
Consensus pattern (15 bp):
TGCTGAAGGACCCGA
Found at i:9813710 original size:27 final size:28
Alignment explanation
Indices: 9813666--9813746 Score: 101
Period size: 29 Copynumber: 2.9 Consensus size: 28
9813656 CACATGGCCG
* *
9813666 TGTGTCACAAACGAGCTGTCACAC-AAA
1 TGTGTCACACACGGGCTGTCACACGAAA
***
9813693 TGTGTCACACACGGGCTGTCACACGGTTG
1 TGTGTCACACACGGGCTGTCACAC-GAAA
9813722 TGTGTCACACACGGGCTGTCACACG
1 TGTGTCACACACGGGCTGTCACACG
9813747 GTCGCATGTC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
27 22 0.47
28 1 0.02
29 24 0.51
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.21
Consensus pattern (28 bp):
TGTGTCACACACGGGCTGTCACACGAAA
Found at i:9813746 original size:29 final size:29
Alignment explanation
Indices: 9813693--9813748 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
9813683 GTCACACAAA
9813693 TGTGTCACACACGGGCTGTCACACGGTTG
1 TGTGTCACACACGGGCTGTCACACGGTTG
9813722 TGTGTCACACACGGGCTGTCACACGGT
1 TGTGTCACACACGGGCTGTCACACGGT
9813749 CGCATGTCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.18, C:0.29, G:0.30, T:0.23
Consensus pattern (29 bp):
TGTGTCACACACGGGCTGTCACACGGTTG
Found at i:9813769 original size:29 final size:29
Alignment explanation
Indices: 9813695--9813761 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
9813685 CACACAAATG
* **
9813695 TGTCACACACGGGCTGTCACACGGTTGTG
1 TGTCACACACGGGCTGTCACACGGTCGCA
9813724 TGTCACACACGGGCTGTCACACGGTCGCA
1 TGTCACACACGGGCTGTCACACGGTCGCA
*
9813753 TGTCCCACA
1 TGTCACACA
9813762 TGGTCTGTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.19, C:0.33, G:0.27, T:0.21
Consensus pattern (29 bp):
TGTCACACACGGGCTGTCACACGGTCGCA
Found at i:9821543 original size:30 final size:30
Alignment explanation
Indices: 9821499--9821556 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9821489 CACAGTCTGG
*
9821499 CACATGGGCGTGTGTCCAACCCGTGTGGCT
1 CACACGGGCGTGTGTCCAACCCGTGTGGCT
* *
9821529 CACACGGGCTTGTGTCCAGCCCGTGTGG
1 CACACGGGCGTGTGTCCAACCCGTGTGG
9821557 AAATGCCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.31, G:0.34, T:0.22
Consensus pattern (30 bp):
CACACGGGCGTGTGTCCAACCCGTGTGGCT
Found at i:9823385 original size:6 final size:6
Alignment explanation
Indices: 9823376--9823443 Score: 61
Period size: 6 Copynumber: 11.3 Consensus size: 6
9823366 TAAGTCTAAG
* *
9823376 AAAATA AAAATA AAGCAACTA AAAACA AAAATA AAGATA AAAAT- AAAAT-
1 AAAATA AAAATA AA--AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
*
9823425 AAAATA AAAA-C AAAATA AA
1 AAAATA AAAATA AAAATA AA
9823444 CTTAATGATA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 14 0.27
6 29 0.57
7 2 0.04
8 2 0.04
9 4 0.08
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:9823426 original size:11 final size:11
Alignment explanation
Indices: 9823397--9823443 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
9823387 AAAGCAACTA
*
9823397 AAAACAAAAAT
1 AAAATAAAAAT
9823408 AAAGATAAAAAT
1 AAA-ATAAAAAT
9823420 AAAAT-AAAAT
1 AAAATAAAAAT
9823430 AAAA-ACAAAAT
1 AAAATA-AAAAT
9823441 AAA
1 AAA
9823444 CTTAATGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 9 0.28
11 13 0.41
12 10 0.31
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:9823651 original size:14 final size:14
Alignment explanation
Indices: 9823632--9823661 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9823622 AATATATAAT
9823632 AATAAAATAAAGAA
1 AATAAAATAAAGAA
9823646 AATAAAATAAAGAA
1 AATAAAATAAAGAA
9823660 AA
1 AA
9823662 GTGTAAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (14 bp):
AATAAAATAAAGAA
Found at i:9825251 original size:29 final size:29
Alignment explanation
Indices: 9825209--9825267 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
9825199 ATACTCATCC
9825209 TAGTTTGTTAGGGTTTCCTAAGACCTAAT
1 TAGTTTGTTAGGGTTTCCTAAGACCTAAT
9825238 TAGTTTGTTAGGGTTTCCTAAGACCTAAT
1 TAGTTTGTTAGGGTTTCCTAAGACCTAAT
9825267 T
1 T
9825268 GCTTAAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (29 bp):
TAGTTTGTTAGGGTTTCCTAAGACCTAAT
Found at i:9835469 original size:48 final size:48
Alignment explanation
Indices: 9835410--9835659 Score: 196
Period size: 48 Copynumber: 5.0 Consensus size: 48
9835400 GAGTAAAGTG
9835410 ACCCTGCTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATATA
1 ACCCTGCTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATATA
* * *
9835458 ACCCTGCTCCCAGATGA-ATAGGGGGAAGCTTATGGAAAGTAATATTATAAATAATATA
1 ACCCTGCTCCCAGA-CACAT-GGGGGAGGCTTAT-G--A--AA-A--GT-AATAATATA
* * * *
9835516 ACCCTGCTCTCAAACACATGTGGGGAGACTTATGGAAAGTAATAATATA
1 ACCCTGCTCCCAGACACATG-GGGGAGGCTTATGAAAAGTAATAATATA
** * * * ** *
9835565 GTCCTGTTCCCGGACGCATGATGGAGGCTTACGAAAAGTAATAATATA
1 ACCCTGCTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATATA
* * * * * *
9835613 ACCCTACTCTCAAACACATGGGGAAGGCTTACGAAAAGTAACAATAT
1 ACCCTGCTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATAT
9835660 TCTTGTATTT
Statistics
Matches: 155, Mismatches: 34, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
48 74 0.48
49 35 0.23
50 2 0.01
52 2 0.01
53 2 0.01
54 2 0.01
55 1 0.01
57 4 0.03
58 33 0.21
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (48 bp):
ACCCTGCTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATATA
Found at i:9835541 original size:58 final size:58
Alignment explanation
Indices: 9835449--9835564 Score: 148
Period size: 58 Copynumber: 2.0 Consensus size: 58
9835439 TATGAAAAGT
** *
9835449 AATAATATAACCCTGCTCCCAGATGAATAGGGGGA-AGCTTATGGAAAGTAATATTATA
1 AATAATATAACCCTGCTCCCAGAACAATAGGGGGAGA-CTTATGGAAAGTAATAATATA
*
9835507 AATAATATAACCCTGCTCTCA-AACACAT-GTGGGGAGACTTATGGAAAGTAATAATATA
1 AATAATATAACCCTGCTCCCAGAACA-ATAG-GGGGAGACTTATGGAAAGTAATAATATA
9835565 GTCCTGTTCC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
57 3 0.06
58 47 0.92
59 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.26
Consensus pattern (58 bp):
AATAATATAACCCTGCTCCCAGAACAATAGGGGGAGACTTATGGAAAGTAATAATATA
Found at i:9837126 original size:18 final size:18
Alignment explanation
Indices: 9837103--9837140 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9837093 ACTATCAGCG
9837103 CTAGCCCAAGCGAGAGCC
1 CTAGCCCAAGCGAGAGCC
*
9837121 CTAGCCCAAGCGGGAGCC
1 CTAGCCCAAGCGAGAGCC
9837139 CT
1 CT
9837141 GAGGAAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.39, G:0.29, T:0.08
Consensus pattern (18 bp):
CTAGCCCAAGCGAGAGCC
Found at i:9841025 original size:9 final size:9
Alignment explanation
Indices: 9841011--9841041 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9841001 GTTAAACGAA
9841011 TCGAGTTAT
1 TCGAGTTAT
*
9841020 TCGAGTTAA
1 TCGAGTTAT
9841029 TCGAGTTAT
1 TCGAGTTAT
9841038 TCGA
1 TCGA
9841042 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:9843630 original size:23 final size:23
Alignment explanation
Indices: 9843582--9843630 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
9843572 AAAGAAGCTA
* **
9843582 TTTTCTCACTGTTTTGATGTTGT
1 TTTTCTCACTGATTTGATGTCAT
*
9843605 TTTTCTCACTGATTTGTTGTCAT
