Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 292 of 325
Found at i:95403992 original size:24 final size:25
Alignment explanation
Indices: 95403965--95404014 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
95403955 AAAATTTTAA
*
95403965 TAAATAAAAAATATTTTAAAT-TAT
1 TAAATAAAAAATAATTTAAATATAT
**
95403989 TAAATATTAAATAATTTAAATATAT
1 TAAATAAAAAATAATTTAAATATAT
95404014 T
1 T
95404015 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TAAATAAAAAATAATTTAAATATAT
Found at i:95404176 original size:25 final size:23
Alignment explanation
Indices: 95404133--95404178 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
95404123 GTTTAAATAA
*
95404133 GTATAAAGTGTGTTAATATATAT
1 GTATAAAATGTGTTAATATATAT
95404156 GTATAAAATGTGTTAATATATAT
1 GTATAAAATGTGTTAATATATAT
95404179 CATGCCTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.43
Consensus pattern (23 bp):
GTATAAAATGTGTTAATATATAT
Found at i:95405535 original size:30 final size:29
Alignment explanation
Indices: 95405501--95405578 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
95405491 TTAATTAAAA
*
95405501 AAAAATTATAATTTAATTATTAAATTATTC
1 AAAAATT-TAATTTAATTACTAAATTATTC
* * *
95405531 AAAAATTTCATTTAAATTACTGAATTATTT
1 AAAAATTTAATTT-AATTACTAAATTATTC
* *
95405561 AAAATTTTTTATTTAATT
1 AAAA-ATTTAATTTAATT
95405579 CATTTAGTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 5 0.12
30 28 0.70
31 7 0.17
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (29 bp):
AAAAATTTAATTTAATTACTAAATTATTC
Found at i:95421339 original size:20 final size:20
Alignment explanation
Indices: 95421305--95421351 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
95421295 GAACAACGAA
95421305 TAAAA-AATCCAATTTGTGC
1 TAAAATAATCCAATTTGTGC
*
95421324 TAAAATAATTCAATTTGTGC
1 TAAAATAATCCAATTTGTGC
*
95421344 TAATATAA
1 TAAAATAA
95421352 CTTGTTTCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (20 bp):
TAAAATAATCCAATTTGTGC
Found at i:95422830 original size:23 final size:24
Alignment explanation
Indices: 95422804--95422865 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 24
95422794 TCGATAAGAT
*
95422804 GCACTGAAGTGCCACTAT-TCTTC
1 GCACTGAAGTGCCACTATCACTTC
* * * *
95422827 GCACAGATGTG-CAATATCACTTT
1 GCACTGAAGTGCCACTATCACTTC
*
95422850 ACACTGAAGTGCCACT
1 GCACTGAAGTGCCACT
95422866 CACTTGCTCA
Statistics
Matches: 28, Mismatches: 9, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
22 5 0.18
23 20 0.71
24 3 0.11
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (24 bp):
GCACTGAAGTGCCACTATCACTTC
Found at i:95423143 original size:16 final size:15
Alignment explanation
Indices: 95423105--95423143 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
95423095 CTCAAGTGAC
95423105 ATTTATTTCATCACT
1 ATTTATTTCATCACT
*
95423120 ATTAATTTCTATCACT
1 ATTTATTTC-ATCACT
*
95423136 GTTTATTT
1 ATTTATTT
95423144 TACCCATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTTATTTCATCACT
Found at i:95427095 original size:39 final size:39
Alignment explanation
Indices: 95427036--95427136 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
95427026 GCTCTGATGA
95427036 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
95427075 GCTTTAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
95427114 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
95427137 AGATCACGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.13, C:0.26, G:0.24, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:95427118 original size:21 final size:21
Alignment explanation
Indices: 95427054--95427118 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
95427044 TAGCCTTCGG
95427054 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
** * *
95427075 GCTTTAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
95427093 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
95427114 GCTTC
1 GCTTC
95427119 AGCTAGACTT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 8 0.24
21 11 0.33
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.42
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:95428381 original size:22 final size:22
Alignment explanation
Indices: 95428341--95428382 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
95428331 AGGACCTATT
*
95428341 TGTAAAAATGTTATAAAATGTG
1 TGTAAAAATGTGATAAAATGTG
* *
95428363 TGTAAAAGTGTGATTAAATG
1 TGTAAAAATGTGATAAAATG
95428383 AAAAATGTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (22 bp):
TGTAAAAATGTGATAAAATGTG
Found at i:95428904 original size:42 final size:42
Alignment explanation
Indices: 95428842--95428958 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 42
95428832 AGGGTTATTA
*
95428842 AGACTACGTGTAAGACCATATCTGGGATATGGAATCAATATG
1 AGACTTCGTGTAAGACCATATCTGGGATATGGAATCAATATG
* * * * *
95428884 AGACTTCGTGTAAGATCATATTTGGGCTATTGGCATCGATATG
1 AGACTTCGTGTAAGACCATATCTGGGATA-TGGAATCAATATG
* *
95428927 AGA-TTACATGTAAGGCCATATCTGGGATATGG
1 AGACTT-CGTGTAAGACCATATCTGGGATATGG
95428959 CATTGACATG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 30 0.48
43 32 0.52
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.30
Consensus pattern (42 bp):
AGACTTCGTGTAAGACCATATCTGGGATATGGAATCAATATG
Found at i:95430491 original size:6 final size:6
Alignment explanation
Indices: 95430482--95430522 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
95430472 ATATATATAT
* *
95430482 AAAGAA AAAGGA ATA-AA AAAGAA AAAG-A AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A
95430523 GAAAGGATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
5 8 0.28
6 21 0.72
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:95430504 original size:17 final size:17
Alignment explanation
Indices: 95430482--95430522 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
95430472 ATATATATAT
*
95430482 AAAGAAAAAGGAATA-AA
1 AAAGAAAAA-GAAAAGAA
95430499 AAAGAAAAAGAAAAGAA
1 AAAGAAAAAGAAAAGAA
95430516 AAAGAAA
1 AAAGAAA
95430523 GAAAGGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (17 bp):
AAAGAAAAAGAAAAGAA
Found at i:95430512 original size:11 final size:11
Alignment explanation
Indices: 95430498--95430526 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
95430488 AAAGGAATAA
95430498 AAAAGAAAAAG
1 AAAAGAAAAAG
95430509 AAAAGAAAAAG
1 AAAAGAAAAAG
95430520 -AAAGAAA
1 AAAAGAAA
95430527 GGATGAAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:95430595 original size:16 final size:16
Alignment explanation
Indices: 95430551--95430589 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
95430541 AGAGAGCAGG
* *
95430551 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
95430567 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
95430583 GGAAAAA
1 GGAAAAA
95430590 GGGAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:95432710 original size:16 final size:16
Alignment explanation
Indices: 95432689--95432748 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 16
95432679 AATGTGTAAG
95432689 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
*
95432705 ACCATGGCAACTTGATATA-AG
1 ACCATGG----TTGA-A-AGAT
95432726 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
95432742 ACCATGG
1 ACCATGG
95432749 CAACCTGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
15 1 0.03
16 16 0.46
17 4 0.11
20 4 0.11
21 9 0.26
22 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (16 bp):
ACCATGGTTGAAAGAT
Found at i:95432735 original size:37 final size:37
Alignment explanation
Indices: 95432685--95432759 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
95432675 ATGAAATGTG
*
95432685 TAAGACCATGGTTGAAAGATACCATGGCAACTTGATA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
95432722 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
95432759 T
1 T
95432760 GAAATGTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.24
Consensus pattern (37 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
Found at i:95432789 original size:46 final size:46
Alignment explanation
Indices: 95432721--95432982 Score: 416
Period size: 46 Copynumber: 5.7 Consensus size: 46
95432711 GCAACTTGAT
*
95432721 ATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGT
1 ATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGA
* *
95432767 GTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGA
* * *
95432813 ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGA
* *
95432859 ATAAGACCACGGTTGAAAGATACCATGGTAACCTGATATGAAATGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGA
* * *
95432905 ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGA
*
95432951 ATAAGACCATGGTTGAAAGATACTATGGCAAC
1 ATAAGACCATGGTTGAAAGATACCATGGCAAC
95432983 ATGACAGAAA
Statistics
Matches: 197, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 197 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
ATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGA
Found at i:95433026 original size:50 final size:49
Alignment explanation
Indices: 95432721--95433035 Score: 293
