Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold334
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1116604
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.28
Warning! 144470 characters in sequence are not A, C, G, or T
File 6 of 6
Found at i:746379 original size:22 final size:23
Alignment explanation
Indices: 746341--746397 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 23
746331 CACATATTTA
*
746341 TATCATATCATATCATATATCA-T
1 TATCATAT-TTATCATATATCATT
746364 TATCATATTTATCATATATCATT
1 TATCATATTTATCATATATCATT
746387 TAT-ATATTTAT
1 TATCATATTTAT
746398 ACACATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (23 bp):
TATCATATTTATCATATATCATT
Found at i:750307 original size:180 final size:180
Alignment explanation
Indices: 749920--751443 Score: 2264
Period size: 180 Copynumber: 8.5 Consensus size: 180
749910 NNNNNNNNNN
* * * *
749920 TAACTCCTCCTACAGTTTTCAAGATAGGATGTTGTTGTTTTGCAGATCAATTTTACATATATCAG
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACTTATATTAG
* *
749985 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATCAAAAAAAAAACCAGCTTTTGAAC
66 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTAT-GAAAAAAATACCAGCTTTTGAAC
* *
750050 TTAGTCATTTTTTGACAAAGTATTGCATATAGGGTACCCTCATTGTACGGA
130 TTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
* * * * *
750101 TAACTCCTCCTACAGTTTTCAAGATAGTAAGTTGTTCTTTTGGAGATCAATTGTACCTATATAAG
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACTTATATTAG
** * * * * *
750166 AGGTGTGCATATTGCTAGGATTTTGATTTCTAATAATTTATGGAAAAAATACTAGTTTTTAAACT
66 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGAAAAAAATACCAGCTTTTGAACT
*
750231 TAGTCATATTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
131 TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
* *
750281 TAACTCCTCCCACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACTTATTTTAG
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACTTATATTAG
* * * * *
750346 AGGTGTGCATATTGCTAGGA-TTTGATTTCTGATAATTAATAAAAAAAATACCACCTTTTGAACT
66 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGAAAAAAATACCAGCTTTTGAACT
* * *
750410 TAGT-AATTTTCGGCAAAATATTGCATATAGGGTACCCTCATTGTACGTA
131 TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
* *
750459 TAACTCCTCCTACAGTTTTCAAGATAGGATGTTGTTGTTTTGCAGATCAATTGTACATATATTAG
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACTTATATTAG
750524 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGAAAAAAATACCAGCTTTTGAACT
66 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGAAAAAAATACCAGCTTTTGAACT
750589 TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
131 TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
* * * ** *
750639 TAACCCCTCCTACAGTTTTCAAGATAGGATGTTGTTCTTTTGGGGATCAATT-TAACTTATATCA
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGT-ACTTATATTA
* * * * *
750703 AAGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGGAAAAAATACTAGTTTTTAAAC
65 GAGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGAAAAAAATACCAGCTTTTGAAC
750768 TTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
130 TTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
* * *
750819 TAACTCCTCCCATAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACTTATATCAG
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACTTATATTAG
* * *
750884 AGGTGTGCATATTGCTAGGATTTTGATTTCTGATAATTAATGAAAAAAATACCAGCTTTTGAACT
66 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGAAAAAAATACCAGCTTTTGAACT
* *
750949 TAGT-AATTTTCGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
131 TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
* * * * * ** * *
750998 AAACCCCTCCTACAGTTTTCAAGATAGTAGGTTGTTCTTTTGGGGATCAATTTTACTTATTTTAG
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACTTATATTAG
751063 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGAAAAAAATACCAGCTTTTGAACT
66 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGAAAAAAATACCAGCTTTTGAACT
751128 TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
131 TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
* * * * * ** * *
751178 AAACCCCTCCTACAGTTTTCAAGATAGTAGGTTGTTCTTTTGGGGATCAATTTTACTTATTTTAG
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACTTATATTAG
* * * *
751243 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGGAAAAAATACTAGCTTTTAAACC
66 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGAAAAAAATACCAGCTTTTGAACT
*
751308 TAGTCATTTTTTGGCCAAATATTGCATATAGGGTACCCTCATTGTACGGA
131 TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
* * * * * *
