Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 234 of 259
Found at i:73422421 original size:28 final size:28
Alignment explanation
Indices: 73422381--73422443 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
73422371 GTCATTATCA
73422381 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
73422409 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
73422437 ACCCCAT
1 ACCCCAT
73422444 TAATATAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:73426413 original size:16 final size:16
Alignment explanation
Indices: 73426379--73426416 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
73426369 AAATTTTGAG
73426379 TTTTTGTCAAAAACGTA
1 TTTTTGTCAAAAAC-TA
73426396 TTTTATGTCAAAAA-TA
1 TTTT-TGTCAAAAACTA
73426412 TTTTT
1 TTTTT
73426417 TAGAAACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 6 0.30
17 4 0.20
18 9 0.45
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (16 bp):
TTTTTGTCAAAAACTA
Found at i:73430055 original size:20 final size:20
Alignment explanation
Indices: 73430032--73430083 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
73430022 AAATCCAAAT
73430032 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
* *
73430052 TAAAATCCTTAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
73430072 TAAGAATACTGA
1 TAA-AATACTGA
73430084 TGTGGCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:73430940 original size:20 final size:20
Alignment explanation
Indices: 73430907--73430961 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
73430897 TTTATTATTT
73430907 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
73430929 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
73430949 ATTATTATTATTA
1 ATTATTATTATTA
73430962 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 22 0.73
21 3 0.10
22 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:73430940 original size:38 final size:35
Alignment explanation
Indices: 73430853--73430942 Score: 85
Period size: 38 Copynumber: 2.5 Consensus size: 35
73430843 TGTAAATATA
*
73430853 TATAATTTA-ATTATTAATTACTTTTTTATTTAAG
1 TATAATTTATATTATTAATTACTTTTTTATTAAAG
* * * *
73430887 TAT-ATTGATATTTATTATTTATTATTATTCTATTAAAT
1 TATAATTTATA-TTATTAATTACT-TT-TT-TATTAAAG
73430925 TATAATTTATATTATTAA
1 TATAATTTATATTATTAA
73430943 ATTATGATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
33 4 0.09
34 4 0.09
35 10 0.23
36 2 0.05
37 2 0.05
38 15 0.35
39 6 0.14
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (35 bp):
TATAATTTATATTATTAATTACTTTTTTATTAAAG
Found at i:73430946 original size:25 final size:26
Alignment explanation
Indices: 73430898--73430964 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
73430888 ATATTGATAT
* **
73430898 TTATTATTTATTATTATTCTATTAAA
1 TTATAATTTATTATTATTAAATTAAA
*
73430924 TTATAATTTA-TATTATTAAATTATGA
1 TTATAATTTATTATTATTAAATTA-AA
*
73430950 TTATTA-TTATTATTA
1 TTATAATTTATTATTA
73430965 AAAATAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (26 bp):
TTATAATTTATTATTATTAAATTAAA
Found at i:73431260 original size:13 final size:14
Alignment explanation
Indices: 73431242--73431279 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
73431232 TTATAAAGTT
73431242 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
73431255 AATAAAAGAAATGA
1 AATAAAATAAAAGA
73431269 AATAAAATAAA
1 AATAAAATAAA
73431280 GTAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:73431680 original size:22 final size:22
Alignment explanation
Indices: 73431655--73431697 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
73431645 GTAGTTAGAC
73431655 GTGAGTTTGGTAAGAAATTGAT
1 GTGAGTTTGGTAAGAAATTGAT
73431677 GTGAGTTTGGTAAGAAATTGA
1 GTGAGTTTGGTAAGAAATTGA
73431698 GTAGTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (22 bp):
GTGAGTTTGGTAAGAAATTGAT
Found at i:73432427 original size:45 final size:45
Alignment explanation
Indices: 73432359--73432455 Score: 142
Period size: 45 Copynumber: 2.2 Consensus size: 45
73432349 GCCGACTACT
* * *
73432359 GTTACTGTTACCGATTGGACACTTTGTGTGTTGAATACTGTTACC
1 GTTACTGTTACAGATTAGACACTTTGTATGTTGAATACTGTTACC
*
73432404 GTTACTGTTACAGATTCAG-CACTTTGTATGTTGAATACTGTTACT
1 GTTACTGTTACAGATT-AGACACTTTGTATGTTGAATACTGTTACC
73432449 GTTACTG
1 GTTACTG
73432456 CTACTGCTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
45 46 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (45 bp):
GTTACTGTTACAGATTAGACACTTTGTATGTTGAATACTGTTACC
Found at i:73432470 original size:18 final size:18
Alignment explanation
Indices: 73432439--73432473 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
73432429 GTATGTTGAA
* *
73432439 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
73432457 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
73432474 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:73433195 original size:14 final size:14
Alignment explanation
Indices: 73433176--73433205 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
73433166 TTATATCGAG
73433176 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
73433190 ACCAATCCAATTCA
1 ACCAATCCAAATCA
73433204 AC
1 AC
73433206 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:73434135 original size:21 final size:21
Alignment explanation
Indices: 73434093--73434131 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
73434083 TTTTCAGAGA
* *
73434093 TCAATCGAAATTTCCTTTCAT
1 TCAAACGAAATTTCCTTCCAT
73434114 TCAAACGAAATTT-CTTCC
1 TCAAACGAAATTTCCTTCC
73434132 CATTTTATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (21 bp):
TCAAACGAAATTTCCTTCCAT
Found at i:73435955 original size:26 final size:26
Alignment explanation
Indices: 73435926--73435982 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
73435916 ATTGTCTAAC
73435926 TATTTGTATAATGTTCGTTTATTAAT
1 TATTTGTATAATGTTCGTTTATTAAT
73435952 TATTTGTATAATGTTCGTTTATTAAT
1 TATTTGTATAATGTTCGTTTATTAAT
73435978 TATTT
1 TATTT
73435983 ATTAAGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.60
Consensus pattern (26 bp):
TATTTGTATAATGTTCGTTTATTAAT
Found at i:73446415 original size:34 final size:34
Alignment explanation
Indices: 73446305--73446414 Score: 139
Period size: 34 Copynumber: 3.2 Consensus size: 34
73446295 ACACATAAAT
* * *
73446305 AATCGGTTCAAAAGAAGCAATATTCTAACATAAC
1 AATCGATTCAAAAGAAGTAATATTCCAACATAAC
* * *
73446339 AATCGATTCAAAAGAAATAATATTTCAACATGAC
1 AATCGATTCAAAAGAAGTAATATTCCAACATAAC
* * *
73446373 AATAGATTTAAAAGAAGTAGTATTCCAACATAAC
1 AATCGATTCAAAAGAAGTAATATTCCAACATAAC
73446407 AATCGATT
1 AATCGATT
73446415 TCAATTTATA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (34 bp):
AATCGATTCAAAAGAAGTAATATTCCAACATAAC
Found at i:73446441 original size:55 final size:55
Alignment explanation
Indices: 73446382--73446495 Score: 174
Period size: 55 Copynumber: 2.1 Consensus size: 55
73446372 CAATAGATTT
* ** *
73446382 AAAAGAAGTAGTATTCCAACATAACAATCGATTTCAATTTATAAACAATTAATTC
1 AAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATAAAAACAATTAATTC
* *
73446437 AAAAGAAGTAGTATTCCAATATAACAATCGATTTAAACATAAAAACAATTGATTC
1 AAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATAAAAACAATTAATTC
73446492 AAAA
1 AAAA
73446496 AAAGAAGAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (55 bp):
AAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATAAAAACAATTAATTC
Found at i:73446647 original size:55 final size:55
Alignment explanation
Indices: 73446520--73446656 Score: 148
Period size: 55 Copynumber: 2.5 Consensus size: 55
73446510 ATTCCACCAT
* ** **
73446520 AACAATCAATTCAAAAGAAACAATATTTCAACATTACAATCGATTTAAACATTTA
1 AACAATCAATTCAAAAGAAACAATATTCCAACAAGACAATCGATTTAAACATAAA
* ** * * *
73446575 AATAATTTATTCAAAAGAACCAATATTCCAATAAGATAATCGATTTAAACATAAA
1 AACAATCAATTCAAAAGAAACAATATTCCAACAAGACAATCGATTTAAACATAAA
* * *
73446630 AACAATCAATCCGAAAGAAGCAATATT
1 AACAATCAATTCAAAAGAAACAATATT
73446657 TTTGAAAATT
Statistics
Matches: 65, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 65 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (55 bp):
AACAATCAATTCAAAAGAAACAATATTCCAACAAGACAATCGATTTAAACATAAA
Found at i:73450029 original size:15 final size:14
Alignment explanation
Indices: 73450011--73450041 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
73450001 TTAATTTATT
73450011 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
73450026 TAATAATAATCTAA
1 TAATAATAATCTAA
73450040 TA
1 TA
73450042 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:73450052 original size:21 final size:20
Alignment explanation
Indices: 73450028--73450096 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
73450018 AATGCTAATA
73450028 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
73450049 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
73450068 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
73450089 ATAATAAT
1 ATAATAAT
73450097 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:73450108 original size:33 final size:32
Alignment explanation
Indices: 73450060--73450137 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 32
73450050 TAATGTTAAT
* *
73450060 TAATAATTATAATAATTTAATATAAAACC-ATAA
1 TAATAATCATTATAATTT-ATATAAAACCTA-AA
73450093 TAATAATCATTATAA--TATATAAAACCTAAA
1 TAATAATCATTATAATTTATATAAAACCTAAA