Period size: 46 Copynumber: 6.7 Consensus size: 49
95432711 GCAACTTGAT
* * * *
95432721 ATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG--TG
1 ATAAGACCATGGTTGAAAGATACTATGGCAACATGACATGAAAAGAATG
* * * * *
95432768 -TAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATG-A--
1 ATAAGACCATGGTTGAAAGATACTATGGCAACATGACATGAAAAGAATG
* *
95432813 ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAG-A--
1 ATAAGACCATGGTTGAAAGATACTATGGCAACATGACATGAAAAGAATG
* * * * * *
95432859 ATAAGACCACGGTTGAAAGATACCATGGTAACCTGATATGAAATG-A--
1 ATAAGACCATGGTTGAAAGATACTATGGCAACATGACATGAAAAGAATG
* *
95432905 ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAG-A--
1 ATAAGACCATGGTTGAAAGATACTATGGCAACATGACATGAAAAGAATG
95432951 ATAAGACCATGGTTGAAAGATACTATGGCAACATGACA-GAAAATGAATG
1 ATAAGACCATGGTTGAAAGATACTATGGCAACATGACATGAAAA-GAATG
* * * *
95433000 AGTAAGACCATAGTTGAAAAACACTATGGCATCATG
1 A-TAAGACCATGGTTGAAAGATACTATGGCAACATG
95433036 TCAAAGATAA
Statistics
Matches: 240, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
45 5 0.02
46 203 0.85
47 1 0.00
49 1 0.00
50 30 0.12
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (49 bp):
ATAAGACCATGGTTGAAAGATACTATGGCAACATGACATGAAAAGAATG
Found at i:95434062 original size:16 final size:17
Alignment explanation
Indices: 95434031--95434063 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
95434021 TTCATAAGTA
95434031 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
95434048 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
95434064 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:95438356 original size:2 final size:2
Alignment explanation
Indices: 95438349--95438380 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
95438339 TGTATTTCCA
95438349 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
95438381 AGCATGGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:95442097 original size:6 final size:6
Alignment explanation
Indices: 95442086--95442178 Score: 141
Period size: 6 Copynumber: 15.5 Consensus size: 6
95442076 GCTTCGTACC
* * *
95442086 CACTCT CACTCT CACTCT CATTCT CGCTCT CGCTCT CACTCT CACTCT
1 CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT
* *
95442134 CACTCT CACTCT CACTCT CACTCT CACACT CTCTCT CACTCT CAC
1 CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CAC
95442179 ATGTGAAACT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 79 1.00
ACGTcount: A:0.15, C:0.49, G:0.02, T:0.33
Consensus pattern (6 bp):
CACTCT
Found at i:95445239 original size:22 final size:21
Alignment explanation
Indices: 95445210--95445255 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
95445200 TTAGTCATAT
95445210 AATAAATTCATTAATATAATA
1 AATAAATTCATTAATATAATA
* * *
95445231 AATATAATTTATTATTTTAATA
1 AATA-AATTCATTAATATAATA
95445253 AAT
1 AAT
95445256 TATTTAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATAAATTCATTAATATAATA
Found at i:95445266 original size:20 final size:22
Alignment explanation
Indices: 95445226--95445271 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
95445216 TTCATTAATA
*
95445226 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
95445248 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
95445268 TAAT
1 TAAT
95445272 TTTATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.61
21 1 0.04
22 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:95445291 original size:13 final size:14
Alignment explanation
Indices: 95445274--95445321 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 14
95445264 ATTTTAATTT
95445274 TATTTTAAAAATAA
1 TATTTTAAAAATAA
95445288 -ATTTTAAAAATAA
1 TATTTTAAAAATAA
*
95445301 TAGTTTTAAATAATAT
1 TA-TTTTAAA-AATAA
95445317 TATTT
1 TATTT
95445322 ACATATTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 13 0.43
14 1 0.03
15 10 0.33
16 6 0.20
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
TATTTTAAAAATAA
Found at i:95445832 original size:17 final size:18
Alignment explanation
Indices: 95445811--95445850 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
95445801 ATCCAAATAC
*
95445811 TAAAAAATAA-TATTTT-
1 TAAAAAAAAATTATTTTA
95445827 TAAAAAAAAATTATTTTA
1 TAAAAAAAAATTATTTTA
95445845 TAAAAA
1 TAAAAA
95445851 TTATTTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 6 0.29
18 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAAAAAAATTATTTTA
Found at i:95445849 original size:14 final size:14
Alignment explanation
Indices: 95445832--95445875 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
95445822 ATTTTTAAAA
95445832 AAAAATTATTTTAT-
1 AAAAATTATTTT-TC
95445846 AAAAATTATTTTTC
1 AAAAATTATTTTTC
95445860 AAAAATTA-TTTTC
1 AAAAATTATTTTTC
95445873 AAA
1 AAA
95445876 TTAAATGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.31
14 20 0.69
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (14 bp):
AAAAATTATTTTTC
Found at i:95451178 original size:18 final size:18
Alignment explanation
Indices: 95451155--95451200 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
95451145 TTAAGATAAA
95451155 TTATGACAATTCTTGTTT
1 TTATGACAATTCTTGTTT
95451173 TTATGACAATTCTTGTTT
1 TTATGACAATTCTTGTTT
*
95451191 TTATTACAAT
1 TTATGACAAT
95451201 CTATATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (18 bp):
TTATGACAATTCTTGTTT
Found at i:95457856 original size:5 final size:5
Alignment explanation
Indices: 95457848--95457923 Score: 129
Period size: 5 Copynumber: 15.6 Consensus size: 5
95457838 GATATTATGT
*
95457848 TATTA TATTA T-GT- TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
95457896 TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
95457924 GGTAAAATAA
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
3 1 0.01
4 2 0.03
5 64 0.96
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:95457947 original size:19 final size:19
Alignment explanation
Indices: 95457923--95457959 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
95457913 TTATATTATA
95457923 TGGTAAAATAAAATACATG
1 TGGTAAAATAAAATACATG
95457942 TGGTAAAATAAAATACAT
1 TGGTAAAATAAAATACAT
95457960 ACATTTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.14, T:0.27
Consensus pattern (19 bp):
TGGTAAAATAAAATACATG
Found at i:95463805 original size:16 final size:16
Alignment explanation
Indices: 95463784--95463835 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
95463774 AATGGGATTC
95463784 TGAGTAGTGGATTTAG
1 TGAGTAGTGGATTTAG
*
95463800 TGAGTAGAATGGGA-TT-C
1 TGAGTAG--T-GGATTTAG
95463817 TGAGTAGTGGATTTAG
1 TGAGTAGTGGATTTAG
95463833 TGA
1 TGA
95463836 AGAGGTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 3 0.10
16 10 0.34
17 7 0.24
18 3 0.10
19 3 0.10
ACGTcount: A:0.27, C:0.02, G:0.37, T:0.35
Consensus pattern (16 bp):
TGAGTAGTGGATTTAG
Found at i:95463811 original size:33 final size:33
Alignment explanation
Indices: 95463767--95463835 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
95463757 TGTGAGAGTT
*
95463767 TGAGTATAATGGGATTCTGAGTAGTGGATTTAG
1 TGAGTAGAATGGGATTCTGAGTAGTGGATTTAG
95463800 TGAGTAGAATGGGATTCTGAGTAGTGGATTTAG
1 TGAGTAGAATGGGATTCTGAGTAGTGGATTTAG
95463833 TGA
1 TGA
95463836 AGAGGTTGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.03, G:0.35, T:0.35
Consensus pattern (33 bp):
TGAGTAGAATGGGATTCTGAGTAGTGGATTTAG
Found at i:95463822 original size:17 final size:17
Alignment explanation
Indices: 95463767--95463823 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
95463757 TGTGAGAGTT
*
95463767 TGAGTATAATGGGATTC
1 TGAGTAGAATGGGATTC
*
95463784 TGAGTAG--T-GGATTTAG
1 TGAGTAGAATGGGA-TT-C
95463800 TGAGTAGAATGGGATTC
1 TGAGTAGAATGGGATTC
95463817 TGAGTAG
1 TGAGTAG
95463824 TGGATTTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 3 0.09
15 3 0.09
16 7 0.22
17 13 0.41
18 3 0.09
19 3 0.09
ACGTcount: A:0.28, C:0.04, G:0.35, T:0.33
Consensus pattern (17 bp):
TGAGTAGAATGGGATTC
Found at i:95465730 original size:264 final size:264
Alignment explanation
Indices: 95465260--95465794 Score: 921
Period size: 264 Copynumber: 2.0 Consensus size: 264
95465250 GGCCCAGATT
* * *
95465260 GAGTTTATTTGTATACTGTTTGTTTGTTTGTACGGGGACTTACACACTGAGTTTACATAAACTCA
1 GAGTTTATTTGTATACTGTTTGTTTGTTTGCACAGGGACTTACACACTAAGTTTACATAAACTCA
* *
95465325 CCCCTTCTGCTTAATCTGTGCAGGTAATCCCCAGACTTGATGAATCGGTGCAGCGGAGGACTTGG
66 CCCCTTCTGCTTAATCTGTGCAGGTAATCCCCAGACTTGACGAATCGGTGCAGCGGAAGACTTGG
95465390 CGTAGGCCATACAAACCTAAACTTTTACTTCAACTTTGGGTATTTAATTTTTAAGTATACTCTGG
131 CGTAGGCCATACAAACCTAAACTTTTACTTCAACTTTGGGTATTTAATTTTTAAGTATACTCTGG
*
95465455 GTTACTTTTTATGTAAATTACGGACTTTCTGGGACTTTTACTTAATTTGGGTTATTATTTATTTT
196 GTTACTTTTTATGTAAATTACGGACTTTCTGGGACTTTTACTTAATTTGGGTTATTATTTACTTT
95465520 TATG
261 TATG
*
95465524 GAGTTTATTTGTATACTGTTTGTTTGTTTGCACAGGGACTTACACACTAAGTTTACCTAAACTCA
1 GAGTTTATTTGTATACTGTTTGTTTGTTTGCACAGGGACTTACACACTAAGTTTACATAAACTCA
*
95465589 CCCCTTTTGCTTAATCTGTGCAGGTAATCCCCAGACTTGACGAATCGGTGCAGCGGAAGACTTGG
66 CCCCTTCTGCTTAATCTGTGCAGGTAATCCCCAGACTTGACGAATCGGTGCAGCGGAAGACTTGG
* * *