751358 TAACTCCTCCTACAGTTTTCAAGATAAGAAGATATTGTTTTGCAGATCAATTGTACATATATCAA
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACTTATATTAG
*
751423 AGGTGTGCTTATTGCTAGGAT
66 AGGTGTGCATATTGCTAGGAT
751444 ATAGGGTACC
Statistics
Matches: 1222, Mismatches: 116, Indels: 11
0.91 0.09 0.01
Matches are distributed among these distances:
178 122 0.10
179 246 0.20
180 757 0.62
181 97 0.08
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (180 bp):
TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACTTATATTAG
AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGAAAAAAATACCAGCTTTTGAACT
TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGA
Found at i:750929 original size:360 final size:359
Alignment explanation
Indices: 749920--751443 Score: 2262
Period size: 359 Copynumber: 4.2 Consensus size: 359
749910 NNNNNNNNNN
* *
749920 TAACTCCTCCTACAGTTTTCAAGATAGGATGTTGTTGTTTTGCAGATCAATTTTACATATATCAG
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAA-TTTACTTATATCAG
*
749985 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATCAAAAAAAAAACCAGCTTTTGAAC
65 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTAT-AAAAAAAATACCAGCTTTTGAAC
* *
750050 TTAGTCATTTTTTGACAAAGTATTGCATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACA
129 TTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACA
* * * *
750115 GTTTTCAAGATAGTAAGTTGTTCTTTTGGAGATCAATTGTACCTATATAAGAGGTGTGCATATTG
194 GTTTTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACTTATATTAGAGGTGTGCATATTG
** * * * *
750180 CTAGGATTTTGATTTCTAATAATTTATGGAAAAAATACTAGTTTTTAAACTTAGTCATATTTTGG
259 CTAGGATTTTGATTTCCGATAATTTATGAAAAAAATACCAGCTTTTAAACTTAGTCATTTTTTGG
750245 CAAAATATTGCATATAGGGTACCCTCATTGTACGGA
324 CAAAATATTGCATATAGGGTACCCTCATTGTACGGA
* * *
750281 TAACTCCTCCCACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACTTATTTTAG
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATT-TACTTATATCAG
* * * *
750346 AGGTGTGCATATTGCTAGGA-TTTGATTTCTGATAATTAATAAAAAAAATACCACCTTTTGAACT
65 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATAAAAAAAATACCAGCTTTTGAACT
* * *
750410 TAGT-AATTTTCGGCAAAATATTGCATATAGGGTACCCTCATTGTACGTATAACTCCTCCTACAG
130 TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAG
* * *
750474 TTTTCAAGATAGGATGTTGTTGTTTTGCAGATCAATTGTACATATATTAGAGGTGTGCATATTGC
195 TTTTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACTTATATTAGAGGTGTGCATATTGC
* *
750539 TAGGATTTTGATTTCCGATCATTTATGAAAAAAATACCAGCTTTTGAACTTAGTCATTTTTTGGC
260 TAGGATTTTGATTTCCGATAATTTATGAAAAAAATACCAGCTTTTAAACTTAGTCATTTTTTGGC
750604 AAAATATTGCATATAGGGTACCCTCATTGTACGGA
325 AAAATATTGCATATAGGGTACCCTCATTGTACGGA
* * * ** *
750639 TAACCCCTCCTACAGTTTTCAAGATAGGATGTTGTTCTTTTGGGGATCAATTTAACTTATATCAA
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTT-ACTTATATCAG
** * * *
750704 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGGAAAAAATACTAGTTTTTAAACT
65 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATAAAAAAAATACCAGCTTTTGAACT
* *
750769 TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGATAACTCCTCCCATAG
130 TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAG
* *
750834 TTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACTTATATCAGAGGTGTGCATATTGC
195 TTTTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACTTATATTAGAGGTGTGCATATTGC
* * * * *
750899 TAGGATTTTGATTTCTGATAATTAATGAAAAAAATACCAGCTTTTGAACTTAGT-AATTTTCGGC
260 TAGGATTTTGATTTCCGATAATTTATGAAAAAAATACCAGCTTTTAAACTTAGTCATTTTTTGGC
750963 AAAATATTGCATATAGGGTACCCTCATTGTACGGA
325 AAAATATTGCATATAGGGTACCCTCATTGTACGGA
* * * * * ** * *
750998 AAACCCCTCCTACAGTTTTCAAGATAGTAGGTTGTTCTTTTGGGGATCAATTTTACTTATTTTAG
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAA-TTTACTTATATCAG
*
751063 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATGAAAAAAATACCAGCTTTTGAACT
65 AGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATAAAAAAAATACCAGCTTTTGAACT
* *
751128 TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGAAAACCCCTCCTACAG
130 TAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAG
* * ** * *
751193 TTTTCAAGATAGTAGGTTGTTCTTTTGGGGATCAATTTTACTTATTTTAGAGGTGTGCATATTGC
195 TTTTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACTTATATTAGAGGTGTGCATATTGC
* * * *
751258 TAGGATTTTGATTTCCGATCATTTATGGAAAAAATACTAGCTTTTAAACCTAGTCATTTTTTGGC
260 TAGGATTTTGATTTCCGATAATTTATGAAAAAAATACCAGCTTTTAAACTTAGTCATTTTTTGGC
*
751323 CAAATATTGCATATAGGGTACCCTCATTGTACGGA
325 AAAATATTGCATATAGGGTACCCTCATTGTACGGA
* * * * *
751358 TAACTCCTCCTACAGTTTTCAAGATAAGAAGATATTGTTTTGCAGATCAATTGTACATATATCAA
