Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 108 of 318
Found at i:34673980 original size:38 final size:38
Alignment explanation
Indices: 34673938--34674010 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
34673928 CCTCGATTTA
* *
34673938 TAGAATTACCGTTTTACCCTCGATTTACAGAATTATTG
1 TAGAATTACCATTTTACCCTCGATTGACAGAATTATTG
* *
34673976 TAGAATTACTATTTTACCCTTGATTGACAGAATTA
1 TAGAATTACCATTTTACCCTCGATTGACAGAATTA
34674011 CTGTTTTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (38 bp):
TAGAATTACCATTTTACCCTCGATTGACAGAATTATTG
Found at i:34673983 original size:65 final size:65
Alignment explanation
Indices: 34673907--34674037 Score: 163
Period size: 65 Copynumber: 2.0 Consensus size: 65
34673897 ATGCCCTCAA
* * *
34673907 ATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATT
1 ATTGTAAAATTACCAAAGTACCCTCGATTGACAGAATTACCGTTTTACCCTCGATTTACAAAATT
* * *** * * *
34673972 ATTGTAGAATTACTATTTTACCCTTGATTGACAGAATTACTGTTTTTCCCTCGATTTACAAAATT
1 ATTGTAAAATTACCAAAGTACCCTCGATTGACAGAATTACCGTTTTACCCTCGATTTACAAAATT
34674037 A
1 A
34674038 CTAAAATACC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (65 bp):
ATTGTAAAATTACCAAAGTACCCTCGATTGACAGAATTACCGTTTTACCCTCGATTTACAAAATT
Found at i:34674007 original size:27 final size:27
Alignment explanation
Indices: 34673977--34674040 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
34673967 GAATTATTGT
*
34673977 AGAATTACTATTTTACCCTTGATTGAC
1 AGAATTACTATTTTACCCTCGATTGAC
* * *
34674004 AGAATTACTGTTTTTCCCTCGATTTAC
1 AGAATTACTATTTTACCCTCGATTGAC
*
34674031 AAAATTACTA
1 AGAATTACTA
34674041 AAATACCCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (27 bp):
AGAATTACTATTTTACCCTCGATTGAC
Found at i:34674348 original size:27 final size:27
Alignment explanation
Indices: 34674031--34674349 Score: 268
Period size: 27 Copynumber: 11.8 Consensus size: 27
34674021 CTCGATTTAC
* **
34674031 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
34674058 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
34674085 AAAATTACCAAAATACCC-TGGTCTAT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
34674111 AAAATTGCTAAAATA-CCTCTGGTTTGT
1 AAAATTACCAAAATACCCT-TGGTTTGT
* *
34674138 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
34674165 AAAATTACCAAAATACCAC-TAGTTTGT
1 AAAATTACCAAAATACC-CTTGGTTTGT
* ***
34674192 GAAATTACCAAAATACCCTCACTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
34674219 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
34674246 AAAATTACAAAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTG-GTTTGT
* * **
34674274 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACCA-AAATACCCTTGGTTTGT
**
34674302 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
34674329 AAATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
34674350 TAGGATAAAA
Statistics
Matches: 236, Mismatches: 47, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
25 2 0.01
26 18 0.08
27 188 0.80
28 11 0.05
29 17 0.07
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:34674471 original size:27 final size:27
Alignment explanation
Indices: 34674380--34674471 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
34674370 ACCCCTATTA
*
34674380 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
34674407 GGTAAAGTGACTGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
34674434 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
34674461 GGTAAAATGAC
1 GGTAAAATGAC
34674472 GAATATGCCC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:34675318 original size:25 final size:25
Alignment explanation
Indices: 34675280--34675336 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
34675270 AGGAAGTGCT
* *
34675280 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTATGCCCAAGTTTACCA
* *
34675305 AAAAGGGCTTTGCCCAAGTTTATCA
1 AAAAGGGCTATGCCCAAGTTTACCA
34675330 AAAAGGG
1 AAAAGGG
34675337 TTTTACCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTATGCCCAAGTTTACCA
Found at i:34675356 original size:24 final size:25
Alignment explanation
Indices: 34675280--34675349 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
34675270 AGGAAGTGCT
* * * * *
34675280 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTACCCAAGTTTATCA
*
34675305 AAAAGGGCTTTGCCCAAGTTTATCA
1 AAAAGGGCTTTACCCAAGTTTATCA
* *
34675330 AAAAGGGTTTTACCCCAGTT
1 AAAAGGGCTTTACCCAAGTT
34675350 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTACCCAAGTTTATCA
Found at i:34675556 original size:42 final size:42
Alignment explanation
Indices: 34675497--34675588 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
34675487 TAGTCTCCCC
* ** *
34675497 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
34675539 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
34675581 AAATGGGC
1 AAATGGGC
34675589 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:34675647 original size:31 final size:31
Alignment explanation
Indices: 34675612--34675690 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
34675602 CGTTTACAGT
34675612 AAAGGCTTCGGCCCAATGATATAATTTATGA
1 AAAGGCTTCGGCCCAATGATATAATTTATGA
* * *
34675643 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATAATTTATGA
34675674 AAAGGCTTCGGCCCAAT
1 AAAGGCTTCGGCCCAAT
34675691 AACCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATAATTTATGA
Found at i:34679130 original size:60 final size:64
Alignment explanation
Indices: 34679029--34679190 Score: 217
Period size: 60 Copynumber: 2.6 Consensus size: 64
34679019 AGGGGAAGAA
* * *
34679029 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGGCCTAATAAAAATG-GAAAAG-ATAA-AG-G
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACCTAATAAAAATGAAAAAAGAAAAAGAGAG
*
34679089 GCCAAAGTGAAAACCCGCAGAGGGCGCTTTGAGA-CTCAATAAAAATGAAAAAAGAAAAAAAGAG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACCT-AATAAAAATGAAAAAAG--AAAAAGAG
34679153 AG
63 AG
*
34679155 GCCAACGTGAAAACCCGCAAAGGGCGCTTTGAGACC
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACC
34679191 AAAGGGGATT
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
59 2 0.02
60 42 0.48
61 5 0.06
64 3 0.03
65 2 0.02
66 33 0.38
67 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.12
Consensus pattern (64 bp):
GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACCTAATAAAAATGAAAAAAGAAAAAGAGAG
Found at i:34680789 original size:170 final size:171
Alignment explanation
Indices: 34680260--34680976 Score: 865
Period size: 170 Copynumber: 4.2 Consensus size: 171
34680250 TTATGAAGTC
* *
34680260 AGCAGATTTTA-CCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGAATGAGTCT
1 AGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCT
*
34680324 TATCTTTCTAAGGTAGCAAGAAAG-AAGACTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCA
66 TATCTTTCTAAGGTAGCAAGAAAGCAAGACTAAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCA
* * *
34680388 GATCGAAGATGGTGAATCTCATCTCCATGTATCAGCAATGG
131 GATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGG
* * * *
34680429 AGCATATTTTA-CCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTTAAGAATGAGTCT
1 AGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCT
* *
34680493 TGTCTTTCTGAGGTAGCAAGAAAGC-AGACTGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAG
66 TATCTTTCTAAGGTAGCAAGAAAGCAAGACT----A---AAGATCTTATCTCCCTGAAGTTGCAG
* *
34680557 TGGAGTAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGG
124 CGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGG
* * *
34680605 AGCAGATATAAGCCACCAGCTTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAATGAATCT
1 AGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCT
* * * *
34680670 TATCTTTCTGAGGTAGTAAGAAAGCAA-ACTAAAGATCTTATCTCCCTGAAGTTGCAACAGAGCA
66 TATCTTTCTAAGGTAGCAAGAAAGCAAGACTAAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCA
* * *
34680734 GATAGAATATGGCGAATCTTATCTCCATGTATTGGCAATGG
131 GATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGG
* * * *
34680775 AGCAGAGTTAAGCCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCAGGTTGAAGAATTGAGTT
1 AGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAA-TGAGTC
* * * * ** *
34680840 TTATCTTCCTAAGGTAACAAGGAAGCAGACAGAAGATTAAAGATTTTATCTCCCT-AAGCAGTAG
65 TTATCTTTCTAAGGTAGCAA-GAA--AG-C--AAGACTAAAGATCTTATCTCCCTGAAGTTGCAG
* * * * *
34680904 CGGAGCAGATTGAA-A-GGCGGATCTTATCTCTATGTATTGGTAATGG
124 CGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGG
* * *
34680950 AGCAGATTTTAGCCACTAGACTTATCT
1 AGCAGATTTAAGCCACCAGCCTTATCT
34680977 TTTTCAGGAA
Statistics
Matches: 476, Mismatches: 54, Indels: 30
0.85 0.10 0.05
Matches are distributed among these distances:
169 87 0.18
170 120 0.25
171 20 0.04
172 3 0.01
173 1 0.00
174 2 0.00
175 52 0.11
176 78 0.16
177 94 0.20
178 19 0.04
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (171 bp):
AGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCT
TATCTTTCTAAGGTAGCAAGAAAGCAAGACTAAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCA
GATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGG
Found at i:34681043 original size:346 final size:344
Alignment explanation
Indices: 34680260--34681045 Score: 974
Period size: 346 Copynumber: 2.3 Consensus size: 344
34680250 TTATGAAGTC
34680260 AGCAGATTTTA-CCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGAATGAGTCT
1 AGCAGATTTTAGCCACCAG-CTTATCTCTCTAAGGTAGCAAGAGAGCAGATTG-AGAATGAGTCT
* * *
34680324 TATCTTTCT-AAGGTAGCAAGAAAG-AAGACTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGC
64 TATCTTTCTGAA-GTAGCAAGAAAGCAA-ACTAAAGATCTTATCTCCCTGAAGTTGCAACAGAGC
* * * * *
34680387 AGATCGAAGATGGTGAATCTCATCTCCATGTATCAGCAATGGAGCATATTTTACCACCAGCCTTA
127 AGATAGAAGATGGCGAATCTCATCTCCATGTATCAGCAATGGAGCAGAGTTAACCACCAGCCTTA
* * * * * *
34680452 TCTCTCTGAGGTAGCAAGAGAGCAGGTTTAAGAATGAGTCTTGTCTTTCTGAGGTAGCAAGAAAG
192 TCTCTCTGAGATAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAACAAGAAAG
* * ** * *
34680517 CAGACTGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGATGGCGAATC
257 CAGACAGAAGATTAAAGATCTTATCTCCCTGAAGCAGCAGCGGAGCAGATCGAAGATGGCGAATC
34680582 TTATCTCCATGTATCGGCAATGG
322 TTATCTCCATGTATCGGCAATGG
* * * *
34680605 AGCAGATATAAGCCACCAGCTTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAATGAATCT
1 AGCAGATTTTAGCCACCAGC-TTATCTCTCTAAGGTAGCAAGAGAGCAGATTG-AGAATGAGTCT
* *
34680670 TATCTTTCTGAGGTAGTAAGAAAGCAAACTAAAGATCTTATCTCCCTGAAGTTGCAACAGAGCAG
64 TATCTTTCTGAAGTAGCAAGAAAGCAAACTAAAGATCTTATCTCCCTGAAGTTGCAACAGAGCAG
* * **
34680735 ATAGAATATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGAGTTAAGCCACCAGCCTTAT
129 ATAGAAGATGGCGAATCTCATCTCCATGTATCAGCAATGGAGCAGAGTTAA-CCACCAGCCTTAT
* *
34680800 CTCTCTGAGATAGCAAGAGAGCAGGTTGAAGAATTGAGTTTTATCTTCCTAAGGTAACAAGGAAG
193 CTCTCTGAGATAGCAAGAGAGCAGGTTGAAGAA-TGAGTCTTATCTTCCTAAGGTAACAAGAAAG
* * * *
34680865 CAGACAGAAGATTAAAGATTTTATCTCCCT-AAGCAGTAGCGGAGCAGATTGAA-A-GGCGGATC
257 CAGACAGAAGATTAAAGATCTTATCTCCCTGAAGCAGCAGCGGAGCAGATCGAAGATGGCGAATC
* * *
34680927 TTATCTCTATGTATTGGTAATGG
322 TTATCTCCATGTATCGGCAATGG
* * * * * * *
34680950 AGCAGATTTTAGCCACTAGACTTATCTTTTTCAGGAAGCAAGAAAGCTGATTG-GCAATTGTAGT
1 AGCAGATTTTAGCCACCAG-CTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAG-AA-TG-AGT
* * *
34681014 CTCATCTTCCTGAAGTAGCAAGGAAGCAAACT
62 CTTATCTTTCTGAAGTAGCAAGAAAGCAAACT
34681046 GATTGTTATC
Statistics
Matches: 376, Mismatches: 55, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
343 1 0.00
344 2 0.01
345 80 0.21
346 177 0.47
347 64 0.17
348 52 0.14
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (344 bp):
AGCAGATTTTAGCCACCAGCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAGAATGAGTCTTA
TCTTTCTGAAGTAGCAAGAAAGCAAACTAAAGATCTTATCTCCCTGAAGTTGCAACAGAGCAGAT
AGAAGATGGCGAATCTCATCTCCATGTATCAGCAATGGAGCAGAGTTAACCACCAGCCTTATCTC
TCTGAGATAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAACAAGAAAGCAGA
CAGAAGATTAAAGATCTTATCTCCCTGAAGCAGCAGCGGAGCAGATCGAAGATGGCGAATCTTAT
CTCCATGTATCGGCAATGG
Found at i:34686670 original size:21 final size:22
Alignment explanation
Indices: 34686633--34686693 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 22
34686623 GTGTGTGCCC
*
34686633 CCTCCATAA-GGGTGTGTAG-GG
1 CCTCCA-AACGGGCGTGTAGTGG