73450123 TAA-AATC-TT-TAATTT
1 TAATAATCATTATAATTT
73450138 TATTTCACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
27 3 0.08
28 2 0.05
29 5 0.12
30 15 0.38
31 2 0.05
33 13 0.32
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (32 bp):
TAATAATCATTATAATTTATATAAAACCTAAA
Found at i:73461167 original size:37 final size:37
Alignment explanation
Indices: 73461123--73461251 Score: 231
Period size: 37 Copynumber: 3.5 Consensus size: 37
73461113 CACTTATCCC
*
73461123 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
73461160 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
* *
73461197 TGATCAGACAAGTGTAGCCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
73461234 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
73461252 TAAAGCTATC
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 88 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
Found at i:73461268 original size:46 final size:46
Alignment explanation
Indices: 73461215--73461483 Score: 331
Period size: 46 Copynumber: 5.6 Consensus size: 46
73461205 CAAGTGTAGC
* **
73461215 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
73461261 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
73461307 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
73461359 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
73461405 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
73461457 CACTTATCACTTTGTCATTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
73461484 AGTACTCAAA
Statistics
Matches: 198, Mismatches: 13, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
46 111 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:73461334 original size:52 final size:52
Alignment explanation
Indices: 73461258--73461469 Score: 292
Period size: 52 Copynumber: 4.2 Consensus size: 52
73461248 TAGCTAAAGC
* *
73461258 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
73461311 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
73461363 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
73461409 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
73461461 TATCACTTT
1 TATCACTTT
73461470 GTCATTTGAT
Statistics
Matches: 142, Mismatches: 11, Indels: 13
0.86 0.07 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 86 0.61
53 12 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:73461380 original size:98 final size:98
Alignment explanation
Indices: 73461215--73461483 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
73461205 CAAGTGTAGC
* * *
73461215 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
73461280 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
73461314 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
73461379 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
73461412 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCATTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
73461477 GATCAGA
66 GATCAGA
73461484 AGTACTCAAA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 150 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:73464661 original size:49 final size:49
Alignment explanation
Indices: 73464606--73464751 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
73464596 TTCGTTTTCT
* *
73464606 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
73464655 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
73464704 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
73464752 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:73466065 original size:37 final size:37
Alignment explanation
Indices: 73466004--73466149 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
73465994 TACGTGTGAT
* *
73466004 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
73466039 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
73466076 CACTTATCACTTTGTTTCTTGATCAGACAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
73466113 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
73466150 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:73466166 original size:46 final size:46
Alignment explanation
Indices: 73466113--73466381 Score: 324
Period size: 46 Copynumber: 5.6 Consensus size: 46
73466103 CAAGTGTAGC
* **
73466113 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
73466159 CACTTATCACTTTGTCTA-TTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTC-ACTTGATCAGATAAGTGTAGCCGAAGCTAT
73466205 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
73466257 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
73466303 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
73466355 CACTTATCACTTTGTCATTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
73466382 AGTACTCAAA
Statistics
Matches: 196, Mismatches: 13, Indels: 28
0.83 0.05 0.12
Matches are distributed among these distances:
46 109 0.56
48 1 0.01
49 2 0.01
50 1 0.01
51 1 0.01
52 82 0.42
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:73466233 original size:52 final size:52
Alignment explanation
Indices: 73466156--73466367 Score: 285
Period size: 52 Copynumber: 4.2 Consensus size: 52
73466146 TAGCTAAAGC
*
73466156 TATCACTTATCACTTTGTCTA-TTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTC-ACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
73466209 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
73466261 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
73466307 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
73466359 TATCACTTT
1 TATCACTTT
73466368 GTCATTTGAT
Statistics
Matches: 142, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
51 1 0.01
52 85 0.60
53 12 0.08
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:73466279 original size:98 final size:97
Alignment explanation
Indices: 73466113--73466381 Score: 439
Period size: 98 Copynumber: 2.7 Consensus size: 97
73466103 CAAGTGTAGC
* *
73466113 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTC-AT
73466178 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
73466212 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCA-TT
*
73466277 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
65 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
73466310 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCATTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCA-TT
73466375 GATCAGA
65 GATCAGA
73466382 AGTACTCAAA
Statistics
Matches: 159, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
97 1 0.01
98 149 0.94
99 9 0.06
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCATTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:73490537 original size:24 final size:23
Alignment explanation
Indices: 73490485--73490538 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
73490475 ATGCTGAGGC
*
73490485 AATTTTAATATATTTATTCTTTA
1 AATTTTAATATATTTATTATTTA
73490508 AA-TTTAATTTATATTTA-TATTTA
1 AATTTTAA--TATATTTATTATTTA
73490531 AATTTTAA
1 AATTTTAA
73490539 GGAATCAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.19
23 9 0.33
24 13 0.48
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
AATTTTAATATATTTATTATTTA
Found at i:73496302 original size:60 final size:60
Alignment explanation
Indices: 73496236--73496355 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
73496226 TTTATCCTCC
73496236 AAAATTGTTTTATCTTGACGAATTTGTCCTACCTTCGATTCACTATCAAATTCAAAATCA
1 AAAATTGTTTTATCTTGACGAATTTGTCCTACCTTCGATTCACTATCAAATTCAAAATCA
73496296 AAAATTGTTTTATCTTGACGAATTTGTCCTACCTTCGATTCACTATCAAATTCAAAATCA
1 AAAATTGTTTTATCTTGACGAATTTGTCCTACCTTCGATTCACTATCAAATTCAAAATCA
73496356 GGGTATCCTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.38
Consensus pattern (60 bp):
AAAATTGTTTTATCTTGACGAATTTGTCCTACCTTCGATTCACTATCAAATTCAAAATCA
Found at i:73497000 original size:32 final size:32
Alignment explanation
Indices: 73496923--73496988 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
73496913 TTAAAAAAAC
73496923 TTAACTCATAAATTAGTATCTAAATTATACTT
1 TTAACTCATAAATTAGTATCTAAATTATACTT
73496955 TTAACTCATAAATTAGTATCTAAATTATACTT
1 TTAACTCATAAATTAGTATCTAAATTATACTT
73496987 TT
1 TT
73496989 TTTTCTCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (32 bp):
TTAACTCATAAATTAGTATCTAAATTATACTT
Found at i:73497936 original size:60 final size:60
Alignment explanation
Indices: 73497870--73498006 Score: 146
Period size: 58 Copynumber: 2.3 Consensus size: 60
73497860 AAAAAAATAC
73497870 AAAAAATAGAAATAAATTATAAGAA-TA-T-GAAATGATCTAAAAAAATATT-TA-ATTTTTTTT
1 AAAAAATAGAAA-AAATTATAA-AAGTATTAGAAAT--TCT-AAAAAATATTATATATTTTTTTT
* *
73497930 AAAAAAT-GATAAAAAATATAAAAGTATTAGAAATTGTAAAAAATATTATATATTTTTTTT
1 AAAAAATAGA-AAAAATTATAAAAGTATTAGAAATTCTAAAAAATATTATATATTTTTTTT
73497990 --AAAATAGAAAAAATTAT
1 AAAAAATAGAAAAAATTAT
73498007 TATATTTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 16
0.78 0.03 0.19
Matches are distributed among these distances:
58 25 0.37
59 18 0.27
60 19 0.28
61 5 0.07
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.36
Consensus pattern (60 bp):
AAAAAATAGAAAAAATTATAAAAGTATTAGAAATTCTAAAAAATATTATATATTTTTTTT
Found at i:73503371 original size:52 final size:51
Alignment explanation
Indices: 73503288--73503542 Score: 289
Period size: 46 Copynumber: 5.1 Consensus size: 51