1 TTTTCTCACTGATTTGATGTCAT
9843628 TTT
1 TTT
9843631 ACTATAATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.10, C:0.14, G:0.14, T:0.61
Consensus pattern (23 bp):
TTTTCTCACTGATTTGATGTCAT
Found at i:9849070 original size:20 final size:20
Alignment explanation
Indices: 9849033--9849069 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
9849023 GAAAAAATAA
9849033 GAAATATTTGGAAATTTTAG
1 GAAATATTTGGAAATTTTAG
*
9849053 GAAA-ATTTTGAAATTTT
1 GAAATATTTGGAAATTTT
9849070 TGGACTACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (20 bp):
GAAATATTTGGAAATTTTAG
Found at i:9850243 original size:21 final size:21
Alignment explanation
Indices: 9850217--9850277 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
9850207 ACACACCAAT
*
9850217 AGAAGCTCATAGGAGCTGAAC
1 AGAAGCTCATAAGAGCTGAAC
* *
9850238 AGAAGCTCATAAGTGCTTAAC
1 AGAAGCTCATAAGAGCTGAAC
*
9850259 AAAAGCTCATAAGAGCTGA
1 AGAAGCTCATAAGAGCTGA
9850278 TCCACCCGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (21 bp):
AGAAGCTCATAAGAGCTGAAC
Found at i:9853155 original size:12 final size:11
Alignment explanation
Indices: 9853123--9853156 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
9853113 GGTAAGTAAT
9853123 AATAATAAATAC
1 AATAAT-AATAC
9853135 AATAATAATGAC
1 AATAATAAT-AC
9853147 AATAATAATA
1 AATAATAATA
9853157 ATAATGCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (11 bp):
AATAATAATAC
Found at i:9853156 original size:18 final size:16
Alignment explanation
Indices: 9853119--9853162 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
9853109 ATAAGGTAAG
9853119 TAATAATAAT-AAATA
1 TAATAATAATGAAATA
*
9853134 CAATAATAATGACAATAA
1 TAATAATAATGA-AAT-A
9853152 TAATAATAATG
1 TAATAATAATG
9853163 CTAAAACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 9 0.38
16 1 0.04
17 3 0.12
18 11 0.46
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (16 bp):
TAATAATAATGAAATA
Found at i:9853790 original size:22 final size:23
Alignment explanation
Indices: 9853763--9853815 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 23
9853753 AAAATAACAA
9853763 AAAAAAAAC-AAAAAAG-AATC-
1 AAAAAAAACGAAAAAAGAAATCG
*
9853783 TAAAAAAACGAAAAAAGAAATCG
1 AAAAAAAACGAAAAAAGAAATCG
9853806 ATAAAAAAAC
1 A-AAAAAAAC
9853816 TTTTCCAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 7 0.26
22 4 0.15
24 8 0.30
ACGTcount: A:0.75, C:0.09, G:0.08, T:0.08
Consensus pattern (23 bp):
AAAAAAAACGAAAAAAGAAATCG
Found at i:9857125 original size:23 final size:23
Alignment explanation
Indices: 9857052--9857158 Score: 118
Period size: 23 Copynumber: 4.9 Consensus size: 23
9857042 CCTGATCAGT
9857052 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
9857073 A-ACGACACACGATGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
* *
9857093 ATACGGCACATAAAGTGTCTGAG
1 ATACGACACATAAAGTGCCTGAG
9857116 ATACGACACATAAAGTGCCTGATG
1 ATACGACACATAAAGTGCCTGA-G
9857140 -TACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
9857159 TATTGGCAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
20 9 0.13
21 21 0.30
23 40 0.56
24 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:9857134 original size:44 final size:42
Alignment explanation
Indices: 9857052--9857158 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 42
9857042 CCTGATCAGT
* *
9857052 ATACGACACAT-AAGTGCCTGAAACGACACACGATGTGCCTG
1 ATACGACACATAAAGTGCCTGAAACGACACACAAAGTGCCTG
* * *
9857093 ATACGGCACATAAAGTGTCTGAGATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTGA-A-ACGACACACAAAGTGCCTG
9857137 ATGTACGACACATAAAGTGCCT
1 A--TACGACACATAAAGTGCCT
9857159 TATTGGCAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
41 10 0.19
42 9 0.17
43 1 0.02
44 17 0.31
46 17 0.31
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (42 bp):
ATACGACACATAAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:9857432 original size:36 final size:37
Alignment explanation
Indices: 9857353--9857450 Score: 87
Period size: 36 Copynumber: 2.6 Consensus size: 37
9857343 CAACACATAC
* *
9857353 TTTTCAAATCCACATTTCAATTC-AATTTCACTTTTTCA
1 TTTTC-AAT-CACAATTCAATTCAAATTTCACTTTCTCA
*
9857391 CTTTCAATCACAATTCAATTCAAATTT-ACTTTC-CTA
1 TTTTCAATCACAATTCAATTCAAATTTCACTTTCTC-A
*
9857427 TTTTCAAGTCA-ATATTCATTTCAA
1 TTTTCAA-TCACA-ATTCAATTCAA
9857451 TTCCACACAT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
35 1 0.02
36 25 0.49
37 21 0.41
38 4 0.08
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTTTCAATCACAATTCAATTCAAATTTCACTTTCTCA
Found at i:9863657 original size:16 final size:16
Alignment explanation
Indices: 9863636--9863670 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9863626 AGTCCTTGTA
9863636 ATTTTA-TCACTTTAAC
1 ATTTTAGTC-CTTTAAC
9863652 ATTTTAGTCCTTTAAC
1 ATTTTAGTCCTTTAAC
9863668 ATT
1 ATT
9863671 AAAATTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTTAGTCCTTTAAC
Found at i:9867559 original size:66 final size:66
Alignment explanation
Indices: 9867479--9867611 Score: 185
Period size: 66 Copynumber: 2.0 Consensus size: 66
9867469 GAATTCTCTT
** *
9867479 TTTGCACTCTATCCTCCTTGTGCTTATAATGTCTCTTCTTACAAGTTTCTTAATAAAAAGAAAAG
1 TTTGCACTCTATCCTCCTCCTGCTTATAACGTCTCTTCTTACAAGTTTCTTAATAAAAAGAAAAG
9867544 G
66 G
* * * ** *
9867545 TTTGCACTCTATCCTCGTCCTGCTTATCACGTCTCTTTTTGGAAGTTTCTTAATAAAGAGAAAAG
1 TTTGCACTCTATCCTCCTCCTGCTTATAACGTCTCTTCTTACAAGTTTCTTAATAAAAAGAAAAG
9867610 G
66 G
9867611 T
1 T
9867612 GAGTTAATCT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.39
Consensus pattern (66 bp):
TTTGCACTCTATCCTCCTCCTGCTTATAACGTCTCTTCTTACAAGTTTCTTAATAAAAAGAAAAG
G
Found at i:9873380 original size:93 final size:93
Alignment explanation
Indices: 9873267--9873543 Score: 446
Period size: 93 Copynumber: 3.0 Consensus size: 93
9873257 TCATGGTCCA
*
9873267 CAGAAGAAATCATTTCAGAAGCAACCAGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCATA
1 CAGAAGAAATCATTTCAGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCATA
* *
9873332 AAATGTTCGGCATGAGTTGTAACATCTG
66 AAATGTTCAGCATGAGTTGTAACACCTG
* *
9873360 CAGAAGAAATCATTTGAGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGAATA
1 CAGAAGAAATCATTTCAGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCATA
9873425 AAATGTTCAGCATGAGTTGTAACACCTG
66 AAATGTTCAGCATGAGTTGTAACACCTG
* * * *
9873453 CAGAAGAAATCATTTTAGAAGCAACCTGGGCCTCAACACTGGCCTCAGTTTCTTTAGCTTGCATA
1 CAGAAGAAATCATTTCAGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCATA
** *
9873518 AAATGTTCCCCGTGAGTTGTAACACC
66 AAATGTTCAGCATGAGTTGTAACACC
9873544 ATGTAATGAC
Statistics
Matches: 171, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 171 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (93 bp):
CAGAAGAAATCATTTCAGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCATA
AAATGTTCAGCATGAGTTGTAACACCTG
Found at i:9875006 original size:81 final size:81
Alignment explanation
Indices: 9874870--9875069 Score: 215
Period size: 81 Copynumber: 2.5 Consensus size: 81
9874860 CAGAAGGATA
** * * *
9874870 AGAACTTTCGGCAACACTACCAGCATTCAAACTACCCGCAAGCCTAACAGAAGTAGAACTCACTG