*
34686654 CCTTCAAACGGGCGTGT-GTGG
1 CCTCCAAACGGGCGTGTAGTGG
* *
34686675 CCTCCACATGGGCGTGTAG
1 CCTCCAAACGGGCGTGTAG
34686694 ACACCCACAC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.09
21 28 0.88
22 1 0.03
ACGTcount: A:0.16, C:0.25, G:0.36, T:0.23
Consensus pattern (22 bp):
CCTCCAAACGGGCGTGTAGTGG
Found at i:34689568 original size:39 final size:39
Alignment explanation
Indices: 34689423--34689553 Score: 237
Period size: 39 Copynumber: 3.4 Consensus size: 39
34689413 GCATGATATT
*
34689423 TGGAAACATATCCGGACTTGAGGTCCACAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
34689462 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
34689501 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
34689540 TGG-AATATATCCGG
1 TGGAAACATATCCGG
34689554 GCCTAAAGTC
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
38 10 0.11
39 80 0.89
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.21
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
Found at i:34693419 original size:42 final size:43
Alignment explanation
Indices: 34693359--34693444 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 43
34693349 AGAGTTACAC
* *
34693359 GGGCTATTCACATGGGCGTGTGCT-CCCTCCACACGGGTGTGTA
1 GGGCTATTCACACGGGCGTGTG-TGCCCTCCACACGGGCGTGTA
* *
34693402 GGGCT-TTCACACGGGCGTGTGTGGCCTCCACATGGGCGTGTA
1 GGGCTATTCACACGGGCGTGTGTGCCCTCCACACGGGCGTGTA
34693444 G
1 G
34693445 ACACCCACAC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.03
42 32 0.84
43 5 0.13
ACGTcount: A:0.13, C:0.27, G:0.36, T:0.24
Consensus pattern (43 bp):
GGGCTATTCACACGGGCGTGTGTGCCCTCCACACGGGCGTGTA
Found at i:34693433 original size:21 final size:21
Alignment explanation
Indices: 34693367--34693442 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
34693357 ACGGGCTATT
* *
34693367 CACATGGGCGTGTGCT-CCCTC
1 CACACGGGCGTGTG-TGGCCTC
* * *
34693388 CACACGGGTGTGTAG-GGCTTT
1 CACACGGGCGTGT-GTGGCCTC
34693409 CACACGGGCGTGTGTGGCCTC
1 CACACGGGCGTGTGTGGCCTC
*
34693430 CACATGGGCGTGT
1 CACACGGGCGTGT
34693443 AGACACCCAC
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.12, C:0.29, G:0.36, T:0.24
Consensus pattern (21 bp):
CACACGGGCGTGTGTGGCCTC
Found at i:34696984 original size:30 final size:30
Alignment explanation
Indices: 34696912--34696986 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
34696902 TATAAGGATG
* * *
34696912 TTCAAAAGCTTGAGAAGACTCGTTATCTCA
1 TTCAAGAGCTTGGGAAGACTCGATATCTCA
*
34696942 TTCAAGAGCTTGGGAAGACTCGATATCTCC
1 TTCAAGAGCTTGGGAAGACTCGATATCTCA
*
34696972 TTCAAGATCTTGGGA
1 TTCAAGAGCTTGGGA
34696987 TTGAGAAGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (30 bp):
TTCAAGAGCTTGGGAAGACTCGATATCTCA
Found at i:34697030 original size:66 final size:66
Alignment explanation
Indices: 34696935--34697100 Score: 210
Period size: 66 Copynumber: 2.5 Consensus size: 66
34696925 GAAGACTCGT
*
34696935 TATCTCATTCAAGAGCTTGGGAAGACTCGATATCT-CCTTCAAGATCTTGGGATTGAGAAGACCT
1 TATCTCATTCAAGAGCTTGGGAAGACTCGATAT-TGCCTTCAAGAGCTTGGGATTGAGAAGACCT
34696999 AA
65 AA
* * * * * * *
34697001 TATCCCATTCAGGAGCTTGGGAAGGCTCGATATTGCGTTCAGGAGCTTGGGATTGAGAAGACTTG
1 TATCTCATTCAAGAGCTTGGGAAGACTCGATATTGCCTTCAAGAGCTTGGGATTGAGAAGACCTA
34697066 A
66 A
**
34697067 TATCTTGTTCAAGAGCTTGGGAAGA-TCTGATATT
1 TATCTCATTCAAGAGCTTGGGAAGACTC-GATATT
34697101 TTATTTTTCT
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
65 3 0.04
66 82 0.96
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (66 bp):
TATCTCATTCAAGAGCTTGGGAAGACTCGATATTGCCTTCAAGAGCTTGGGATTGAGAAGACCTA
A
Found at i:34698123 original size:21 final size:22
Alignment explanation
Indices: 34698081--34698128 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
34698071 CGTCAACATT
34698081 TAATTATTTTTTACAATATAAA
1 TAATTATTTTTTACAATATAAA
* * *
34698103 -AATTATTTTTTATATTTTAAA
1 TAATTATTTTTTACAATATAAA
34698124 TAATT
1 TAATT
34698129 TTAATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TAATTATTTTTTACAATATAAA
Found at i:34698141 original size:17 final size:18
Alignment explanation
Indices: 34698110--34698146 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
34698100 AAAAATTATT
34698110 TTTTATATTTTAAA-TAA
1 TTTTATATTTTAAATTAA
34698127 TTTTA-ATTTTAAAATTAA
1 TTTTATATTTT-AAATTAA
34698145 TT
1 TT
34698147 AAATGCTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 8 0.44
18 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTATATTTTAAATTAA
Found at i:34709250 original size:26 final size:26
Alignment explanation
Indices: 34709221--34709328 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
34709211 TGGTACAAAT
*
34709221 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
34709247 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34709273 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
34709299 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34709325 TGAT
1 TGAT
34709329 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:34710992 original size:27 final size:27
Alignment explanation
Indices: 34710952--34711110 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
34710942 AGGAAGCGTC
*
34710952 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
34710979 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
34711006 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
34711033 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
34711060 CTGGTGGCTCTGCCATAA-TATCTATAT
1 CTGGTGGCTCTGCCACAATTATCT-GAT
* * *
34711087 CTGGTGACTTTGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
34711111 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.08
27 101 0.89
28 3 0.03
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:34711034 original size:54 final size:54
Alignment explanation
Indices: 34710952--34711110 Score: 241
Period size: 54 Copynumber: 3.0 Consensus size: 54
34710942 AGGAAGCGTC
34710952 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
34711006 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * * * * *
34711060 CTGGTGGCTCTGCCATAA-TATCTATATCTGGTGACTTTGTCACA-ATATCTG
1 CTGGTGGCTATGCCACAATTATCT-GATCTGGTGGCTCTGCCACATATATCTG
34711111 GCAGCCTCGC
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
53 12 0.12
54 86 0.88
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:34711090 original size:81 final size:80
Alignment explanation
Indices: 34710952--34711110 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 80
34710942 AGGAAGCGTC
* *
34710952 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATTCTGGTGACTAT
34711017 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
34711033 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCATA-ATATCTATATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTAT-TCTGGTGACT
* *
34711096 TTGTCACAATATCTG
64 ATGCCACAATATCTG
34711111 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 15 0.22
81 54 0.78
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATTCTGGTGACTAT
GCCACAATATCTGAT
Found at i:34713072 original size:12 final size:12
Alignment explanation
Indices: 34713055--34713081 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
34713045 CATATAACAA
34713055 TAGTTATCAATC
1 TAGTTATCAATC
34713067 TAGTTATCAATC
1 TAGTTATCAATC
34713079 TAG
1 TAG
34713082 AACAAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (12 bp):
TAGTTATCAATC
Found at i:34715244 original size:42 final size:42
Alignment explanation
Indices: 34715164--34715303 Score: 122
Period size: 42 Copynumber: 3.4 Consensus size: 42
34715154 AGCTTTAATC
* * *
34715164 AACTCATATGAGTTTC-AGTTTAACCCTAAT-GGTTTCCGTTT
1 AACTCTTATGAGCTTCTA-TTTAACCCTTATGGGTTTCCGTTT
* * * * *
34715205 AACTTTTTTGAGGTTTTATTTAACCCTTATGGGTTTCCGTTC
1 AACTCTTATGAGCTTCTATTTAACCCTTATGGGTTTCCGTTT
* * * *
34715247 AGCTCTTATGAGCTTCTGTTCAACCCTTACGGGTTTCCGTTT
1 AACTCTTATGAGCTTCTATTTAACCCTTATGGGTTTCCGTTT
* * *
34715289 AGCACTTATGTGCTT
1 AACTCTTATGAGCTT
34715304 TTTGCAGCCT
Statistics
Matches: 79, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
41 22 0.28
42 57 0.72
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.44
Consensus pattern (42 bp):
AACTCTTATGAGCTTCTATTTAACCCTTATGGGTTTCCGTTT
Found at i:34715255 original size:21 final size:21
Alignment explanation
Indices: 34715230--34715298 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
34715220 TTATTTAACC
*
34715230 CTTATGGGTTTCCGTTCAGCT
1 CTTATGGGTTTCCGTTCAGCA
* * * * *
34715251 CTTATGAGCTTCTGTTCAACC
1 CTTATGGGTTTCCGTTCAGCA
* *
34715272 CTTACGGGTTTCCGTTTAGCA
1 CTTATGGGTTTCCGTTCAGCA
34715293 CTTATG
1 CTTATG
34715299 TGCTTTTTGC
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (21 bp):
CTTATGGGTTTCCGTTCAGCA
Found at i:34719508 original size:52 final size:52
Alignment explanation
Indices: 34719446--34719547 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
34719436 TTGGATAGAT
** *
34719446 TGTTTATATGTTTATATCGGCTGTTACATAACACTTCTAATTTTAGCTTAAC
1 TGTTTATATGTTTATATCAACTGTTACATAACACTTCTAATTTTAACTTAAC
*
34719498 TGTTTATATGTTTATATCAACTGTTACATAGCACTTCTAATTTTAACTTA
1 TGTTTATATGTTTATATCAACTGTTACATAACACTTCTAATTTTAACTTA
34719548 GCCTCCCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (52 bp):
TGTTTATATGTTTATATCAACTGTTACATAACACTTCTAATTTTAACTTAAC
Found at i:34719931 original size:34 final size:34
Alignment explanation
Indices: 34719888--34719955 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
34719878 GAAAAATATT
34719888 ATATTAAACAAATTATATCACATTTATTCGCTTA
1 ATATTAAACAAATTATATCACATTTATTCGCTTA
* *
34719922 ATATTAAACAAATTATATTACATTTATTTGCTTA
1 ATATTAAACAAATTATATCACATTTATTCGCTTA
34719956 CTTCATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (34 bp):
ATATTAAACAAATTATATCACATTTATTCGCTTA
Found at i:34721318 original size:14 final size:13
Alignment explanation
Indices: 34721300--34721324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34721290 AGAAGAAGTT
34721300 TTTTTTTAAATGA
1 TTTTTTTAAATGA
34721313 TTTTTTTAAATG
1 TTTTTTTAAATG
34721325 GGCTTTAAAT
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TTTTTTTAAATGA
Found at i:34725461 original size:61 final size:61
Alignment explanation
Indices: 34725390--34725514 Score: 205
Period size: 61 Copynumber: 2.0 Consensus size: 61
34725380 TTGAAGGCTA
* * *
34725390 GAATAACAGAACTAGAAAAATCACTTCATTAGTATCGTAGTCATAACTCTGCAATGGAGCT
1 GAATAACAGAACTAGAAAAATCACTTCATCAATATCGTAGTCACAACTCTGCAATGGAGCT
* *
34725451 GAATAGCAGAACTAGAAAAATCACTTTATCAATATCGTAGTCACAACTCTGCAATGGAGCT
1 GAATAACAGAACTAGAAAAATCACTTCATCAATATCGTAGTCACAACTCTGCAATGGAGCT
34725512 GAA
1 GAA
34725515 GGCGAGTTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (61 bp):
GAATAACAGAACTAGAAAAATCACTTCATCAATATCGTAGTCACAACTCTGCAATGGAGCT
Found at i:34729599 original size:4 final size:4
Alignment explanation
Indices: 34729582--34729620 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
34729572 TTACTACCAA
* *
34729582 TATG TATA TATG TATG TATG TACG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
34729621 ATTTTTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:34729646 original size:23 final size:23
Alignment explanation
Indices: 34729616--34729661 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
34729606 TATGTATGTA
34729616 TGTATATTTTTTTTCTTTTTTTT
1 TGTATATTTTTTTTCTTTTTTTT
34729639 TGTATATTTTTTTTCTTTTTTTT
1 TGTATATTTTTTTTCTTTTTTTT
34729662 CTTTTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.04, G:0.04, T:0.83
Consensus pattern (23 bp):
TGTATATTTTTTTTCTTTTTTTT
Found at i:34732649 original size:248 final size:247
Alignment explanation
Indices: 34732205--34732685 Score: 782
Period size: 248 Copynumber: 1.9 Consensus size: 247
34732195 TAATAATAAA
34732205 TAAAAAAAATTAAGTAATAAAAGAATATAATAAAGAACTAAAGAAAAATAAAGGTTAAAAAGGGA
1 TAAAAAAAATTAAGTAATAAAAGAATATAATAAAGAACTAAAGAAAAATAAAGGTTAAAAAGGGA
*
34732270 ATAAGGGGGAACCAATGGTGGTTGGTGGTGGGTTGAAGTGTAACGGCGGTGGAAGGGGTCGGTCA
66 ATAAGGGGGAACCAATGGTGGTTGGTGGTGGGTTGAAGTGTAACAGCGGTGGAAGGGGTCGGTCA
* * * * * *
34732335 GCTGGTGAGGCGATGGTGGCAAGGGAGGTGGGTTGGACAAATGGGGAGTGCGGTTCTTGGTGGCT
131 GCTGGCGAGGCGACGGTGGCAAGAGAGGTAGGTTGGACAAACGGGGAGTGCGGCTCTTGGTGGCT
* *
34732400 AAGGAGAGGGGCAAGGTGTGGGAAGGAAAGAAATGGAGGGGGAAGGAAAGAT