1 TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATT-TACTTATATCAG
*
751423 AGGTGTGCTTATTGCTAGGAT
65 AGGTGTGCATATTGCTAGGAT
751444 ATAGGGTACC
Statistics
Matches: 1049, Mismatches: 107, Indels: 15
0.90 0.09 0.01
Matches are distributed among these distances:
357 1 0.00
358 280 0.27
359 391 0.37
360 300 0.29
361 77 0.07
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (359 bp):
TAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTTACTTATATCAGA
GGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTATAAAAAAAATACCAGCTTTTGAACTT
AGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGT
TTTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACTTATATTAGAGGTGTGCATATTGCT
AGGATTTTGATTTCCGATAATTTATGAAAAAAATACCAGCTTTTAAACTTAGTCATTTTTTGGCA
AAATATTGCATATAGGGTACCCTCATTGTACGGA
Found at i:751524 original size:109 final size:109
Alignment explanation
Indices: 751333--751552 Score: 431
Period size: 109 Copynumber: 2.0 Consensus size: 109
751323 CAAATATTGC
751333 ATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGATATTGTTT
1 ATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGATATTGTTT
751398 TGCAGATCAATTGTACATATATCAAAGGTGTGCTTATTGCTAGG
66 TGCAGATCAATTGTACATATATCAAAGGTGTGCTTATTGCTAGG
*
751442 ATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGTTATTGTTT
1 ATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGATATTGTTT
751507 TGCAGATCAATTGTACATATATCAAAGGTGTGCTTATTGCTAGG
66 TGCAGATCAATTGTACATATATCAAAGGTGTGCTTATTGCTAGG
751551 AT
1 AT
751553 TTTGATTTCT
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (109 bp):
ATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGATATTGTTT
TGCAGATCAATTGTACATATATCAAAGGTGTGCTTATTGCTAGG
Found at i:751672 original size:289 final size:291
Alignment explanation
Indices: 751153--751737 Score: 854
Period size: 289 Copynumber: 2.0 Consensus size: 291
751143 AAAATATTGC
* *
751153 ATATAGGGTACCCTCATTGTACGGAAAACCCCTCCTACAGTTTTCAAGATAGTAGGTTGTTCTTT
1 ATATAGGGTACCCTCATTGTACGGAAAACCCCTCCTACAGTTTTCAAGATAGTAAGTTATTCTTT
** * * * * * *
751218 TGGGGATCAATTTTACTTATTTTAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATCATTTA
66 TGCAGATCAATTGTACATATATCAAAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTTA
* *
751283 TGGAAAAAATACTAGCTTTTAAACCTAGTCATTTTTTGGCCAAATATTGCATATAGGGTACCCTC
131 TGAAAAAAATACTAGCTTTTAAACCTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTC
* *
751348 ATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGATATTGTTTTGCAGATCAATTGTA
196 ATTGTACGGATAACTCCTCCTACAGATTTCAAGATAAGAAGATATTCTTTTGCAGATCAATTGTA
*
751413 C-A-TATATCAAAGGTGTGCTTATTGCTAGG
261 CAAGTATATCAAAGGTGTGCATATTGCTAGG
* * *
751442 ATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAG-AAGTTATTGTT
1 ATATAGGGTACCCTCATTGTACGGAAAACCCCTCCTACAGTTTTCAAGAT-AGTAAGTTATTCTT
* *
751506 TTGCAGATCAATTGTACATATATCAAAGGTGTGCTTATTGCTAGGATTTTGATTTCTGATAATTT
65 TTGCAGATCAATTGTACATATATCAAAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTT
*
751571 ATGAAAAAAATACTAGCTTTTGAA-CTAAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCC
130 ATGAAAAAAATACTAGCTTTTAAACCT-AGTCATTTTTTGGCAAAATATTGCATATAGGGTACCC
* * * * *
751635 TCATTGTATGTATAACTCCTCCTACAGATTTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTG
194 TCATTGTACGGATAACTCCTCCTACAGATTTCAAGATAAGAAGATATTCTTTTGCAGATCAATTG
*
751700 TACATAGGGTATATCAGAGGTGTGCATATTGCTAGG
259 TACA-A--GTATATCAAAGGTGTGCATATTGCTAGG
751736 AT
1 AT
751738 TTTGATTTCT
Statistics
Matches: 262, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
288 2 0.01
289 230 0.88
290 2 0.01
291 1 0.00
294 27 0.10
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (291 bp):
ATATAGGGTACCCTCATTGTACGGAAAACCCCTCCTACAGTTTTCAAGATAGTAAGTTATTCTTT
TGCAGATCAATTGTACATATATCAAAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTTA
TGAAAAAAATACTAGCTTTTAAACCTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTC
ATTGTACGGATAACTCCTCCTACAGATTTCAAGATAAGAAGATATTCTTTTGCAGATCAATTGTA
CAAGTATATCAAAGGTGTGCATATTGCTAGG
Found at i:751780 original size:185 final size:183
Alignment explanation
Indices: 751442--751818 Score: 589
Period size: 180 Copynumber: 2.0 Consensus size: 183
751432 TATTGCTAGG
* *
751442 ATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGTTATTGTTT
1 ATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGATTTCAAGATAAGAAGTTATTCTTT
*
751507 TGCAGATCAATTGTACATATATCAAAGGTGTGCTTATTGCTAGGATTTTGATTTCTGATAATTTA
66 TGCAGATCAATTGTACATATATCAAAGGTGTGCATATTGCTAGGATTTTGATTTCTGATAATTTA
* *
751572 TGAAAAAAATACTAGCTTTTGAAC-T-A-AGTCATTTTTTGGCAAAATATTGC