1 AGAACTTGAGGCAACACTACCAGCATTAAAACTAGCTGCAAGCCTAACAGAAGTAGAACTCACTG
* *** *
9874935 CAGCACTGGAAGCTTT
66 CAACACCCAAAGCATT
* * * * *
9874951 AGAACTTGAGGCAACGCTACCAGCATTAAAACAAGCTGC-AGCACTACCAGCAGTAGAACTCATT
1 AGAACTTGAGGCAACACTACCAGCATTAAAACTAGCTGCAAGC-CTAACAGAAGTAGAACTCACT
9875015 GCAACACCCAAAGCATT
65 GCAACACCCAAAGCATT
* *
9875032 AGAACTTGTA-GCAAAACTACCAGCATTTAAACTAGCTG
1 AGAACTTG-AGGCAACACTACCAGCATTAAAACTAGCTG
9875070 TAACACCATC
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
80 3 0.03
81 94 0.96
82 1 0.01
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (81 bp):
AGAACTTGAGGCAACACTACCAGCATTAAAACTAGCTGCAAGCCTAACAGAAGTAGAACTCACTG
CAACACCCAAAGCATT
Found at i:9875211 original size:27 final size:26
Alignment explanation
Indices: 9875141--9875218 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 26
9875131 ACTCGCTACG
**
9875141 ACACCACTGGTGTTCGAACTGGCTAAA
1 ACACCACTGGTGTT-GAACTCACTAAA
* * *
9875168 GCATCACTGGTACTTGAACTCACTAAA
1 ACACCACTGGT-GTTGAACTCACTAAA
*
9875195 ACACCACTGGGTGTTGAACGCACT
1 ACACCACT-GGTGTTGAACTCACT
9875219 GCAACAATAC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
27 35 0.88
28 5 0.12
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (26 bp):
ACACCACTGGTGTTGAACTCACTAAA
Found at i:9876192 original size:29 final size:30
Alignment explanation
Indices: 9876138--9876194 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
9876128 TCAGGGAAAA
*
9876138 AAGAAAAAAAATCTACAAGATTAGAAGAAG
1 AAGAAAAAAAATCTACAAGATCAGAAGAAG
**
9876168 AAGAAAAAAAA-CTACCTGATCAGAAGA
1 AAGAAAAAAAATCTACAAGATCAGAAGA
9876195 GGCGAGGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (30 bp):
AAGAAAAAAAATCTACAAGATCAGAAGAAG
Found at i:9876330 original size:10 final size:10
Alignment explanation
Indices: 9876315--9876353 Score: 78
Period size: 10 Copynumber: 3.9 Consensus size: 10
9876305 AATTAATTAT
9876315 TATTTAATAA
1 TATTTAATAA
9876325 TATTTAATAA
1 TATTTAATAA
9876335 TATTTAATAA
1 TATTTAATAA
9876345 TATTTAATA
1 TATTTAATA
9876354 TTTAATTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TATTTAATAA
Found at i:9879396 original size:16 final size:16
Alignment explanation
Indices: 9879377--9879421 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
9879367 AATAGGGCCA
9879377 TAATGAAATAGAGATG
1 TAATGAAATAGAGATG
* *
9879393 TAATGAAATGGAGTTG
1 TAATGAAATAGAGATG
* *
9879409 TACTAAAATAGAG
1 TAATGAAATAGAG
9879422 TTATAATCAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.24, T:0.27
Consensus pattern (16 bp):
TAATGAAATAGAGATG
Found at i:9879422 original size:16 final size:16
Alignment explanation
Indices: 9879377--9879428 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
9879367 AATAGGGCCA
* *
9879377 TAATGAAATAGAGATG
1 TAATAAAATAGAGTTG
* *
9879393 TAATGAAATGGAGTTG
1 TAATAAAATAGAGTTG
* *
9879409 TACTAAAATAGAGTTA
1 TAATAAAATAGAGTTG
9879425 TAAT
1 TAAT
9879429 CAGTAATTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.46, C:0.02, G:0.21, T:0.31
Consensus pattern (16 bp):
TAATAAAATAGAGTTG
Found at i:9879670 original size:26 final size:25
Alignment explanation
Indices: 9879632--9879706 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 25
9879622 AAAAATAAAA
*
9879632 ATAAATATTTT-AATCATATTTTAAT
1 ATAAATATTTTAAAT-ATAATTTAAT
*
9879657 ATAATTATTATTAAATATAATTTAAT
1 ATAAATATT-TTAAATATAATTTAAT
*
9879683 A-AAATA--ATAATATATAATTTAAT
1 ATAAATATTTTAA-ATATAATTTAAT
9879706 A
1 A
9879707 ACATTCTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 3 0.07
23 13 0.30
25 12 0.28
26 12 0.28
27 3 0.07
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (25 bp):
ATAAATATTTTAAATATAATTTAAT
Found at i:9879721 original size:58 final size:58
Alignment explanation
Indices: 9879591--9879760 Score: 168
Period size: 60 Copynumber: 2.9 Consensus size: 58
9879581 TTATTATTAA
** * * * * * *
9879591 ATTTTAATAGGATTATTGTTAAAGATAATTAA-AAAATAAAAATAAATATTTTAATCAT
1 ATTTTAATATAATTATTATTAAATATAATTAATAAAAT-AAAATATATAATTTAATAAC
9879649 ATTTTAATATAATTATTATTAAATATAATTTAATAAAATAATAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAA-TTAATAAAATAA-AATATATAATTTAATAAC
9879709 ATTCTT-A-A-AATTATTATTAAAATATAAATTAATAAAAATAGAAATATATAAT
1 ATT-TTAATATAATTATTATT-AAATAT-AATTAAT-AAAATA-AAATATATAAT
9879761 ATTAGAAAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
58 34 0.35
59 18 0.19
60 41 0.43
61 3 0.03
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATATAATTAATAAAATAAAATATATAATTTAATAAC
Found at i:9880027 original size:69 final size:68
Alignment explanation
Indices: 9879946--9880081 Score: 245
Period size: 69 Copynumber: 2.0 Consensus size: 68
9879936 ATACATTAAC
* *
9879946 AAAAAGTTACATGATCTCGTTAGCTTATATGCCATAATCTATATGTTAAATTTTATAGCATCAAA
1 AAAAAGTTACATGATCTCATTAGCTTATATGCCATAATCTATATGTTAAATTTTACAGCAT-AAA
9880011 AAAT
65 AAAT
9880015 AAAAAGTTACATGATCTCATTAGCTTATATGCCATAATCTATATGTTAAATTTTACAGCATAAAA
1 AAAAAGTTACATGATCTCATTAGCTTATATGCCATAATCTATATGTTAAATTTTACAGCATAAAA
9880080 AA
66 AA
9880082 GTTATAACAG
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
68 6 0.09
69 59 0.91
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (68 bp):
AAAAAGTTACATGATCTCATTAGCTTATATGCCATAATCTATATGTTAAATTTTACAGCATAAAA
AAT
Found at i:9899142 original size:18 final size:19
Alignment explanation
Indices: 9899111--9899147 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9899101 TTCAAAAGAA
9899111 AATTCGAGTTAACTCGATT
1 AATTCGAGTTAACTCGATT
*
9899130 AATTCGA-TTAACTTGATT
1 AATTCGAGTTAACTCGATT
9899148 TGAATAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (19 bp):
AATTCGAGTTAACTCGATT
Found at i:9904967 original size:26 final size:26
Alignment explanation
Indices: 9904942--9904996 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
9904932 ATTATCAATA
9904942 ATAAATATT-TT-AATCATATTTAAAT
1 ATAAATATTCTTAAAT-ATATTTAAAT
* *
9904967 ATAATTATTCTTAAATATATTTTAAT
1 ATAAATATTCTTAAATATATTTAAAT
9904993 -TAAA
1 ATAAA
9904997 ATATATAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
25 11 0.44
26 11 0.44
27 3 0.12
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (26 bp):
ATAAATATTCTTAAATATATTTAAAT
Found at i:9905002 original size:18 final size:17
Alignment explanation
Indices: 9904981--9905015 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9904971 TTATTCTTAA
*
9904981 ATATATTTTAATTAAAAT
1 ATATAGTTTAA-TAAAAT
9904999 ATATAGTTTAATAAAAT
1 ATATAGTTTAATAAAAT
9905016 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
ATATAGTTTAATAAAAT
Found at i:9905069 original size:157 final size:157
Alignment explanation
Indices: 9904868--9905184 Score: 544
Period size: 157 Copynumber: 2.0 Consensus size: 157
9904858 TAGAATACCC
* * *
9904868 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* * * * *
9904933 TTATCAATAATAAATATTTTAATCATATTTAAATATAATTATTCTTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
*
9904998 TATATAGTTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