196 AAGGAGAGGGGCAAGGTGTGGAAAGGAAAGAAAGGGAGGGGGAAGGAAAGAT
* *
34732452 TAAAAATAAATTAAGTAATAAAAGAATATAATAAAGAACTAAAGAAAAATGAAGTTTAAAAAGGG
1 TAAAAA-AAATTAAGTAATAAAAGAATATAATAAAGAACTAAAGAAAAATAAAGGTTAAAAAGGG
* * * *
34732517 AATAAGGGGGAATCGATGGTGGTTGGTGGTGGGTTGAAGTGTAACAGCGGTGGAGGGGGTCGGTT
65 AATAAGGGGGAACCAATGGTGGTTGGTGGTGGGTTGAAGTGTAACAGCGGTGGAAGGGGTCGGTC
* * **
34732582 GGCTGGCGAGGCGACGGTGGCGAGAGAGGTAGGTTGGACGGACGGGGAGTGCGGCTCTTGGTGGC
130 AGCTGGCGAGGCGACGGTGGCAAGAGAGGTAGGTTGGACAAACGGGGAGTGCGGCTCTTGGTGGC
34732647 TAAGGAGAGGGGCAAGGTGTGGAAAGGAAAGAAAGGGAG
195 TAAGGAGAGGGGCAAGGTGTGGAAAGGAAAGAAAGGGAG
34732686 AAGGTCGGTC
Statistics
Matches: 214, Mismatches: 19, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
247 6 0.03
248 208 0.97
ACGTcount: A:0.35, C:0.07, G:0.40, T:0.18
Consensus pattern (247 bp):
TAAAAAAAATTAAGTAATAAAAGAATATAATAAAGAACTAAAGAAAAATAAAGGTTAAAAAGGGA
ATAAGGGGGAACCAATGGTGGTTGGTGGTGGGTTGAAGTGTAACAGCGGTGGAAGGGGTCGGTCA
GCTGGCGAGGCGACGGTGGCAAGAGAGGTAGGTTGGACAAACGGGGAGTGCGGCTCTTGGTGGCT
AAGGAGAGGGGCAAGGTGTGGAAAGGAAAGAAAGGGAGGGGGAAGGAAAGAT
Found at i:34739091 original size:44 final size:43
Alignment explanation
Indices: 34738953--34739097 Score: 143
Period size: 44 Copynumber: 3.3 Consensus size: 43
34738943 ATCTGGTCTT
* *
34738953 CCTAAAGTTGCAGTGGAGCAGATTGAAGAAAACGAGTCTCAT-CTC
1 CCTAAAGTTGCAGTGGAGCAGATTGAA-ACAACAAGTCT-ATAC-C
* *
34738998 CCTAAAGTTGCAGTGGAGCAGA-TCAAAGCTACAAGTCTA-ATCC
1 CCTAAAGTTGCAGTGGAGCAGATTGAAA-CAACAAGTCTATA-CC
* * *
34739041 CTCTAAAGATGCAGTGGAGCAGATTGAAACAATAATTCCTATACC
1 C-CTAAAGTTGCAGTGGAGCAGATTGAAACAACAAGT-CTATACC
34739086 CCTAAAGTTGCA
1 CCTAAAGTTGCA
34739098 ATGGGTTGGA
Statistics
Matches: 83, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
43 4 0.05
44 46 0.55
45 32 0.39
46 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (43 bp):
CCTAAAGTTGCAGTGGAGCAGATTGAAACAACAAGTCTATACC
Found at i:34739677 original size:5 final size:5
Alignment explanation
Indices: 34739667--34739693 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
34739657 ATTAGTTAGG
34739667 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
34739694 CTTTCTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:34742070 original size:13 final size:13
Alignment explanation
Indices: 34742052--34742079 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34742042 TATATATATA
34742052 AAAGAAACAAAAG
1 AAAGAAACAAAAG
34742065 AAAGAAACAAAAG
1 AAAGAAACAAAAG
34742078 AA
1 AA
34742080 TAAAAAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:34742890 original size:2 final size:2
Alignment explanation
Indices: 34742885--34742910 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34742875 TATATATATA
34742885 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
34742911 AATGAGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:34743084 original size:15 final size:15
Alignment explanation
Indices: 34743066--34743122 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
34743056 TATCTGTTTT
34743066 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
34743081 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
34743096 ATTGAATTTATATTG
1 ATTGAATTTATATTG
34743111 ATTGAA-TTATAT
1 ATTGAATTTATAT
34743123 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:34743101 original size:30 final size:28
Alignment explanation
Indices: 34743062--34743120 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
34743052 TGAATATCTG
34743062 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
34743091 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
34743120 T
1 T
34743121 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:34743698 original size:18 final size:19
Alignment explanation
Indices: 34743677--34743717 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
34743667 AATGAAATGA
34743677 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
34743695 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
34743714 GAAA
1 GAAA
34743718 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:34749407 original size:15 final size:15
Alignment explanation
Indices: 34749384--34749433 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
34749374 TTTATTGAAT
34749384 TTATATTGATTAAAA
1 TTATATTGATTAAAA
* * *
34749399 TTATTTTGATTGAAT
1 TTATATTGATTAAAA
*
34749414 TTATATTGATT-GAA
1 TTATATTGATTAAAA
34749428 TTATAT
1 TTATAT
34749434 AATATATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
14 7 0.24
15 22 0.76
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (15 bp):
TTATATTGATTAAAA
Found at i:34750008 original size:18 final size:19
Alignment explanation
Indices: 34749987--34750027 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
34749977 AATGAAATGA
34749987 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
34750005 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
34750024 GAAA
1 GAAA
34750028 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:34751269 original size:5 final size:5
Alignment explanation
Indices: 34751259--34751284 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34751249 TTTTTCTTGC
34751259 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
34751285 TTATTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:34766659 original size:26 final size:26
Alignment explanation
Indices: 34766628--34766735 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
34766618 TGAAATGCCC
*
34766628 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
34766654 ATCATGGTACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
34766680 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
34766706 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34766732 ATCA
1 ATCA
34766736 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34773705 original size:26 final size:26
Alignment explanation
Indices: 34773674--34773780 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
34773664 TGAAATGCCC
*
34773674 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
34773700 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
34773726 ATCATAGAATATTTA-CTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
34773751 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34773777 ATCA
1 ATCA
34773781 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
25 22 0.30
26 51 0.70
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34773756 original size:51 final size:52
Alignment explanation
Indices: 34773674--34773780 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 52
34773664 TGAAATGCCC
*
34773674 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
34773726 ATCATAGAATATTTA-CTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
34773777 ATCA
1 ATCA
34773781 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 39 0.75
52 13 0.25
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:34779938 original size:30 final size:30
Alignment explanation
Indices: 34779904--34779971 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
34779894 GTGTGTCTCA
*
34779904 GCCGTGTGCGACACACGGTCATGTTACACG
1 GCCGTGTGCCACACACGGTCATGTTACACG
* * *
34779934 GCCGTGTACCTCACACGGTCATGTTACATG
1 GCCGTGTGCCACACACGGTCATGTTACACG
*
34779964 GCTGTGTG
1 GCCGTGTG
34779972 TCCTCTAAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.18, C:0.28, G:0.29, T:0.25
Consensus pattern (30 bp):
GCCGTGTGCCACACACGGTCATGTTACACG
Found at i:34791236 original size:29 final size:29
Alignment explanation
Indices: 34791170--34791284 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 29
34791160 TACATAGGTG
* *
34791170 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * *
34791198 CAAATGGCCCATTTGGCCCAGTTCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * **
34791227 CTTATGGCCCACTAGGCCCAATTCACCTT
1 CATATGGCCCATTAGGCCCAATTCATATT
*
34791256 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
34791285 ATACTCATGC
Statistics
Matches: 69, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
28 17 0.25
29 52 0.75
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCATATT
Found at i:34791282 original size:58 final size:57
Alignment explanation
Indices: 34791172--34791284 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 57
34791162 CATAGGTGCA
* * **
34791172 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATTTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCT
*
34791229 TATGGCCCACTAGGCCCAAT-TCACCTTCATATGGCCCATTAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAATCTCA--TTCAAATGGCCCATTAGGCCCAAATCATATT
34791285 ATACTCATGC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 2 0.04
57 20 0.41
58 27 0.55
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCT
Found at i:34798130 original size:40 final size:40
Alignment explanation
Indices: 34798046--34798270 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
34798036 TTGAATGATG
* * * *
34798046 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
34798086 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
34798126 TCCGGGCTAAG-CCCGAAGGCA-TTGTTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAAA
* *
34798165 TCCGGGTTAAGTCCCGAAGGCATTTGTCCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34798205 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
34798246 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34798271 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 3 0.02
39 31 0.19
40 116 0.71
41 13 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34798250 original size:80 final size:80
Alignment explanation
Indices: 34798046--34798270 Score: 280
Period size: 79 Copynumber: 2.8 Consensus size: 80
34798036 TTGAATGATG
* * * * *
34798046 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
* *
34798109 TTGTGCGAGATACTAAT
64 TTGTCCGAGATACTAAA
*
34798126 TCCGGGCTAAG-CCCGAAGGCA-TTGTTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCAT
*
34798188 TTGTCCGAGTTACTAAA
64 TTGTCCGAGATACTAAA
* *
34798205 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
34798270 G
66 G
34798271 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 60 0.48
80 59 0.47
81 5 0.04
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTCCGAGATACTAAA
Found at i:34806326 original size:80 final size:80
Alignment explanation
Indices: 34806112--34806336 Score: 287
Period size: 80 Copynumber: 2.8 Consensus size: 80
34806102 TTGAATGATG
* * * * *
34806112 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
34806175 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
* * *
34806192 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGAGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
34806255 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
34806271 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
34806336 G
66 G
34806337 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 57 0.46
80 64 0.51
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:34806350 original size:40 final size:40
Alignment explanation
Indices: 34806113--34806336 Score: 253
Period size: 40 Copynumber: 5.6 Consensus size: 40
34806103 TGAATGATGT
* * * *
34806113 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
34806153 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
34806193 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
34806231 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34806271 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34806312 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34806337 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:34806359 original size:119 final size:119
Alignment explanation
Indices: 34806119--34806369 Score: 278
Period size: 119 Copynumber: 2.1 Consensus size: 119
34806109 ATGTCCGGGC
*
34806119 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
* ** *
34806184 ATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGAGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATCCGAGT
* * * **
34806238 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * * *
34806301 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCG-GT
64 AGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAATCCGAGT
* *
34806357 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
34806370 TACGTGATTT
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 76 0.68
120 32 0.29
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATCCGAGT
Found at i:34807773 original size:21 final size:20
Alignment explanation
Indices: 34807748--34807816 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
34807738 TAATAAAATT
34807748 TATAAACAAAATATATAATGA
1 TATAAACAAAATATATAAT-A
*
34807769 TATAAACAATATGATAGATAATA
1 TATAAACAA-A--ATATATAATA
*
34807792 TATAAA-ATAATATAT-ATA
1 TATAAACAAAATATATAATA
34807810 TAGTAAA
1 TA-TAAA
34807817 ATGTATGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 5 0.12
19 9 0.22
21 10 0.24
22 2 0.05
23 7 0.17
24 8 0.20
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (20 bp):
TATAAACAAAATATATAATA
Found at i:34807847 original size:10 final size:10
Alignment explanation
Indices: 34807757--34807867 Score: 61
Period size: 10 Copynumber: 10.6 Consensus size: 10
34807747 TTATAAACAA
34807757 AATATATAAT
1 AATATATAAT
* *
34807767 GATATA-AAC
1 AATATATAAT
34807776 AATATGATAGAT
1 AATAT-ATA-AT
34807788 AATATATAA-
1 AATATATAAT
34807797 AATA-AT-AT
1 AATATATAAT
34807805 ATATATAGTAA-
1 A-ATATA-TAAT
*
34807816 AATGTATGTAATAT
1 AA--TATAT-A-AT
34807830 AATATATAAT
1 AATATATAAT
*
34807840 AATGTATAAT
1 AATATATAAT
34807850 AATATAATAAAT
1 AATAT-AT-AAT
34807862 AATATA
1 AATATA
34807868 CAAAGATAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
7 1 0.01
8 3 0.04
9 13 0.17
10 24 0.31
11 11 0.14
12 23 0.29
13 1 0.01
14 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (10 bp):
AATATATAAT
Found at i:34809496 original size:44 final size:44
Alignment explanation
Indices: 34809416--34809712 Score: 330
Period size: 44 Copynumber: 6.8 Consensus size: 44
34809406 CACCCTACCT
** * *
34809416 AATACAGAGACGCCAAATCCGCTACCCTCGATCTGCTCTTTGAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTTTGAC
** * * * *
34809460 AATACAGAGGTGCCAAATCTACCATTTTCGACCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTTTGAC
** * * * *
34809504 AATACAGAGATACCAAATCTGCTATCTTCGATTTTCTCTTTAAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTTTGAC
* *
34809548 AATATAGAGACGTC-AATCCTACTATCTTCGATCTGCTCTCTT-AC
1 AATACAGAGACGCCAAAT-CTACTATCTTCGATCTGCTCT-TTGAC
*
34809592 AATATAGAGACGCCAAATCTACTATCTTCGATCTGCT-TTCTGAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTT-TGAC
* * * *
34809636 AATACAGTGACGCCAAATCTGCTATCTTCGGTCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTTTGAC
*
34809680 AATACAGAGACGCCAAATCTACTATCTTTGATC
1 AATACAGAGACGCCAAATCTACTATCTTCGATC
34809713 AGAGACGCCA
Statistics
Matches: 210, Mismatches: 37, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.00
43 5 0.02
44 198 0.94
45 6 0.03
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (44 bp):
AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTTTGAC
Found at i:34809658 original size:132 final size:131
Alignment explanation
Indices: 34809416--34810205 Score: 768
Period size: 132 Copynumber: 6.1 Consensus size: 131
34809406 CACCCTACCT
* ** * * * **
34809416 AATACAGAGACGCCAAATCCGCTACCCTCGATCTGCTCTTTGACAATACAGAGGTGCCAAATCTA
1 AATACAGAGACGTC-AATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTA
* * * ** * * * *
34809481 CCATTTTCGACCTGCTCTCTGACAATACAGAGATACCAAATCTGCTATCTTCGATTTTCTCTTTA
65 CTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTG
34809546 AC
130 AC
* * *
34809548 AATATAGAGACGTCAATCCTACTATCTTCGATCTGCTCTCTTACAATATAGAGACGCCAAATCTA
1 AATACAGAGACGTCAAT-CTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTA
* * *
34809613 CTATCTTCGATCTGCTTTCTGACAATACAGTGACGCCAAATCTGCTATCTTCGGTCTGCTCTCTG
65 CTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTG
34809678 AC
130 AC
* *
34809680 AATACAGAGACGCCAA-AT-CTA-C-T--A--T-CT-T-TG---AT-CAGAGACGCCAAATCTAC
1 AATACAGAGACGTCAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTAC
* * * *
34809730 TATCTTTGATCTACTCTCTGACAATACAGGGACGCCAAATCTGCTATCTTCGATCTGCTCCCTGA
66 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA
34809795 C
131 C
* * * * * * *
34809796 AATACAGGGGCGCCAAATCTATTATCTTCGATCTGCTCTCTAACAATACAGGGACGCCAAATCTG
1 AATACAGAGACGTC-AATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTA
* ** * *
34809861 TTATCTTCGATCTGCTCTCTGACAATACAGAGACATCAAATCTACTAATCTTCGATATGCTCTCT
65 CTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCT
34809926 GAC
129 GAC
* * * * * **
34809929 AATATAGAGACGATAAATCTGCTAATCTCCGATCTGCTCTCTGATAATACAGAGACAACAAATCT
1 AATACAGAGACG-TCAATCTACT-ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
* * * * * * * * * *
34809994 GCTATC-GCTGATCTGCTCTCTGACCATACAGGGATGCCAAACCAGCTATTTTCAATCTGCTCTT
64 ACTATCTTC-GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTC
34810058 TGAC
128 TGAC
* * * * *
34810062 AATACAGAGATGCTAAATCTGCTATCTTCGATTTGCTCTCTGACAATACAGAGACGCCAAATCTG
1 AATACAGAGACG-TCAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTA
* * * * *
34810127 CTATCTTTGATCTGCTCTTTGACAATACAGAGACGCCAAATCTGCCATCTTTC-ATCTGCCCTTT
65 CTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC-TTCGATCTGCTCTCT
34810191 GAC
129 GAC
34810194 AATACAGAGACG
1 AATACAGAGACG
34810206 CCAAATCGGC
Statistics
Matches: 538, Mismatches: 97, Indels: 46
0.79 0.14 0.07
Matches are distributed among these distances:
116 89 0.17
117 4 0.01
118 1 0.00
119 2 0.00
120 2 0.00
121 2 0.00
122 2 0.00
123 2 0.00
125 2 0.00
126 2 0.00
127 2 0.00
128 2 0.00
129 3 0.01
130 1 0.00
131 5 0.01
132 272 0.51
133 75 0.14
134 70 0.13
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (131 bp):
AATACAGAGACGTCAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTAC
TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA
C
Found at i:34809724 original size:28 final size:28
Alignment explanation
Indices: 34809684--34809740 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
34809674 TCTGACAATA
34809684 CAGAGACGCCAAATCTACTATCTTTGAT
1 CAGAGACGCCAAATCTACTATCTTTGAT
34809712 CAGAGACGCCAAATCTACTATCTTTGAT
1 CAGAGACGCCAAATCTACTATCTTTGAT
34809740 C
1 C
34809741 TACTCTCTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (28 bp):
CAGAGACGCCAAATCTACTATCTTTGAT
Found at i:34809764 original size:72 final size:72
Alignment explanation
Indices: 34809644--34809784 Score: 219
Period size: 72 Copynumber: 2.0 Consensus size: 72
34809634 ACAATACAGT
* * * *
34809644 GACGCCAAATCTGCTATCTTCGGTCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTT
1 GACGCCAAATCTACTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTATCTTC
34809709 GATCAGA
66 GATCAGA
* * *
34809716 GACGCCAAATCTACTATCTTTGATCTACTCTCTGACAATACAGGGACGCCAAATCTGCTATCTTC
1 GACGCCAAATCTACTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTATCTTC
34809781 GATC
66 GATC
34809785 TGCTCCCTGA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (72 bp):
GACGCCAAATCTACTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTATCTTC
GATCAGA
Found at i:34809766 original size:44 final size:44
Alignment explanation
Indices: 34809712--34810219 Score: 597
Period size: 44 Copynumber: 11.5 Consensus size: 44
34809702 TATCTTTGAT
* * *
34809712 CAGAGACGCCAAATCTACTATCTTTGATCTACTCTCTGACAATA
1 CAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
* *
34809756 CAGGGACGCCAAATCTGCTATCTTCGATCTGCTCCCTGACAATA
1 CAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
* * ** *
34809800 CAGGGGCGCCAAATCTATTATCTTCGATCTGCTCTCTAACAATA
1 CAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
* *
34809844 CAGGGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATA
1 CAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
** * *
34809888 CAGAGACATCAAATCTACTAATCTTCGATATGCTCTCTGACAATA
1 CAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATA
* ** * *
34809933 TAGAGACGATAAATCTGCTAATCTCCGATCTGCTCTCTGATAATA
1 CAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATA
** * *
34809978 CAGAGACAACAAATCTGCTATC-GCTGATCTGCTCTCTGACCATA
1 CAGAGACGCCAAATCTGCTATCTTC-GATCTGCTCTCTGACAATA
* * * * * * *
34810022 CAGGGATGCCAAACCAGCTATTTTCAATCTGCTCTTTGACAATA
1 CAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
* * *
34810066 CAGAGATGCTAAATCTGCTATCTTCGATTTGCTCTCTGACAATA
1 CAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
* *
34810110 CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTTTGACAATA
1 CAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
* * *
34810154 CAGAGACGCCAAATCTGCCATCTTTC-ATCTGCCCTTTGACAATA
1 CAGAGACGCCAAATCTGCTATC-TTCGATCTGCTCTCTGACAATA
*
34810198 CAGAGACGCCAAATCGGCTATC
1 CAGAGACGCCAAATCTGCTATC
34810220 GGTGATCTAC
Statistics
Matches: 398, Mismatches: 62, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
43 1 0.00
44 317 0.80
45 80 0.20
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (44 bp):
CAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
Found at i:34809801 original size:116 final size:116
Alignment explanation
Indices: 34809597--34809828 Score: 374
Period size: 116 Copynumber: 2.0 Consensus size: 116
34809587 CTTACAATAT
* * *
34809597 AGAGACGCCAAATCTACTATCTTCGATCTGCTTTCTGACAATACAGTGACGCCAAATCTGCTATC
1 AGAGACGCCAAATCTACTATCTTCGATCTACTCTCTGACAATACAGGGACGCCAAATCTGCTATC
* * *
34809662 TTCGGTCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTTGATC
66 TTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTACTATCTTCGATC
*
34809713 AGAGACGCCAAATCTACTATCTTTGATCTACTCTCTGACAATACAGGGACGCCAAATCTGCTATC
1 AGAGACGCCAAATCTACTATCTTCGATCTACTCTCTGACAATACAGGGACGCCAAATCTGCTATC
* * *
34809778 TTCGATCTGCTCCCTGACAATACAGGGGCGCCAAATCTATTATCTTCGATC
66 TTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTACTATCTTCGATC
34809829 TGCTCTCTAA
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 106 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (116 bp):
AGAGACGCCAAATCTACTATCTTCGATCTACTCTCTGACAATACAGGGACGCCAAATCTGCTATC
TTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTACTATCTTCGATC
Found at i:34809824 original size:160 final size:160
Alignment explanation
Indices: 34809553--34810212 Score: 457
Period size: 160 Copynumber: 3.9 Consensus size: 160
34809543 TTAACAATAT
* * * *
34809553 AGAGACGTCAATCCTACTATCTTCGATCTGCTCTCTTACAATATAGAGACGCCAAATCTACTATC
1 AGAGACGCCAATCCTACTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTATC
** * * * *
34809618 TTCGATCTGCTTTCTGACAATACAGTGACGCCAAATCTGCTATCTTCGGTCTGCTCTCTGACAAT
66 TTCGATCTGCTCCCTGACAATACAGGGACGCCAAATCTACTATCTTCGATCTGCTCTCTAACAAT
34809683 ACAGAGACGCCAAATCTACTATCTTTGATC
131 ACAGAGACGCCAAATCTACTATCTTTGATC
* * *
34809713 AGAGACGCCAAAT-CTACTATCTTTGATCTACTCTCTGACAATACAGGGACGCCAAATCTGCTAT
1 AGAGACGCC-AATCCTACTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTAT
* *
34809777 CTTCGATCTGCTCCCTGACAATACAGGGGCGCCAAATCTATTATCTTCGATCTGCTCTCTAACAA
65 CTTCGATCTGCTCCCTGACAATACAGGGACGCCAAATCTACTATCTTCGATCTGCTCTCTAACAA
*
34809842 TACAGGGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATAC
130 TACAGAGACGCCAAATC---TA-C-T--A--T-CT-T-TG---AT-C
* * * * * ** *
34809889 AGAGACATCAAAT-CTACTAATCTTCGATATGCTCTCTGACAATATAGAGACGATAAATCTGCTA
1 AGAGAC-GCCAATCCTACT-ATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTACT-
* * * * ** * * *
34809953 ATCTCCGATCTGCTCTCTGATAATACAGAGACAACAAATCTGCTATC-GCTGATCTGCTCTCTGA
63 ATCTTCGATCTGCTCCCTGACAATACAGGGACGCCAAATCTACTATCTTC-GATCTGCTCTCTAA
* * * * *
34810017 CCATACAGGGATGCCAAACCAGCTATTTTCAATCTGCTCTTTGACAATAC
127 CAATACAGAGACGCC--A--A---A---TCTA-CT-ATCTTTG---AT-C
* * * * * *
34810067 AGAGATGCTAAAT-CTGCTATCTTCGATTTGCTCTCTGACAATACAGAGACGCCAAATCTGCTAT
1 AGAGACGC-CAATCCTACTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTAT
* ** * * * * * *
34810131 CTTTGATCTGCTCTTTGACAATACAGAGACGCCAAATCTGCCATCTTTC-ATCTGCCCTTTGACA
65 CTTCGATCTGCTCCCTGACAATACAGGGACGCCAAATCTACTATC-TTCGATCTGCTCTCTAACA
34810195 ATACAGAGACGCCAAATC
129 ATACAGAGACGCCAAATC
34810213 GGCTATCGGT
Statistics
Matches: 406, Mismatches: 60, Indels: 62
0.77 0.11 0.12
Matches are distributed among these distances:
160 126 0.31
161 3 0.01
163 2 0.00
164 1 0.00