131 TGAAAAAAATACCAGCTTTTGAACTTAATAGTCACTTTTTGGCAAAATATTGC
* * * *
751622 ATATAGGGTACCCTCATTGTATGTATAACTCCTCCTACAGATTTCAAGATAGGAAGTTGTTCTTT
1 ATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGATTTCAAGATAAGAAGTTATTCTTT
*
751687 TGCAGATCAATTGTACATAGGGTATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCTGATA
66 TGCAGATCAATTGTAC--A---TATATCAAAGGTGTGCATATTGCTAGGATTTTGATTTCTGATA
751752 ATTTATGAAAAAAATACCAGCTTTTGAACTTTAATAGTCACTTTTTGGCAAAATATTGC
126 ATTTATGAAAAAAATACCAGCTTTTGAAC-TTAATAGTCACTTTTTGGCAAAATATTGC
751811 ATATAGGG
1 ATATAGGG
751819 GTACACCATT
Statistics
Matches: 178, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
180 75 0.42
182 1 0.01
185 69 0.39
187 1 0.01
188 1 0.01
189 31 0.17
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (183 bp):
ATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGATTTCAAGATAAGAAGTTATTCTTT
TGCAGATCAATTGTACATATATCAAAGGTGTGCATATTGCTAGGATTTTGATTTCTGATAATTTA
TGAAAAAAATACCAGCTTTTGAACTTAATAGTCACTTTTTGGCAAAATATTGC
Found at i:763073 original size:29 final size:28
Alignment explanation
Indices: 763010--763077 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
763000 ATGCATGATA
* ** *
763010 TACTTGTATTTTGCCGTGTAGTTCGGTG
1 TACTTGTATATTGCCGTGTAGAACGGAG
763038 TACTTGTATATTGTCCGTGTAGAACGGAG
1 TACTTGTATATTG-CCGTGTAGAACGGAG
*
763067 TATTTGTATAT
1 TACTTGTATAT
763078 CGTTTTGACG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 12 0.35
29 22 0.65
ACGTcount: A:0.19, C:0.12, G:0.25, T:0.44
Consensus pattern (28 bp):
TACTTGTATATTGCCGTGTAGAACGGAG
Found at i:767491 original size:2 final size:2
Alignment explanation
Indices: 767484--767529 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
767474 GGGGCAATAA
767484 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
767526 CT CT
1 CT CT
767530 ATATATATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:773322 original size:21 final size:21
Alignment explanation
Indices: 773298--773391 Score: 107
Period size: 21 Copynumber: 4.5 Consensus size: 21
773288 ATCTGCAACC
*
773298 ACTTGTCAGATAATTATGTTG
1 ACTTGTCAGATAATTATGTCG
* * *
773319 ACTTGTCATATGATAATGTCG
1 ACTTGTCAGATAATTATGTCG
* *
773340 ACTTGTCAGATATTTATGTCA
1 ACTTGTCAGATAATTATGTCG
** *
773361 ACTTGTCAGATCTTTATGTTG
1 ACTTGTCAGATAATTATGTCG
773382 ACTTGTCAGA
1 ACTTGTCAGA
773392 AAATAACCAT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (21 bp):
ACTTGTCAGATAATTATGTCG
Found at i:773525 original size:21 final size:21
Alignment explanation
Indices: 773470--773608 Score: 149
Period size: 21 Copynumber: 6.7 Consensus size: 21
773460 TACTTGTCAT
* **
773470 CATAA-TATCGGACAAGTCGA
1 CATAATTATCTGACAAGTTAA
*
773490 CATAA-GATCTGACAAGTTAA
1 CATAATTATCTGACAAGTTAA
* *
773510 CATAATTATTTGACAAGTCAA
1 CATAATTATCTGACAAGTTAA
*
773531 CATAGA-GATCTGACAAGTTAA
1 CATA-ATTATCTGACAAGTTAA
*
773552 CATAATTATCTGACAAGTCAA
1 CATAATTATCTGACAAGTTAA
** *
773573 CATAAAGATCTGACAAGTTCA
1 CATAATTATCTGACAAGTTAA
773594 CATAATTATCTGACA
1 CATAATTATCTGACA
773609 GAACAAACTA
Statistics
Matches: 98, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
20 22 0.22
21 75 0.77
22 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (21 bp):
CATAATTATCTGACAAGTTAA
Found at i:773548 original size:42 final size:41
Alignment explanation
Indices: 773470--773608 Score: 217
Period size: 42 Copynumber: 3.4 Consensus size: 41
773460 TACTTGTCAT
* *
773470 CATAA-TATCGGACAAGTCGACATAAGATCTGACAAGTTAA
1 CATAATTATCTGACAAGTCAACATAAGATCTGACAAGTTAA
*
773510 CATAATTATTTGACAAGTCAACATAGAGATCTGACAAGTTAA
1 CATAATTATCTGACAAGTCAACATA-AGATCTGACAAGTTAA
*
773552 CATAATTATCTGACAAGTCAACATAAAGATCTGACAAGTTCA
1 CATAATTATCTGACAAGTCAACAT-AAGATCTGACAAGTTAA
773594 CATAATTATCTGACA
1 CATAATTATCTGACA
773609 GAACAAACTA
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
40 5 0.05
41 16 0.18
42 69 0.76
43 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (41 bp):
CATAATTATCTGACAAGTCAACATAAGATCTGACAAGTTAA
Found at i:773689 original size:21 final size:21
Alignment explanation
Indices: 773660--773824 Score: 179
Period size: 21 Copynumber: 7.9 Consensus size: 21
773650 CATATTGTAA
*
773660 GTCGACTTGTCAGATAATGAT
1 GTCGACTTGTCAGATAATTAT
* *
773681 GTTGACTTGTCAGAT-GTTAT
1 GTCGACTTGTCAGATAATTAT
** * * *
773701 GTCGTTTTGTCAAAAAATGAT
1 GTCGACTTGTCAGATAATTAT
773722 GTCGACTTGTCAGATAATTAT
1 GTCGACTTGTCAGATAATTAT
* *
773743 GTCGACTTGTAAAATAATTAT
1 GTCGACTTGTCAGATAATTAT
*** *
773764 GTCGACTTCAAAGATGATTAT
1 GTCGACTTGTCAGATAATTAT
*
773785 GTCGACTTGTCAGATCATTAT
1 GTCGACTTGTCAGATAATTAT