9905025 TTAGCAGAAATTTGTTTTGATAAATTATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
9905090 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
9905155 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
9905182 TTA
1 TTA
9905185 ATATTCTTAT
Statistics
Matches: 150, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 150 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:9905145 original size:82 final size:82
Alignment explanation
Indices: 9904902--9905155 Score: 213
Period size: 79 Copynumber: 3.2 Consensus size: 82
9904892 TGATTATTGT
* * *
9904902 TATTGTTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAAT
1 TATTATTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAT
*
9904967 ATAATTATTCTTAAATA
66 ATAATTATTATTAAATA
* * * * * * * * ** * * *
9904984 TATT-TTAATTAAAATAT-AT-AGTTTAATAAAATTC-TTAATAATTAGCA-GAAAT-TTGTTTT
1 TATTATTATTTAAATTTTAATAAGATTATTAATA-TCAATAATAAATA--ATTTAATCATATTTA
* *
9905043 GATA-AATTATTATT--GT-
63 AATATAATTATTATTAAATA
*
9905059 TATTATTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAC
1 TATTATTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAT
9905124 ATAATTATTATTAAATA
66 ATAATTATTATTAAATA
* *
9905141 TATTATAATTAAAAT
1 TATTATTATTTAAAT
9905156 ATATAATTTA
Statistics
Matches: 123, Mismatches: 36, Indels: 26
0.66 0.19 0.14
Matches are distributed among these distances:
75 4 0.03
76 12 0.10
77 7 0.06
78 32 0.26
79 33 0.27
80 7 0.06
81 11 0.09
82 17 0.14
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (82 bp):
TATTATTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAT
ATAATTATTATTAAATA
Found at i:9905155 original size:16 final size:16
Alignment explanation
Indices: 9905118--9905159 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9905108 TTAATCATAT
*
9905118 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
9905134 TT-AAATATATTATAA
1 TTAAAATATATTATAA
9905149 TTAAAATATAT
1 TTAAAATATAT
9905160 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:9905166 original size:14 final size:15
Alignment explanation
Indices: 9905127--9905288 Score: 58
Period size: 15 Copynumber: 10.9 Consensus size: 15
9905117 TTTAAACATA
*
9905127 ATTATTATTAAATAT
1 ATTATAATTAAATAT
9905142 ATTATAATTAAAATAT
1 ATTATAATT-AAATAT
* *
9905158 ATAATTTAATAAAAT-T
1 AT--TATAATTAAATAT
*
9905174 CTTAATAATT-AATATT
1 ATT-ATAATTAAATA-T
* * *
9905190 CTTAT-A-TGAATTT
1 ATTATAATTAAATAT
*
9905203 ACTCA-AATTATAATAT
1 A-TTATAATTA-AATAT
* *
9905219 ATGATACTGTAAA-AT
1 ATTATAAT-TAAATAT
9905234 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
9905247 ATTATTATTAAATAT
1 ATTATAATTAAATAT
9905262 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
9905276 A-TATAATTTAATA
1 ATTATAATTAAATA
9905289 AAATTCTTAA
Statistics
Matches: 110, Mismatches: 18, Indels: 39
0.66 0.11 0.23
Matches are distributed among these distances:
12 3 0.03
13 15 0.14
14 22 0.20
15 36 0.33
16 23 0.21
17 6 0.05
18 5 0.05
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:9905218 original size:61 final size:61
Alignment explanation
Indices: 9905147--9905340 Score: 195
Period size: 61 Copynumber: 3.2 Consensus size: 61
9905137 AATATATTAT
9905147 AATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
1 AATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
* * * * * * * * *
9905208 AATTATAATATATGATACT-GTAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTA
1 AATTAAAATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA
9905266 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
1 -AATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
* *
9905328 AATCATAATATAT
1 AATTAAAATATAT
9905341 GATACTATAA
Statistics
Matches: 101, Mismatches: 20, Indels: 24
0.70 0.14 0.17
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 28 0.28
60 16 0.16
61 39 0.39
62 5 0.05
63 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
Found at i:9905251 original size:120 final size:121
Alignment explanation
Indices: 9905116--9905413 Score: 496
Period size: 120 Copynumber: 2.5 Consensus size: 121
9905106 ATTTAATCAT
*
9905116 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
9905181 ATTAATATTCTTATATGAATTTACTCAAATTATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
9905238 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
9905301 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
* * *
9905357 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
9905414 TAAAATAATT
Statistics
Matches: 168, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
119 7 0.04
120 156 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
Found at i:9905500 original size:24 final size:25
Alignment explanation
Indices: 9905454--9905501 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
9905444 TATGAATTTG
9905454 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
9905480 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
9905502 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:9905505 original size:92 final size:92
Alignment explanation
Indices: 9905409--9905637 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
9905399 TGATTTAATA
* * *
9905409 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
9905471 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
9905501 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
9905566 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
9905591 ATAATTTCATAAAATTCTTAATAATAAAATGT-TTTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
9905638 CTAAAATCAA
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 80 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:9908693 original size:33 final size:33
Alignment explanation
Indices: 9908654--9908729 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
9908644 ATTATAAAGC
*
9908654 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
9908687 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
9908720 ATGTATAATT
1 ATGTATAATT
9908730 CAAGTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:9908827 original size:37 final size:37
Alignment explanation
Indices: 9908772--9908858 Score: 147
Period size: 37 Copynumber: 2.4 Consensus size: 37
9908762 GTATAAATAT
* * *
9908772 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAAC
1 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
9908809 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
9908846 ATTGATTAGTTTA
1 ATTGATTAGTTTA
9908859 TTTATTTATG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (37 bp):
ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
Found at i:9912062 original size:7 final size:7
Alignment explanation
Indices: 9912050--9912090 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
9912040 GAAAAAGAAA
9912050 AGAAGGT
1 AGAAGGT
9912057 AGAAGGT
1 AGAAGGT
9912064 AGAAGGT
1 AGAAGGT
9912071 AGAAGGT
1 AGAAGGT
9912078 AGAAGGT
1 AGAAGGT
9912085 AGAAGG
1 AGAAGG
9912091 AAATCGGTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (7 bp):