73503278 ATCAAGTGAC
* * *
73503288 AAAGTGATAAGTGGTAGC-TCTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTC-GGCTATACTTATCTGATCAAGTGACAAGT-G
* *
73503340 AAAGTGATAAGTAATAGCTTCGGCCATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
*
73503386 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
*
73503437 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
** * *
73503484 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-AAGTG
73503536 ATAAGTG
1 A-AAGTG
73503543 GCTACACTTA
Statistics
Matches: 176, Mismatches: 13, Indels: 27
0.81 0.06 0.12
Matches are distributed among these distances:
46 86 0.49
52 83 0.47
53 7 0.04
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
Found at i:73503394 original size:98 final size:97
Alignment explanation
Indices: 73503274--73503542 Score: 430
Period size: 98 Copynumber: 2.7 Consensus size: 97
73503264 TTTGAGTACT
*
73503274 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCT-TAGCTACACTTATCTGATCAAGTGACAAGTG
*
73503339 GAAAGTGATAAGTAATAGCTTCGGCCATACTTA
65 AAAAGTGATAAGTAATAGCTTCGGCCATACTTA
*
73503372 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGATCAAGTGACAAGTG
* *
73503437 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
65 AAAAGTGATAAGTAATAGCTTCGGCCATACTTA
* *
73503470 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGC-TTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
73503535 GATAAGTG
64 GAAAAGTG
73503543 GCTACACTTA
Statistics
Matches: 159, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
97 1 0.01
98 145 0.91
99 13 0.08
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (97 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGTGACAAGTGA
AAAGTGATAAGTAATAGCTTCGGCCATACTTA
Found at i:73503550 original size:37 final size:37
Alignment explanation
Indices: 73503506--73503651 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
73503496 GATAGCTTTA
*
73503506 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
73503543 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
73503580 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
73503617 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
73503652 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:73504981 original size:58 final size:59
Alignment explanation
Indices: 73504904--73505022 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
73504894 CATGTGAACA
73504904 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
73504963 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
73505021 TG
1 TG
73505023 ATTTCGTGTA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 55 0.92
59 5 0.08
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.32
Consensus pattern (59 bp):
TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:73505013 original size:28 final size:28
Alignment explanation
Indices: 73504923--73505013 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
73504913 GTGATTCCGT
73504923 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
73504951 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
73504980 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
73505009 GTAAG
1 GTAAG
73505014 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:73505036 original size:49 final size:49
Alignment explanation
Indices: 73504964--73505106 Score: 223
Period size: 49 Copynumber: 2.9 Consensus size: 49
73504954 AGTGATATGT
* *
73504964 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* * *
73505013 GTGATATGTGATTTCGTGTAAGACCGTAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
73505062 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
73505107 AGAAAACGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 86 1.00
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:73508328 original size:52 final size:48
Alignment explanation
Indices: 73508297--73508499 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
73508287 TGACAAGTGG
* *
73508297 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
73508343 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
73508395 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
73508441 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
73508487 AAAGTGATAAGTG
1 AAAGTGATAAGTG
73508500 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:73508351 original size:98 final size:97
Alignment explanation
Indices: 73508231--73508499 Score: 439
Period size: 98 Copynumber: 2.7 Consensus size: 97
73508221 TTTGAGTACT
*
73508231 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCT-TAGCTACACTTATCTGATCAAGTGACAAGTG
*
73508296 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
73508329 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGATCAAGTGACAAGTG
*
73508394 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
65 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
73508427 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGC-TTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
73508492 GATAAGTG
64 GAAAAGTG
73508500 GCTACACTTA
Statistics
Matches: 160, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
97 1 0.01
98 146 0.91
99 13 0.08
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (97 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGTGACAAGTGA
AAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:73508507 original size:37 final size:37
Alignment explanation
Indices: 73508463--73508608 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
73508453 GATAGCTTTA
*
73508463 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
73508500 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
73508537 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
73508574 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
73508609 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:73511256 original size:6 final size:6
Alignment explanation
Indices: 73511247--73511271 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
73511237 TTTATTTTAT
73511247 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
73511272 AAAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:73526619 original size:15 final size:16
Alignment explanation
Indices: 73526601--73526639 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
73526591 TTTGTTTGGA
73526601 TTTTTTAAT-TTTCAG
1 TTTTTTAATATTTCAG
* *
73526616 TTTTTTCATATTTGAG
1 TTTTTTAATATTTCAG
73526632 TTTTTTAA
1 TTTTTTAA
73526640 GTTTAAATTT
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:0.21, C:0.05, G:0.08, T:0.67
Consensus pattern (16 bp):
TTTTTTAATATTTCAG
Found at i:73526705 original size:13 final size:13
Alignment explanation
Indices: 73526687--73526711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73526677 TGTAATAAGA
73526687 ATAAAAATTTTAT
1 ATAAAAATTTTAT
73526700 ATAAAAATTTTA
1 ATAAAAATTTTA
73526712 ATTTTAATAG
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAAATTTTAT
Found at i:73530030 original size:40 final size:38
Alignment explanation
Indices: 73529910--73530036 Score: 114
Period size: 40 Copynumber: 3.2 Consensus size: 38
73529900 TTGAATGATG
* * *
73529910 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGC-GAGTG-ATAAA
*
73529950 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGAT-ACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CTTTGTGCGAG-TGA-TAAA
* *
73529990 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAG-TGATAAA
73530030 TCCGGGT
1 TCCGGGT
73530037 CGGGAAGTGG
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
39 3 0.04
40 59 0.82
41 10 0.14
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTGATAAA
Found at i:73531601 original size:40 final size:40
Alignment explanation
Indices: 73531518--73531740 Score: 204
Period size: 40 Copynumber: 5.6 Consensus size: 40
73531508 TTGAATGCTG
* * * * *
73531518 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
73531558 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
* **
73531598 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
**
73531638 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TACTAAA
* * * *
73531678 TCCGGGTTATGTCCCGAGGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
73531717 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
73531741 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 20, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
39 33 0.21
40 113 0.72
41 10 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:73531655 original size:80 final size:79
Alignment explanation
Indices: 73531518--73531742 Score: 233
Period size: 80 Copynumber: 2.8 Consensus size: 79
73531508 TTGAATGCTG
* * * * * *
73531518 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
73531581 TTGTGCGAGA-TACTAAA
63 TTGTGCGA-ATTACTAAA
* *
73531598 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
**
73531663 GTGCGAATTGTTAAA
65 GTGCGAATTACTAAA
* * * * *
73531678 TCCGGGTTATGTCCCGAGGGCATTGTGTGAGTT-ACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
73531742 G
65 G
73531743 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
79 37 0.30
80 80 0.65
81 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:73531761 original size:79 final size:80