95465654 CGGT-GGCCATACAAACCTAAACTTTTACTTTAACTTTGGGTATTTAATTTTTAATTATACTTTG
131 C-GTAGGCCATACAAACCTAAACTTTTACTTCAACTTTGGGTATTTAATTTTTAAGTATACTCTG
* **
95465718 GGTTACTTTTTATGTATATTGTGGACTTTCTGGGACTTTTACTTAATTTGGGTTATTATTTACTT
195 GGTTACTTTTTATGTAAATTACGGACTTTCTGGGACTTTTACTTAATTTGGGTTATTATTTACTT
95465783 TTATG
260 TTATG
95465788 GA-TTTAT
1 GAGTTTAT
95465795 AACTGCTAAG
Statistics
Matches: 256, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
263 5 0.02
264 249 0.97
265 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (264 bp):
GAGTTTATTTGTATACTGTTTGTTTGTTTGCACAGGGACTTACACACTAAGTTTACATAAACTCA
CCCCTTCTGCTTAATCTGTGCAGGTAATCCCCAGACTTGACGAATCGGTGCAGCGGAAGACTTGG
CGTAGGCCATACAAACCTAAACTTTTACTTCAACTTTGGGTATTTAATTTTTAAGTATACTCTGG
GTTACTTTTTATGTAAATTACGGACTTTCTGGGACTTTTACTTAATTTGGGTTATTATTTACTTT
TATG
Found at i:95467804 original size:31 final size:31
Alignment explanation
Indices: 95467703--95467815 Score: 120
Period size: 33 Copynumber: 3.5 Consensus size: 31
95467693 ATGGACTTTT
* *
95467703 CCTTTTCTAATTGTACACTCGACGTGCACATTC
1 CCTTTTC-AATTGTACACACGA-GTGCACATAC
* *
95467736 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAA-TTGTACACACG-AGTGCACATAC
*
95467769 CCTTTTCAATTTGTACACAC-AGTGCACATAA
1 CCTTTTCAA-TTGTACACACGAGTGCACATAC
*
95467800 CCTTTTCAAGTGTACA
1 CCTTTTCAATTGTACA
95467816 TACATAGTGT
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
30 6 0.09
31 18 0.26
32 2 0.03
33 42 0.61
34 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (31 bp):
CCTTTTCAATTGTACACACGAGTGCACATAC
Found at i:95467839 original size:32 final size:33
Alignment explanation
Indices: 95467800--95467964 Score: 131
Period size: 33 Copynumber: 4.7 Consensus size: 33
95467790 GTGCACATAA
* * * *
95467800 CCTTTTCAAGT-GTACATACATAGTGTACTTTT
1 CCTTTTCAAGTGGTACACACAAAGTATACCTTT
*
95467832 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTACACACAAAGTATACCTTT
95467865 CCTTTTCATA-TGGTATACACAAAGTATACACAAAGTATACCTTT
1 CCTTTTCA-AGTGG--T--AC-------ACACAAAGTATACCTTT
*
95467909 CCTTTTCATA-TGGTATACACAAAGTATACCTTT
1 CCTTTTCA-AGTGGTACACACAAAGTATACCTTT
95467942 CCTTTTCAAGT-GTACACACAAAG
1 CCTTTTCAAGTGGTACACACAAAG
95467965 CGTGCATAAC
Statistics
Matches: 111, Mismatches: 8, Indels: 28
0.76 0.05 0.19
Matches are distributed among these distances:
32 23 0.21
33 53 0.48
34 1 0.01
35 1 0.01
37 1 0.01
40 1 0.01
42 1 0.01
44 30 0.27
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTATACCTTT
Found at i:95467852 original size:63 final size:64
Alignment explanation
Indices: 95467726--95467852 Score: 150
Period size: 63 Copynumber: 2.0 Consensus size: 64
95467716 TACACTCGAC
** * *
95467726 GTGCACATTCCCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAATTTGTACACACA
1 GTGCACATAACCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAAGTGGTACACACA
* * ** *
95467790 GTGCACATAACCTTTTCAAGT-GTACATAC-ATAGTGTACTTTTCCTTTTCAAGTGGTATACACA
1 GTGCACATAACCTTTTCAAGTGGTACACACGA-AGTGTACATACCCTTTTCAAGTGGTACACACA
95467853 AAGTATACCT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
62 1 0.02
63 33 0.62
64 19 0.36
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (64 bp):
GTGCACATAACCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAAGTGGTACACACA
Found at i:95467893 original size:11 final size:11
Alignment explanation
Indices: 95467877--95467904 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
95467867 TTTTCATATG
95467877 GTATACACAAA
1 GTATACACAAA
95467888 GTATACACAAA
1 GTATACACAAA
95467899 GTATAC
1 GTATAC
95467905 CTTTCCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.21
Consensus pattern (11 bp):
GTATACACAAA
Found at i:95467907 original size:44 final size:44
Alignment explanation
Indices: 95467844--95467937 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
95467834 TTTTCAAGTG
95467844 GTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAA
1 GTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAA
95467888 GTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAA
1 GTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAA
95467932 GTATAC
1 GTATAC
95467938 CTTTCCTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (44 bp):
GTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAA
Found at i:95468005 original size:32 final size:33
Alignment explanation
Indices: 95467969--95468047 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
95467959 ACAAAGCGTG
*
95467969 CATAACCTTTTCAAGTTAT-ACCATTTTTGG-TA
1 CATAACCTTTTCAAG-TATCACCATTTTGGGTTA
95468001 CATAAATCCTTTTCAAGTATCACCATTTTGGGTTA
1 CAT-AA-CCTTTTCAAGTATCACCATTTTGGGTTA
*
95468036 CAT-TCCTTTTCA
1 CATAACCTTTTCA
95468048 TAATGAGATC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
32 11 0.27
33 5 0.12
34 20 0.49
35 5 0.12
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.43
Consensus pattern (33 bp):
CATAACCTTTTCAAGTATCACCATTTTGGGTTA
Found at i:95470724 original size:187 final size:187
Alignment explanation
Indices: 95470389--95470733 Score: 455
Period size: 187 Copynumber: 1.8 Consensus size: 187
95470379 AAAGACACTG
* * * *
95470389 GTCATACTGAGGCGGGACAGCCAGCTCTAGTTTATGATGTACGTCGCCGAGAGGACGGAGATGCT
1 GTCATACTGAGGCGGGACAGCCAGCTCTAATTTATGATGCACGTCACCGAGAGGACAGAGATGCT
* * *
95470454 CCGAACGTCATCACGGGTACATTCTTTATTTAAAATATACTTTATACTGCACTAATAGTTATAGG
66 CCGAACGTCATCACGGGTACATACTTTATTTAAAATATACTTTATACAGCACTAATAGATATAGG
*
95470519 ATCTGATCATTTCTATATAGCTTGTACTGTGTCAGAGAGCATCGGGCAAAGGCGTTA
131 ATCTGATCATTCCTATATAGCTTGTACTGTGTCAGAGAGCATCGGGCAAAGGCGTTA
* * * * *
95470576 GTCATACTGAGGCGAGG-GAGCCGGCTCTAATTTATGCTGCACGTTACCGAGAGGATAGAGATGC
1 GTCATACTGAGGCG-GGACAGCCAGCTCTAATTTATGATGCACGTCACCGAGAGGACAGAGATGC
* * * *
95470640 TCC-AGACGTCATCACGGGTACGTACTTTATTTATAATGTA-TCTTATACAGCACTGATAGATAT
65 TCCGA-ACGTCATCACGGGTACATACTTTATTTAAAATATACT-TTATACAGCACTAATAGATAT
* *
95470703 AGGGT-TTACTCATTCCTATATAGCTTGTACT
128 AGGATCTGA-TCATTCCTATATAGCTTGTACT
95470734 ATGTTTGAGA
Statistics
Matches: 135, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
186 4 0.03
187 129 0.96
188 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (187 bp):
GTCATACTGAGGCGGGACAGCCAGCTCTAATTTATGATGCACGTCACCGAGAGGACAGAGATGCT
CCGAACGTCATCACGGGTACATACTTTATTTAAAATATACTTTATACAGCACTAATAGATATAGG
ATCTGATCATTCCTATATAGCTTGTACTGTGTCAGAGAGCATCGGGCAAAGGCGTTA
Found at i:95489981 original size:14 final size:14
Alignment explanation
Indices: 95489943--95489985 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
95489933 CAAAATGTAC
95489943 AATATAATTAAA-T
1 AATATAATTAAATT
95489956 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
95489971 AA-ATAATTTAATT
1 AATATAATTAAATT
95489984 AA
1 AA
95489986 CTGTTTACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:95490494 original size:39 final size:41
Alignment explanation
Indices: 95490451--95490531 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 41
95490441 GGATAAAAAC
* * * *
95490451 GCAGC-AAAGGTAAAGCATTAGCGGCGTTTTT-GCATAAAT
1 GCAGCAAAAAGTAAAGCAATAACGACGTTTTTCGCATAAAT
*
95490490 GCAGCAAAAAGTAAAGCAATAACGACGTTTTTCTCATAAAT
1 GCAGCAAAAAGTAAAGCAATAACGACGTTTTTCGCATAAAT
95490531 G
1 G
95490532 TCGTAAAAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 5 0.14
40 22 0.63
41 8 0.23
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (41 bp):
GCAGCAAAAAGTAAAGCAATAACGACGTTTTTCGCATAAAT
Found at i:95490545 original size:41 final size:40
Alignment explanation
Indices: 95490451--95490551 Score: 107
Period size: 41 Copynumber: 2.5 Consensus size: 40
95490441 GGATAAAAAC
* * *
95490451 GCAGC-AAAGGTAAAGCATTAGCGGCGTTTTTGCATAAAT
1 GCAGCAAAAGGTAAAGCAATAACGACGTTTTTGCATAAAT
* *
95490490 GCAGCAAAAAGTAAAGCAATAACGACGTTTTTCTCATAAAT
1 GCAGCAAAAGGTAAAGCAATAACGACGTTTTT-GCATAAAT
* *
95490531 GTC-GTAAAAGGTAAAGTAATA
1 G-CAGCAAAAGGTAAAGCAATA
95490552 GCCATAAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
39 5 0.10
40 22 0.43
41 23 0.45
42 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.25
Consensus pattern (40 bp):
GCAGCAAAAGGTAAAGCAATAACGACGTTTTTGCATAAAT
Found at i:95493488 original size:43 final size:43
Alignment explanation
Indices: 95493440--95493532 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 43
95493430 ACAATGCCAA
** * * *
95493440 TGTCCCAGACGTGGTCTTACATGTAAT-TCGATATCGAAGCCTC
1 TGTCCCAGACAAGGTCTTAAATGAAATCTC-AAATCGAAGCCTC
* *
95493483 TGTCCCAGACAAGGTCTTAAATGAAATCTCAAATCGAGGCCTG
1 TGTCCCAGACAAGGTCTTAAATGAAATCTCAAATCGAAGCCTC
95493526 TGTCCCA
1 TGTCCCA
95493533 AACACAGTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 40 0.95
44 2 0.05
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (43 bp):
TGTCCCAGACAAGGTCTTAAATGAAATCTCAAATCGAAGCCTC
Found at i:95493555 original size:43 final size:43
Alignment explanation
Indices: 95493472--95493556 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
95493462 GTAATTCGAT
* *
95493472 ATCGAAGCCTCTGTCCCAGACAAGGTCTTAAATGAAATCTCAA
1 ATCGAAGCCTCTGTCCCAAACAAGGTCTTAAACGAAATCTCAA
* * * *
95493515 ATCGAGGCCTGTGTCCCAAACACA-GTCTTACACGATATCTCA