AGAAGGT
Found at i:9914646 original size:19 final size:19
Alignment explanation
Indices: 9914622--9914659 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9914612 GGTAAGAGTA
9914622 TAAGTAGTGTAAAGATGTG
1 TAAGTAGTGTAAAGATGTG
9914641 TAAGTAGTGTAAAGATGTG
1 TAAGTAGTGTAAAGATGTG
9914660 AGATGTGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.32
Consensus pattern (19 bp):
TAAGTAGTGTAAAGATGTG
Found at i:9915180 original size:15 final size:18
Alignment explanation
Indices: 9915147--9915184 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
9915137 AGAAAAATGC
9915147 TTAATAAAATATGATTAT
1 TTAATAAAATATGATTAT
9915165 TTAA-AAAA-ATGA-TAT
1 TTAATAAAATATGATTAT
9915180 TTAAT
1 TTAAT
9915185 CGTAATATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.37
16 4 0.21
17 4 0.21
18 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TTAATAAAATATGATTAT
Found at i:9915845 original size:20 final size:20
Alignment explanation
Indices: 9915822--9915932 Score: 64
Period size: 20 Copynumber: 5.5 Consensus size: 20
9915812 GGTCGAGCCA
9915822 CCAGTAATGCAAATAAACTG
1 CCAGTAATGCAAATAAACTG
* * **
9915842 CCAGTAGTGTAGAA-AAGTTG
1 CCAGTAATGCA-AATAAACTG
* * *
9915862 CCAGTATTGTAGATAAACTG
1 CCAGTAATGCAAATAAACTG
*** * * *
9915882 CCAGTAATG-TGGTCAAGTCA
1 CCAGTAATGCAAATAAACT-G
*
9915902 CCAGTGATGCAAATAAACTG
1 CCAGTAATGCAAATAAACTG
9915922 CCAGTAATGCA
1 CCAGTAATGCA
9915933 GACAATGCTA
Statistics
Matches: 65, Mismatches: 22, Indels: 8
0.68 0.23 0.08
Matches are distributed among these distances:
19 6 0.09
20 53 0.82
21 6 0.09
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (20 bp):
CCAGTAATGCAAATAAACTG
Found at i:9915866 original size:40 final size:40
Alignment explanation
Indices: 9915820--9915930 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 40
9915810 GTGGTCGAGC
*
9915820 CACCAGTAATGCAAATAAACTGCCAGTAGTGTAGAAAAGT
1 CACCAGTAATGCAAATAAACTGCCAGTAATGTAGAAAAGT
** * * * * **
9915860 TGCCAGTATTGTAGATAAACTGCCAGTAATGTGGTCAAGT
1 CACCAGTAATGCAAATAAACTGCCAGTAATGTAGAAAAGT
*
9915900 CACCAGTGATGCAAATAAACTGCCAGTAATG
1 CACCAGTAATGCAAATAAACTGCCAGTAATG
9915931 CAGACAATGC
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGTAATGCAAATAAACTGCCAGTAATGTAGAAAAGT
Found at i:9918651 original size:31 final size:31
Alignment explanation
Indices: 9918581--9919061 Score: 539
Period size: 31 Copynumber: 15.7 Consensus size: 31
9918571 GTATATGTTT
* * * * *
9918581 TATACATTTCCAAATTTGATTTTTTTATAGATA
1 TATACATTGCCGAATTTGATTTGTATAT-G-GA
** * * *
9918614 TATACATTTTCGAAATTGATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
9918645 TATACATTGCCGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
9918676 TATACATTGTCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
9918707 TATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
9918738 TATACATTGTCGAATTTGATTTGTATAGGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
9918769 TATACATTGCCGAA--T--TTT-TATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
9918795 TATACATTGTCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
9918825 TATAAATTGCTGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
9918856 TATACATTGTCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* **
9918887 TATACGTTGCCGAA-TTGATTTGTATATATA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
9918917 TATACATTTCTGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
9918948 TATACATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
9918979 TATTCATTGCCGAA-TTGATTTGTATGTAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
9919009 TATACATTGCCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
9919040 TATATATTGCTGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
9919062 AGCATTGGAT
Statistics
Matches: 386, Mismatches: 55, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
26 18 0.05
27 4 0.01
29 4 0.01
30 78 0.20
31 258 0.67
33 24 0.06
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATGGA
Found at i:9918914 original size:92 final size:92
Alignment explanation
Indices: 9918570--9919061 Score: 584
Period size: 92 Copynumber: 5.4 Consensus size: 92
9918560 TGAATTTAAA
* * * * * * **
9918570 TGTATATGTTTTATACATTTCCAAATTTGATTTTTTTATAGATATATACATTTTCGAAATTGATT
1 TGTATATG-GTTATACATTGCCGAATTTGATTTGTATAT-G-GATATACATTGCCG-AATTGATT
* * *
9918635 TGTTTATAGATATACATTGCCGAATTTGAAT
62 TGTATATAGATATACATTGCTGAATTTGATT
* * * * *
9918666 TGTTTATAGATATACATTGTCGAATTTGATTTGTATATGGTTATACATTGCCGAATTTGATTTGT
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAA-TTGATTTGT
* *
9918731 ATATGGTTATACATTG-TCGAATTTGATT
65 ATATAGATATACATTGCT-GAATTTGATT
* * *
9918759 TGTATAGGGTTATACATTGCCGAA--T--TTT-TATATAGATATACATTGTCGAATTGATTTGTA
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTA
*
9918819 TATAGATATAAATTGCTGAATTTGATT
66 TATAGATATACATTGCTGAATTTGATT
* *
9918846 TGTATATGGTTATACATTGTCGAATTTGATTTGTATATGGATATACGTTGCCGAATTGATTTGTA
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTA
* *
9918911 TATATATATACATTTCTGAATTTGATT
66 TATAGATATACATTGCTGAATTTGATT
*
9918938 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATTCATTGCCGAATTGATTTGTA
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTA
* *
9919003 TGTAGATATACATTGCCGAATTTGATT
66 TATAGATATACATTGCTGAATTTGATT
* * * *
9919030 CGTATATGGATATATATTGCTGAA-TTGATTTG
1 TGTATATGGTTATACATTGCCGAATTTGATTTG
9919062 AGCATTGGAT
Statistics
Matches: 340, Mismatches: 48, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
87 54 0.16
88 20 0.06
89 4 0.01
91 12 0.04
92 160 0.47
93 60 0.18
94 1 0.00
95 23 0.07
96 6 0.02
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (92 bp):
TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTA
TATAGATATACATTGCTGAATTTGATT
Found at i:9919978 original size:10 final size:10
Alignment explanation
Indices: 9919963--9919991 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
9919953 TGTGATAAAT
9919963 GACTGTGTTA
1 GACTGTGTTA
9919973 GACTGTGTTA
1 GACTGTGTTA
9919983 GACTGTGTT
1 GACTGTGTT
9919992 GAGTTAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.10, G:0.31, T:0.41
Consensus pattern (10 bp):
GACTGTGTTA
Found at i:9923934 original size:5 final size:5
Alignment explanation
Indices: 9923926--9923957 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
9923916 AATACATTGG
9923926 TAAAA TAAAA TAAAA TAAAA TAAAA GTAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA -TAAAA T
9923958 CCTTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:9926487 original size:43 final size:43
Alignment explanation
Indices: 9926316--9926487 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 43
9926306 ATAGGATTTC
* * *
9926316 CGATATGTGTTTTCGTGTAAGACCACATCTAGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
* * * * * * *
9926359 CAATTTGTGTTTACGTGTAAGACCATGTCTGGGACATTGTCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
* * *
9926402 CG-TATTTGATT-TGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATGTGATTACGTGTAAGACCAC-GTCTAGGAC-GTTGGCAT