165 1 0.00
166 2 0.00
167 1 0.00
169 2 0.00
170 2 0.00
171 1 0.00
172 3 0.01
174 1 0.00
175 2 0.00
176 78 0.19
177 80 0.20
178 87 0.21
179 1 0.00
180 3 0.01
181 1 0.00
182 1 0.00
183 1 0.00
184 1 0.00
185 4 0.01
188 2 0.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (160 bp):
AGAGACGCCAATCCTACTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTATC
TTCGATCTGCTCCCTGACAATACAGGGACGCCAAATCTACTATCTTCGATCTGCTCTCTAACAAT
ACAGAGACGCCAAATCTACTATCTTTGATC
Found at i:34809868 original size:204 final size:204
Alignment explanation
Indices: 34809516--34810138 Score: 649
Period size: 204 Copynumber: 3.0 Consensus size: 204
34809506 TACAGAGATA
* * * * * * *
34809516 CCAAATCTGCTATCTTCGATTTTCTCTTTAACAATATAGAGACGTC-AATCCTACTATCTTCGAT
1 CCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACGACAAAT-CTGCTATCTTCGAT
* * * * *
34809580 CTGCTCTCTTACAATATAGAGACGCCAAATCTACTATCTTCGATCTGCTTTCTGACAATACAGTG
65 CTGCTCTCTGACAATACAGGGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAG
*
34809645 ACGCCAAATCTGCTATCTTCGGTCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTTG
130 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTTG
34809710 ATCAGAGACG
195 ATCAGAGACG
* * * *
34809720 CCAAATCTACTATCTTTGATCTACTCTCTGACAATACAGGGACGCCAAATCTGCTATCTTCGATC
1 CCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACGACAAATCTGCTATCTTCGATC
* * * * *
34809785 TGCTCCCTGACAATACAGGGGCGCCAAATCTATTATCTTCGATCTGCTCTCTAACAATACAGGGA
66 TGCTCTCTGACAATACAGGGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGA
* * *
34809850 CGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACATCAAATCTACTAATCTTCG
131 CGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC-GC----C-A--AATCTAC-
*
34809915 ATATGCTCTCTGACAATATAGAGACG
187 -TAT-CT-T-TG---AT-CAGAGACG
** * * * * *
34809941 ATAAATCTGCTAATCTCCGATCTGCTCTCTGATAATACAGAGACAACAAATCTGCTATC-GCTGA
1 CCAAATCTGCT-ATCTTCGATCTACTCTCTGACAATACAGAGACGACAAATCTGCTATCTTC-GA
* * * * * *
34810005 TCTGCTCTCTGACCATACAGGGATGCCAAA-CCAGCTATTTTCAATCTGCTCTTTGACAATACAG
64 TCTGCTCTCTGACAATACAGGGACGCCAAATCTA-CTATCTTCGATCTGCTCTCTGACAATACAG
* * * *
34810069 AGATGCTAAATCTGCTATCTTCGATTTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTT
128 AGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTT
34810134 TGATC
193 TGATC
34810139 TGCTCTTTGA
Statistics
Matches: 345, Mismatches: 53, Indels: 41
0.79 0.12 0.09
Matches are distributed among these distances:
204 150 0.43
205 4 0.01
206 2 0.01
209 3 0.01
210 2 0.01
211 2 0.01
212 9 0.03
214 9 0.03
215 2 0.01
216 2 0.01
217 3 0.01
220 2 0.01
221 19 0.06
222 136 0.39
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (204 bp):
CCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACGACAAATCTGCTATCTTCGATC
TGCTCTCTGACAATACAGGGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGA
CGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTTGA
TCAGAGACG
Found at i:34816385 original size:76 final size:76
Alignment explanation
Indices: 34816293--34816440 Score: 296
Period size: 76 Copynumber: 1.9 Consensus size: 76
34816283 ATGAATAATG
34816293 ACTTTCGGTACCATTGGCATTTCAACTTCATTATTTCTTGGTAAAGAAATAATGATCTTTGGTCG
1 ACTTTCGGTACCATTGGCATTTCAACTTCATTATTTCTTGGTAAAGAAATAATGATCTTTGGTCG
34816358 GTTTTGAAGAA
66 GTTTTGAAGAA
34816369 ACTTTCGGTACCATTGGCATTTCAACTTCATTATTTCTTGGTAAAGAAATAATGATCTTTGGTCG
1 ACTTTCGGTACCATTGGCATTTCAACTTCATTATTTCTTGGTAAAGAAATAATGATCTTTGGTCG
34816434 GTTTTGA
66 GTTTTGA
34816441 TTCTTCAGTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (76 bp):
ACTTTCGGTACCATTGGCATTTCAACTTCATTATTTCTTGGTAAAGAAATAATGATCTTTGGTCG
GTTTTGAAGAA
Found at i:34821615 original size:16 final size:16
Alignment explanation
Indices: 34821594--34821624 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34821584 ATGAGCTGGT
34821594 TAGCCATGTATAACAG
1 TAGCCATGTATAACAG
34821610 TAGCCATGTATAACA
1 TAGCCATGTATAACA
34821625 TATATTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (16 bp):
TAGCCATGTATAACAG
Found at i:34821676 original size:36 final size:38
Alignment explanation
Indices: 34821602--34821685 Score: 118
Period size: 36 Copynumber: 2.3 Consensus size: 38
34821592 GTTAGCCATG
* * *
34821602 TATAACAGTAGCCATGTATAACATATATTAAGCAACAA
1 TATACCAGCAGCCATGTATAACATACATTAAGCAACAA
*
34821640 TATACCAGCAGCCATGTATACCA-ACA-TAAGCAACAA
1 TATACCAGCAGCCATGTATAACATACATTAAGCAACAA
34821676 TATACCAGCA
1 TATACCAGCA
34821686 ACAATATTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 20 0.48
37 2 0.05
38 20 0.48
ACGTcount: A:0.45, C:0.23, G:0.11, T:0.21
Consensus pattern (38 bp):
TATACCAGCAGCCATGTATAACATACATTAAGCAACAA
Found at i:34821703 original size:36 final size:36
Alignment explanation
Indices: 34821630--34821706 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
34821620 TAACATATAT
* * * *
34821630 TAAGCAACAATATACCAGCAGCCATGTATACCAACA
1 TAAGCAACAATATACCAGCAACAATATATACAAACA
34821666 TAAGCAACAATATACCAGCAACAATAT-TACAATACA
1 TAAGCAACAATATACCAGCAACAATATATACAA-ACA
34821702 TAAGC
1 TAAGC
34821707 TAGTTTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 4 0.11
36 32 0.89
ACGTcount: A:0.48, C:0.25, G:0.09, T:0.18
Consensus pattern (36 bp):
TAAGCAACAATATACCAGCAACAATATATACAAACA
Found at i:34822063 original size:3 final size:3
Alignment explanation
Indices: 34822048--34822098 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
34822038 CTATTTTTCC
* * * *
34822048 TCT TCT CCT TCT TCT TCT TCT TCT AC- TCC TCT TCT TCT TCT TCT TTT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
34822095 TCT T
1 TCT T
34822099 TTTTTCTAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
2 1 0.03
3 39 0.98
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:34822082 original size:20 final size:21
Alignment explanation
Indices: 34822052--34822091 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
34822042 TTTTCCTCTT
34822052 CTCCTTCTTCTTCTTCTTCTA
1 CTCCTTCTTCTTCTTCTTCTA
34822073 CTCC-TCTTCTTCTTCTTCT
1 CTCCTTCTTCTTCTTCTTCT
34822092 TTTTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.03, C:0.40, G:0.00, T:0.57
Consensus pattern (21 bp):
CTCCTTCTTCTTCTTCTTCTA
Found at i:34828146 original size:30 final size:30
Alignment explanation
Indices: 34828112--34828172 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
34828102 TCCTTAACTC
34828112 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
34828142 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
34828172 A
1 A
34828173 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:34833682 original size:217 final size:216
Alignment explanation
Indices: 34833306--34833719 Score: 519
Period size: 217 Copynumber: 1.9 Consensus size: 216
34833296 GAGAAAGATT
* * * * *
34833306 ATTGAAGAGATTCCATCTAAAGACTCATTTGATTTAACTGATGAATCAGAAACTAAATCAAACTC
1 ATTGAAGAGATTCCACCTAAAGACTCATCTAATTCAACTGATGAACCAGAAACTAAATCAAACTC
* * *
34833371 CACTTTATAGAGGACATACCTCTGAAGGAAATCATCGATAATAAAGCTCGATCCAAGAAGCCAAA
66 CACTTTATAGAAGACATACCTCTAAAGGAAATCATCGATAATAAACCTCGATCCAAGAAGCCAAA
* * * * * *
34833436 TGTTCCTATGACTGCACAACAACGTAACAATAGGATAAAGCAAGTAGGTGTACCTTCTTTGCTTG
131 TGTGCATATGACTGCACAACAACGTAACAAGAAGATAAAGCAAGCAAGTGTACCTTCTTTGCTTG
34833501 CTGAAGCTGCTGCCAAGGTAC
196 CTGAAGCTGCTGCCAAGGTAC
** *
34833522 ATTGAAGAGATTCCACCTAAAGACTCATCTAATTCAGTTGATGAACCAGAAAC-AGAATCAGAC-
1 ATTGAAGAGATTCCACCTAAAGACTCATCTAATTCAACTGATGAACCAGAAACTA-AATCAAACT
* * * * **
34833585 CCTAGCTTTGTAGAAGACATACCTCTAAAGGAAATCATTGGTGGA-AAACCTCGATCCAAGTGGC
65 CC-A-CTTTATAGAAGACATACCTCTAAAGGAAATCATCGAT-AATAAACCTCGATCCAAGAAGC
* * * * *
34833649 CAAATGTGCATATGACTGCACAACAATGTAACAAGAAGATGAAGTAAGCAAGTGTACTTTCTTTT
127 CAAATGTGCATATGACTGCACAACAACGTAACAAGAAGATAAAGCAAGCAAGTGTACCTTCTTTG
34833714 CTTGCT
192 CTTGCT
34833720 AAAGATAAGG
Statistics
Matches: 166, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
215 3 0.02
216 54 0.33
217 108 0.65
218 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (216 bp):
ATTGAAGAGATTCCACCTAAAGACTCATCTAATTCAACTGATGAACCAGAAACTAAATCAAACTC
CACTTTATAGAAGACATACCTCTAAAGGAAATCATCGATAATAAACCTCGATCCAAGAAGCCAAA
TGTGCATATGACTGCACAACAACGTAACAAGAAGATAAAGCAAGCAAGTGTACCTTCTTTGCTTG
CTGAAGCTGCTGCCAAGGTAC
Found at i:34847422 original size:16 final size:17
Alignment explanation
Indices: 34847392--34847424 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34847382 TTATTTGTAA
*
34847392 TTATTTTATTTATAAAT
1 TTATTTTATTAATAAAT
34847409 TTATTTT-TTAATAAAT
1 TTATTTTATTAATAAAT
34847425 GAATTTCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTTTATTAATAAAT
Found at i:34847492 original size:9 final size:9
Alignment explanation
Indices: 34847473--34847513 Score: 75
Period size: 9 Copynumber: 4.7 Consensus size: 9
34847463 TTATAAATAT
34847473 TTTTATG-A
1 TTTTATGCA
34847481 TTTTATGCA
1 TTTTATGCA
34847490 TTTTATGCA
1 TTTTATGCA
34847499 TTTTATGCA
1 TTTTATGCA
34847508 TTTTAT
1 TTTTAT
34847514 AAAATCTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 7 0.22
9 25 0.78
ACGTcount: A:0.22, C:0.07, G:0.10, T:0.61
Consensus pattern (9 bp):
TTTTATGCA
Found at i:34852908 original size:33 final size:31
Alignment explanation
Indices: 34852823--34852908 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 31
34852813 AATATTTTTT
*
34852823 TTCTATTTAAAATAAATATAAGTTTAATATATA
1 TTCTATTT--AATATATATAAGTTTAATATATA
*
34852856 TTCTATTTAATATAAATATAAGTTTAATA-ATTT
1 TTCTATTTAATAT--ATATAAGTTTAATATA-TA
34852889 TTAACTATTTAATATATATA
1 TT--CTATTTAATATATATA
34852909 TAATTTTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
31 4 0.09
32 1 0.02
33 30 0.65
35 11 0.24
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (31 bp):
TTCTATTTAATATATATAAGTTTAATATATA
Found at i:34860652 original size:26 final size:26
Alignment explanation
Indices: 34860622--34860677 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
34860612 TGAAATTCCC
34860622 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34860648 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34860674 ATCA
1 ATCA
34860678 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34861622 original size:42 final size:42
Alignment explanation
Indices: 34861569--34861650 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
34861559 TATTTAACTC
34861569 TTTGATGTCATTTATAATTCTATACAACTCCCCATTTCTTTT
1 TTTGATGTCATTTATAATTCTATACAACTCCCCATTTCTTTT
* * * *
34861611 TTTGATGTCATTTATACTTCTATAGAACTTCTCATTTCTT
1 TTTGATGTCATTTATAATTCTATACAACTCCCCATTTCTT
34861651 ATCTTTGGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.23, C:0.20, G:0.06, T:0.51
Consensus pattern (42 bp):
TTTGATGTCATTTATAATTCTATACAACTCCCCATTTCTTTT
Found at i:34862263 original size:11 final size:11
Alignment explanation
Indices: 34862247--34862271 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34862237 CTTACGAACC
34862247 CATTTCTCAAT
1 CATTTCTCAAT
34862258 CATTTCTCAAT
1 CATTTCTCAAT
34862269 CAT
1 CAT
34862272 GTCGTACACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (11 bp):
CATTTCTCAAT
Found at i:34872442 original size:44 final size:44
Alignment explanation
Indices: 34872364--34872662 Score: 180
Period size: 44 Copynumber: 6.7 Consensus size: 44
34872354 ATTGAAGGCT
* **
34872364 TTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTAGTAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAGTAAGTC
* *
34872408 TTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-TAG-TAAGTC
* * * * * * *
34872453 TTATTTCCTTGAAGATACAGTGGAACAGATTG-AGCTATAAATAAATAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG---T-AGT--A-AG-TC
* * ** * * **
34872504 TTATCTCTCTGAAGTTGCAGTAGATTAGAC--CA-TAGCAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAGTAAGTC
* ** *
34872545 TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAGTAAGTC
* *
34872589 TTATCTCCTTGAAGTTGCAGTGGAGCAAACTGAAG-A-TAACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAGT-A-AG-TC
* *
34872634 TTATCTCCCTGAAGTCGCAATGGAGCAGA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA
34872663 TCAAAGCCAT
Statistics
Matches: 193, Mismatches: 45, Indels: 33
0.71 0.17 0.12
Matches are distributed among these distances:
41 26 0.13
42 1 0.01
43 4 0.02
44 72 0.37
45 58 0.30