*
773806 GTCGACTTGTCAGAAAATT
1 GTCGACTTGTCAGATAATT
773825 TTATTTCAAA
Statistics
Matches: 116, Mismatches: 27, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
20 13 0.11
21 103 0.89
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (21 bp):
GTCGACTTGTCAGATAATTAT
Found at i:773922 original size:21 final size:21
Alignment explanation
Indices: 773896--773987 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
773886 CGTGAATTAG
* *
773896 TGACAAGTCGACTTAAAGAAC
1 TGACAAGTCGACATAAAGATC
**
773917 TGACAAGTTC-ACATAATTATC
1 TGACAAG-TCGACATAAAGATC
*
773938 TGACAAGTCGACATCAAGATC
1 TGACAAGTCGACATAAAGATC
**
773959 TGACAAGTCGACATAATTATC
1 TGACAAGTCGACATAAAGATC
773980 TGACAAGT
1 TGACAAGT
773988 GGTGGCAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
20 2 0.03
21 55 0.93
22 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (21 bp):
TGACAAGTCGACATAAAGATC
Found at i:773943 original size:42 final size:42
Alignment explanation
Indices: 773896--773987 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
773886 CGTGAATTAG
*
773896 TGACAAGTCGACTTAAAGAACTGACAAGTTC-ACATAATTATC
1 TGACAAGTCGACATAAAGAACTGACAAG-TCGACATAATTATC
* *
773938 TGACAAGTCGACATCAAGATCTGACAAGTCGACATAATTATC
1 TGACAAGTCGACATAAAGAACTGACAAGTCGACATAATTATC
773980 TGACAAGT
1 TGACAAGT
773988 GGTGGCAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 2 0.04
42 44 0.96
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (42 bp):
TGACAAGTCGACATAAAGAACTGACAAGTCGACATAATTATC
Found at i:774427 original size:18 final size:16
Alignment explanation
Indices: 774404--774440 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
774394 CCCCGTATTG
774404 TTTTGTTTGTCGTTTTTT
1 TTTTGTTTGT--TTTTTT
774422 TTTTGTTTGTTTTTTT
1 TTTTGTTTGTTTTTTT
774438 TTT
1 TTT
774441 GATTGGCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
18 10 0.53
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.84
Consensus pattern (16 bp):
TTTTGTTTGTTTTTTT
Found at i:778213 original size:21 final size:21
Alignment explanation
Indices: 777648--778211 Score: 756
Period size: 21 Copynumber: 26.9 Consensus size: 21
777638 TAAACCCATT
*
777648 GCGTTGTCTCGTCACTTTTTG
1 GCGTTGTCTCGTCACTTTTCG
* *
777669 GCGTTATCTCGTTACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
* *
777690 GCGTTGTATCGTCACTTTTTG
1 GCGTTGTCTCGTCACTTTTCG
* * *
777711 GCGTTATCTCGTTACTATTCG
1 GCGTTGTCTCGTCACTTTTCG
* *
777732 GCGTTGTGTCGTCACTTTTCA
1 GCGTTGTCTCGTCACTTTTCG
*
777753 GCGTTGTCCCGTCACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
777774 GCG-TGATCTCGTCACTTTTCG
1 GCGTTG-TCTCGTCACTTTTCG
777795 GCGTTGTCTCGTCACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
*
777816 GCGTTATCTCGTCACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
*
777837 GCGTTGTATCGTCACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
777858 GCGTTGTCTCGTCACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
* * *
777879 GCGTTTTTTCGTCACATTTCG
1 GCGTTGTCTCGTCACTTTTCG
* *
777900 GCGTTGTATCGTCACGTTTCG
1 GCGTTGTCTCGTCACTTTTCG
* * *
777921 GCGTTATCTCGTCAGTATTCG
1 GCGTTGTCTCGTCACTTTTCG
**
777942 GCGTTGTCTCGTCACTTTTAA
1 GCGTTGTCTCGTCACTTTTCG
*
777963 GCGTTGTCCCGTCACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
*
777984 GCGTTATCTCGTCACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
* *
778005 GCGTTATCACGTCACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
* *
778026 GCGTTAAT-TTGTCACTTTTCG
1 GCGTT-GTCTCGTCACTTTTCG
778047 GCGTTGTCTCGTCACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
* *
778068 GCGTTATCTCGTCACTATTCG
1 GCGTTGTCTCGTCACTTTTCG
*
778089 GCGTTGTATCGTCACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
*
778110 GCGTTGTCTCGTCCCTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
*
778131 GCGTTGTATCGTCACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
*
778152 GCGTTATCTCGTCACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
*
778173 GCGTTGTATCGTCACTTTTCG
1 GCGTTGTCTCGTCACTTTTCG
*
778194 GCGTTGTATCGTC-CTTTT
1 GCGTTGTCTCGTCACTTTT
778212 TCCCAGATTC
Statistics
Matches: 475, Mismatches: 64, Indels: 9
0.87 0.12 0.02
Matches are distributed among these distances:
20 8 0.02
21 463 0.97
22 4 0.01
ACGTcount: A:0.09, C:0.26, G:0.22, T:0.43
Consensus pattern (21 bp):
GCGTTGTCTCGTCACTTTTCG
Found at i:787466 original size:18 final size:18
Alignment explanation
Indices: 787443--787482 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
787433 CTCATTGAAG
787443 GAAAAAAGAAAAAAAAAT
1 GAAAAAAGAAAAAAAAAT
* *
787461 GAAAAATGAAAGAAAAAT
1 GAAAAAAGAAAAAAAAAT