*
9926443 CGATATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
9926486 CG
1 CG
9926488 TACGAGCCTT
Statistics
Matches: 103, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 26 0.25
42 15 0.15
43 61 0.59
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
Found at i:9935804 original size:14 final size:15
Alignment explanation
Indices: 9935779--9935807 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9935769 CATGGTAGAT
9935779 GGTACTATATTGATC
1 GGTACTATATTGATC
9935794 GGTAC-ATATTGATC
1 GGTACTATATTGATC
9935808 TGTTCCTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (15 bp):
GGTACTATATTGATC
Found at i:9945755 original size:215 final size:215
Alignment explanation
Indices: 9945384--9945818 Score: 791
Period size: 215 Copynumber: 2.0 Consensus size: 215
9945374 TTTGGATATG
* * *
9945384 ATAGTAAAATTTTGAGCTTATAAGGTTATATAATGGCATGTTATTATAGAGTAATTAGTGTATAT
1 ATAGTAAAATTTTGAACTTATAAGGTTATATAATGACATGTAATTATAGAGTAATTAGTGTATAT
*
9945449 ATATGGTCCAATTGGGAGATAGTTGGAAAGTATGGACATCACATATATAATAAGGGTAATTACAT
66 ATATGGTCCAAGTGGGAGATAGTTGGAAAGTATGGACATCACATATATAATAAGGGTAATTACAT
*
9945514 GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGGTTAAGGTTTAT
131 GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGATTAAGGTTTAT
* *
9945579 TGGGCTTTATTTTTTAAATA
196 TGGGCTTTAATTATTAAATA
9945599 ATAGTAAAATTTTGAACTTATAAGGTTATATAATGACATGTAATTATAGAGTAATTAGTGTATAT
1 ATAGTAAAATTTTGAACTTATAAGGTTATATAATGACATGTAATTATAGAGTAATTAGTGTATAT
*
9945664 ATATGGTCCAAGTGGGAGATTGTTGGAAAGTATGGACATCACATATATAATAAGGGTAATTACAT
66 ATATGGTCCAAGTGGGAGATAGTTGGAAAGTATGGACATCACATATATAATAAGGGTAATTACAT
9945729 GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGATTAAGGTTTAT
131 GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGATTAAGGTTTAT
9945794 TGGGCTTTAATTATTAAATA
196 TGGGCTTTAATTATTAAATA
9945814 A-AGTA
1 ATAGTA
9945819 TGGGTCAAAT
Statistics
Matches: 212, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
214 4 0.02
215 208 0.98
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (215 bp):
ATAGTAAAATTTTGAACTTATAAGGTTATATAATGACATGTAATTATAGAGTAATTAGTGTATAT
ATATGGTCCAAGTGGGAGATAGTTGGAAAGTATGGACATCACATATATAATAAGGGTAATTACAT
GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGATTAAGGTTTAT
TGGGCTTTAATTATTAAATA
Found at i:9955045 original size:129 final size:129
Alignment explanation
Indices: 9954815--9955075 Score: 441
Period size: 129 Copynumber: 2.0 Consensus size: 129
9954805 CGTCGGGACT
*
9954815 GAGCCACAGAATGATACAGTAGAAAACAGAACACTTATAGACTTTTAACGGATAATTCGAATCGA
1 GAGCCACAGAATGATACAGTACAAAACAGAACACTTATAGACTTTTAACGGATAATTCGAATCGA
* *
9954880 AAATAATTAACTATCATAATACGAATCACATATAACAAATTTAAACCTTTATCGAGCTTAATAC
66 AAATAATTAACTATCATAATACGAATCACACATAACAAATTTAAACCTTTATCGAGCTTAACAC
* * * * *
9954944 GAGCCATATAATGCTACAGTACAAAACATAACACTTATAGACTTTTAACGGATAATTTGAATCGA
1 GAGCCACAGAATGATACAGTACAAAACAGAACACTTATAGACTTTTAACGGATAATTCGAATCGA
*
9955009 AAATAATTAACTATCATAATATGAATCACACATAACAAATTTAAACCTTTATCGAGCTTAACAC
66 AAATAATTAACTATCATAATACGAATCACACATAACAAATTTAAACCTTTATCGAGCTTAACAC
9955073 GAG
1 GAG
9955076 TTTACGTGAG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 123 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.27
Consensus pattern (129 bp):
GAGCCACAGAATGATACAGTACAAAACAGAACACTTATAGACTTTTAACGGATAATTCGAATCGA
AAATAATTAACTATCATAATACGAATCACACATAACAAATTTAAACCTTTATCGAGCTTAACAC
Found at i:9961729 original size:13 final size:13
Alignment explanation
Indices: 9961713--9961757 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
9961703 TTTTTATTTT
9961713 TATTTTAAATATA
1 TATTTTAAATATA
* *
9961726 TATTTTTAAGACT-
1 TATTTTAAATA-TA
9961739 TATTTTAAATATA
1 TATTTTAAATATA
9961752 TATTTT
1 TATTTT
9961758 TAAGACTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (13 bp):
TATTTTAAATATA
Found at i:9961741 original size:26 final size:26
Alignment explanation
Indices: 9961712--9961771 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
9961702 TTTTTTATTT
9961712 TTATTTTAAATATATATTTTTAAGAC
1 TTATTTTAAATATATATTTTTAAGAC
9961738 TTATTTTAAATATATATTTTTAAGAC
1 TTATTTTAAATATATATTTTTAAGAC
9961764 TTATTTTA
1 TTATTTTA
9961772 TTTTTGGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (26 bp):
TTATTTTAAATATATATTTTTAAGAC
Found at i:9961768 original size:13 final size:13
Alignment explanation
Indices: 9961726--9961770 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
9961716 TTTAAATATA
9961726 TATTTTTAAGACT
1 TATTTTTAAGACT
* *
9961739 TATTTTAAATA-T
1 TATTTTTAAGACT
9961751 ATATTTTTAAGACT
1 -TATTTTTAAGACT
9961765 TATTTT
1 TATTTT
9961771 ATTTTTGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (13 bp):
TATTTTTAAGACT
Found at i:9975390 original size:25 final size:26
Alignment explanation
Indices: 9975362--9975479 Score: 86
Period size: 25 Copynumber: 4.7 Consensus size: 26
9975352 AAATCCTCTA
9975362 GAAAGCCTTTGTGG-AAAATACTTTG
1 GAAAGCCTTTGTGGCAAAATACTTTG
* * *
9975387 GAAATCCTTTATGGCAAACAAAC--TG
1 GAAAGCCTTTGTGGCAAA-ATACTTTG
* ** *
9975412 GAAAGCTTTTGTGG-TGAATACTTTA
1 GAAAGCCTTTGTGGCAAAATACTTTG
* * *
9975437 GAGTA-CCTTTGTGGCGAAAT-CTCTG
1 GA-AAGCCTTTGTGGCAAAATACTTTG
9975462 GAAAGCCTTTGTGGCAAA
1 GAAAGCCTTTGTGGCAAA
9975480 CTCTTTCTCT
Statistics
Matches: 68, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
23 3 0.04
24 2 0.03
25 53 0.78
26 7 0.10
27 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (26 bp):
GAAAGCCTTTGTGGCAAAATACTTTG
Found at i:9983269 original size:27 final size:27
Alignment explanation
Indices: 9983226--9983291 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
9983216 TAATCCGCCT
9983226 AATTAAA-TAAAAGAACAT-AAATTAA
1 AATTAAATTAAAAGAACATAAAATTAA
**
9983251 GAATTAAATTAAATTAACATAAAATTAA
1 -AATTAAATTAAAAGAACATAAAATTAA
9983279 AGA-TAAATTAAAA
1 A-ATTAAATTAAAA
9983292 TCAAACAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 7 0.21
27 19 0.56
28 8 0.24
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (27 bp):
AATTAAATTAAAAGAACATAAAATTAA
Found at i:9987752 original size:16 final size:16
Alignment explanation
Indices: 9987731--9987766 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
9987721 TTTGGTTTGC
*
9987731 TGTATTGGATTAGAGG
1 TGTATTGAATTAGAGG
9987747 TGTATTGAATTAGAGG
1 TGTATTGAATTAGAGG
9987763 TGTA
1 TGTA
9987767 ATAGCTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGAATTAGAGG
Found at i:9988019 original size:16 final size:16
Alignment explanation
Indices: 9987982--9988036 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
9987972 TTAATCATAT
*
9987982 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
9987998 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
9988013 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
9988031 -TAAAAT
1 TTAAAAT
9988037 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:9988029 original size:18 final size:18
Alignment explanation
Indices: 9987988--9988036 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