Alignment explanation
Indices: 73531593--73531754 Score: 191
Period size: 79 Copynumber: 2.0 Consensus size: 80
73531583 GTGCGAGATA
** *
73531593 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
73531658 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * * * *
73531673 TTAAATCCGGGTTATGTCCCGAGGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
73531737 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
73531752 CTA
1 CTA
73531755 TGTCCGGTTG
Statistics
Matches: 67, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
79 41 0.61
80 26 0.39
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:73533678 original size:40 final size:40
Alignment explanation
Indices: 73533595--73533817 Score: 204
Period size: 40 Copynumber: 5.6 Consensus size: 40
73533585 TTGAATGCTG
* * * * *
73533595 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
73533635 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
* **
73533675 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
**
73533715 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TACTAAA
* * * *
73533755 TCCGGGTTATGTCCCGAGGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
73533794 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
73533818 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 20, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
39 33 0.21
40 113 0.72
41 10 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:73533732 original size:80 final size:79
Alignment explanation
Indices: 73533595--73533819 Score: 233
Period size: 80 Copynumber: 2.8 Consensus size: 79
73533585 TTGAATGCTG
* * * * * *
73533595 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
73533658 TTGTGCGAGA-TACTAAA
63 TTGTGCGA-ATTACTAAA
* *
73533675 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
**
73533740 GTGCGAATTGTTAAA
65 GTGCGAATTACTAAA
* * * * *
73533755 TCCGGGTTATGTCCCGAGGGCATTGTGTGAGTT-ACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
73533819 G
65 G
73533820 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
79 37 0.30
80 80 0.65
81 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:73533837 original size:79 final size:80
Alignment explanation
Indices: 73533670--73533852 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
73533660 GTGCGAGATA
** *
73533670 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
73533735 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * * * *
73533750 TTAAATCCGGGTTATGTCCCGAGGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
73533814 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
* *
73533829 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
73533853 TAAGTGATTT
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 13 0.15
79 45 0.54
80 26 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:73536313 original size:12 final size:12
Alignment explanation
Indices: 73536298--73536328 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
73536288 AATAATTAAA
73536298 TAAATTCGAAAT
1 TAAATTCGAAAT
73536310 TAAATTCGAAAT
1 TAAATTCGAAAT
73536322 TAAATTC
1 TAAATTC
73536329 AGATTTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (12 bp):
TAAATTCGAAAT
Found at i:73537561 original size:50 final size:49
Alignment explanation
Indices: 73537507--73537620 Score: 119
Period size: 47 Copynumber: 2.3 Consensus size: 49
73537497 CCTATGCATA
73537507 TGGGAGTAGGTCATTTATTATCACTTTCCGTAAGCCCCCTCCCATGTGTC
1 TGGGAGTAGGTCATTTATTATCACTTTCCGTAAGCCCCC-CCCATGTGTC
* * * * *
73537557 TGGGAGCAAGG---TTT-TTATTACTTTTCGTGAGCCTCCCCCATGTGTC
1 TGGGAG-TAGGTCATTTATTATCACTTTCCGTAAGCCCCCCCCATGTGTC
*
73537603 TAGGAGTAGGGTCATTTA
1 TGGGAGTA-GGTCATTTA
73537621 AATACCTTCT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
45 1 0.02
46 17 0.33
47 18 0.35
48 3 0.06
49 3 0.06
50 6 0.12
51 3 0.06
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (49 bp):
TGGGAGTAGGTCATTTATTATCACTTTCCGTAAGCCCCCCCCATGTGTC
Found at i:73537704 original size:50 final size:50
Alignment explanation
Indices: 73537644--73537808 Score: 156
Period size: 50 Copynumber: 3.3 Consensus size: 50
73537634 AGTCTCCCCA
* * * *
73537644 CATGCTTCTAGGAGTAGGGCCTTAATTACCACCTTCCGTAAGCCTCTTCC
1 CATGCGTCTAGGAGCAAGGCCTTAATTACCACCTTCCGTAAGCCTCCTCC
* * *
73537694 CATGCGTCTAGGAGCAATGCCTTTATTACCACCTTCTGTAAGCCTCCTCC
1 CATGCGTCTAGGAGCAAGGCCTTAATTACCACCTTCCGTAAGCCTCCTCC
* * * * ** *
73537744 TATGCGTCTAGAAGCAGAGTCATT--TTAATACCTTTCGTAAGCCTCC-CC
1 CATGCGTCTAGGAGCA-AGGCCTTAATTACCACCTTCCGTAAGCCTCCTCC
*
73537792 CTATGCATCTAGGAGCA
1 C-ATGCGTCTAGGAGCA
73537809 GGACATTTTT
Statistics
Matches: 94, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
48 2 0.02
49 31 0.33
50 57 0.61
51 4 0.04
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (50 bp):
CATGCGTCTAGGAGCAAGGCCTTAATTACCACCTTCCGTAAGCCTCCTCC
Found at i:73540920 original size:50 final size:50
Alignment explanation
Indices: 73540845--73541021 Score: 248
Period size: 50 Copynumber: 3.5 Consensus size: 50
73540835 CCACGGCAAC
* *
73540845 AAGTGATAAATGATAGCTTTGGCTACACTTATCTAATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGA
* *
73540895 AAGTGATAAGT-AGTAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGA-TAGCTTCGGCTACACTTATCTAATCAAGGACAAATGA
* * *
73540945 AAGTGATAAGTGATATCTTCGGCTACACCTATCTAATCAGGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGA
* *
73540995 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
73541022 CTGATCAGTG
Statistics
Matches: 112, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.01
50 87 0.78
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGA
Found at i:73541035 original size:31 final size:31
Alignment explanation
Indices: 73540997--73541176 Score: 297
Period size: 31 Copynumber: 5.8 Consensus size: 31
73540987 ACAAATGACA
73540997 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
73541028 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
73541059 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
73541090 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
73541121 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
73541152 AGTGAAAAATGGTAGCTTCGACTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
73541177 AAGTGACAAG
Statistics
Matches: 143, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 143 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:73541408 original size:50 final size:50
Alignment explanation
Indices: 73541350--73541450 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
73541340 TTACCATTCA
*
73541350 ATCAACACTTTGACACTTGTATAAGCATCAAACAGCAACATTGTTAGTAT
1 ATCAACACTTTGACACTTGTATAAGCACCAAACAGCAACATTGTTAGTAT
73541400 ATCAACACTTTGACACTTGTATAAGCACCAAACAGCAACATTGTTAGTAT
1 ATCAACACTTTGACACTTGTATAAGCACCAAACAGCAACATTGTTAGTAT
73541450 A
1 A
73541451 CTTGCACATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.29
Consensus pattern (50 bp):
ATCAACACTTTGACACTTGTATAAGCACCAAACAGCAACATTGTTAGTAT
Found at i:73541936 original size:46 final size:46
Alignment explanation
Indices: 73541871--73542102 Score: 315
Period size: 46 Copynumber: 5.0 Consensus size: 46
73541861 TTATCTTTGA
* * * * * *
73541871 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
73541917 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
73541963 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
73542009 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
73542055 CA-GACTGCCATGGTATCTTTCAACCATGGTCTTACACAATTCATAT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
73542101 CA
1 CA
73542103 GAGAGCACAC
Statistics
Matches: 170, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
45 5 0.03
46 165 0.97
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:73544764 original size:47 final size:46
Alignment explanation
Indices: 73544711--73544813 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 46
73544701 GGGGTATTAC
* * * * *
73544711 ATATGGCATCTGTGTGATATATGCTACTGTATAAGACCATATCTGGG
1 ATATGGCATCAGTGAGATATATGATAC-GCATAAGACCATAGCTGGG
* * *
73544758 ATATGGCATCAGTGAGATATGTGATTCGCGTAAGACCATAGCTGGG
1 ATATGGCATCAGTGAGATATATGATACGCATAAGACCATAGCTGGG
*
73544804 TTATGGCATC
1 ATATGGCATC
73544814 GATATATGAA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 25 0.53
47 22 0.47
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (46 bp):
ATATGGCATCAGTGAGATATATGATACGCATAAGACCATAGCTGGG
Found at i:73544851 original size:42 final size:43
Alignment explanation
Indices: 73544787--73544899 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 43
73544777 TGTGATTCGC
* * *
73544787 GTAAGACCATAGCTGGGTTATGGCATCGA-TATATGAATATGT
1 GTAAGACCATAGTTGGGATATGGCATCGATTATATGAAGATGT
* *
73544829 GTAAGACCATAGTTGGGCTATGGCATC-ATTATGTGAAGATGT
1 GTAAGACCATAGTTGGGATATGGCATCGATTATATGAAGATGT
**
73544871 GTAAGACCATAGTTGAAATATGGCATCGA
1 GTAAGACCATAGTTGGGATATGGCATCGA
73544900 GAAAATGAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.02
42 60 0.97
43 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (43 bp):
GTAAGACCATAGTTGGGATATGGCATCGATTATATGAAGATGT
Found at i:73546961 original size:21 final size:21
Alignment explanation
Indices: 73546935--73546978 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