1 ATCGAAGCCTCTGTCCCAAACA-AGGTCTTAAACGAAATCTCA
95493557 GATCAATTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
ATCGAAGCCTCTGTCCCAAACAAGGTCTTAAACGAAATCTCAA
Found at i:95499198 original size:23 final size:24
Alignment explanation
Indices: 95499171--95499219 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
95499161 GCAAAACAGA
95499171 GTAA-GGTTTCGTGGAAATGGGGG
1 GTAAGGGTTTCGTGGAAATGGGGG
*
95499194 GTAAGGGTTTCGTGGGAATGGGGG
1 GTAAGGGTTTCGTGGAAATGGGGG
95499218 GT
1 GT
95499220 TTGAATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.18, C:0.04, G:0.51, T:0.27
Consensus pattern (24 bp):
GTAAGGGTTTCGTGGAAATGGGGG
Found at i:95499605 original size:9 final size:9
Alignment explanation
Indices: 95499580--95499618 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
95499570 TTCGAAAAAA
95499580 AATTCGAGTT
1 AATTCGA-TT
*
95499590 GATTCGATT
1 AATTCGATT
95499599 AATTCGATT
1 AATTCGATT
*
95499608 AACTCGATT
1 AATTCGATT
95499617 AA
1 AA
95499619 CTCAATTCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 20 0.77
10 6 0.23
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (9 bp):
AATTCGATT
Found at i:95502059 original size:3 final size:3
Alignment explanation
Indices: 95502051--95502075 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
95502041 ATCATGAATA
95502051 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
95502076 CAATATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:95504753 original size:18 final size:18
Alignment explanation
Indices: 95504730--95504765 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
95504720 TGTGATATTT
95504730 TATTTAATTAG-TAAAATA
1 TATTT-ATTAGATAAAATA
95504748 TATTTATTAGATAAAATA
1 TATTTATTAGATAAAATA
95504766 ATTAAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
TATTTATTAGATAAAATA
Found at i:95505192 original size:23 final size:27
Alignment explanation
Indices: 95505166--95505219 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
95505156 ATTAAATAGA
95505166 TAATT-ATT-ATATT-TATTATTAT-T
1 TAATTAATTGATATTATATTATTATAT
95505189 TAATTAATTGATATTATATTATTATAT
1 TAATTAATTGATATTATATTATTATAT
95505216 TAAT
1 TAAT
95505220 AAATAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.19
24 3 0.11
25 5 0.19
26 9 0.33
27 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (27 bp):
TAATTAATTGATATTATATTATTATAT
Found at i:95505212 original size:18 final size:20
Alignment explanation
Indices: 95505168--95505216 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
95505158 TAAATAGATA
*
95505168 ATTATTATATTTATTATTAT
1 ATTATTATATTGATTATTAT
95505188 -TTAATTA-ATTGA-TATTAT
1 ATT-ATTATATTGATTATTAT
95505206 ATTATTATATT
1 ATTATTATATT
95505217 AATAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 10 0.40
19 11 0.44
20 4 0.16
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTATTATATTGATTATTAT
Found at i:95505396 original size:20 final size:20
Alignment explanation
Indices: 95505368--95505406 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95505358 ATAATAAAAT
* *
95505368 AAAGTAAAATAAAAAGAAAC
1 AAAGCAAAAGAAAAAGAAAC
*
95505388 AAAGCAAAAGAAACAGAAA
1 AAAGCAAAAGAAAAAGAAA
95505407 AGAAAACAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.08, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAGCAAAAGAAAAAGAAAC
Found at i:95507588 original size:16 final size:18
Alignment explanation
Indices: 95507544--95507582 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
95507534 TTAGCAAAAT
95507544 TGGGCTCACACACCCATG
1 TGGGCTCACACACCCATG
* *
95507562 TGGGCCCACACACCCGTG
1 TGGGCTCACACACCCATG
95507580 TGG
1 TGG
95507583 TCACACGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.38, G:0.28, T:0.15
Consensus pattern (18 bp):
TGGGCTCACACACCCATG
Found at i:95513004 original size:94 final size:93
Alignment explanation
Indices: 95512905--95513211 Score: 252
Period size: 94 Copynumber: 3.3 Consensus size: 93
95512895 GACGAGGGCT
* * *
95512905 AGTGTAAGACATGTCTGGGACATACATCGGTCGTATCATGATAGCCCGTGTAAGACCACGTTTGG
1 AGTGTAAAACATGTCTGGGACATGCATCGGTCGTATCATGATAGCCAGTGTAAGACCACGTTTGG
95512970 GACATGGCATCGGCGTAGAGGTGAGTACC
66 GACATGGCATCGGC-TAGAGGTGAGTACC
* * *
95512999 AGTGTAAAACATGTCTGGGACATGCATCGGCCTCG-ATGATGTTAGCCAGTGCAAG---ACGTAT
1 AGTGTAAAACATGTCTGGGACATGCATCGG--TCGTATCATGATAGCCAGTGTAAGACCACGT-T
* * * *
95513060 CTGGGACAT-GCATCGGCTA-AGTTTCA-TGCT
63 -TGGGACATGGCATCGGCTAGAG-GTGAGTACC
* * ** * * * * *
95513090 AGTGTAAGACATGTTTGGGACATGCATCAGCACGTATACACGAGAGCTAGTGTAAGACCATGTCT
1 AGTGTAAAACATGTCTGGGACATGCATC-GGTCGTAT-CATGATAGCCAGTGTAAGACCACGTTT
* *
95513155 GGGACATGGCATCGGCCTCGATG-GAGATAGCC
64 GGGACATGGCATCGG-CTAGAGGTGAG-TA-CC
*
95513187 AGCGTAAAACCATGTCTGGGACATG
1 AGTGTAAAA-CATGTCTGGGACATG
95513212 GCAGCGGCAA
Statistics
Matches: 164, Mismatches: 31, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
90 2 0.01
91 32 0.20
92 21 0.13
93 17 0.10
94 44 0.27
95 21 0.13
96 5 0.03
97 8 0.05
98 14 0.09
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (93 bp):
AGTGTAAAACATGTCTGGGACATGCATCGGTCGTATCATGATAGCCAGTGTAAGACCACGTTTGG
GACATGGCATCGGCTAGAGGTGAGTACC
Found at i:95513018 original size:47 final size:47
Alignment explanation
Indices: 95512905--95513211 Score: 152
Period size: 47 Copynumber: 6.5 Consensus size: 47
95512895 GACGAGGGCT
* * * *
95512905 AGTGTAAGACATGTCTGGGACATACATCGGTCGTATCA--TGA-TAGCC
1 AGTGTAAAACATGTCTGGGACATGCATCGG-CCTA-GAGGTGAGTAGCC
* * * * *
95512951 CGTGTAAGACCACGTTTGGGACATGGCATCGGCGTAGAGGTGAGTA-CC
1 AGTGTAA-AACATGTCTGGGACAT-GCATCGGCCTAGAGGTGAGTAGCC
*
95512999 AGTGTAAAACATGTCTGGGACATGCATCGGCCTCGA--TGATGTTAGCC
1 AGTGTAAAACATGTCTGGGACATGCATCGGCCTAGAGGTGA-G-TAGCC
* * * * * * *
95513046 AGTGCAAGACGTATCTGGGACATGCATCGG-CTA-AGTTTCA-T-GCT
1 AGTGTAAAACATGTCTGGGACATGCATCGGCCTAGAG-GTGAGTAGCC
* * * * *** *
95513090 AGTGTAAGACATGTTTGGGACATGCATCAGCACGTATACACGAG-AGCT
1 AGTGTAAAACATGTCTGGGACATGCATCGGC-C-TAGAGGTGAGTAGCC
* * *
95513138 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATG-GAGATAGCC
1 AGTGTAA-AACATGTCTGGGACAT-GCATCGGCCTAGAGGTGAG-TAGCC
*
95513187 AGCGTAAAACCATGTCTGGGACATG
1 AGTGTAAAA-CATGTCTGGGACATG
95513212 GCAGCGGCAA
Statistics
Matches: 199, Mismatches: 40, Indels: 42
0.71 0.14 0.15
Matches are distributed among these distances:
44 30 0.15
45 3 0.02
46 23 0.12
47 63 0.32
48 34 0.17
49 39 0.20
50 7 0.04
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAAACATGTCTGGGACATGCATCGGCCTAGAGGTGAGTAGCC
Found at i:95514779 original size:22 final size:22
Alignment explanation
Indices: 95514754--95514797 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
95514744 ATTTCTAAAT
95514754 TAATAATTAAAATAATG-AATTA
1 TAATAATT-AAATAATGCAATTA
95514776 TAATAATTAAATAATGCAATTA
1 TAATAATTAAATAATGCAATTA
95514798 AGGTAGTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (22 bp):
TAATAATTAAATAATGCAATTA
Found at i:95517756 original size:48 final size:48
Alignment explanation
Indices: 95517694--95518175 Score: 784
Period size: 48 Copynumber: 10.0 Consensus size: 48
95517684 TACAAAAAAA
* *
95517694 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
95517742 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
95517790 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
95517838 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
95517886 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
95517934 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
95517982 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
95518030 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
95518078 ATATATAGATGTGGTAAAGCCGAAAGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
95518126 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
95518174 AT
1 AT
95518176 GTGTGTATAT
Statistics
Matches: 411, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 411 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:95531194 original size:10 final size:10
Alignment explanation
Indices: 95531179--95531213 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
95531169 AAAATTATAA
95531179 ATATTAAAAT
1 ATATTAAAAT
95531189 ATATTAAAAT
1 ATATTAAAAT
95531199 ATATTAAAAT
1 ATATTAAAAT
*
95531209 TTATT
1 ATATT
95531214 GGTTAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
ATATTAAAAT
Found at i:95532230 original size:13 final size:13
Alignment explanation
Indices: 95532212--95532236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95532202 TCTCAATTCA
95532212 ATCAATCTGATCC
1 ATCAATCTGATCC
95532225 ATCAATCTGATC
1 ATCAATCTGATC
95532237 TAAATCAAAT
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:0.28, G:0.08, T:0.32
Consensus pattern (13 bp):
ATCAATCTGATCC
Found at i:95536371 original size:18 final size:18
Alignment explanation
Indices: 95536350--95536384 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
95536340 AAATAATAGG
*
95536350 AAAACTATA-AATATTAT
1 AAAAATATAGAATATTAT
95536367 AAAAATATAGAATATTAT
1 AAAAATATAGAATATTAT