9987978 ATATTTAAAC
9987988 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
9988006 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
9988022 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
9988037 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:9988179 original size:156 final size:157
Alignment explanation
Indices: 9987889--9988203 Score: 506
Period size: 156 Copynumber: 2.0 Consensus size: 157
9987879 TAGAATACCC
* * *
9987889 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * * *
9987954 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATAATTAAATACATTATAATTAAAA
9988019 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
9988045 TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* ****
9988110 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATACATTATAATTTTGG
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATAATTAAATACATTATAATTAAAA
9988175 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
9988202 TT
1 TT
9988204 CATATTCTTA
Statistics
Matches: 145, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
156 139 0.96
157 6 0.04
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATAATTAAATACATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:9994437 original size:17 final size:17
Alignment explanation
Indices: 9994415--9994449 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9994405 AACAAAGAAA
9994415 GAAAGGAGAAGAATTTG
1 GAAAGGAGAAGAATTTG
9994432 GAAAGGAGAAGAATTTG
1 GAAAGGAGAAGAATTTG
9994449 G
1 G
9994450 GGCTTCTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.37, T:0.17
Consensus pattern (17 bp):
GAAAGGAGAAGAATTTG
Found at i:9994489 original size:79 final size:79
Alignment explanation
Indices: 9994353--9994511 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
9994343 AAAAAAGAAA
* *
9994353 GAAATGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCGGTATGTTACAGAAAACAAAGAAAGAA
1 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAAGAA
9994418 AGGAGAAGAATTTG
66 AGGAGAAGAATTTG
9994432 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAAGAA
1 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAAGAA
9994497 AGGAGAAGAATTTG
66 AGGAGAAGAATTTG
9994511 G
1 G
9994512 GGCTTCTGGG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.42, C:0.08, G:0.28, T:0.22
Consensus pattern (79 bp):
GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAAGAA
AGGAGAAGAATTTG
Found at i:9994503 original size:62 final size:62
Alignment explanation
Indices: 9994432--9994559 Score: 247
Period size: 62 Copynumber: 2.1 Consensus size: 62
9994422 GAAGAATTTG
9994432 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAA
1 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAA
*
9994494 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCGGTATGTTACAGAAAACAAAGAAA
1 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAA
9994556 GAAA
1 GAAA
9994560 AATAGAAGCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.42, C:0.09, G:0.27, T:0.22
Consensus pattern (62 bp):
GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAA
Found at i:9997586 original size:16 final size:16
Alignment explanation
Indices: 9997567--9997601 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
9997557 TTTATTCTTC
*
9997567 ATTTATTATATTTTGT
1 ATTTATTATATTTTAT
9997583 ATTTATTATATTTTAT
1 ATTTATTATATTTTAT
9997599 ATT
1 ATT
9997602 ATAATTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
ATTTATTATATTTTAT
Found at i:9999936 original size:21 final size:21
Alignment explanation
Indices: 9999912--9999952 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
9999902 CCCTCTACAC
9999912 GGGTGTGTGTAGCCTTCACAT
1 GGGTGTGTGTAGCCTTCACAT
*
9999933 GGGTGTGTGTGGCCTTCACA
1 GGGTGTGTGTAGCCTTCACA
9999953 GTGACGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.20, G:0.37, T:0.32
Consensus pattern (21 bp):
GGGTGTGTGTAGCCTTCACAT
Found at i:9999961 original size:23 final size:21
Alignment explanation
Indices: 9999914--9999961 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
9999904 CTCTACACGG
*
9999914 GTGTGTGTAGCCTTCACATGG
1 GTGTGTGTAGCCTTCACATGC
*
9999935 GTGTGTGTGGCCTTCACAGTGAC
1 GTGTGTGTAGCCTTCACA-TG-C
9999958 GTGT
1 GTGT
9999962 AGACCCCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.74
22 2 0.09
23 4 0.17
ACGTcount: A:0.12, C:0.19, G:0.35, T:0.33
Consensus pattern (21 bp):
GTGTGTGTAGCCTTCACATGC
Found at i:10001812 original size:16 final size:16
Alignment explanation
Indices: 10001778--10001812 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10001768 TTTATTCTTC
*
10001778 ATTTATTATATTCTGT
1 ATTTATTATATTCTAT
*
10001794 ATTTATTATATTTTAT
1 ATTTATTATATTCTAT
10001810 ATT
1 ATT
10001813 ATAATTGGTT
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:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (16 bp):
ATTTATTATATTCTAT
Found at i:10004064 original size:20 final size:21
Alignment explanation
Indices: 10004020--10004064 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
10004010 CCCTCTACAC
*
10004020 GGGTGTGTGTAGCCTTCACAT
1 GGGTATGTGTAGCCTTCACAT
*
10004041 GGGTATGTGTGGCCTTCA-AT
1 GGGTATGTGTAGCCTTCACAT
10004061 GGGT
1 GGGT
10004065 TTGTAGACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.13, C:0.16, G:0.38, T:0.33
Consensus pattern (21 bp):
GGGTATGTGTAGCCTTCACAT
Found at i:10011695 original size:20 final size:21
Alignment explanation
Indices: 10011660--10011701 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
10011650 CTACAACTAG
*
10011660 TAGTTGCAGAAAAAATGTCAT
1 TAGTTACAGAAAAAATGTCAT
10011681 TAGTTACAG-AAAAATGTCAT
1 TAGTTACAGAAAAAATGTCAT
10011701 T
1 T
10011702 CTTTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (21 bp):
TAGTTACAGAAAAAATGTCAT
Found at i:10015130 original size:26 final size:26
Alignment explanation
Indices: 10015095--10015181 Score: 83
Period size: 26 Copynumber: 3.4 Consensus size: 26
10015085 AACTTGATTC
10015095 AAATTATCCTTCAAGTTACATTTCAA
1 AAATTATCCTTCAAGTTACATTTCAA
* * **
10015121 AAATTTTCCTTTC---TCT-CTTTTGTA
1 AAATTATCC-TTCAAGT-TACATTTCAA
10015145 AAATTATCCTTCAAGTTACATTTCAA
1 AAATTATCCTTCAAGTTACATTTCAA
*
10015171 AAATTTTCCTT
1 AAATTATCCTT
10015182 TCTCTCTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
23 3 0.07
24 14 0.30
25 2 0.04
26 24 0.52
27 3 0.07
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (26 bp):
AAATTATCCTTCAAGTTACATTTCAA
Found at i:10015149 original size:50 final size:50
Alignment explanation
Indices: 10015095--10015198 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
10015085 AACTTGATTC
10015095 AAATTATCCTTCAAGTTACATTTCAAAAATTTTCCTTTCTCTCTTTTGTA
1 AAATTATCCTTCAAGTTACATTTCAAAAATTTTCCTTTCTCTCTTTTGTA
10015145 AAATTATCCTTCAAGTTACATTTCAAAAATTTTCCTTTCTCTCTTTTGTA
1 AAATTATCCTTCAAGTTACATTTCAAAAATTTTCCTTTCTCTCTTTTGTA
10015195 AAAT
1 AAAT
10015199 CTTTCTTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (50 bp):
AAATTATCCTTCAAGTTACATTTCAAAAATTTTCCTTTCTCTCTTTTGTA