46 5 0.03
47 1 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 23 0.12
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAGTAAGTC
Found at i:34872660 original size:89 final size:88
Alignment explanation
Indices: 34872544--34872840 Score: 234
Period size: 89 Copynumber: 3.3 Consensus size: 88
34872534 CATAGCAAAC
*
34872544 CTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCTTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GTTGAAGTAGCAAGTCTTATCTCCTTGAAGTTGCAG
34872609 TGGAGCAAACTGAAGATAACAGAT
65 TGGAGCAAACTGAAGATAACAGAT
* * * * * * * *
34872633 CTTATCTCCCTGAAGTCGCAATGGAGCAGATCAA--AGCCATAATCCTTATCT-TTATAAAGTCG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGTTGAAGTAG-CA-AGT-CTTATCTCCT-TGAAGTTG
** * * * *
34872695 CAGTAAAG-AAGGA-TAAAAATACACAAAC
62 CAGTGGAGCAA--ACTGAAGATA-ACAGAT
*
34872723 CTTATCTCCCTGAAGTTGCAGTGGGGCAAGTTGAAGTTATG--AGTCTTATCTTCC-TGAAGTTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGC-AGTTGAAG-TA-GCAAGTCTTATC-TCCTTGAAGTTG
*
34872785 CAGTGGAGCAAACTGAAGATAGC-GAAT
62 CAGTGGAGCAAACTGAAGATAACAG-AT
* * *
34872812 CTTATCTCTCTGAAGTTGTAGTAGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
34872841 ATTAAAGCTA
Statistics
Matches: 156, Mismatches: 35, Indels: 35
0.69 0.15 0.15
Matches are distributed among these distances:
86 2 0.01
87 2 0.01
88 11 0.07
89 76 0.49
90 53 0.34
91 10 0.06
94 1 0.01
95 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (88 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGTTGAAGTAGCAAGTCTTATCTCCTTGAAGTTGCAGT
GGAGCAAACTGAAGATAACAGAT
Found at i:34872998 original size:44 final size:44
Alignment explanation
Indices: 34872539--34873069 Score: 149
Period size: 44 Copynumber: 11.8 Consensus size: 44
34872529 TAGACCATAG
* * * * *
34872539 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAG-TA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA
* * * * * **
34872582 GCAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAAACTGAAGATAA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-CCA
* * * * **
34872628 CAGATCTTATCTCCCTGAAGTCGCAATGGAGCAGATCAAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA
* *** * * ** * ** **
34872672 -TAATCCTTATCTTTATAAAGTCGCAGTAAAGAAGGATAAAAATACA
1 CAAAT-CTTATCTCCCTGAAGTTGCAGTGGAGTA-GAT-TGAAGCCA
* * * **
34872718 CAAACCTTATCTCCCTGAAGTTGCAGTGGGGCA-AGTTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TTGAAGCCA
** * * * * * **
34872762 TGAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA
* * * * * * *
34872806 GCGAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA
* * * * * * ** *
34872851 TAAATCCTATAC-CTCTAAAGTTGCAGTAG-GTCGGATCAAACCCA
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGGAGT-AGATTGAAGCCA
*
34872895 CCATGGTGAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCA
1 -CA-----AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA
* * **
34872945 CAAACCTTATC-CCTCTGAAGTTGCAGTGGGGTA-AGTTGAAGTTA
1 CAAATCTTATCTCC-CTGAAGTTGCAGTGGAGTAGA-TTGAAGCCA
* * * * * * **
34872989 CAAGTCTTATTTCCCTGAAGTCGTAGTGGAGCAGACTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA
* * * *
34873033 GCAAATCTTATCTCCTTGAAGATGCAATGAAGTAGAT
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
34873070 CAAGCTACAA
Statistics
Matches: 353, Mismatches: 110, Indels: 47
0.69 0.22 0.09
Matches are distributed among these distances:
43 6 0.02
44 185 0.52
45 102 0.29
46 25 0.07
47 2 0.01
49 3 0.01
50 28 0.08
51 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA
Found at i:34873079 original size:88 final size:88
Alignment explanation
Indices: 34872905--34873079 Score: 192
Period size: 88 Copynumber: 2.0 Consensus size: 88
34872895 CCATGGTGAA
* * * * *
34872905 TCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCACAAACCTTATCCCTCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTCGTAGTGGAGCAGACTGAAGACACAAACCTTATCCCTCTGAAGATGCA
* ** * * *
34872970 GTGGGGTAAGTTGAAGTTACAAG
66 ATGAAGTAAGATCAAGCTACAAG
* * *
34872993 TCTTATTTCCCTGAAGTCGTAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCT-TGAAGATG
1 TCTTATCTCCCTGAAGTCGTAGTGGAGCAGACTGAAGACA-CAAACCTTATC-CCTCTGAAGATG
34873057 CAATGAAGT-AGATCAAGCTACAA
64 CAATGAAGTAAGATCAAGCTACAA
34873080 TAGCAAAAGA
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
88 45 0.63
89 23 0.32
90 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTCGTAGTGGAGCAGACTGAAGACACAAACCTTATCCCTCTGAAGATGCA
ATGAAGTAAGATCAAGCTACAAG
Found at i:34875076 original size:21 final size:20
Alignment explanation
Indices: 34875035--34875078 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
34875025 CATCATTTGT
34875035 TTTAAATTTATTCATTATTA
1 TTTAAATTTATTCATTATTA
* * *
34875055 TTTAGATTCTATTTATTTTTA
1 TTTAAATT-TATTCATTATTA
34875076 TTT
1 TTT
34875079 TGCCTTATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTAAATTTATTCATTATTA
Found at i:34876247 original size:36 final size:35
Alignment explanation
Indices: 34876171--34876247 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 35
34876161 TAAAGTAAAT
* *
34876171 AAAGAATTAAACAAATAAAGAAACAAAAGAAATAG
1 AAAGAATTAAACAAATAAAGAAACAAAACAAAGAG
* *
34876206 AAAGAA-TAAACAGAATAAGGAGAACGAAACAAAGAG
1 AAAGAATTAAACA-AATAAAGA-AACAAAACAAAGAG
34876242 AAAGAA
1 AAAGAA
34876248 AGTGGAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 6 0.17
35 13 0.36
36 17 0.47
ACGTcount: A:0.69, C:0.06, G:0.17, T:0.08
Consensus pattern (35 bp):
AAAGAATTAAACAAATAAAGAAACAAAACAAAGAG
Found at i:34880032 original size:5 final size:5
Alignment explanation
Indices: 34880022--34880059 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
34880012 CTGTGTATTC
34880022 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
34880060 TCACAATTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:34886185 original size:39 final size:39
Alignment explanation
Indices: 34886131--34886222 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
34886121 CAAGACACTG
*
34886131 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTA
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
* *
34886170 GAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
34886209 GAAATGTATCCGGG
1 GAAATGTATCCGGG
34886223 ACTTTCCGTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
Found at i:34901005 original size:26 final size:27
Alignment explanation
Indices: 34900945--34901007 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
34900935 CTTTCTATAT
*
34900945 ATTATTTATTTTGAAATGTTTTTACAT
1 ATTATTTATTTTGAAATGTTTTTACAC
* *
34900972 ACTCTTTATTTT-AAAT-TATTTTACAC
1 ATTATTTATTTTGAAATGT-TTTTACAC
34900998 ATTATTTATT
1 ATTATTTATT
34901008 CCAAAATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.03
26 19 0.63
27 10 0.33
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (27 bp):
ATTATTTATTTTGAAATGTTTTTACAC
Found at i:34901097 original size:26 final size:26
Alignment explanation
Indices: 34901027--34901115 Score: 83
Period size: 26 Copynumber: 3.5 Consensus size: 26
34901017 CACATATAGC
* * *
34901027 ATTTAATTTAAACTA-TTTTGCATGTT
1 ATTTATTTTAAGCTACTTTTGTAT-TT
* ** *
34901053 ATTCATTTTAATTTTCTTTTGTATTT
1 ATTTATTTTAAGCTACTTTTGTATTT
*
34901079 ATTTATTTTAAGCTACTTTAGTA-TT
1 ATTTATTTTAAGCTACTTTTGTATTT
34901104 ATTTATTTTAAG
1 ATTTATTTTAAG
34901116 TTTGTATACA
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
25 14 0.27
26 30 0.59
27 7 0.14
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (26 bp):
ATTTATTTTAAGCTACTTTTGTATTT
Found at i:34901133 original size:24 final size:23
Alignment explanation
Indices: 34901101--34901188 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 23
34901091 CTACTTTAGT
34901101 ATTATTTATTTTAAGTTTGTATAC
1 ATTATTTATTTTAAGTTT-TATAC
* * * *
34901125 ATTATTTATTTGAAACTTTTTTAT
1 ATTATTTATTT-TAAGTTTTATAC
* *
34901149 ATTATTTACTTTAAGTCGCTTTATTC
1 ATTATTTATTTTAAGT---TTTATAC
34901175 ATTATTTATTTTAA
1 ATTATTTATTTTAA
34901189 ACTTTGTTTC
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
23 3 0.06
24 24 0.49
25 5 0.10
26 17 0.35
ACGTcount: A:0.28, C:0.07, G:0.06, T:0.59
Consensus pattern (23 bp):
ATTATTTATTTTAAGTTTTATAC
Found at i:34901162 original size:48 final size:48
Alignment explanation
Indices: 34901077--34901210 Score: 139
Period size: 48 Copynumber: 2.8 Consensus size: 48
34901067 TCTTTTGTAT
* ** *
34901077 TTATTTATTTTAAGCTACTTTAGTATTATTTATTTTAAGT-TTGTATACA
1 TTATTTATTTTAAACTTTTTTA-TATTATTTACTTTAAGTCTT-TATACA
* *
34901126 TTATTTATTTGAAACTTTTTTATATTATTTACTTTAAGTCGCTTTATTCA
1 TTATTTATTTTAAACTTTTTTATATTATTTACTTTAAGT--CTTTATACA
* *
34901176 TTATTTATTTTAAACTTTGTT-T-CTATTTACTTTAA
1 TTATTTATTTTAAACTTTTTTATATTATTTACTTTAA
34901211 TTTCTTTTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
48 28 0.38
49 19 0.26
50 24 0.33
51 2 0.03
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (48 bp):
TTATTTATTTTAAACTTTTTTATATTATTTACTTTAAGTCTTTATACA
Found at i:34907423 original size:12 final size:12
Alignment explanation
Indices: 34907406--34907430 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34907396 CAGAGGCTAT
34907406 TAACAATATTTA
1 TAACAATATTTA
34907418 TAACAATATTTA
1 TAACAATATTTA
34907430 T
1 T
34907431 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:34908899 original size:779 final size:782
Alignment explanation
Indices: 34907504--34909108 Score: 3072
Period size: 779 Copynumber: 2.1 Consensus size: 782
34907494 AAACTTTGGG
*
34907504 ATTGTTGAATCACAGACGAAATAAATATATAAAGCAACGGAGCCATCATAGTATTTTTGAACTTT
1 ATTGCTGAATCACAGACGAAATAAATATATAAAGCAACGGAGCCATCATAGTATTTTTGAACTTT
34907569 TCCGAAAAAAAAAGAAGGGTGGTAATTGGATTATTTAGTGATATGGGTCTAATAGACGCTCTCTA
66 TCCG-AAAAAAAAGAAGGGTGGTAATTGGATTATTTAGTGATATGGGTCTAATAGACGCTCTCTA
*
34907634 TATTTTCTCTTTTTCTTTTTTCGATGAAAGAAAAAAGAGAATTCCATTGTAAAGCCGTATGCAAT
130 TATTTTCTCTTTTTCTTTTTTCGATGAAAGAAAAAAGAGAATTCCATTGTAAAGCCATATGCAAT
34907699 GCACAAAAAATGCCTGTACGGTTGTTCAATTCTATCTTTTTTTCTTATTATTCTTTAGCTATTTT
195 GCACAAAAAATGCCTGTACGGTTGTTCAATTCTATCTTTTTTTCTTATTATTCTTTAGCTATTTT
34907764 TAGCTATTCTTCTCGCCTCATTATGTGAGTTAGAAGAACCTTTTATTATGTTATATCATCAGGGT
260 TAGCTATTCTTCTCGCCTCATTATGTGAGTTAGAAGAACCTTTTATTATGTTATATCATCAGGGT
* *
34907829 AATAATCCATCAACTTGCTAGTTCTTTTTATGAGGCACAAACAGGAGAATTTATCCTGGAAGCGG
325 AATAATCCATCAACCTGCTAGTTCTTTTTATGAGGCACAAACAGGAGAATTTATCCTGGAAGCAG
* *
34907894 AAGAACTACTGAAACTTCGCGAAAGCCTCACAAGGGTTTATGTACAAAGAACGGGCAAGCCCCTA
390 AAAAACTACTAAAACTTCGCGAAAGCCTCACAAGGGTTTATGTACAAAGAACGGGCAAGCCCCTA
34907959 TGGGTTGTATCCGAAGACATGGAAAGAGATGTTTTTATGTCAGCAACAGAAGCCCAAGCTCATGG
455 TGGGTTGTATCCGAAGACATGGAAAGAGATGTTTTTATGTCAGCAACAGAAGCCCAAGCTCATGG
*
34908024 AATTGTGGATCTTGTAGCGGTTAAATAAGTTAAATAACAAATAGCAATAGCAACGATTTAACACC
520 AATTGTGGATCTTGTAGCGGTTAAATAAGTTAAATAACAAATAGCAATAACAACGATTTAACACC
34908089 AATCCACAATTTAATTAAGATTGATTTAATCCCTCTTCTTCCTTTCCTTCTTAACTTAAGCCTAA
585 AATCCACAATTTAATTAAGATTGATTTAATCCCTCTTCTTCCTTTCCTTCTTAACTTAAGCCTAA
34908154 AGCCTAAGGGGTTAATATTTTATTAATCTATTAAATAGAAAAAGAACTAATTCAGAATCATCTGG
650 AGCCTAAGGGGTTAATATTTTATTAATCTATTAAATAGAAAAAGAACTAATTCAGAATCATCTGG
34908219 TTAGGATCGATCTAAACCAGTCTATTATGTATATAATTCAGTATGCCAACTATTAAACAACTTAA
715 TTAGGATCGATCTAAACCAGTCTATTATGTATATAATTCAGTATGCCAACTATTAAACAACTTAA
34908284 GCC
780 GCC
34908287 ATTGCTGAATCACAGACGAAATAAATATATAAAGCAACGGAGCCATCATAGTATTTTTGAACTTT
1 ATTGCTGAATCACAGACGAAATAAATATATAAAGCAACGGAGCCATCATAGTATTTTTGAACTTT
*
34908352 TCCG-AAAAAAA-AAGGGTGGTAATTGGATTATTTAGTGATCTGGGTCTAATAGACGCTCTCTAT
66 TCCGAAAAAAAAGAAGGGTGGTAATTGGATTATTTAGTGATATGGGTCTAATAGACGCTCTCTAT
* *
34908415 ATTTTCTCTTTTTCTTTTTTCGATGAAAGAAAAAGGAGAATTCCATTGTAAAGCCATATGTAATG
131 ATTTTCTCTTTTTCTTTTTTCGATGAAAGAAAAAAGAGAATTCCATTGTAAAGCCATATGCAATG
34908480 CACAAAAAATGCCTGTACGGTTGTTCAATTCTATC-TTTTTTCTTATTATTCTTTAGCTATTTTT
196 CACAAAAAATGCCTGTACGGTTGTTCAATTCTATCTTTTTTTCTTATTATTCTTTAGCTATTTTT
34908544 AGCTATTCTTCTCGCCTCATTATGTGAGTTAGAAGAACCTTTTATTATGTTATATCATCAGGGTA
261 AGCTATTCTTCTCGCCTCATTATGTGAGTTAGAAGAACCTTTTATTATGTTATATCATCAGGGTA
*
34908609 ATGATCCATCAACCTGCTAGTTCTTTTTATGAGGCACAAACAGGAGAATTTATCCTGGAAGCAGA
326 ATAATCCATCAACCTGCTAGTTCTTTTTATGAGGCACAAACAGGAGAATTTATCCTGGAAGCAGA