95536385 TAATATGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAAATATAGAATATTAT
Found at i:95536440 original size:21 final size:19
Alignment explanation
Indices: 95536415--95536471 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 19
95536405 AATAATATAT
95536415 AAATTTAGAAATTATAGAAA
1 AAATTTAGAAATTATA-AAA
* *
95536435 ACAATTTA-AAAATGTAAAA
1 A-AATTTAGAAATTATAAAA
95536454 AAATTATAGAAATATATA
1 AAATT-TAGAAAT-TATA
95536472 TAAGTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 4 0.14
19 6 0.21
20 10 0.34
21 9 0.31
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (19 bp):
AAATTTAGAAATTATAAAA
Found at i:95536517 original size:20 final size:21
Alignment explanation
Indices: 95536477--95536519 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
95536467 ATATATAAGT
95536477 TTATAAAAATTCTTATGAAAAG
1 TTATAAAAA-TCTTATGAAAAG
*
95536499 TTATAAAAA-CTTATTAAAAG
1 TTATAAAAATCTTATGAAAAG
95536519 T
1 T
95536520 ACTTAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
22 9 0.45
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (21 bp):
TTATAAAAATCTTATGAAAAG
Found at i:95536839 original size:11 final size:10
Alignment explanation
Indices: 95536809--95536863 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
95536799 TATTAATTTT
95536809 TTAAAAATTA
1 TTAAAAATTA
95536819 TTAAAAATTA
1 TTAAAAATTA
95536829 TTAAAATATTA
1 TTAAAA-ATTA
*
95536840 -TAAAAGTTA
1 TTAAAAATTA
* *
95536849 -TATAAGTTA
1 TTAAAAATTA
95536858 TTAAAA
1 TTAAAA
95536864 TGATTATTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
9 11 0.28
10 25 0.62
11 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:95539835 original size:2 final size:2
Alignment explanation
Indices: 95539830--95539854 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
95539820 TTTTATATGT
95539830 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
95539855 AAGAGATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:95542883 original size:16 final size:18
Alignment explanation
Indices: 95542856--95542888 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
95542846 TGCGTTGATA
95542856 TCTTTATTATTT-TATTG
1 TCTTTATTATTTATATTG
95542873 TCTTT-TTATTTATATT
1 TCTTTATTATTTATATT
95542889 AATAACTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (18 bp):
TCTTTATTATTTATATTG
Found at i:95543832 original size:28 final size:28
Alignment explanation
Indices: 95543801--95543857 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
95543791 TTCACCAAGT
*
95543801 AAGAAAACATAGTCTTTTATTGAATACG
1 AAGAAAACATAGTCTTTTATTAAATACG
95543829 AAGAAAACATAGTCTTTTATTAAATACG
1 AAGAAAACATAGTCTTTTATTAAATACG
95543857 A
1 A
95543858 CTTATTTCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (28 bp):
AAGAAAACATAGTCTTTTATTAAATACG
Found at i:95544685 original size:22 final size:22
Alignment explanation
Indices: 95544660--95544701 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
95544650 ATATAGGAAA
95544660 TTAAAAGAT-AAAATGTTTTTTT
1 TTAAAAGATCAAAA-GTTTTTTT
*
95544682 TTAAAGGATCAAAAGTTTTT
1 TTAAAAGATCAAAAGTTTTT
95544702 CCTATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.45
Consensus pattern (22 bp):
TTAAAAGATCAAAAGTTTTTTT
Found at i:95546823 original size:18 final size:18
Alignment explanation
Indices: 95546791--95546855 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
95546781 TTATAACTAT
*
95546791 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
95546810 TTATTATATATTTATATC
1 TTATTATATATTTATATC
95546828 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
*
95546848 TTTTTATA
1 TTATTATA
95546856 AACATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 24 0.57
19 5 0.12
20 13 0.31
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:95547034 original size:30 final size:30
Alignment explanation
Indices: 95546962--95547034 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
95546952 TACGTCTATT
* *
95546962 TTCTTTTATATATACATATACATACTTACA
1 TTCTTTTATTTTTACATATACATACTTACA
* *
95546992 TTGTTTTA-TTTTACGATATACATACTTATA
1 TTCTTTTATTTTTAC-ATATACATACTTACA
95547022 -TCTTTTATTTTTA
1 TTCTTTTATTTTTA
95547035 TGTAATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (30 bp):
TTCTTTTATTTTTACATATACATACTTACA
Found at i:95547090 original size:10 final size:10
Alignment explanation
Indices: 95547072--95547153 Score: 62
Period size: 10 Copynumber: 8.5 Consensus size: 10
95547062 CCCATTTTTT
*
95547072 ATATATATAC
1 ATATTTATAC
95547082 ATATTTATAC
1 ATATTTATAC
95547092 -T-TTTATA-
1 ATATTTATAC
*
95547099 ATATATATAC
1 ATATTTATAC
*
95547109 ATATGTATAC
1 ATATTTATAC
* * *
95547119 GTGTTTATAT
1 ATATTTATAC
* *
95547129 ATATATACAC
1 ATATTTATAC
*
95547139 ATACTTATAC
1 ATATTTATAC
95547149 ATATT
1 ATATT
95547154 ATTTATATTT
Statistics
Matches: 53, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
8 7 0.13
9 6 0.11
10 40 0.75
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (10 bp):
ATATTTATAC
Found at i:95551558 original size:7 final size:8
Alignment explanation
Indices: 95551537--95551566 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
95551527 TCTCATGAAT
95551537 TCAAAAAA
1 TCAAAAAA
95551545 TCAAAAAA
1 TCAAAAAA
95551553 TCAAAAAAA
1 TC-AAAAAA
95551562 TCAAA
1 TCAAA
95551567 GTCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (8 bp):
TCAAAAAA
Found at i:95553845 original size:88 final size:88
Alignment explanation
Indices: 95553696--95554215 Score: 814
Period size: 88 Copynumber: 5.9 Consensus size: 88
95553686 CAATGAAGTT
95553696 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
95553761 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
95553784 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
95553849 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
95553872 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
95553937 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
95553960 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
95554025 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * *
95554048 AAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
95554113 TGT-AGTGGAGCTGGTTAAAGA-A
66 TGTGA-TGGAGCTGGTTGAAGACA
** * * * * * * **
95554135 GCAGATCTTACCTTCCTGCATTAACAGCAAAGCGGATCAAAAACA-AAAGCCTTGCCTCCATCGG
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
*
95554199 TTG-CATTGGAGCTGGTT
65 TTGTGA-TGGAGCTGGTT
95554216 AAAGGTTACA
Statistics
Matches: 408, Mismatches: 21, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
86 3 0.01
87 65 0.16
88 340 0.83
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:95555783 original size:18 final size:18
Alignment explanation
Indices: 95555751--95555815 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
95555741 TTATAACTAT
*
95555751 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
95555770 TTATTATATATTTATATC
1 TTATTATATATTTATATC
95555788 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
*
95555808 TTTTTATA
1 TTATTATA
95555816 AACATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 24 0.57
19 5 0.12
20 13 0.31
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:95555994 original size:30 final size:30
Alignment explanation
Indices: 95555922--95555994 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
95555912 TACGTCTATT
* *
95555922 TTCTTTTATATATACATATACATACTTACA
1 TTCTTTTATTTTTACATATACATACTTACA
* *
95555952 TTGTTTTA-TTTTACGATATACATACTTATA
1 TTCTTTTATTTTTAC-ATATACATACTTACA
95555982 -TCTTTTATTTTTA
1 TTCTTTTATTTTTA
95555995 TGTAATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (30 bp):
TTCTTTTATTTTTACATATACATACTTACA
Found at i:95556048 original size:10 final size:10
Alignment explanation
Indices: 95556030--95556113 Score: 57
Period size: 10 Copynumber: 8.5 Consensus size: 10
95556020 CCCATTTTTT
*
95556030 ATATATATAC
1 ATATTTATAC
95556040 ATATTTATAC
1 ATATTTATAC
95556050 -T-TTTATA-
1 ATATTTATAC
*
95556057 ATATATATAC
1 ATATTTATAC
95556067 ATATGTATATAC
1 ATAT-T-TATAC
* * *
95556079 GTGTTTATAT
1 ATATTTATAC
* *
95556089 ATATATACAC
1 ATATTTATAC
*
95556099 ATACTTATAC
1 ATATTTATAC
95556109 ATATT
1 ATATT
95556114 ATTTATATTT
Statistics
Matches: 54, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
8 7 0.13
9 6 0.11
10 33 0.61
11 1 0.02
12 7 0.13
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (10 bp):
ATATTTATAC
Found at i:95559765 original size:23 final size:23
Alignment explanation
Indices: 95559730--95559776 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
95559720 CTTTTAAAAA
* *
95559730 TTTTAAAATTTATATTTGCTTTT
1 TTTTAAAACTTATATTTACTTTT
*
95559753 TTTTATAACTTATATTTACTTTT
1 TTTTAAAACTTATATTTACTTTT
95559776 T
1 T
95559777 CTCATAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTTAAAACTTATATTTACTTTT
Found at i:95559783 original size:23 final size:23
Alignment explanation
Indices: 95559739--95559783 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
95559729 ATTTTAAAAT
* * *
95559739 TTATATTTGCTTTTTTTTATAAC
1 TTATATTTACTTTTTCTCATAAC