73546925 GTCGAGAGGG
73546935 AAAGAAAATGCGAGAGCCGAC
1 AAAGAAAATGCGAGAGCCGAC
73546956 AAAGAAAATGCGAGAGCCGAC
1 AAAGAAAATGCGAGAGCCGAC
73546977 AA
1 AA
73546979 CGAGTAGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.18, G:0.27, T:0.05
Consensus pattern (21 bp):
AAAGAAAATGCGAGAGCCGAC
Found at i:73565180 original size:21 final size:21
Alignment explanation
Indices: 73565141--73565185 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
73565131 ATTTAATTAA
*
73565141 TTTTTAATATTTTAAAATATT
1 TTTTTAATATTTTAAAATAAT
*
73565162 TTTTTATATATTTT-TAATAAT
1 TTTTTA-ATATTTTAAAATAAT
73565183 TTT
1 TTT
73565186 AATGATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTAATATTTTAAAATAAT
Found at i:73565197 original size:10 final size:9
Alignment explanation
Indices: 73565140--73565208 Score: 59
Period size: 9 Copynumber: 7.2 Consensus size: 9
73565130 CATTTAATTA
73565140 ATTTTTAAT
1 ATTTTTAAT
*
73565149 ATTTTAAAAT
1 ATTTT-TAAT
73565159 ATTTTTTTATAT
1 A--TTTTTA-AT
73565171 ATTTTTAAT
1 ATTTTTAAT
*
73565180 AATTTTAAT
1 ATTTTTAAT
73565189 GATTTTTAA-
1 -ATTTTTAAT
*
73565198 ATTTTAAAT
1 ATTTTTAAT
73565207 AT
1 AT
73565209 AATTTTTTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
8 7 0.14
9 17 0.35
10 17 0.35
11 1 0.02
12 7 0.14
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:73570444 original size:25 final size:24
Alignment explanation
Indices: 73570416--73570462 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
73570406 TTACATATAT
73570416 TTTTATAATTTAAATTTTATTTACC
1 TTTTATAATTTAAATTTT-TTTACC
* * *
73570441 TTTTTTAGTTTAGATTTTTTTA
1 TTTTATAATTTAAATTTTTTTA
73570463 ATTTTTTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (24 bp):
TTTTATAATTTAAATTTTTTTACC
Found at i:73575385 original size:20 final size:20
Alignment explanation
Indices: 73575360--73575409 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
73575350 TGGCTTAAAA
73575360 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
73575380 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
73575397 GTGGTAGTGGATT
1 TTGGTAGTGGATT
73575410 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:73580024 original size:20 final size:20
Alignment explanation
Indices: 73579999--73580048 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
73579989 TGGCTTAAAA
73579999 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
73580019 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
73580036 GTGGTAGTGGATT
1 TTGGTAGTGGATT
73580049 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:73588189 original size:19 final size:20
Alignment explanation
Indices: 73588161--73588233 Score: 80
Period size: 19 Copynumber: 3.6 Consensus size: 20
73588151 CTCATTTTGG
73588161 GAAG-AAAGAAGGAGAAGAA
1 GAAGAAAAGAAGGAGAAGAA
*
73588180 -AAGAAAAGAAAGA-AGAGAA
1 GAAGAAAAGAAGGAGA-AGAA
73588199 GAAGAAAAGAAGAGAGGAAGAA
1 GAAGAAAAGAAG-GA-GAAGAA
73588221 GAAGGAAAAGAAG
1 GAA-GAAAAGAAG
73588234 AAGCAGGCAG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
18 4 0.09
19 12 0.27
20 10 0.22
21 2 0.04
22 7 0.16
23 10 0.22
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
GAAGAAAAGAAGGAGAAGAA
Found at i:73588192 original size:23 final size:21
Alignment explanation
Indices: 73588166--73588236 Score: 83
Period size: 23 Copynumber: 3.3 Consensus size: 21
73588156 TTTGGGAAGA
73588166 AAGAAGGAGAAGAAAAGAAAAG
1 AAGAAGGAGAAG-AAAGAAAAG
73588188 AAAGAA-GAGAAG-AAGAAAAG
1 -AAGAAGGAGAAGAAAGAAAAG
*
73588208 AAGAGAGGAAGAAGAAGGAAAAG
1 AAGA-AGG-AGAAGAAAGAAAAG
73588231 AAGAAG
1 AAGAAG
73588237 CAGGCAGCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
19 4 0.09
20 9 0.21
21 1 0.02
22 13 0.30
23 16 0.37
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (21 bp):
AAGAAGGAGAAGAAAGAAAAG
Found at i:73588195 original size:3 final size:3
Alignment explanation
Indices: 73588161--73588236 Score: 65
Period size: 3 Copynumber: 26.3 Consensus size: 3
73588151 CTCATTTTGG
*
73588161 GAA GAAA GAA GGA GAA GAA -AA GAA -AA GAAA GAA G-A GAA GAA GAA
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA
*
73588205 -AA GAA G-A GAG GAA GAA GAA GGAA -AA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA G
73588237 CAGGCAGCAT
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
2 12 0.20
3 39 0.65
4 9 0.15
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:73588752 original size:17 final size:16
Alignment explanation
Indices: 73588729--73588771 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 16
73588719 TATCTTAATG
73588729 AAAAAATAAAATACGA
1 AAAAAATAAAATACGA
*
73588745 AAAGAAATAAAATATGA
1 AAA-AAATAAAATACGA
73588762 AAAAAATAAA
1 AAAAAATAAA
73588772 TTTTTTGGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (16 bp):
AAAAAATAAAATACGA
Found at i:73589170 original size:138 final size:137
Alignment explanation
Indices: 73588808--73589421 Score: 642
Period size: 138 Copynumber: 4.5 Consensus size: 137
73588798 GTTTTTTTAT
* * * *
73588808 TAAAATAATATAAAAATAAAATACGGAAATAGTATATTTTAAAAAATAATATCCAAAAATTTTAA
1 TAAAATAATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTAAAAATTTTAA
* * * * *
73588873 AAATACAAATAAA-GTGACAAAATTAGGGTTATTT-------ACTAAAATTATACATTTGAAACA
66 AAATACAAACAAATG-GCCAAAATCAGAGTTATTTAAAAAACACTAAAATAATACATTTGAAACA
73588930 TTATGTAC
130 TTATGTAC
** * * * *
73588938 TAAAATAATATTAAAATAAAATAGGAAAATAATATATTTT-AAAAA-AAAGTTTAAAAATTTTAA
1 TAAAATAATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTAAAAATTTTAA
* *
73589001 AAATACAAACAAAGGGCCAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
66 AAATACAAACAAATGGCCAAAATCAGAGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
73589066 TATGTAC
131 TATGTAC
73589073 TAAAATAAGATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-TAAAAATTTT
1 TAAAAT-A-ATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTAAAAATTTT
*
73589137 AAAAATACAAACAAATGGCCAAAATCAGAGTTATTTAAAAAACACTAAAATAATATATTTGAAAC
64 AAAAATACAAACAAATGGCCAAAATCAGAGTTATTTAAAAAACACTAAAATAATACATTTGAAAC
73589202 ATTATGTAC
129 ATTATGTAC
* * * *
73589211 --------T---AAAATAAAATACGAAAATAATATATTTTAAAAAATAAAGTCTGAAAATTTAAA
1 TAAAATAATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTAAAAATTTTAA
* * *
73589265 AAATACAAACAAATAGCCAAAATCAGAGTTATTTACTAAATTAATATAAAAAAATTTAAAATAAT
66 AAATACAAACAAATGGCCAAAATCAGAG-----T--T--ATT--TA-AAAAACA-CTAAAATAAT
73589330 ACATTTGAAACATTATGTAC
118 ACATTTGAAACATTATGTAC
** *
73589350 TAAAATAATATAAAAAAAATAAAATATAAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTT
1 TAAAAT-A-AT-AAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTAAAAATTT
*
73589415 CAAAAAT
63 TAAAAAT
73589422 TTTAAAAATA
Statistics
Matches: 409, Mismatches: 35, Indels: 57
0.82 0.07 0.11
Matches are distributed among these distances:
125 38 0.09
126 37 0.09
128 44 0.11
129 6 0.01
130 36 0.09
131 1 0.00
133 1 0.00
135 39 0.10
136 1 0.00
137 31 0.08
138 92 0.22
139 32 0.08
149 1 0.00
153 50 0.12
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (137 bp):
TAAAATAATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTAAAAATTTTAA
AAATACAAACAAATGGCCAAAATCAGAGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
TATGTAC
Found at i:73589641 original size:15 final size:16
Alignment explanation
Indices: 73589610--73589667 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
73589600 ACCGAGTGTA
**
73589610 TTAAATATATTATATT
1 TTAAATATAAAATATT
73589626 TTAAATA-AAAATATT
1 TTAAATATAAAATATT
** *
73589641 TTACTTATTAAATATT
1 TTAAATATAAAATATT
73589657 TTAAATTATAA
1 TTAAA-TATAA
73589668 TAAAAATATT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
15 11 0.34
16 17 0.53
17 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAATATAAAATATT
Found at i:73589652 original size:38 final size:38
Alignment explanation
Indices: 73589608--73589704 Score: 108
Period size: 38 Copynumber: 2.5 Consensus size: 38
73589598 ATACCGAGTG
73589608 TATTAAATATATTATATTTTAAATAAAAATATTT-TACT
1 TATTAAATATATTATATTTT-AATAAAAATATTTGTACT
* * * *
73589646 TATTAAATATTTTAAATTATAATAAAAATATTTGTATT
1 TATTAAATATATTATATTTTAATAAAAATATTTGTACT
*
73589684 TGAGTTGAATATATT-TATTTT
1 T-A-TTAAATATATTATATTTT
73589705 TTTAATGTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
37 13 0.27
38 21 0.44
39 5 0.10
40 9 0.19
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (38 bp):
TATTAAATATATTATATTTTAATAAAAATATTTGTACT
Found at i:73596652 original size:17 final size:16
Alignment explanation
Indices: 73596624--73596665 Score: 75
Period size: 17 Copynumber: 2.6 Consensus size: 16
73596614 CCCCAAAAAA
73596624 TTATTTTTTTCATATT
1 TTATTTTTTTCATATT
73596640 TTATTTCTTTTCATATT
1 TTATTT-TTTTCATATT
73596657 TTATTTTTT
1 TTATTTTTT
73596666 CGTTAAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTTTTCATATT
Found at i:73596695 original size:16 final size:16
Alignment explanation
Indices: 73596624--73596706 Score: 60
Period size: 17 Copynumber: 5.1 Consensus size: 16
73596614 CCCCAAAAAA
*
73596624 TTATTTTTTTCATATT
1 TTATTTTTTTAATATT
*
73596640 TTATTTCTTTTCATATT
1 TTATTT-TTTTAATATT
*** **
73596657 TTATTTTTTCGTTAAG
1 TTATTTTTTTAATATT
*
73596673 ATA-TTTTTTAATATT
1 TTATTTTTTTAATATT
*
73596688 TTATTTTTTATACTATT
1 TTATTTTTT-TAATATT
73596705 TT