34908674 AAAACTACTAAAACTTCGCGAAAGCCTCACAAGGGTTTATGTACAAAGAACGGGCAAGCCCCTAT
391 AAAACTACTAAAACTTCGCGAAAGCCTCACAAGGGTTTATGTACAAAGAACGGGCAAGCCCCTAT
34908739 GGGTTGTATCCGAAGACATGGAAAGAGATGTTTTTATGTCAGCAACAGAAGCCCAAGCTCATGGA
456 GGGTTGTATCCGAAGACATGGAAAGAGATGTTTTTATGTCAGCAACAGAAGCCCAAGCTCATGGA
34908804 ATTGTGGATCTTGTAGCGGTTAAATAAGTTAAATAACAAATAGCAATAACAACGATTTAACACCA
521 ATTGTGGATCTTGTAGCGGTTAAATAAGTTAAATAACAAATAGCAATAACAACGATTTAACACCA
34908869 ATCCACAATTTAATTAAGATTGATTTAATCCCTCTTCTTCCTTTCCTTCTTAACTTAAGCCTAAA
586 ATCCACAATTTAATTAAGATTGATTTAATCCCTCTTCTTCCTTTCCTTCTTAACTTAAGCCTAAA
34908934 GCCTAAGGGGTTAATATTTTATTAATCTATTAAATAGAAAAAGAACTAATTCAGAATCATCTGGT
651 GCCTAAGGGGTTAATATTTTATTAATCTATTAAATAGAAAAAGAACTAATTCAGAATCATCTGGT
34908999 TAGGATCGATCTAAACCAGTCTATTATGTATATAATTCAGTATGCCAACTATTAAACAACTTAAG
716 TAGGATCGATCTAAACCAGTCTATTATGTATATAATTCAGTATGCCAACTATTAAACAACTTAAG
34909064 CC
781 CC
*
34909066 ATTGCTGAATCACAGACGAAATAAATACATAAAGCAACGGAGC
1 ATTGCTGAATCACAGACGAAATAAATATATAAAGCAACGGAGC
34909109 TGATGTGATC
Statistics
Matches: 810, Mismatches: 12, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
779 587 0.72
780 148 0.18
781 7 0.01
783 68 0.08
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (782 bp):
ATTGCTGAATCACAGACGAAATAAATATATAAAGCAACGGAGCCATCATAGTATTTTTGAACTTT
TCCGAAAAAAAAGAAGGGTGGTAATTGGATTATTTAGTGATATGGGTCTAATAGACGCTCTCTAT
ATTTTCTCTTTTTCTTTTTTCGATGAAAGAAAAAAGAGAATTCCATTGTAAAGCCATATGCAATG
CACAAAAAATGCCTGTACGGTTGTTCAATTCTATCTTTTTTTCTTATTATTCTTTAGCTATTTTT
AGCTATTCTTCTCGCCTCATTATGTGAGTTAGAAGAACCTTTTATTATGTTATATCATCAGGGTA
ATAATCCATCAACCTGCTAGTTCTTTTTATGAGGCACAAACAGGAGAATTTATCCTGGAAGCAGA
AAAACTACTAAAACTTCGCGAAAGCCTCACAAGGGTTTATGTACAAAGAACGGGCAAGCCCCTAT
GGGTTGTATCCGAAGACATGGAAAGAGATGTTTTTATGTCAGCAACAGAAGCCCAAGCTCATGGA
ATTGTGGATCTTGTAGCGGTTAAATAAGTTAAATAACAAATAGCAATAACAACGATTTAACACCA
ATCCACAATTTAATTAAGATTGATTTAATCCCTCTTCTTCCTTTCCTTCTTAACTTAAGCCTAAA
GCCTAAGGGGTTAATATTTTATTAATCTATTAAATAGAAAAAGAACTAATTCAGAATCATCTGGT
TAGGATCGATCTAAACCAGTCTATTATGTATATAATTCAGTATGCCAACTATTAAACAACTTAAG
CC
Found at i:34917134 original size:30 final size:30
Alignment explanation
Indices: 34917094--34917158 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
34917084 GCAGAAGAAA
*
34917094 CTCTTAAATTTCTCCCTAAAATTT-TCAAAG
1 CTCTCAAATTTCT-CCTAAAATTTCTCAAAG
* *
34917124 CTCTCAAATTTCTCTTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCTAAAATTTCTCAAAG
34917154 CTCTC
1 CTCTC
34917159 TTTAATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.42
Consensus pattern (30 bp):
CTCTCAAATTTCTCCTAAAATTTCTCAAAG
Found at i:34919205 original size:21 final size:21
Alignment explanation
Indices: 34919180--34919222 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
34919170 ACCCACAACT
*
34919180 AGAGCAACAATAACCCCCGCC
1 AGAGCAACAACAACCCCCGCC
*
34919201 AGAGCAACCACAACCCCCGCC
1 AGAGCAACAACAACCCCCGCC
34919222 A
1 A
34919223 AAAGCTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.47, G:0.14, T:0.02
Consensus pattern (21 bp):
AGAGCAACAACAACCCCCGCC
Found at i:34919380 original size:24 final size:23
Alignment explanation
Indices: 34919353--34919408 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
34919343 TGTTTAATAA
34919353 AATAAAAGCTATTTTTA-ATATTTT
1 AATAAAA-CTATTTTTATAT-TTTT
*
34919377 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAACTATTTTTATATTTTT
34919402 AATAAAA
1 AATAAAA
34919409 TAGAAGTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.11
24 4 0.14
25 16 0.57
26 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (23 bp):
AATAAAACTATTTTTATATTTTT
Found at i:34919811 original size:10 final size:10
Alignment explanation
Indices: 34919796--34919839 Score: 70
Period size: 10 Copynumber: 4.4 Consensus size: 10
34919786 AATTTTAGCT
34919796 TTTATCTTTA
1 TTTATCTTTA
*
34919806 TTTATCCTTA
1 TTTATCTTTA
34919816 TTTATCTTTA
1 TTTATCTTTA
*
34919826 ATTATCTTTA
1 TTTATCTTTA
34919836 TTTA
1 TTTA
34919840 ATTGTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:34923561 original size:25 final size:25
Alignment explanation
Indices: 34923527--34923576 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
34923517 CGGTGTCACG
34923527 GACCTCACCATCATTGTAAATAACA
1 GACCTCACCATCATTGTAAATAACA
*
34923552 GACCTCACCATTATTGTAAATAACA
1 GACCTCACCATCATTGTAAATAACA
34923577 ACACTAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (25 bp):
GACCTCACCATCATTGTAAATAACA
Found at i:34926906 original size:17 final size:17
Alignment explanation
Indices: 34926875--34926908 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34926865 TGTCTATTTG
**
34926875 GAAAAAAAATGTTAAAA
1 GAAAAAAAACCTTAAAA
34926892 GAAAAAAAACCTTAAAA
1 GAAAAAAAACCTTAAAA
34926909 CGTATAGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.15
Consensus pattern (17 bp):
GAAAAAAAACCTTAAAA
Found at i:34927093 original size:12 final size:12
Alignment explanation
Indices: 34927076--34927105 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34927066 TAAATTAATG
34927076 TATTAAGAGGTA
1 TATTAAGAGGTA
34927088 TATTAAGAGGTA
1 TATTAAGAGGTA
*
34927100 TTTTAA
1 TATTAA
34927106 ATTAATGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (12 bp):
TATTAAGAGGTA
Found at i:34927181 original size:48 final size:47
Alignment explanation
Indices: 34927114--34927206 Score: 159
Period size: 48 Copynumber: 2.0 Consensus size: 47
34927104 AAATTAATGT
* *
34927114 TTTAAGTAAAAACATTATTACACAGCAGTAATTAAAATAGTAATTGA
1 TTTAAGTAAAAAAATTATTACACAACAGTAATTAAAATAGTAATTGA
34927161 TTTAAGTAAAAAAAATTATTACACAACAGTAATTAAAATAGTAATT
1 TTTAAGT-AAAAAAATTATTACACAACAGTAATTAAAATAGTAATT
34927207 TAGATTAGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
47 7 0.16
48 36 0.84
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.32
Consensus pattern (47 bp):
TTTAAGTAAAAAAATTATTACACAACAGTAATTAAAATAGTAATTGA
Found at i:34928287 original size:18 final size:18
Alignment explanation
Indices: 34928264--34928300 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
34928254 CTTTGTTTTG
34928264 TAGGGGAAAAAATGCACT
1 TAGGGGAAAAAATGCACT
34928282 TAGGGGAAAAAATGCACT
1 TAGGGGAAAAAATGCACT
34928300 T
1 T
34928301 TCTTTTGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.19
Consensus pattern (18 bp):
TAGGGGAAAAAATGCACT
Found at i:34942130 original size:16 final size:16
Alignment explanation
Indices: 34942109--34942139 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34942099 AAATAAAGTA
34942109 TAATAAAACAAATAGG
1 TAATAAAACAAATAGG
*
34942125 TAATAAAAGAAATAG
1 TAATAAAACAAATAG
34942140 AAAGCCATGC
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:0.65, C:0.03, G:0.13, T:0.19
Consensus pattern (16 bp):
TAATAAAACAAATAGG
Found at i:34942636 original size:19 final size:20
Alignment explanation
Indices: 34942612--34942652 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
34942602 GAATTTAGGC
*
34942612 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
34942631 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
34942651 AA
1 AA
34942653 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:34943664 original size:19 final size:19
Alignment explanation
Indices: 34943640--34943678 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
34943630 CTTCTGCCCA
*
34943640 GCCTCCATGCTCCAC-AACG
1 GCCTCCACGC-CCACGAACG
34943659 GCCTCCACGCCCACGAACG
1 GCCTCCACGCCCACGAACG
34943678 G
1 G
34943679 TTTCTCCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.21, C:0.49, G:0.21, T:0.10
Consensus pattern (19 bp):
GCCTCCACGCCCACGAACG
Found at i:34962788 original size:18 final size:18
Alignment explanation
Indices: 34962743--34962789 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
34962733 TCGTGTGGCC
*
34962743 TGCCCGTATGAGCCCACA
1 TGCCCGTATGGGCCCACA
**
34962761 TGCTAGTATGGGCCCACA
1 TGCCCGTATGGGCCCACA
*
34962779 TGCCCCTATGG
1 TGCCCGTATGG
34962790 TCCATACGCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (18 bp):
TGCCCGTATGGGCCCACA
Found at i:34971350 original size:45 final size:45
Alignment explanation
Indices: 34971294--34971398 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
34971284 CGATATCTGC
* * *
34971294 TATCTTTGATCTGCTCCCTGTCTAATACAGAGACGTCAAATCTAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
* *
34971339 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
* *
34971384 CATCTTGGATCTGCT
1 TATCTTCGATCTGCT
34971399 TCGATGTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
Found at i:34971541 original size:78 final size:78
Alignment explanation
Indices: 34971412--34971690 Score: 391
Period size: 78 Copynumber: 3.6 Consensus size: 78
34971402 ATGTAAACAC
* * * *
34971412 ATGAAGATCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAAAACAGAGATGTCAAATCATCT
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGTCAAATCATCT
34971477 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
34971490 ATGAAGGTCCA-ATCTATTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGTCAAATCATC
*
34971554 TTAGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * *
34971568 ATGAAGGTCAGATCTACTGTGTCTTCGATCTACTCCCCGTCTAACACAGAGATGT-GAATCATCT
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGTCAAATCATCT
34971632 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
34971645 ATGAAGGTCATATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATA
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATA
34971691 TGGAGATGCT
Statistics
Matches: 176, Mismatches: 23, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
77 61 0.35
78 113 0.64
79 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGTCAAATCATCT
TGGATCTGCTTCA
Found at i:34971697 original size:155 final size:156
Alignment explanation
Indices: 34971412--34971705 Score: 448
Period size: 155 Copynumber: 1.9 Consensus size: 156
34971402 ATGTAAACAC
* *
34971412 ATGAAGATCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAAAACAGAGATGTCAAATCATCT
1 ATGAAGATCAGATCTACTATGTCTTCGATCTACTCCCCATCTAAAACAGAGATGTCAAATCATCT
* *
34971477 TGGATCTGCTTCAATGAAGGTCCAATCTATTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGA
66 TGGATCTGCTTCAATGAAGGTCCAATCTACTATGTCTTCGATCTGCTCCCCGTCGAATATAGAGA
34971542 TGCCAAATCATCTTAGATCTGCTTCA
131 TGCCAAATCATCTTAGATCTGCTTCA
* * * * *
34971568 ATGAAGGTCAGATCTACTGTGTCTTCGATCTACTCCCCGTCTAACACAGAGATGT-GAATCATCT
1 ATGAAGATCAGATCTACTATGTCTTCGATCTACTCCCCATCTAAAACAGAGATGTCAAATCATCT
* * *
34971632 TGGATCTGCTTCAATGAAGGT-CATATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAG
66 TGGATCTGCTTCAATGAAGGTCCA-ATCTACTATGTCTTCGATCTGCTCCCCGTCGAATATAGAG
*
34971696 ATGCTAAATC
130 ATGCCAAATC
34971706 TGTTTCTTCG
Statistics
Matches: 124, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
154 2 0.02
155 73 0.59
156 49 0.40
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (156 bp):
ATGAAGATCAGATCTACTATGTCTTCGATCTACTCCCCATCTAAAACAGAGATGTCAAATCATCT
TGGATCTGCTTCAATGAAGGTCCAATCTACTATGTCTTCGATCTGCTCCCCGTCGAATATAGAGA
TGCCAAATCATCTTAGATCTGCTTCA
Found at i:34971916 original size:78 final size:78
Alignment explanation
Indices: 34971787--34971992 Score: 322
Period size: 78 Copynumber: 2.6 Consensus size: 78
34971777 TGAAAGCCAA
*
34971787 ATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATATTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTT
34971852 CAATGAAGGTCAG
66 CAATGAAGGTCAG
* * * *
34971865 ATCTGTTGTGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTT
34971930 CAATGAAGGTCAG
66 CAATGAAGGTCAG
* * * * *
34971943 GTCTGCTATGTCTTCGGTCTGCTCTCCGTCGAATATAGAGATGCCAAATC
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
34971993 TGTTTCTTCG
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 115 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (78 bp):
ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTT
CAATGAAGGTCAG
Found at i:34972022 original size:287 final size:287
Alignment explanation
Indices: 34971507--34972201 Score: 1167
Period size: 287 Copynumber: 2.4 Consensus size: 287
34971497 TCCAATCTAT
* *
34971507 TATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTAGATCTGCTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
* * * **