95559762 TTATATTTACTTTTTCTCATAA
1 TTATATTTACTTTTTCTCATAA
95559784 ACAATGCTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATATTTACTTTTTCTCATAAC
Found at i:95560495 original size:3 final size:3
Alignment explanation
Indices: 95560487--95560525 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
95560477 GACTAAAACA
95560487 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
95560526 TGAGTGACCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:95564023 original size:26 final size:26
Alignment explanation
Indices: 95563948--95564029 Score: 92
Period size: 26 Copynumber: 3.2 Consensus size: 26
95563938 CCCGTTATAT
* *
95563948 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTATTCGTGAGCTTCTCGATTAAA
* *
95563974 GACTATTCGTGAGCTTCTCAATTAAA
1 GGCTATTCGTGAGCTTCTCGATTAAA
* * * *
95564000 GGCTTTTTGTGAGCTTCTTGATTAAT
1 GGCTATTCGTGAGCTTCTCGATTAAA
95564026 GGCT
1 GGCT
95564030 CTCCAGAGCT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (26 bp):
GGCTATTCGTGAGCTTCTCGATTAAA
Found at i:95572672 original size:93 final size:93
Alignment explanation
Indices: 95572544--95572715 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
95572534 GCCCATAAGT
* * *
95572544 GAACTTGGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
95572609 CGAGCTCGGATGCCTAGTTACATCTCAC
66 AGAGCTCGGATGCCTAGTTACATCTCAC
* *
95572637 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
95572702 AGAGTTTGGATGCC
66 AGAGCTCGGATGCC
95572716 CAAATATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
AGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:95572707 original size:46 final size:46
Alignment explanation
Indices: 95572536--95572705 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
95572526 TGTAACCCGC
* * *
95572536 CCATAAGTGAACTTGGACTCAACTCAAAGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCAT
* *
95572582 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAAAGAGCTCGGA---C-A-TTCGCAT
* * * *
95572632 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCAT
95572675 CCATAAGTGAACTCGGACTCAACTCAAAGAG
1 CCATAAGTGAACTCGGACTCAACTCAAAGAG
95572706 TTTGGATGCC
Statistics
Matches: 103, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 56 0.54
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCAT
Found at i:95576230 original size:56 final size:56
Alignment explanation
Indices: 95576144--95576257 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
95576134 TTTTTACTTT
*
95576144 TGGTGGATAGAATTCCCTTAACTGTTCTCATAAATTGAGAATTCATTTGTGTTTGA
1 TGGTGGATAGAATTCCCTTAACTGTTCTCATAAATTGAGAATTCACTTGTGTTTGA
*
95576200 TGGTGGATAGAATTCCCTTAACTTTTCTCATAAATTGAGAATTCACTTGTGTTTGA
1 TGGTGGATAGAATTCCCTTAACTGTTCTCATAAATTGAGAATTCACTTGTGTTTGA
95576256 TG
1 TG
95576258 ATATGAAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (56 bp):
TGGTGGATAGAATTCCCTTAACTGTTCTCATAAATTGAGAATTCACTTGTGTTTGA
Found at i:95585052 original size:5 final size:5
Alignment explanation
Indices: 95585042--95585102 Score: 113
Period size: 5 Copynumber: 12.2 Consensus size: 5
95585032 CATTGCTCTC
*
95585042 TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAT
1 TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG
95585092 TCTAG TCTAG T
1 TCTAG TCTAG T
95585103 GTGGGTCTGG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 54 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.43
Consensus pattern (5 bp):
TCTAG
Found at i:95591427 original size:18 final size:18
Alignment explanation
Indices: 95591399--95591441 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
95591389 GCAAGACTAC
95591399 CAATCCTCTCTCTCTCTCT
1 CAAT-CTCTCTCTCTCTCT
* * *
95591418 CAATCTCTCTGTGTCTTT
1 CAATCTCTCTCTCTCTCT
95591436 CAATCT
1 CAATCT
95591442 AAGAAGTGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.14, C:0.37, G:0.05, T:0.44
Consensus pattern (18 bp):
CAATCTCTCTCTCTCTCT
Found at i:95594564 original size:55 final size:54
Alignment explanation
Indices: 95594464--95594663 Score: 194
Period size: 55 Copynumber: 3.7 Consensus size: 54
95594454 TTAAAGATAC
* *
95594464 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTT-TCTAAGGCAAGAAAAT
1 CATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGGCAAGAAAAT
* * **
95594519 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC-A-AAGGT
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGCAAGAAAAT
* * * * *
95594572 CCCATGTAAGACCATGCCAAGGCATGGCATTCGTGAGTTC-ATAAGGCAAGGATA-
1 --CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGAAAAT
* *
95594626 CTATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 C-ATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
95594664 TCAAAAGGAT
Statistics
Matches: 119, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
52 1 0.01
53 44 0.37
54 10 0.08
55 64 0.54
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGAAAAT
Found at i:95594662 original size:108 final size:110
Alignment explanation
Indices: 95594463--95594663 Score: 302
Period size: 108 Copynumber: 1.8 Consensus size: 110
95594453 TTTAAAGATA
*
95594463 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGAAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTCGTAAGGTTTCTAAGGCAAGAAAATCATGTAAGA
*
95594528 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
95594573 CCATGTAAGACCATGCCAAGGCATGGC-ATTCGTGA-G-TTCATAAGGCAAGGATA-CTATGTAA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTCGTAAGGTTTC-TAAGGCAAGAAAATC-ATGTAA
*
95594634 GACCATGTCAAGACATGGCAATGGTAAGTT
64 GACCATGTCAAGACATGGCAATGATAAGTT
95594664 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
107 4 0.05
108 46 0.55
109 6 0.07
110 27 0.33
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTCGTAAGGTTTCTAAGGCAAGAAAATCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:95594923 original size:16 final size:16
Alignment explanation
Indices: 95594902--95594932 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95594892 ATAAATTTGA
95594902 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
95594918 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
95594933 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:95616160 original size:21 final size:21
Alignment explanation
Indices: 95616136--95616178 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
95616126 TTTTAAGTTA
95616136 AAATGTATTTCCTTCCTAAAC
1 AAATGTATTTCCTTCCTAAAC
95616157 AAATGTATTTCCTTCCTAAAC
1 AAATGTATTTCCTTCCTAAAC
95616178 A
1 A
95616179 GTAGATCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (21 bp):
AAATGTATTTCCTTCCTAAAC
Found at i:95632995 original size:3 final size:3
Alignment explanation
Indices: 95632987--95633019 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
95632977 TTAACCATTA
95632987 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
95633020 TAAATTTGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:95634811 original size:24 final size:25
Alignment explanation
Indices: 95634775--95634823 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
95634765 TTCTGAAGGG
*
95634775 TTAAAAAATTCATT-AAAACTTTTT
1 TTAAAAAAGTCATTCAAAACTTTTT
*
95634799 TTAAAAAAGTCATTCAAATCTTTTT
1 TTAAAAAAGTCATTCAAAACTTTTT
95634824 ACGGAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (25 bp):
TTAAAAAAGTCATTCAAAACTTTTT
Found at i:95635284 original size:13 final size:13
Alignment explanation
Indices: 95635262--95635299 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
95635252 TAAGGATATC
*
95635262 AATTTCTATAAAT
1 AATTTTTATAAAT
95635275 AATTTTTAT-AAT
1 AATTTTTATAAAT
95635287 AATTCTTTATAAA
1 AATT-TTTATAAA
95635300 ACAATCTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 7 0.32
13 13 0.59
14 2 0.09
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTTTTATAAAT
Found at i:95640376 original size:107 final size:106
Alignment explanation
Indices: 95640191--95640406 Score: 423
Period size: 107 Copynumber: 2.0 Consensus size: 106
95640181 TTCTAATCTC
95640191 TAATGGGTGTATTTTCTAAGGTTGTAAAAGAGCCATTTATAGGCTAAATTCATAGATCAAATAAT
1 TAATGGGTGTATTTTCTAAGGTTGTAAAAGAGCCATTTATAGGCTAAATTCATAGATCAAATAAT
95640256 AATAAAATAATCTAAACTAATCAGTGTTTGATTGAAACAAG
66 AATAAAATAATCTAAACTAATCAGTGTTTGATTGAAACAAG
95640297 TAATGGGTGTATTTTCTAAGGTTGTAAAAGAGCCTATTTATAGGCTAAATTCATAGATCAAATAA
1 TAATGGGTGTATTTTCTAAGGTTGTAAAAGAGCC-ATTTATAGGCTAAATTCATAGATCAAATAA
95640362 TAATAAAATAATCTAAACTAATCAGTGTTTGATTGAAACAAG
65 TAATAAAATAATCTAAACTAATCAGTGTTTGATTGAAACAAG
95640404 TAA
1 TAA
95640407 ACAGAGTTTA
Statistics
Matches: 109, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
106 34 0.31
107 75 0.69
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (106 bp):
TAATGGGTGTATTTTCTAAGGTTGTAAAAGAGCCATTTATAGGCTAAATTCATAGATCAAATAAT
AATAAAATAATCTAAACTAATCAGTGTTTGATTGAAACAAG
Found at i:95644209 original size:21 final size:21
Alignment explanation
Indices: 95644183--95644223 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
95644173 ACTCAGAATA
95644183 TTTTTATTTTTAAAAATTTAT
1 TTTTTATTTTTAAAAATTTAT
*