787479 -AAAA
1 GAAAA
787483 TGAACACACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (18 bp):
GAAAAAAGAAAAAAAAAT
Found at i:791414 original size:21 final size:21
Alignment explanation
Indices: 791388--791452 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
791378 GAACTGGTTG
791388 TCGCAGTGGAGTCTCTAGCTT
1 TCGCAGTGGAGTCTCTAGCTT
791409 TCGCAGTGGAGTCTCTAGCTT
1 TCGCAGTGGAGTCTCTAGCTT
*
791430 TCGCAGTGGTGTCTCTAGCTT
1 TCGCAGTGGAGTCTCTAGCTT
791451 TC
1 TC
791453 TTCCTTTGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.12, C:0.25, G:0.28, T:0.35
Consensus pattern (21 bp):
TCGCAGTGGAGTCTCTAGCTT
Found at i:792309 original size:179 final size:178
Alignment explanation
Indices: 792009--792518 Score: 761
Period size: 179 Copynumber: 2.8 Consensus size: 178
791999 TGTGTCTTGT
* * *
792009 GGCTTATATGTTGTCATCTATAAAGAAACCATATGCATAATGATGCAAAACCAGGTACATGTTGT
1 GGCTTATATGTTGTCAACTATAAATAAACCATTTGCATAATGATGCAAAACCAGGTACATGTTGT
* *
792074 ACCATGTATGTACATACAGACACACTAATGAGTGTGACCATTAATTATAGAAGACCACATATATG
66 ACCATGTATGTACATACAAACACACTAATGAGTGTGACCATTAAGTATAGAAGACCACATATATG
*
792139 CCCCTGATAAAAGAATAAAATGTAAATACACAATTGAATGTGTATGATA
131 CCCCTGATAAAAGAATAAAATG-AAATACACAATTGAATGTGTACGATA
792188 GGCTTATATGTTGTCAACTATAAATAAACCATTTGCATAATGATGCAAAACCAGGTACATGTTGT
1 GGCTTATATGTTGTCAACTATAAATAAACCATTTGCATAATGATGCAAAACCAGGTACATGTTGT
*
792253 ACCATGTATGTACATACAAACACACTAATGAGTGTGACCATTAAGTATAGAAGACCACATATACG
66 ACCATGTATGTACATACAAACACACTAATGAGTGTGACCATTAAGTATAGAAGACCACATATATG
* *
792318 CCCCTGATAAAAGAATAAAAATGAAATACACCATTGAATGTGTACGGTA
131 CCCCTGATAAAAGAAT-AAAATGAAATACACAATTGAATGTGTACGATA
* * **
792367 GGCTTATATGCTCTCAACTATACTTAAACCATTTGCATAATGATGCAAAACCAGGTACATGTTGT
1 GGCTTATATGTTGTCAACTATAAATAAACCATTTGCATAATGATGCAAAACCAGGTACATGTTGT
* * * * * * *
792432 ACCGTGTATGATGATATATAAACACACTATAATGAGTGTGACCATTAGGTATAGATGACAACACA
66 ACCATGTATG-T-ACATACAAACACAC--TAATGAGTGTGACCATTAAGTATAGAAGACCACATA
792497 TATGCCCCT-ACTAAAATGAATA
127 TATGCCCCTGA-TAAAA-GAATA
792519 GCAGAATAAA
Statistics
Matches: 303, Mismatches: 21, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
179 233 0.77
180 7 0.02
181 12 0.04
182 1 0.00
183 46 0.15
184 4 0.01
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (178 bp):
GGCTTATATGTTGTCAACTATAAATAAACCATTTGCATAATGATGCAAAACCAGGTACATGTTGT
ACCATGTATGTACATACAAACACACTAATGAGTGTGACCATTAAGTATAGAAGACCACATATATG
CCCCTGATAAAAGAATAAAATGAAATACACAATTGAATGTGTACGATA
Found at i:811069 original size:11 final size:11
Alignment explanation
Indices: 811053--811093 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
811043 TAAGCAAGTC
811053 CTTAAAGGTGG
1 CTTAAAGGTGG
*
811064 CTTAAATGTGG
1 CTTAAAGGTGG
* *
811075 CGTAAAGATGG
1 CTTAAAGGTGG
811086 CTTAAAGG
1 CTTAAAGG
811094 ATATATTAGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.27
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:811172 original size:11 final size:10
Alignment explanation
Indices: 811156--811204 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 10
811146 GTCCAAACTG
*
811156 TTTAAGTCAAC
1 TTTAAG-CATC
811167 TTTAAGCTATC
1 TTTAAGC-ATC
*
811178 TTTAAGCCACC
1 TTTAAG-CATC
811189 TTTAAGCATC
1 TTTAAGCATC
811199 TTTAAG
1 TTTAAG
811205 TGTCATTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 10 0.30
11 22 0.67
12 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (10 bp):
TTTAAGCATC
Found at i:811201 original size:21 final size:22
Alignment explanation
Indices: 811156--811204 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
811146 GTCCAAACTG
*
811156 TTTAAGTCAACTTTAAGCTATC
1 TTTAAGCCAACTTTAAGCTATC
*
811178 TTTAAGCCACCTTTAAGC-ATC
1 TTTAAGCCAACTTTAAGCTATC
811199 TTTAAG
1 TTTAAG
811205 TGTCATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (22 bp):
TTTAAGCCAACTTTAAGCTATC
Found at i:811606 original size:2 final size:2
Alignment explanation
Indices: 811599--811644 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
811589 GAAATAAATA
811599 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
811641 TC TC
1 TC TC
811645 AGTTCATCCG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:812056 original size:112 final size:110
Alignment explanation
Indices: 811855--812070 Score: 378
Period size: 112 Copynumber: 1.9 Consensus size: 110
811845 TAGTTTTGTT
*
811855 CGTTTGTGTATATCTAATTAGAGTATATTGTTTGTCCAACTTAAGAAAACCCCTGGAACTAACAC
1 CGTTTGTGTATATCTAATTAGAGTATATTGTTTGTCCAACTTAAGAAAACCCCTGAAACTAACAC
* *
811920 AGAATATACAAGATATTCACAACAGTTGTGTCGTGTGCCCAGGTGCA
66 AGAATATACAAGATATACAAAACAG--GTGTCGTGTGCCCAGGTGCA