34971572 AGGTCAGATCTACTGTGTCTTCGATCTACTCCCCGTCTAACACAGAGATG-TGAATCATCTTGGA
66 AGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
* * *
34971636 TCTGCTTCAATGAAGGTCATATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCT
131 TCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCC
*
34971701 AAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCA
196 AAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAAAGATGCCAAATCATCTTAGATCTGCTTCA
34971766 GCATAAACACGTGAAAGCCAAATCTGC
261 GCATAAACACGTGAAAGCCAAATCTGC
* *
34971793 TATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATATTGGATCTGCTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
* *
34971858 AGGTCAGATCTGTTGTGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
66 AGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
* *
34971923 TCTGCTTCAATGAAGGTCAGGTCTGCTATGTCTTCGGTCTGCTCTCCGTCGAATATAGAGATGCC
131 TCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCC
34971988 AAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAAAGATGCCAAATCATCTTAGATCTGCTTCA
196 AAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAAAGATGCCAAATCATCTTAGATCTGCTTCA
**
34972053 GTGTAAACACGTGAAAGCCAAATCTGC
261 GCATAAACACGTGAAAGCCAAATCTGC
*
34972080 TATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
* * * *
34972145 AGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATC
66 AGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
34972202 TGTTTCTTCG
Statistics
Matches: 380, Mismatches: 28, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
286 106 0.28
287 274 0.72
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (287 bp):
TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
AGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
TCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCC
AAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAAAGATGCCAAATCATCTTAGATCTGCTTCA
GCATAAACACGTGAAAGCCAAATCTGC
Found at i:34972088 original size:209 final size:209
Alignment explanation
Indices: 34971873--34972292 Score: 705
Period size: 209 Copynumber: 2.0 Consensus size: 209
34971863 AGATCTGTTG
**
34971873 TGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
1 TGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
* *
34971938 GTCAGGTCTGCTATGTCTTCGGTCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCG
66 GTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCG
* * * *
34972003 ATTTGTTCTCTGACAGTACAAAGATGCCAAATCATCTTAGATCTGCTTCAGTGTAAACACGTGAA
131 ATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATCCGCTTCAGCGTAAACACCTGAA
34972068 AGCCAAATCTGCTA
196 AGCCAAATCTGCTA
34972082 TGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
1 TGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
34972147 GTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCG
66 GTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCG
* * ** *
34972212 ATTTGTTTTCTGACAATACAGAGATGTTAAATCATCTTGGATCCGCTTCAGCGTAAACACCTGAA
131 ATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATCCGCTTCAGCGTAAACACCTGAA
* *
34972277 GGTCAAATCTGCTA
196 AGCCAAATCTGCTA
34972291 TG
1 TG
34972293 CTTTAGTCTG
Statistics
Matches: 196, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
209 196 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (209 bp):
TGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
GTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCG
ATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATCCGCTTCAGCGTAAACACCTGAA
AGCCAAATCTGCTA
Found at i:34987734 original size:20 final size:20
Alignment explanation
Indices: 34987693--34987732 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
34987683 ATTAAATAAT
*
34987693 ATTAATATAATTGGTTTTAA
1 ATTAATATAAATGGTTTTAA
*
34987713 ATTAAT-TAAATGTTTTTAA
1 ATTAATATAAATGGTTTTAA
34987732 A
1 A
34987733 ATATTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
ATTAATATAAATGGTTTTAA
Found at i:34987804 original size:13 final size:14
Alignment explanation
Indices: 34987788--34987817 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
34987778 TAAAAAAAGT
34987788 TATTAAAAA-TTAA
1 TATTAAAAATTTAA
34987801 TATTAAAAATTTAA
1 TATTAAAAATTTAA
34987815 TAT
1 TAT
34987818 ATACAACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TATTAAAAATTTAA
Found at i:34996076 original size:104 final size:104
Alignment explanation
Indices: 34995942--34996150 Score: 400
Period size: 104 Copynumber: 2.0 Consensus size: 104
34995932 ACCAGCTGCT
34995942 GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
1 GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
* *
34996007 ATCGTCCGGAGGCTGTCATTGTTTCATACACCGTTGATG
66 ATCGTCCGGAGGCTGTCATTGTTCCAGACACCGTTGATG
34996046 GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
1 GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
34996111 ATCGTCCGGAGGCTGTCATTGTTCCAGACACCGTTGATG
66 ATCGTCCGGAGGCTGTCATTGTTCCAGACACCGTTGATG
34996150 G
1 G
34996151 CTGATTCCAA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (104 bp):
GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
ATCGTCCGGAGGCTGTCATTGTTCCAGACACCGTTGATG
Found at i:34998507 original size:18 final size:18
Alignment explanation
Indices: 34998480--34998515 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34998470 AATAAAAGGA
*
34998480 TTTTTTTTTTCAATTTTC
1 TTTTTCTTTTCAATTTTC
*
34998498 TTTTTCTTTTTAATTTTC
1 TTTTTCTTTTCAATTTTC
34998516 ATGAAATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTCAATTTTC
Found at i:34998723 original size:23 final size:23
Alignment explanation
Indices: 34998697--34998743 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
34998687 AACGTATAGT
34998697 TTGAAACCAATTAATTATAATAA
1 TTGAAACCAATTAATTATAATAA
34998720 TTGAAACCAATTAATTATAATAA
1 TTGAAACCAATTAATTATAATAA
34998743 T
1 T
34998744 ACATAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (23 bp):
TTGAAACCAATTAATTATAATAA
Found at i:35005657 original size:44 final size:44
Alignment explanation
Indices: 35005529--35006268 Score: 655
Period size: 44 Copynumber: 16.8 Consensus size: 44
35005519 CGCCATCGTC
* * *
35005529 GATCTGCTTTCTTCGATCTACTTCACTACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * * *
35005574 GATCTG-TATCTTGGATCCACTTC-CTATCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * *
35005617 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * * * *
35005661 GATTTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* * ** *
35005706 GATCTGC-ATATTCGATCCACTTC-CTACCAATATAGGAAGGTAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * *
35005749 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * *
35005793 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGACAA
* * * * *
35005838 GATCTG-TATCTTGGATCCACTTC-CTATCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * *
35005881 GA-CATGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATC-TGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * * *
35005925 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* **
35005970 GATCTGC-ATCGTT-GATCCACTTC-CTACCAATATAGGAAGACCG
1 GATCTGCTATC-TTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * *
35006013 GACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * * *
35006057 GATCTGCTTTCTGCGATCTACTTCGCCACCAA-ATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* * *
35006101 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * * *
35006144 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGATAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * * *
35006188 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* *
35006233 GATCTGCAATCTTCAATCTA-TTCCACAACCAA-ATAG
1 GATCTGCTATCTTCGATCTACTT-CAC-ACCAATATAG
35006269 AGGGAGATAG
Statistics
Matches: 549, Mismatches: 120, Indels: 53
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.00
42 9 0.02
43 111 0.20
44 311 0.57
45 117 0.21
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
Found at i:35005770 original size:132 final size:132
Alignment explanation
Indices: 35005529--35006436 Score: 1209
Period size: 132 Copynumber: 6.8 Consensus size: 132
35005519 CGCCATCGTC
* * * * * *
35005529 GATCTGCTTTCTTCGATCTACTTCACTACCAGTATGGGAAGACAAGATCTGTATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
35005594 TTCCTATCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
35005659 AA
131 AA
* *
35005661 GATTTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATATTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
35005726 TTCCTACCAATATAGGAAGGTAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
35005791 AA
131 AA
* * * * *
35005793 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
35005858 TTCCTATCAATATAGGAAGATAGGA-CATGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGATAGGATC-TGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
35005922 CAA
130 CAA
35005925 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTT-GATCCA
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC-TTCGATCCA
** *
35005989 CTTCCTACCAATATAGGAAGACCGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
65 CTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
35006054 CAA
130 CAA
35006057 GATCTGCTTTCTGCGATCTACTTCGCCACCAA-ATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
35006121 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAT
66 TTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
35006186 AA
131 AA
* *
35006188 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAATCTTCAATCTA
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
* * * * * ** * * * *
35006253 -TTCCACAACCAAATAGAGGGAGATAGAGTTAT-C-GGCTTCAATCTACTCCACTG-TAGTCACA
65 CTT-C-CTACC-AATATAGGAAGATAG-GATCTGCTATCTTCGATCTACTTCAC-GCCAAT-ACA
* * **
35006314 GGGAGGTAA
124 TGAAGACAA
* ** * * ** ** *
35006323 AATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCGATCC
1 GATCTGCTTTCTGCGATCTACTTCGCCACC-AATATGGGAAGACAAGATCTGC-ATCTTCGATCC
* *
35006388 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTC
64 ACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTC
35006437 TTGCCCCGGG
Statistics
Matches: 690, Mismatches: 70, Indels: 29
0.87 0.09 0.04
Matches are distributed among these distances:
130 2 0.00
131 124 0.18
132 415 0.60
133 16 0.02
134 34 0.05
135 63 0.09
136 34 0.05
137 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:35006572 original size:46 final size:45
Alignment explanation
Indices: 35006520--35006995 Score: 162
Period size: 46 Copynumber: 10.6 Consensus size: 45
35006510 ACCTACTTTG
* *
35006520 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGGAGGTAAGATCTGC-ATCTTCAATCTATTCCA
* * * * ** * *
35006566 CTGCCAAATATAGGGAGATAGAGTTAT-CGGCTTCAATGTACTCCA
1 CTGCCAAATACAGGGAGGTA-AGATCTGCATCTTCAATCTATTCCA
*** * ** * *
35006611 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGGAGGTAAGATCTG-CATCTTCAATCT-ATTCCA
* *
35006654 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGGAGGTAAGATCTGC-ATCTTCAATCTATTCCA
* * * ** * *
35006700 CTGCCAAATACAGGGAGATAGAGTTAT-CGGCTTCAATGTACTCCA
1 CTGCCAAATACAGGGAGGTA-AGATCTGCATCTTCAATCTATTCCA
*** * ** * **
35006745 CTG--TGGT-CAGGGAGGTAAAATCTGTCATCTTTGATCTGCTT-TG
1 CTGCCAAATACAGGGAGGTAAGATCTG-CATCTTCAATCT-ATTCCA
* * *
35006788 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCTA
1 CTGCCAAATACAGGGAGGTAAGATCTGC-ATCTTCAATCTATTCCA
* * * *
35006834 CTGCCAAATACAGGGAGATAGAGTTATC-G-GT-TTCAATGTACTCCA
1 CTGCCAAATACAGGGAGGTA-AG--ATCTGCATCTTCAATCTATTCCA
* * * * ** * *
35006879 CTG--TAGTCACATGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAAT-ACAGGGAGGTAAGATCTG-CATCTTCAATCT-ATTCCA
* *
35006924 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTACTT-CA
1 CTGCCAAATACAGGGAGGTAAGATCTGC-ATCTTCAATCTA-TTCCA
* * *
35006970 C-GCC-AATACATGAAGATAAGATCTGC
1 CTGCCAAATACAGGGAGGTAAGATCTGC
35006996 TTTCTTCGAT
Statistics
Matches: 296, Mismatches: 103, Indels: 64
0.64 0.22 0.14
Matches are distributed among these distances:
41 9 0.03
42 18 0.06
43 26 0.09
44 31 0.10
45 67 0.23
46 129 0.44
47 12 0.04
48 1 0.00
49 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (45 bp):
CTGCCAAATACAGGGAGGTAAGATCTGCATCTTCAATCTATTCCA
Done.