95644204 TTTTTATTTTTAAAATTTTA
1 TTTTTATTTTTAAAAATTTA
95644224 AATTCAAGTG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTATTTTTAAAAATTTAT
Found at i:95646066 original size:61 final size:61
Alignment explanation
Indices: 95645991--95646115 Score: 189
Period size: 61 Copynumber: 2.0 Consensus size: 61
95645981 AAATAAATAT
*
95645991 TATTTTAAGAATATTTTTATATTTTTATATAAAAAAATTTAAAAAATATGATTCGATAGGA
1 TATTTTAAGAATATTTTTATATTTCTATATAAAAAAATTTAAAAAATATGATTCGATAGGA
* * * *
95646052 TATTTTGAAG-ATATTTTTGTATTTCTATATAAAAAATTTTAAAAAATATGATTTGATCGGA
1 TATTTT-AAGAATATTTTTATATTTCTATATAAAAAAATTTAAAAAATATGATTCGATAGGA
95646113 TAT
1 TAT
95646116 GAACTCAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 55 0.95
62 3 0.05
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (61 bp):
TATTTTAAGAATATTTTTATATTTCTATATAAAAAAATTTAAAAAATATGATTCGATAGGA
Found at i:95646913 original size:7 final size:7
Alignment explanation
Indices: 95646901--95646928 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
95646891 GAAAATTTAT
95646901 TTTAATA
1 TTTAATA
95646908 TTTAATA
1 TTTAATA
95646915 TTTAATA
1 TTTAATA
95646922 TTTAATA
1 TTTAATA
95646929 AAATATAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTAATA
Found at i:95656420 original size:22 final size:22
Alignment explanation
Indices: 95656392--95656436 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
95656382 TTAATAAAAA
95656392 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
95656414 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
95656436 A
1 A
95656437 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:95660187 original size:22 final size:22
Alignment explanation
Indices: 95660159--95660203 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
95660149 TTAATAAAAA
95660159 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
95660181 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
95660203 A
1 A
95660204 CAGATTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:95660303 original size:15 final size:15
Alignment explanation
Indices: 95660283--95660313 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
95660273 AAGTTCGATC
95660283 TTTAGATATTTTATT
1 TTTAGATATTTTATT
*
95660298 TTTAGATGTTTTATT
1 TTTAGATATTTTATT
95660313 T
1 T
95660314 AAACATTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (15 bp):
TTTAGATATTTTATT
Found at i:95660456 original size:15 final size:15
Alignment explanation
Indices: 95660436--95660467 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
95660426 TTCAGACAGG
*
95660436 CACATTATATATAAT
1 CACATTATATAAAAT
95660451 CACATTATATAAAAT
1 CACATTATATAAAAT
95660466 CA
1 CA
95660468 ATAAAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (15 bp):
CACATTATATAAAAT
Found at i:95662471 original size:32 final size:32
Alignment explanation
Indices: 95662435--95662497 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
95662425 AACTGAAGTG
95662435 GTGTTTCTTAACAAGTTGAGCCTGTATGAGTA
1 GTGTTTCTTAACAAGTTGAGCCTGTATGAGTA
**
95662467 GTGTTTCTTAATGAGTTGAGCCTGTATGAGT
1 GTGTTTCTTAACAAGTTGAGCCTGTATGAGT
95662498 GACCCAGCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (32 bp):
GTGTTTCTTAACAAGTTGAGCCTGTATGAGTA
Found at i:95670056 original size:31 final size:28
Alignment explanation
Indices: 95670021--95670084 Score: 67
Period size: 31 Copynumber: 2.2 Consensus size: 28
95670011 TTAATATATA
95670021 TATATGCAT-ATTTAGTTATGGATTTAATTTT
1 TATAT-CATAATTTAGTTAT---TTTAATTTT
**
95670052 TATATTTTAATTTAGTTATTTTAATTTT
1 TATATCATAATTTAGTTATTTTAATTTT
95670080 TATAT
1 TATAT
95670085 TTTTTAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 14 0.47
30 1 0.03
31 15 0.50
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.61
Consensus pattern (28 bp):
TATATCATAATTTAGTTATTTTAATTTT
Found at i:95670062 original size:14 final size:14
Alignment explanation
Indices: 95670043--95670087 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
95670033 TAGTTATGGA
95670043 TTTAATTTTTATAT
1 TTTAATTTTTATAT
*
95670057 TTTAATTTAGT-TAT
1 TTTAATTT-TTATAT
95670071 TTTAATTTTTATAT
1 TTTAATTTTTATAT
95670085 TTT
1 TTT
95670088 TTAAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTAATTTTTATAT
Found at i:95670538 original size:15 final size:15
Alignment explanation
Indices: 95670518--95670553 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
95670508 TTCATAAAAA
95670518 CTGAAATTTCAAATT
1 CTGAAATTTCAAATT
95670533 CTGAAATTTCAAATT
1 CTGAAATTTCAAATT
*
95670548 TTGAAA
1 CTGAAA
95670554 AGTATAGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (15 bp):
CTGAAATTTCAAATT
Found at i:95675765 original size:28 final size:28
Alignment explanation
Indices: 95675724--95675802 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
95675714 GCAATCAAAT
* * * *
95675724 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTAAGA
*
95675752 ATGGCACTTAGTGTGCGAGATATTAAGA
1 ATGGCACTTAGTGTGCGAAATATTAAGA
* *
95675780 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
95675803 CGAATGATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTAAGA
Found at i:95683908 original size:21 final size:21
Alignment explanation
Indices: 95683884--95683948 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
95683874 AAGTCTAGCT
95683884 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
95683905 GAAGC-CCGAA-TGCT-AACT
1 GAAGCACATAAGTGCTAAACG
95683923 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
95683944 GAAGC
1 GAAGC
95683949 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.14
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:95683920 original size:19 final size:19
Alignment explanation
Indices: 95683896--95683959 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
95683886 AGCACATAAG
95683896 TGCTAAACGGAAGCCCGAA
1 TGCTAAACGGAAGCCCGAA
* **
95683915 TGCT-AACTGAAGCACATAA
1 TGCTAAACGGAAGC-CCGAA
95683934 GTGCTAAACGGAAGCCCGAA
1 -TGCTAAACGGAAGCCCGAA
*
95683954 GGCTAA
1 TGCTAA
95683960 CTGAAGCTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 8 0.23
19 12 0.34
20 7 0.20
21 8 0.23
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (19 bp):
TGCTAAACGGAAGCCCGAA
Found at i:95683925 original size:39 final size:39
Alignment explanation
Indices: 95683866--95683995 Score: 172
Period size: 39 Copynumber: 3.3 Consensus size: 39
95683856 ATCGTGATCT
*
95683866 GAAGCCCGAA-GTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAATG-CTAACTGAAGCACATAAGTGCTAAACG
95683905 GAAGCCCGAATGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAATGCTAACTGAAGCACATAAGTGCTAAACG
* * * *
95683944 GAAGCCCGAAGGCTAACTGAAGCTCATCAGAGCTAAACTG
1 GAAGCCCGAATGCTAACTGAAGCACATAAGTGCTAAAC-G
* *
95683984 AAACCCCGAATG
1 GAAGCCCGAATG
95683996 GGTTGACTGA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 70 0.86
40 11 0.14
ACGTcount: A:0.37, C:0.25, G:0.24, T:0.15
Consensus pattern (39 bp):
GAAGCCCGAATGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:95697698 original size:28 final size:28
Alignment explanation
Indices: 95697666--95697723 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
95697656 CTTTTAATAT
*
95697666 CAAATACATGTTATCCTAATTTATCTAA
1 CAAATACATGTTATCCCAATTTATCTAA
95697694 CAAATACATGTTATCCCAATTTATCTAA
1 CAAATACATGTTATCCCAATTTATCTAA
95697722 CA
1 CA
95697724 TCCACCGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.36
Consensus pattern (28 bp):
CAAATACATGTTATCCCAATTTATCTAA
Found at i:95702732 original size:13 final size:13
Alignment explanation
Indices: 95702714--95702748 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
95702704 CTTATGACAC
* *
95702714 AAAAAAGAAGTAA
1 AAAAAAAAAGCAA
95702727 AAAAAAAAAGCAA
1 AAAAAAAAAGCAA
95702740 AAAAAAAAA
1 AAAAAAAAA
95702749 AGAAGAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAGCAA
Found at i:95702838 original size:190 final size:190
Alignment explanation
Indices: 95702450--95703011 Score: 978
Period size: 190 Copynumber: 3.0 Consensus size: 190
95702440 AAAAATGTAA
*
95702450 ATTGAAGTTGACCCATTCTTTGCTCTTTTTGAAGCATCAACAATTCGTTCTATTAAAGTGTGGTA
1 ATTGAAGTTGACCCATTCTTTGCTTTTTTTGAAGCATCAACAATTCGTTCTATTAAAGTGTGGTA
* * * *
95702515 CTTAGGACACAAAAAAGAAGT--AAAATAAAAGCACAAAAAAGAAAAGAAAAGAAAATTTATCTA
66 CTTATGACACAAAAAAGAAGTAAAAAAAAAAAGCA-AAAAAAAAAAAGAAGAGAAAATTTATCTA
95702578 ATTATAGTCCAAGAATTAATTTTGCATTCACATCTATCCCTCTTGTCCTTATGTTTTTACT
130 ATTATAGTCCAAGAATTAATTTTGCATTCACATCTATCCCTCTTGTCCTTATGTTTTTACT
*
95702639 ATTGAAGTTGACCCATTCTTTACTTTTTTTGAAGCATCAACAATTCGTTCTATTAAAGTGTGGTA
1 ATTGAAGTTGACCCATTCTTTGCTTTTTTTGAAGCATCAACAATTCGTTCTATTAAAGTGTGGTA
95702704 CTTATGACACAAAAAAGAAGTAAAAAAAAAAAGCAAAAAAAAAAAAGAAGAGAAAATTTATCTAA
66 CTTATGACACAAAAAAGAAGTAAAAAAAAAAAGCAAAAAAAAAAAAGAAGAGAAAATTTATCTAA
95702769 TTATAGTCCAAGAATTAATTTTGCATTCACATCTATCCCTCTTGTCCTTATGTTTTTACT
131 TTATAGTCCAAGAATTAATTTTGCATTCACATCTATCCCTCTTGTCCTTATGTTTTTACT
95702829 ATTGAAGTTGACCCATTCTTTGCTTTTTTTGAAGCATCAACAATTCGTTCTATTAAAGTGTGGTA