1 TT
73596707 TGTAAAATAG
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
15 9 0.18
16 18 0.35
17 24 0.47
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (16 bp):
TTATTTTTTTAATATT
Found at i:73597193 original size:3 final size:3
Alignment explanation
Indices: 73597173--73597239 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
73597163 GTGCTTCTCT
* * *
73597173 TTC TTC TCC TTC TCC TTC TTC TT- TTC CT- TTC TTC -TC TTC TTTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
73597216 TT- TTC TTC TTC TTC TTC TTTC TTC
1 TTC TTC TTC TTC TTC TTC -TTC TTC
73597240 CCAAAATGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 7 0.13
3 39 0.75
4 6 0.12
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:73597372 original size:27 final size:28
Alignment explanation
Indices: 73597321--73597415 Score: 81
Period size: 27 Copynumber: 3.5 Consensus size: 28
73597311 GTCTTCTCCA
* *
73597321 CGGTGCCGCCTCTGGCACTGG--CACCAT
1 CGGTGCCGCCTGTGGCA-TGGCCCACCAC
73597348 CGGTGCCGCCTGTGGCA-GGCCCACCAC
1 CGGTGCCGCCTGTGGCATGGCCCACCAC
* * * *
73597375 CAGTGTCGCCTGTAGCATGG-CCTCCAC
1 CGGTGCCGCCTGTGGCATGGCCCACCAC
*
73597402 CTGTGCCGCTCTGT
1 CGGTGCCGC-CTGT
73597416 CTGCTTCAGT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
25 2 0.04
27 48 0.86
28 6 0.11
ACGTcount: A:0.11, C:0.40, G:0.29, T:0.20
Consensus pattern (28 bp):
CGGTGCCGCCTGTGGCATGGCCCACCAC
Found at i:73597443 original size:21 final size:20
Alignment explanation
Indices: 73597417--73597456 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
73597407 CCGCTCTGTC
*
73597417 TGCTTCAGTTTCTTTTTTTTT
1 TGCTTCAGCTT-TTTTTTTTT
73597438 TGCTTCAGCTTTTTTTTTT
1 TGCTTCAGCTTTTTTTTTT
73597457 CAATTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.05, C:0.15, G:0.10, T:0.70
Consensus pattern (20 bp):
TGCTTCAGCTTTTTTTTTTT
Found at i:73597993 original size:238 final size:237
Alignment explanation
Indices: 73597583--73598155 Score: 745
Period size: 238 Copynumber: 2.4 Consensus size: 237
73597573 TATTATTCAA
* * *
73597583 ATTCTTCATCTAGGAGAAGAAAGAGTCTCGATAGGTCCAGTTCTA-TAGTAAACACTGCTGCAGC
1 ATTCTTCTTCTAGGAGAAG-AA-AGTCTTGATAGGTCCAGTTCTATTAGT-AAGACTGCTGCAGC
** *
73597647 TGTAGTGGTTGAGATGGATGAAATGAAATCAGTTTCTAATGCAAAGGTCTCTCCCGCAACTGTTT
63 TGTAGTGGTTGAGATGGATGAAATGAAATTGGTTTCTAATGCAAAGGTCTCTCCCGCAACTGTTG
** * * *
73597712 ATTATGTCAAAGGACCTAAGCTTGATGTACTAGATATTGATTCTAACTCCAATTCTTTGAGGGGT
128 ATTACATCAAAGGACCTAAGCTCGATGTACTAGATAGTGATTCTAACTCCAATTCTTTGAGGGAT
* *
73597777 GAATCACTTCCCGGAGATCAAACTCAAACAAGGGATTATTATTTTG
193 GAATCACTGCCCGGAGAGCAAACTCAAACAA-GGATTATTATTTTG
* * ** * *
73597823 ATTCTTCTTCTAGGATAAGAAAGTCTTGATAGGTCCAGTTCTATTGGTAAGTTTACTGCAGCTAT
1 ATTCTTCTTCTAGGAGAAGAAAGTCTTGATAGGTCCAGTTCTATTAGTAAGACTGCTGCAGCTGT
* * * * * *
73597888 AGTAGG-TCAGCTGGATGAAAGGAAATTGGTTTCTAATGCAAAGGTCTTTCCTGCGACTGTTGAT
66 AGT-GGTTGAGATGGATGAAATGAAATTGGTTTCTAATGCAAAGGTCTCTCCCGCAACTGTTGAT
* * * * *
73597952 TACATCAATGGATCTAAGCTCGGTGTTCTAGATGGTGATTCTAACTCCAATTCTTTGAGGGATGA
130 TACATCAAAGGACCTAAGCTCGATGTACTAGATAGTGATTCTAACTCCAATTCTTTGAGGGATGA
* * * * *
73598017 ATCACTGCCTGGAGGGCTAACTCAGATAAGGATTATTATTTTG
195 ATCACTGCCCGGAGAGCAAACTCAAACAAGGATTATTATTTTG
* * *
73598060 AATCTTCTTCTAGGAGAAGAAAGTCTTGATATGTCCAGTTCTATTAGTAAGACTGTTGCAGCTGT
1 ATTCTTCTTCTAGGAGAAGAAAGTCTTGATAGGTCCAGTTCTATTAGTAAGACTGCTGCAGCTGT
73598125 AGTGGTTGAGATGGATGAAATGAAATTGGTT
66 AGTGGTTGAGATGGATGAAATGAAATTGGTT
73598156 AAAGTTGATT
Statistics
Matches: 283, Mismatches: 47, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
236 2 0.01
237 95 0.34
238 162 0.57
239 7 0.02
240 17 0.06
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (237 bp):
ATTCTTCTTCTAGGAGAAGAAAGTCTTGATAGGTCCAGTTCTATTAGTAAGACTGCTGCAGCTGT
AGTGGTTGAGATGGATGAAATGAAATTGGTTTCTAATGCAAAGGTCTCTCCCGCAACTGTTGATT
ACATCAAAGGACCTAAGCTCGATGTACTAGATAGTGATTCTAACTCCAATTCTTTGAGGGATGAA
TCACTGCCCGGAGAGCAAACTCAAACAAGGATTATTATTTTG
Found at i:73598353 original size:209 final size:208
Alignment explanation
Indices: 73597988--73598364 Score: 537
Period size: 209 Copynumber: 1.8 Consensus size: 208
73597978 TCTAGATGGT
* *
73597988 GATTCTAACTCCAATTCTTTGAGGGATGAATCACTGCCTGGAGGGCTAACTCAGATAAGGATTAT
1 GATTCTAACTCCAATTCTTTGAGGGATGAATCACTGCCTGAAGGGCTAACTCAGACAAGGATTAT
* * * **
73598053 TATTTTGAATCTTCTTCTAGGAGAAGAAAGTCTTGATATGTCCAGTTCTATTAGTAAGACTGTTG
66 TATTCTGAATCTTCTTCTAGGAGAAGAAAGTCTTGATAGGTCCAGTTCTATTAGGAAGACTGCGG
* **
73598118 CAGCTGTAGTGGTTGAGATGGATGAAATGAAATTGGTTAAAGTTGATTACGTTCATGGACCTTGG
131 CAGCTATAGTGGTTGAGACCGATGAAATGAAATTGGTTAAAGTTGATTACGTTCATGGACCTTGG
73598183 TGTGCCGGATAGG
196 TGTGCCGGATAGG
* * * *
73598196 GATTCTAACTCCCATTCTTTGAGGGATGAATCACTTCCTGAAGGGTCTGA-TCAGACGA-GATTA
1 GATTCTAACTCCAATTCTTTGAGGGATGAATCACTGCCTGAAGGG-CTAACTCAGACAAGGATTA
*
73598259 TTATTCT-AATTCTTCTTCTAGGAGAAGAAAGAGTCTCT-ATAGGTCCGGTTCTATTAGGAAGAC
65 TTATTCTGAA-TCTTCTTCTAGGAGAAG-AA-AGTCT-TGATAGGTCCAGTTCTATTAGGAAGAC
*
73598322 TGCGGCATCTATAGTGGTTGAGACCGATGAAATGAAATTGGTT
126 TGCGGCAGCTATAGTGGTTGAGACCGATGAAATGAAATTGGTT
73598365 TCTAGTGTTT
Statistics
Matches: 148, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
206 2 0.01
207 28 0.19
208 50 0.34
209 67 0.45
210 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (208 bp):
GATTCTAACTCCAATTCTTTGAGGGATGAATCACTGCCTGAAGGGCTAACTCAGACAAGGATTAT
TATTCTGAATCTTCTTCTAGGAGAAGAAAGTCTTGATAGGTCCAGTTCTATTAGGAAGACTGCGG
CAGCTATAGTGGTTGAGACCGATGAAATGAAATTGGTTAAAGTTGATTACGTTCATGGACCTTGG
TGTGCCGGATAGG
Found at i:73603332 original size:10 final size:10
Alignment explanation
Indices: 73603319--73603352 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
73603309 TTTTGAGAAA
73603319 TTTAATTTTT
1 TTTAATTTTT
*
73603329 TTTAATGTTCT
1 TTTAAT-TTTT
73603340 TTTAATTTTT
1 TTTAATTTTT
73603350 TTT
1 TTT
73603353 CATTCTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (10 bp):
TTTAATTTTT
Found at i:73606629 original size:25 final size:24
Alignment explanation
Indices: 73606575--73606629 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
73606565 CCTTAAAAGA
**
73606575 AAAAAAAAATGGTCCCTAAGATGG
1 AAAAAAAAATGGTCCAAAAGATGG
*
73606599 AGAAAAAAAATGGTCCAAAAGGTGTG
1 A-AAAAAAAATGGTCCAAAAGATG-G
73606625 AAAAA
1 AAAAA
73606630 CTTCATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 23 0.88
26 2 0.08
ACGTcount: A:0.55, C:0.09, G:0.22, T:0.15
Consensus pattern (24 bp):
AAAAAAAAATGGTCCAAAAGATGG
Found at i:73607095 original size:23 final size:23
Alignment explanation
Indices: 73607050--73607105 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
73607040 AATGCAACAA
* * * *
73607050 GAGACCAGAAGCAGTTCAGCATG
1 GAGACCAGCACCAGCTCAACATG
73607073 GAGACCAGCACCAGCTCAACATG
1 GAGACCAGCACCAGCTCAACATG
* *
73607096 AAGATCAGCA
1 GAGACCAGCA
73607106 TTGGAGTTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.27, G:0.25, T:0.11
Consensus pattern (23 bp):
GAGACCAGCACCAGCTCAACATG
Found at i:73609845 original size:19 final size:20
Alignment explanation
Indices: 73609817--73609855 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
73609807 TCTCATTTTT
73609817 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
73609836 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
73609856 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:73609873 original size:25 final size:23
Alignment explanation
Indices: 73609836--73609881 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
73609826 TTTGTTTTAA
*
73609836 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
73609859 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
73609882 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:73610089 original size:23 final size:20
Alignment explanation
Indices: 73610054--73610099 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 20
73610044 TATGTCCATC
73610054 TTTTAAACATTGTACATATATA
1 TTTTAAACATTGTACA-AT-TA
*
73610076 TTTTATAATATTGTACAATTA
1 TTTTA-AACATTGTACAATTA
73610097 TTT
1 TTT
73610100 AATTACGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 7 0.32
23 10 0.45
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (20 bp):
TTTTAAACATTGTACAATTA
Found at i:73612442 original size:13 final size:13
Alignment explanation
Indices: 73612424--73612448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73612414 TTTCGAGTGT
73612424 TTTTTATTTTTTA
1 TTTTTATTTTTTA
73612437 TTTTTATTTTTT
1 TTTTTATTTTTT
73612449 TGAGACGTTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:73612459 original size:33 final size:35
Alignment explanation
Indices: 73612405--73612483 Score: 83
Period size: 38 Copynumber: 2.2 Consensus size: 35
73612395 AAGGTGACCC
*
73612405 TTTTATTATTTTCGAGTGTTTT-T-TATT-TTTTAT
1 TTTTATT-TTTTCGAGCGTTTTATATATTGTTTTAT
*
73612438 TTTTATTTTTTTGAGACGTTTTACTACTATTGTTTTAT
1 TTTTATTTTTTCGAG-CGTTTTA-TA-TATTGTTTTAT
73612476 TTTTATTT
1 TTTTATTT
73612484 ACATATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 7 0.18
33 12 0.32
35 1 0.03
37 4 0.11
38 14 0.37
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (35 bp):
TTTTATTTTTTCGAGCGTTTTATATATTGTTTTAT
Found at i:73613119 original size:3 final size:3
Alignment explanation
Indices: 73613111--73613170 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