Found at i:10015154 original size:24 final size:24
Alignment explanation
Indices: 10015120--10015203 Score: 73
Period size: 24 Copynumber: 3.4 Consensus size: 24
10015110 TTACATTTCA
10015120 AAAATTTTCCTTTCTCTCTTTTGT
1 AAAATTTTCCTTTCTCTCTTTTGT
* * **
10015144 AAAATTATCC-TTCAAGT-TACATTTCA
1 AAAATTTTCCTTTC---TCT-CTTTTGT
10015170 AAAATTTTCCTTTCTCTCTTTTGT
1 AAAATTTTCCTTTCTCTCTTTTGT
10015194 AAAATCTTTC
1 AAAAT-TTTC
10015204 TTTTATTACT
Statistics
Matches: 45, Mismatches: 8, Indels: 13
0.68 0.12 0.20
Matches are distributed among these distances:
23 3 0.07
24 19 0.42
25 6 0.13
26 14 0.31
27 3 0.07
ACGTcount: A:0.26, C:0.20, G:0.04, T:0.50
Consensus pattern (24 bp):
AAAATTTTCCTTTCTCTCTTTTGT
Found at i:10015385 original size:15 final size:16
Alignment explanation
Indices: 10015365--10015394 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10015355 TGGGAAAGTC
10015365 AAAATTA-TTTATTTT
1 AAAATTATTTTATTTT
10015380 AAAATTATTTTATTT
1 AAAATTATTTTATTT
10015395 AAATTCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AAAATTATTTTATTTT
Found at i:10016042 original size:22 final size:22
Alignment explanation
Indices: 10016017--10016066 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
10016007 TTATTAATTA
10016017 TATTTGGGAAATTTAGAA-AATC
1 TATTTGGGAAATTTA-AAGAATC
* *
10016039 TATTTGTGAACTTTAAAGAATC
1 TATTTGGGAAATTTAAAGAATC
10016061 TATTTG
1 TATTTG
10016067 ATGATGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (22 bp):
TATTTGGGAAATTTAAAGAATC
Found at i:10016621 original size:40 final size:40
Alignment explanation
Indices: 10016509--10016626 Score: 139
Period size: 40 Copynumber: 3.0 Consensus size: 40
10016499 TCTGTAAGCG
* * * * * *
10016509 ATCTTTTGCGGACCCTTGAATGACTTTGTCTGTAGATGCG
1 ATCTTTTGCGAACCTTTGAATGATTTTGTCTATAAATGCA
* *
10016549 ATCTTTTGCGAA-CTCTTGAATGATTTTATCTATAAATGTA
1 ATCTTTTGCGAACCT-TTGAATGATTTTGTCTATAAATGCA
*
10016589 ATTTTTTGCGAACCTTTGAATGATTTTGTCTATAAATG
1 ATCTTTTGCGAACCTTTGAATGATTTTGTCTATAAATG
10016627 ATCTGTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 1 0.02
40 63 0.95
41 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (40 bp):
ATCTTTTGCGAACCTTTGAATGATTTTGTCTATAAATGCA
Found at i:10018206 original size:28 final size:30
Alignment explanation
Indices: 10018162--10018220 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 30
10018152 GTGAAATATT
10018162 TTTTTAAATTTGATTAAA-ATAT-TTTTAA
1 TTTTTAAATTTGATTAAAGATATATTTTAA
*
10018190 TTTTTAATTTTTG-TTAAAGATATATTTTAA
1 TTTTTAA-ATTTGATTAAAGATATATTTTAA
10018220 T
1 T
10018221 ATTAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 12 0.44
29 8 0.30
30 7 0.26
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (30 bp):
TTTTTAAATTTGATTAAAGATATATTTTAA
Found at i:10018225 original size:29 final size:29
Alignment explanation
Indices: 10018170--10018225 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
10018160 TTTTTTTAAA
*
10018170 TTTGATTAAAATATTTTTAATTTTTAATT
1 TTTGATTAAAATATTTTTAATTATTAATT
10018199 TTTG-TTAAAGATATATTTTAA-TATTAA
1 TTTGATTAAA-ATAT-TTTTAATTATTAA
10018226 AATATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 5 0.21
29 13 0.54
30 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (29 bp):
TTTGATTAAAATATTTTTAATTATTAATT
Found at i:10021797 original size:43 final size:43
Alignment explanation
Indices: 10021748--10021859 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
10021738 TGTTTTCGTT
**
10021748 TAAGACCACGTCTGGGACATTGGCATCGACTTGTGTTTACGA-G
1 TAAGACCACGTCTGGGACATTGGCATCGACTTGTGAATAC-ATG
* *
10021791 TAAGACC-CTGTCTGGGACAGTGGCATCGATTTGTGAATACATG
1 TAAGACCAC-GTCTGGGACATTGGCATCGACTTGTGAATACATG
* *
10021834 CAAGACCACGTCTGGGACGTTGGCAT
1 TAAGACCACGTCTGGGACATTGGCAT
10021860 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.03
43 56 0.95
44 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACATTGGCATCGACTTGTGAATACATG
Found at i:10025349 original size:67 final size:68
Alignment explanation
Indices: 10025290--10025418 Score: 190
Period size: 67 Copynumber: 1.9 Consensus size: 68
10025280 TTTAATGTTT
*
10025290 TGGCGAACTCCATATGTTTCCATAGCTGA-GCTATGGTCTTACATAATATAACCCATGTTT-ATC
1 TGGCGAACTCCATATGTTTCCATAG-TCACGCTATGGTCTTACATAATATAACCCATGTTTAATC
10025353 GCCA
65 GCCA
* * *
10025357 TGGCGGATTCCATTTGTTTCCATAGTCACGCTATGGTCTTACATAATATAACCCCATGTTTA
1 TGGCGAACTCCATATGTTTCCATAGTCACGCTATGGTCTTACATAATATAA-CCCATGTTTA
10025419 TCGTCCTGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
66 2 0.04
67 44 0.80
68 9 0.16
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (68 bp):
TGGCGAACTCCATATGTTTCCATAGTCACGCTATGGTCTTACATAATATAACCCATGTTTAATCG
CCA
Found at i:10025449 original size:68 final size:68
Alignment explanation
Indices: 10025319--10025532 Score: 245
Period size: 68 Copynumber: 3.2 Consensus size: 68
10025309 CCATAGCTGA
* * * **
10025319 GCTATGGTCTTACATAATATAA-CCCATGTTTATCG-CCATGGCGGATTCCATTTGTTTCCATAG
1 GCTATGGTCTTACATAATATAACCCCATGTTTATCGTCC-TGGTGGACTCTATTTGTTAACATAG
*
10025382 TCAC
65 CCAC
*
10025386 GCTATGGTCTTACATAATATAACCCCATGTTTATCGTCCTGGTAGACTCTATTTGTTAACATAGC
1 GCTATGGTCTTACATAATATAACCCCATGTTTATCGTCCTGGTGGACTCTATTTGTTAACATAGC
*
10025451 CAT
66 CAC
* * * * * ** *
10025454 GCTATGGTCTTGCACAAAATAACCTCATGTTTATCGTCCTGGTGGACTTTATTTGTTGCCAAAGC
1 GCTATGGTCTTACATAATATAACCCCATGTTTATCGTCCTGGTGGACTCTATTTGTTAACATAGC
10025519 CGA-
66 C-AC
10025522 GCTATGGTCTT
1 GCTATGGTCTT
10025533 GTAGAAAAAA
Statistics
Matches: 127, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
67 22 0.17
68 102 0.80
69 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (68 bp):
GCTATGGTCTTACATAATATAACCCCATGTTTATCGTCCTGGTGGACTCTATTTGTTAACATAGC
CAC
Found at i:10028879 original size:11 final size:11
Alignment explanation
Indices: 10028865--10028891 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10028855 AAAAAATAAA
10028865 AAAATTATTTT
1 AAAATTATTTT
10028876 AAAATTATTTT
1 AAAATTATTTT
10028887 AAAAT
1 AAAAT
10028892 AAAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:10029558 original size:15 final size:15
Alignment explanation
Indices: 10029535--10029572 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10029525 TTATAACGAT
10029535 AATATAAAA-AATAA
1 AATATAAAACAATAA
*
10029549 AATAATAAAACAATCA
1 AAT-ATAAAACAATAA
10029565 AATATAAA
1 AATATAAA
10029573 TATTTCAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 11 0.52
16 7 0.33
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (15 bp):
AATATAAAACAATAA
Found at i:10029600 original size:25 final size:23
Alignment explanation
Indices: 10029566--10029620 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
10029556 AAACAATCAA
10029566 ATATA-AATATTTCAGTTTTCTTAT
1 ATATATAATATTTCA-TTTTCTT-T
*
10029590 ATTTATAATATTTCATTTTCTTT
1 ATATATAATATTTCATTTTCTTT
10029613 ATATATAA
1 ATATATAA
10029621 AATCCATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 8 0.29
24 11 0.39
25 9 0.32
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATATAATATTTCATTTTCTTT
Done.