*
811967 CGTTTGTGTATATCTAATTAGAGTCTATTGTTTGTCCAACTTAAGAAAACCCCTGAAACTAACAC
1 CGTTTGTGTATATCTAATTAGAGTATATTGTTTGTCCAACTTAAGAAAACCCCTGAAACTAACAC
812032 AGAATATACAAGATATACAAAACAGGTGTCGTGTGCCCA
66 AGAATATACAAGATATACAAAACAGGTGTCGTGTGCCCA
812071 AATGCAAGTC
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
110 14 0.14
112 86 0.86
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (110 bp):
CGTTTGTGTATATCTAATTAGAGTATATTGTTTGTCCAACTTAAGAAAACCCCTGAAACTAACAC
AGAATATACAAGATATACAAAACAGGTGTCGTGTGCCCAGGTGCA
Found at i:814529 original size:11 final size:11
Alignment explanation
Indices: 814513--814552 Score: 80
Period size: 11 Copynumber: 3.6 Consensus size: 11
814503 CTAAGTTGTC
814513 CTTAAAGGTGG
1 CTTAAAGGTGG
814524 CTTAAAGGTGG
1 CTTAAAGGTGG
814535 CTTAAAGGTGG
1 CTTAAAGGTGG
814546 CTTAAAG
1 CTTAAAG
814553 ATAGTCTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.28
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:814583 original size:11 final size:11
Alignment explanation
Indices: 814569--814609 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
814559 TTTAAGCTGC
814569 CTTTAAGCCAT
1 CTTTAAGCCAT
* **
814580 CTTTACGCTTT
1 CTTTAAGCCAT
814591 CTTTAAGCCAT
1 CTTTAAGCCAT
814602 CTTTAAGC
1 CTTTAAGC
814610 AACACATATC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (11 bp):
CTTTAAGCCAT
Found at i:819050 original size:83 final size:83
Alignment explanation
Indices: 818891--819043 Score: 198
Period size: 83 Copynumber: 1.8 Consensus size: 83
818881 ACATCGTACC
* * * *
818891 TACCTCCTATAACCTGTTTACACCGTCGACATCGTCGACATCGCAATGTTGATCGACATCGTGTA
1 TACCTCCTATAACCTGTTTACACCGTCGACATCGTAGACATCGCAATGTTGACCAACATCGAGTA
818956 GACATAGTGTCTAAATCG
66 GACATAGTGTCTAAATCG
* * ** * * * *
818974 TACCTCTTATAGCCTGTTTACGTCGTCGACATTGTAGATATCGCAATGTTGACCAACATTGAGTC
1 TACCTCCTATAACCTGTTTACACCGTCGACATCGTAGACATCGCAATGTTGACCAACATCGAGTA
819039 GACAT
66 GACAT
819044 CATGTCTGCA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
83 58 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (83 bp):
TACCTCCTATAACCTGTTTACACCGTCGACATCGTAGACATCGCAATGTTGACCAACATCGAGTA
GACATAGTGTCTAAATCG
Found at i:819131 original size:244 final size:244
Alignment explanation
Indices: 818675--819133 Score: 526
Period size: 244 Copynumber: 1.9 Consensus size: 244
818665 TTTCCTGTTT
* * * * *
818675 ACATCGTCGACATCGCAATGCTGATCGATATCGGGTCGACATTGTGTCTACATCGTACCTTTTAA
1 ACATCGTCGACATCGCAATGCTGATCGACATCGGGTAGACATAGTGTCTAAATCGTACCTCTTAA
* * ** * * * ** * *
818740 ATCCTGTTTACTTCGTCGACATCGTCTATTTCCAAATGTTGATCGACATCAAGTCGATGTCGTTT
66 AGCCTGTTTACGTCGTCGACATCGTAGATATCCAAATGTTGACCAACATCAAGTCGACATCATGT
* * * * * *
818805 ATACATCGTGTGCCTTCTTTTCTGTTTACACCGTCGACATTGCAGTGTTGATTAACATCGTGTAG
131 ATACATCGTGTGCCTTCTTTCCTGTTTACACCGTCCACATCGCAATGTTGATCAACATCGAGTAG
*
818870 ACTTCAAGTCCACATCGTACCTACCTCCTATAACCTGTTTACACCGTCG
196 ACATCAAGTCCACATCGTACCTACCTCCTATAACCTGTTTACACCGTCG
* * *
818919 ACATCGTCGACATCGCAATGTTGATCGACATCGTGTAGACATAGTGTCTAAATCGTACCTCTTAT
1 ACATCGTCGACATCGCAATGCTGATCGACATCGGGTAGACATAGTGTCTAAATCGTACCTCTTAA
* **
818984 AGCCTGTTTACGTCGTCGACATTGTAGATATCGC-AATGTTGACCAACATTGAGTCGACATCATG
66 AGCCTGTTTACGTCGTCGACATCGTAGATATC-CAAATGTTGACCAACATCAAGTCGACATCATG
* * * * * ** *
819048 TCTGCATTGTGTGTCTTCTTTCCTGTTTATATTGTCCACATCGCAATGTTGATCGACATCGAGTC
130 TATACATCGTGTGCCTTCTTTCCTGTTTACACCGTCCACATCGCAATGTTGATCAACATCGAGT-
** *
819113 A-ACATCGTGTCTACATCGTAC
194 AGACATCAAGTCCACATCGTAC
819134 TTTTATTATC
Statistics
Matches: 173, Mismatches: 40, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
244 171 0.99
245 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (244 bp):
ACATCGTCGACATCGCAATGCTGATCGACATCGGGTAGACATAGTGTCTAAATCGTACCTCTTAA
AGCCTGTTTACGTCGTCGACATCGTAGATATCCAAATGTTGACCAACATCAAGTCGACATCATGT
ATACATCGTGTGCCTTCTTTCCTGTTTACACCGTCCACATCGCAATGTTGATCAACATCGAGTAG
ACATCAAGTCCACATCGTACCTACCTCCTATAACCTGTTTACACCGTCG
Found at i:819568 original size:92 final size:92
Alignment explanation
Indices: 819324--819613 Score: 386
Period size: 92 Copynumber: 3.1 Consensus size: 92
819314 GATAAAGACA
* ** ** *
819324 ATGTAAATTCGATATAAGTTCAACATCGTCGACACTGCGATGTCAACAATGTCGACGATGTTAAC
1 ATGTAAACTCGATATCGGTTCAACATCGTCGACGTTGCGATGTCGACAATGTCGACGATGTTAAC
*
819389 AGCAAATAAATATTGACAATGTTGACG
66 AGCAAAGAAATATTGACAATGTTGACG
* * * *
819416 ATGTAAAACTCGATATCGGTTTAACATCGTCAACGTTGCAATGTCGACAATGTCGACGATGTGAA
1 ATGT-AAACTCGATATCGGTTCAACATCGTCGACGTTGCGATGTCGACAATGTCGACGATGTTAA
* *
819481 CGGCAAAGACATATTGACAATGTT-AGCG
65 CAGCAAAGAAATATTGACAATGTTGA-CG