73613101 TTAATTTTAA
* * * * *
73613111 TAT TAT TAT TGT TAT TAT TAG TAT TAT TGT TAA TAT TAT TTT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
73613158 CAT TAT TAC TAT T
1 TAT TAT TAT TAT T
73613171 TTTCATTTTT
Statistics
Matches: 42, Mismatches: 14, Indels: 2
0.72 0.24 0.03
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:73613350 original size:3 final size:3
Alignment explanation
Indices: 73613342--73613518 Score: 123
Period size: 3 Copynumber: 58.3 Consensus size: 3
73613332 CACATTCATT
* * *
73613342 TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTC TTT TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
73613388 TTA TTTA TTA TTA TTA TTC TTT TTA TTA ATA TTA TTA TTTA CTA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * *
73613435 TTA TGT- TTA CTT- TTA -TA CTA -TA GTTA -TA CTT- TCTC TTA TGA
1 TTA T-TA TTA -TTA TTA TTA TTA TTA -TTA TTA -TTA T-TA TTA TTA
* * *
73613476 TCA TCA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
73613519 ACTTTCTTTT
Statistics
Matches: 142, Mismatches: 18, Indels: 28
0.76 0.10 0.15
Matches are distributed among these distances:
2 10 0.07
3 116 0.82
4 16 0.11
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:73613387 original size:34 final size:34
Alignment explanation
Indices: 73613335--73613438 Score: 181
Period size: 34 Copynumber: 3.1 Consensus size: 34
73613325 TTACTGTCAC
* *
73613335 ATTCATTTTATTATTATTATTATTTATTATTATT
1 ATTCTTTTTATTAATATTATTATTTATTATTATT
73613369 ATTCTTTTTATTAATATTATTATTTATTATTATT
1 ATTCTTTTTATTAATATTATTATTTATTATTATT
*
73613403 ATTCTTTTTATTAATATTATTATTTACTATTATT
1 ATTCTTTTTATTAATATTATTATTTATTATTATT
73613437 AT
1 AT
73613439 GTTTACTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (34 bp):
ATTCTTTTTATTAATATTATTATTTATTATTATT
Found at i:73616192 original size:20 final size:21
Alignment explanation
Indices: 73616156--73616194 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
73616146 CACTCAACTT
73616156 TTAAAACTTATGTAATAGTCA
1 TTAAAACTTATGTAATAGTCA
73616177 TTAAAA-TTATCG-AATAGT
1 TTAAAACTTAT-GTAATAGT
73616195 TACATTTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (21 bp):
TTAAAACTTATGTAATAGTCA
Found at i:73628483 original size:6 final size:6
Alignment explanation
Indices: 73628472--73628508 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
73628462 AAACCCAGCC
73628472 GTCGAG GTCGAG GTCGAG GTCGAG GTCGAG GTCGAG G
1 GTCGAG GTCGAG GTCGAG GTCGAG GTCGAG GTCGAG G
73628509 GTTTTACAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.51, T:0.16
Consensus pattern (6 bp):
GTCGAG
Found at i:73632205 original size:9 final size:9
Alignment explanation
Indices: 73632191--73632221 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
73632181 TCTTTTCAGC
73632191 AAAAAAATA
1 AAAAAAATA
73632200 AAAAAAATA
1 AAAAAAATA
73632209 AAAAAAATA
1 AAAAAAATA
73632218 AAAA
1 AAAA
73632222 GCTAGAGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATA
Found at i:73635407 original size:43 final size:43
Alignment explanation
Indices: 73635358--73635446 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
73635348 AATGTGAAGA
*
73635358 GTTAAATTTATTAAATTATTTAGAATTAAGATTTGGCTATTTG
1 GTTAAATTTATTAAATTATTTAGAATCAAGATTTGGCTATTTG
73635401 GTTAAATTTATTAAATTATTTAGAATCAAGATTTGGCTATTTG
1 GTTAAATTTATTAAATTATTTAGAATCAAGATTTGGCTATTTG
73635444 GTT
1 GTT
73635447 TCTAAGCAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.48
Consensus pattern (43 bp):
GTTAAATTTATTAAATTATTTAGAATCAAGATTTGGCTATTTG
Found at i:73636719 original size:22 final size:22
Alignment explanation
Indices: 73636691--73636734 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
73636681 TAATACATTA
73636691 AAAATAAAAATTAATTAATAAG
1 AAAATAAAAATTAATTAATAAG
* *
73636713 AAAATAATAATTTATTAATAAG
1 AAAATAAAAATTAATTAATAAG
73636735 GTAAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (22 bp):
AAAATAAAAATTAATTAATAAG
Found at i:73636813 original size:29 final size:30
Alignment explanation
Indices: 73636781--73636844 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
73636771 TTTTCTTCAA
*
73636781 CCAACCATGAA-AAGTCCTTTTTTGATCAC
1 CCAACCATGAATAACTCCTTTTTTGATCAC
* *
73636810 CCAACCATTAATAACTCCTTTTTTTATCAC
1 CCAACCATGAATAACTCCTTTTTTGATCAC
*
73636840 TCAAC
1 CCAAC
73636845 TATTCAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (30 bp):
CCAACCATGAATAACTCCTTTTTTGATCAC
Found at i:73647589 original size:16 final size:13
Alignment explanation
Indices: 73647555--73647579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73647545 TCTAATCATA
73647555 TAATAATTTATAT
1 TAATAATTTATAT
73647568 TAATAATTTATA
1 TAATAATTTATA
73647580 ATTTTAATAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATAATTTATAT
Found at i:73647629 original size:13 final size:14
Alignment explanation
Indices: 73647611--73647652 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
73647601 TTTCAATTTT
73647611 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
73647624 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
73647639 ATTTTAAATAATAT
1 ATTTT-AATAATAT
73647653 TCTTCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:73647637 original size:16 final size:16
Alignment explanation
Indices: 73647615--73647651 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
73647605 AATTTTATTT
73647615 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
73647632 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
73647647 TAATA
1 TAATA
73647652 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:73647705 original size:15 final size:15
Alignment explanation
Indices: 73647685--73647741 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
73647675 CTTCAATATT
73647685 AATATTTTAATAATA
1 AATATTTTAATAATA
*
73647700 AATATTTATTAAAATTATA
1 AATA-TT-TT--AATAATA
*
73647719 AATATATTAATAATA
1 AATATTTTAATAATA
*
73647734 AATGTTTT
1 AATATTTT
73647742 GTAGTGTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:73651159 original size:19 final size:20
Alignment explanation
Indices: 73651128--73651181 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
73651118 AAAAATATAA
73651128 ATTTTGAAATTTTT-ATAAA-T
1 ATTTTG-AATTTTTGA-AAATT
73651148 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
73651168 ATTTTG-ATTTTTGA
1 ATTTTGAATTTTTGA
73651182 TTTGTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.57
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:73652970 original size:24 final size:24
Alignment explanation
Indices: 73652938--73652986 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
73652928 AAAAAACCGA
73652938 CAGAACAGTAGCTTCCATTACTCC
1 CAGAACAGTAGCTTCCATTACTCC
73652962 CAGAACAGTAGCTTCCATTACTCC
1 CAGAACAGTAGCTTCCATTACTCC
73652986 C
1 C
73652987 TAATAGCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.24
Consensus pattern (24 bp):
CAGAACAGTAGCTTCCATTACTCC
Found at i:73654151 original size:20 final size:20
Alignment explanation
Indices: 73654126--73654165 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
73654116 ACCCAGTAAG
*
73654126 TTAGGGTACAATCCTCCCGT
1 TTAGGGCACAATCCTCCCGT
73654146 TTAGGGCACAATCCTCCCGT
1 TTAGGGCACAATCCTCCCGT
73654166 GGATCCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.28
Consensus pattern (20 bp):
TTAGGGCACAATCCTCCCGT
Found at i:73654421 original size:3 final size:3
Alignment explanation
Indices: 73654413--73654544 Score: 69
Period size: 3 Copynumber: 44.0 Consensus size: 3
73654403 TAGTGCCATT
* * * * * * *
73654413 ATA ATA ATA AAA ATA AAA ATA ATA AAA ATA ACA AT- ATG TTA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
73654460 ATA ATAA ATAA ATA TTG GTA ATA A-A TATA TATA A-A ATA ATA GTA A-A
1 ATA AT-A AT-A ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA
73654506 AGTA ATA A-A ATAA ATA A-A ATA ATA ATA ATA ATA ATA ATA
1 A-TA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
73654545 CTCTCCCCCT
Statistics
Matches: 100, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
2 11 0.11
3 72 0.72
4 17 0.17
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:73654526 original size:29 final size:31
Alignment explanation
Indices: 73654477--73654542 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
73654467 ATAAATATTG
* *
73654477 GTAATAAATATATATAAAATAATAGTAA-AA
1 GTAATAAATATAAATAAAATAATAATAATAA
73654507 GTAATAAA-ATAAATAAAATAATAATAATAA
1 GTAATAAATATAAATAAAATAATAATAATAA
73654537 -TAATAA
1 GTAATAA
73654543 TACTCTCCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 23 0.70
30 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (31 bp):
GTAATAAATATAAATAAAATAATAATAATAA
Found at i:73654934 original size:30 final size:30
Alignment explanation
Indices: 73654898--73654978 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 30
73654888 CATGGTGGCA
*
73654898 AGTAGGGTAATGGAGTTAGTGGGGT-AGCTT
1 AGTAGGGTGATGGAGTTAGTGGGGTGA-CTT
*
73654928 AGTAGGGTGATAGAGTTAGTGGGGTGACTT
1 AGTAGGGTGATGGAGTTAGTGGGGTGACTT
*
73654958 AGT-GGGTGATGAAGTTAGTGG
1 AGTAGGGTGATGGAGTTAGTGG
73654979 TCAGTTTAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 16 0.35
30 29 0.63
31 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.44, T:0.30
Consensus pattern (30 bp):
AGTAGGGTGATGGAGTTAGTGGGGTGACTT