1 ATTGAAGTTGACCCATTCTTTGCTTTTTTTGAAGCATCAACAATTCGTTCTATTAAAGTGTGGTA
* *
95702894 CTTATGATACAAAAAAGAAGTAAAAGAAAAAAGC-----AAAAAAA-AAGAGAAAATTTATCTAA
66 CTTATGACACAAAAAAGAAGTAAAAAAAAAAAGCAAAAAAAAAAAAGAAGAGAAAATTTATCTAA
*
95702953 TTATAGTCCAAGAATTAATTTTGCATTCACATCTATCCTTCTTGTCCTTATGTTTTTAC
131 TTATAGTCCAAGAATTAATTTTGCATTCACATCTATCCCTCTTGTCCTTATGTTTTTAC
95703012 AAATAAGTCC
Statistics
Matches: 361, Mismatches: 10, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
184 76 0.21
185 7 0.02
189 83 0.23
190 184 0.51
191 11 0.03
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (190 bp):
ATTGAAGTTGACCCATTCTTTGCTTTTTTTGAAGCATCAACAATTCGTTCTATTAAAGTGTGGTA
CTTATGACACAAAAAAGAAGTAAAAAAAAAAAGCAAAAAAAAAAAAGAAGAGAAAATTTATCTAA
TTATAGTCCAAGAATTAATTTTGCATTCACATCTATCCCTCTTGTCCTTATGTTTTTACT
Found at i:95703604 original size:39 final size:39
Alignment explanation
Indices: 95703544--95703621 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
95703534 TTGTATCGAA
* *
95703544 AACCAATGGGCTTATCAATTTAACTGCTGGTCTGGTTAT
1 AACCAATGGGCTGATCAATTTAACTGCTGGTCAGGTTAT
* *
95703583 AACCAATGGGCTGATCGATTTAACTGTTGGTCAGGTTAT
1 AACCAATGGGCTGATCAATTTAACTGCTGGTCAGGTTAT
95703622 TTGAATATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.35
Consensus pattern (39 bp):
AACCAATGGGCTGATCAATTTAACTGCTGGTCAGGTTAT
Found at i:95704088 original size:36 final size:37
Alignment explanation
Indices: 95704024--95704097 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 37
95704014 CTATTTTACT
95704024 AATTAAAATAATAAATAATATTTATA-TTTATAAATA
1 AATTAAAATAATAAATAATATTTATATTTTATAAATA
* * * *
95704060 AATTTAAATAA-AAATATTTTTTATTATTTTTTAAATA
1 AATTAAAATAATAAATAATATTTA-TATTTTATAAATA
95704097 A
1 A
95704098 CTTTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 10 0.31
36 12 0.38
37 10 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (37 bp):
AATTAAAATAATAAATAATATTTATATTTTATAAATA
Found at i:95707057 original size:269 final size:268
Alignment explanation
Indices: 95706740--95707261 Score: 992
Period size: 269 Copynumber: 1.9 Consensus size: 268
95706730 CTCTTTTTTT
95706740 TTTTTTTTTTTTGCAAAGTAGGCTTTTATTTTTCATATTTAGAGAAATAAGTCGATTTTAAAGAC
1 TTTTTTTTTTTTGCAAAGTAGGCTTTTATTTTTCATATTTAGAGAAATAAGTCGATTTTAAAGAC
95706805 AACTGAAGTGTCAGAAAACACTTCCTATAAAATGAATTTTTTAATACATTAATTTTTTTTTGGTT
66 AACTGAAGTGTCAGAAAACACTTCCTATAAAATGAATTTTTTAATACATTAATTTTTTTTTGGTT
95706870 AAATGGTGAAATGTTAATAATTTTAACCTTAAGTCTCGGGTTTGATTATTCTCCTACTCATATTT
131 AAATGGTGAAATGTTAATAATTTTAACCTTAAGTCTCGGGTTTGATTATTCTCCTACTCATATTT
*
95706935 GTATTTTTTTATTTCATGTTGTTTTAATC-TTTTTTAAAATTTTTAATTAATAAATATATAAAAA
196 GTA-TTTTTTATTTCATGTTATTTTAATCTTTTTTTAAAA-TTTTAATTAATAAATATATAAAAA
95706999 AGCTGAACTC
259 AGCTGAACTC
95707009 TTTTTTTTTTTTGCAAAGTAGGCTTTTATTTTTCATATTTAGAGAAATAAGTCGATTTTAAAGAC
1 TTTTTTTTTTTTGCAAAGTAGGCTTTTATTTTTCATATTTAGAGAAATAAGTCGATTTTAAAGAC
*
95707074 AACTGAAGTGTCAGAAAACACTTCCTATAAAATGGATTTTTTAATACATTAATTTTTTTTTGGTT
66 AACTGAAGTGTCAGAAAACACTTCCTATAAAATGAATTTTTTAATACATTAATTTTTTTTTGGTT
*
95707139 AAATGGTGAAATGTTAATAATTTTAACCTTAAGTCTCGGGTTTGATTCTTCTCCTACTCATATTT
131 AAATGGTGAAATGTTAATAATTTTAACCTTAAGTCTCGGGTTTGATTATTCTCCTACTCATATTT
95707204 GTATTTTTTATTTCATGTTATTTTAATCTTTTTTTAAAATTTTAATTAATAAATATAT
196 GTATTTTTTATTTCATGTTATTTTAATCTTTTTTTAAAATTTTAATTAATAAATATAT
95707262 TACTTTCAAG
Statistics
Matches: 249, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
268 43 0.17
269 206 0.83
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.48
Consensus pattern (268 bp):
TTTTTTTTTTTTGCAAAGTAGGCTTTTATTTTTCATATTTAGAGAAATAAGTCGATTTTAAAGAC
AACTGAAGTGTCAGAAAACACTTCCTATAAAATGAATTTTTTAATACATTAATTTTTTTTTGGTT
AAATGGTGAAATGTTAATAATTTTAACCTTAAGTCTCGGGTTTGATTATTCTCCTACTCATATTT
GTATTTTTTATTTCATGTTATTTTAATCTTTTTTTAAAATTTTAATTAATAAATATATAAAAAAG
CTGAACTC
Found at i:95707364 original size:21 final size:19
Alignment explanation
Indices: 95707322--95707362 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
95707312 TATAAATAAA
* *
95707322 ATAATAAATATGTAATTAT
1 ATAATAAAAATATAATTAT
*
95707341 ATAATAAAAATATAACTAT
1 ATAATAAAAATATAATTAT
95707360 ATA
1 ATA
95707363 TATTATTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAATAAAAATATAATTAT
Found at i:95707367 original size:28 final size:28
Alignment explanation
Indices: 95707309--95707368 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 28
95707299 ACGCTTTTAT
*
95707309 TTATATAAATAAAATAATAAATATGTAA
1 TTATATAAATAAAATAATAAATATATAA
*
95707337 TTATAT-AATAAAA-ATATAACTATATATA
1 TTATATAAATAAAATA-ATAAATATATA-A
95707365 TTAT
1 TTAT
95707369 TATGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 1 0.04
27 16 0.57
28 11 0.39
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (28 bp):
TTATATAAATAAAATAATAAATATATAA
Found at i:95716723 original size:24 final size:24
Alignment explanation
Indices: 95716696--95716747 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
95716686 TTAGTAAGTC
*
95716696 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
95716720 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
95716744 AAAT
1 AAAT
95716748 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:95718686 original size:24 final size:24
Alignment explanation
Indices: 95718659--95718710 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
95718649 TTAGTAAGTC
*
95718659 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
95718683 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
95718707 AAAT
1 AAAT
95718711 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:95731474 original size:1 final size:1
Alignment explanation
Indices: 95731468--95731532 Score: 58
Period size: 1 Copynumber: 65.0 Consensus size: 1
95731458 CTTCTATTTC
* * * * * * * *
95731468 AAAAAAAAGAAAAGAAAAAGAGAAAAAAATATAAAAAAATAAAAAAAGAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
95731533 TGGAGAGGCC
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.88, C:0.00, G:0.08, T:0.05
Consensus pattern (1 bp):
A
Found at i:95731517 original size:26 final size:26
Alignment explanation
Indices: 95731468--95731533 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
95731458 CTTCTATTTC
* * *
95731468 AAAAAAAAGAAAAGAAAAAGAGAAAA
1 AAAAAAAAAAAAATAAAAAAAGAAAA
* *
95731494 AAATATAAAAAAATAAAAAAAGAAAA
1 AAAAAAAAAAAAATAAAAAAAGAAAA
95731520 AAAAAAAAAAAAAT
1 AAAAAAAAAAAAAT
95731534 GGAGAGGCCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (26 bp):
AAAAAAAAAAAAATAAAAAAAGAAAA
Found at i:95732845 original size:205 final size:205
Alignment explanation
Indices: 95732473--95733636 Score: 1879
Period size: 205 Copynumber: 5.7 Consensus size: 205
95732463 GCAGATCTGG
* *
95732473 CTGAAGCAAGATCCAAGACGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* * * *
95732538 GATTTGGTTTTCACGTGCTTATGTTGAAGCAAATCTAAAATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * *
95732603 AGAACAAATCGAAGTTTGACATCTTCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTC
130 AGAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTC
* *
95732668 AGTTATTTATA
195 AGATGTTTATA
* * * * *
95732679 CTGAAGCAGATCTAAGATAGTTTGGCATCCTTGTGTTTACAAGGAATAAATCGCAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* *
95732744 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
95732809 GAACAAATCGAAGTCTAGTATCTCCATTTCGACGGAGAGCAGATACAAAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
95732874 GATGTTTATA
196 GATGTTTATA
* *
95732884 GTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGTTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* *
95732949 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
95733014 GAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTTA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
95733079 GATGTTTATA
196 GATGTTTATA
* *
95733089 CTGAAGCAGATCCAAGATAGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGTTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
95733154 ATTTGGCTTTCACGTGCTTACAATGAAGCAAATCTAAGATGATTTGGCATCTCTATATTATCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
95733219 GAGCAAATTGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
95733284 GATGTTTATA
196 GATGTTTATA
*
95733294 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAATAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
95733359 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
95733424 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
95733489 GATG-----A
196 GATGTTTATA
* * *
95733494 CTAAAGCAGATCCAAGATGGTTTGGCATCTTTGTGCTTACAAGGAACAAATCGAAGGCATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * * *
95733559 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAAA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
95733624 GAACAAATCGAAG
131 GAACAAATCGAAG
95733637 AAACATATTT
Statistics
Matches: 892, Mismatches: 66, Indels: 6
0.93 0.07 0.01
Matches are distributed among these distances:
200 135 0.15
205 750 0.84
206 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
GATGTTTATA
Done.