Found at i:73657501 original size:34 final size:35
Alignment explanation
Indices: 73657456--73657525 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 35
73657446 TATGTTTGAA
* *
73657456 TTTTATCATTAAAATTTATCA-TCAATTTTAATTT
1 TTTTATCATTAAAATTTACCATTCAATTTCAATTT
*
73657490 TTTTATTATTAAAATTTACCATTCAATTTCAATTT
1 TTTTATCATTAAAATTTACCATTCAATTTCAATTT
73657525 T
1 T
73657526 GATAATTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 19 0.59
35 13 0.41
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (35 bp):
TTTTATCATTAAAATTTACCATTCAATTTCAATTT
Found at i:73659019 original size:37 final size:37
Alignment explanation
Indices: 73658955--73659111 Score: 199
Period size: 37 Copynumber: 4.0 Consensus size: 37
73658945 TACGTATGAT
*
73658955 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
73658991 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
73659028 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
73659071 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
73659111 C
1 C
73659112 GAAGCTATCA
Statistics
Matches: 107, Mismatches: 4, Indels: 19
0.82 0.03 0.15
Matches are distributed among these distances:
36 10 0.09
37 54 0.50
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 3 0.03
44 2 0.02
46 30 0.28
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:73659081 original size:46 final size:46
Alignment explanation
Indices: 73659028--73659394 Score: 437
Period size: 46 Copynumber: 7.6 Consensus size: 46
73659018 TAAGTGTAGC
* **
73659028 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
73659074 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
73659120 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
73659172 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
73659224 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
73659270 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * ** *
73659316 TACTTATCACTTTCCACTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
73659368 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
73659395 AGTACTCAAA
Statistics
Matches: 289, Mismatches: 19, Indels: 26
0.87 0.06 0.08
Matches are distributed among these distances:
46 154 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 128 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:73659147 original size:52 final size:52
Alignment explanation
Indices: 73659071--73659388 Score: 408
Period size: 52 Copynumber: 6.3 Consensus size: 52
73659061 TAGCTAAAGC
* *
73659071 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
73659124 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
73659176 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
73659228 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
73659274 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * * ** *
73659320 TATCACTTTCCACTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
73659372 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
73659389 ATCAGAAGTA
Statistics
Matches: 237, Mismatches: 18, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
46 83 0.35
47 2 0.01
48 2 0.01
52 132 0.56
53 18 0.08
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:73659336 original size:196 final size:196
Alignment explanation
Indices: 73659028--73659380 Score: 589
Period size: 196 Copynumber: 1.8 Consensus size: 196
73659018 TAAGTGTAGC
* * * * * *
73659028 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
*
73659093 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
73659158 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
73659223 T
196 T
*
73659224 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
* *
73659289 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCTCTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
73659354 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
73659381 GTCACTTGAT
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 144 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:73659386 original size:98 final size:97
Alignment explanation
Indices: 73659028--73659394 Score: 483
Period size: 98 Copynumber: 3.7 Consensus size: 97
73659018 TAAGTGTAGC
* * *
73659028 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACT
73659093 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
73659127 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCAC--T----TTG
* *
73659192 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * * *
73659231 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTTG
*
73659291 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
73659323 CACTTTCCACTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTT
73659388 GATCAGA
65 GATCAGA
73659395 AGTACTCAAA
Statistics
Matches: 236, Mismatches: 19, Indels: 27
0.84 0.07 0.10
Matches are distributed among these distances:
92 41 0.17
94 1 0.00
96 1 0.00
98 140 0.59
99 7 0.03
100 3 0.01
101 1 0.00
104 42 0.18
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:73667644 original size:3 final size:3
Alignment explanation
Indices: 73667636--73667748 Score: 74
Period size: 3 Copynumber: 37.7 Consensus size: 3
73667626 GAGGGGAGAG
*
73667636 TAT TAT TAT TAT TAT TAT T-T TAT TACT T-T TAC TAT TAT T-T TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * *
73667678 TAT ATATT TAT TAT CAT TATT TATT TAT TAT TAT TAG TAA CA- TAT TGT
1 TAT -TA-T TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* *
73667726 TAT TTT TAT TAT TTT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
73667749 CTATAATGGC
Statistics
Matches: 87, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
2 9 0.10
3 64 0.74
4 13 0.15
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:73667660 original size:17 final size:18
Alignment explanation
Indices: 73667636--73667713 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 18
73667626 GAGGGGAGAG
73667636 TATTATTATTATTA-TTAT
1 TATTATTATT-TTATTTAT
*
73667654 T-TTATTACTTTTA-CTAT
1 TATTATTA-TTTTATTTAT
*
73667671 TATT-TTATATATATTTAT
1 TATTATTAT-TTTATTTAT
*
73667689 TATCATTA-TTTATTTAT
1 TATTATTATTTTATTTAT
73667706 TATTATTA
1 TATTATTA
73667714 GTAACATATT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
16 1 0.02
17 34 0.69
18 11 0.22
19 3 0.06
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTATTATTTTATTTAT
Found at i:73667908 original size:15 final size:16
Alignment explanation
Indices: 73667870--73667909 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
73667860 TGTTATTAGG
*
73667870 GTTATTATATTGCTAT
1 GTTATCATATTGCTAT
73667886 -TT-TCATATTGC-AT
1 GTTATCATATTGCTAT
73667899 GTTATCATATT
1 GTTATCATATT
73667910 TTTTTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
13 2 0.10
14 10 0.48
15 9 0.43
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.55
Consensus pattern (16 bp):
GTTATCATATTGCTAT
Found at i:73670030 original size:79 final size:78
Alignment explanation
Indices: 73669899--73670117 Score: 303
Period size: 79 Copynumber: 2.8 Consensus size: 78
73669889 GTTACATCTT
* * * * *
73669899 ATGTAACTGTAGTGAATCAGGATTAGCTGTTCAGGTCAAATCCTATCCACCTTAAGTTATCATAA
1 ATGTAACCGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAA
73669964 GGAATCATATATC
66 GGAATCATATATC
* * *
73669977 GTGTAACCGTAGCGAATCAGGATTACCATTTTCAGATCAAATCCTATCCACCTTAGGTTACCATA
1 ATGTAACCGTAGCGAATCAGGATTACC-TTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATA
*
73670042 ATGAATCATATATC
65 AGGAATCATATATC
* * * *
73670056 ATGTAACCGTAACGAATAAGGATTACCCTTTTCAGGTCAAATTCTATCCGCCTTAAGTTACC
1 ATGTAACCGTAGCGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACC
73670118 GTAGTGAATC
Statistics
Matches: 123, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
78 23 0.19
79 98 0.80
80 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (78 bp):
ATGTAACCGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAA
GGAATCATATATC
Found at i:73670157 original size:40 final size:40
Alignment explanation
Indices: 73670093--73670230 Score: 141
Period size: 40 Copynumber: 3.5 Consensus size: 40
73670083 CTTTTCAGGT
* * * * *
73670093 CAAATTCTATCCGCCTTAAGTTACCGTAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* *
73670133 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* ** ** *
73670173 CAAATCCTATCCACTTTGAGGTATTATAGTGAATTAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* *
73670213 CGAATCCTATCCATTTTA
1 CAAATCCTATCCACTTTA
73670231 TATTCTCGAG
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:73672942 original size:10 final size:10
Alignment explanation
Indices: 73672927--73672951 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
73672917 AAATTCTAAT
73672927 TTTTTATATA
1 TTTTTATATA
73672937 TTTTTATATA
1 TTTTTATATA
73672947 TTTTT
1 TTTTT
73672952 GGAATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTATATA
Found at i:73683599 original size:21 final size:20
Alignment explanation
Indices: 73683573--73683612 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
73683563 TAATAGGCAC
73683573 AATTAATCTCTATAT-TTTTAG
1 AATTAAT-T-TATATGTTTTAG
73683594 AATTAATTTATATGTTTTA
1 AATTAATTTATATGTTTTA
73683613 ATTTAGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
AATTAATTTATATGTTTTAG
Done.