819509 ATGTAAACTCGATATCGGTTCAACA-CTGTCGACGTTGCGATGTCGACAATGTCGACGATGTTAA
1 ATGTAAACTCGATATCGGTTCAACATC-GTCGACGTTGCGATGTCGACAATGTCGACGATGTTAA
* * *
819573 CAGCAAAGAAATATCGGCAATGTTGACA
65 CAGCAAAGAAATATTGACAATGTTGACG
*
819601 ATGTAAAATCGAT
1 ATGTAAACTCGAT
819614 GTCGTTAATG
Statistics
Matches: 171, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
91 1 0.01
92 92 0.54
93 78 0.46
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (92 bp):
ATGTAAACTCGATATCGGTTCAACATCGTCGACGTTGCGATGTCGACAATGTCGACGATGTTAAC
AGCAAAGAAATATTGACAATGTTGACG
Found at i:820148 original size:13 final size:13
Alignment explanation
Indices: 820130--820155 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
820120 TAAAAGTTCT
820130 CTTACTTGACTTA
1 CTTACTTGACTTA
820143 CTTACTTGACTTA
1 CTTACTTGACTTA
820156 AGCCTTTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
CTTACTTGACTTA
Found at i:824859 original size:176 final size:176
Alignment explanation
Indices: 824269--825676 Score: 1597
Period size: 176 Copynumber: 8.0 Consensus size: 176
824259 TTTAGAACAA
* * * * * * **
824269 AAAGGCAAAAAGGATATTCCGGTGGAAGACTCTTCTTGCATTGACCCACCATTCCTCAATAGTTC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
* * * * * *
824334 TTTCGGTGGACAAGTTGCTAGTATGTAAAAAATACTAGTTTATCAATAAAACTCTTGTGAAACAT
66 TTCCGGTGGACAAGTTGCTGGTATGTACAATAT-C-AGTTTATTAATAAAACTCTTGTGATACAT
* * *
824399 G-A--AC--TT--CCATATAAGTCATTATGTCCTTTTTTCTCGTCAAT
129 GTACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTCTCGTCAAT
* *
824440 AAAGGTAAAGAGGATACCCAGGTGGAAGACACTTTTTGCATTGACCCACCATTCCTCAAAAGCGC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
* * *
824505 TTCCGGTGGGCAAGTTGCTGGTATGTACAATATCAGTTTATCTAAAAAAAAACTTTTGTGATACA
66 TTCCGGTGGACAAGTTGCTGGTATGTACAATATCAGTTTAT-T--AATAAAACTCTTGTGATACA
* * *
824570 TGTACTTCTATTAACCATATAATACATTTTGTCCTTTTTTCTCGTAAAT
128 TGTACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTCTCGTCAAT
* * * * * **
824619 AAAGATGAAGAGGA-ACTCAGGTGGAAGACACGTCTTGCATTGACCCACCATTCTTCAATAGTTC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
* * * * * *
824683 TTCCGGTGGACAAGTTGTTAGTATGTACAATATCAGGTTTTTTTAATAAAATTATTGTGATAAAT
66 TTCCGGTGGACAAGTTGCTGGTATGTACAATATCA-G-TTTATTAATAAAACTCTTGTGATACAT
* * * *
824748 GTACTTCTGTTAACCATATCAGACATTTTGTCCTTTTCTCTCTTCAAG
129 GTACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTCTCGTCAAT
* * **
824796 AAAGGT-AAG-GGATACTCAGGTGGAAGACACTTCTTGCATTGACCCAGCATTCCTCAATAGTTC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
* * * *
824859 TTCCTGTGGACAAGTTGCTGGTATGAACAATA-CTAGTTTATCAATAAAATTCTTGTGATACATG
66 TTCCGGTGGACAAGTTGCTGGTATGTACAATATC-AGTTTATTAATAAAACTCTTGTGATACATG
* * *
824923 TACTTTTGTTAACCATGTAAGACATTTTGT-CTTTTTCTCTTGTCAAT
130 TACTTCTGTTAACCATATAAGACATTTTGTCCTTTTT-TCTCGTCAAT
* * * * * *
824970 AAAGGTAAAGAGAATATTCAGGTGGAAAACACGTCTTACATTGACCCACAATTCCTCAAAAGCGC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
* * *
825035 TTCCGATGGACAAGCTGCTGGTATGTTCAATATCAGTTTATTAA-AAAAGCTCTTGTGATACATG
66 TTCCGGTGGACAAGTTGCTGGTATGTACAATATCAGTTTATTAATAAAA-CTCTTGTGATACATG
* * * *
825099 CACTTCAATCTGTAAACCATATAAGACATTTTGTCTTTTTTTCTTGTCAAT
130 TAC-T---TCTGTTAACCATATAAGACATTTTGTCCTTTTTTCTCGTCAAT
* * * * **
825150 AAAGCTGAAGAGGATACTCAGGTGGAAGACACCTCTTGCATTGACCCACCATTCCTCAATAGTTC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
* * * * *
825215 TTCCTGTGAACAAGTTGCTGGTATGTACAATATCAGGTTTTTTTTTTAATAAAATTATTGTGATA
66 TTCCGGTGGACAAGTTGCTGGTATGTACAATATCA-G----TTTATTAATAAAACTCTTGTGATA
* * *
825280 AATGTACTTCTGTTAACCATATAAGACATTTTG-GCTTTTTTCCTCGCCAAT
126 CATGTACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTT-CTCGTCAAT
* * *
825331 AAAGGTAAAGAGGATATTCAGGTGGAAGACACTTCTTGTATTGACCCACCATTCTTCAAAAGCGC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
** * * * * *
825396 TTCCTATGGACAAGTTGCTGGTGTGTGCAATATCAGTTTATTTATTAAACTCTTGTGATACATGA
66 TTCCGGTGGACAAGTTGCTGGTATGTACAATATCAGTTTATTAATAAAACTCTTGTGATACATGT
825461 ACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTTCTCGTCAAT
131 ACTTCTGTTAACCATATAAGACATTTTGTCC-TTTTTTCTCGTCAAT
* * ** * * *
825508 AAAGCTGAAGATAATATTCAGATGGAAGACACTTCTCT-AATTGACCCACCATTCCTCAAAAGCG
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCT-TGCATTGACCCACCATTCCTCAAAAGCG
* * *
825572 CTTCTC-GTGGACAAGTTGCTGGTATGTACAATATCAGTTTATCAATTAAACTATTGTGATACAT
65 CTTC-CGGTGGACAAGTTGCTGGTATGTACAATATCAGTTTATTAATAAAACTCTTGTGATACAT
825636 GTACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTCT
129 GTACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTCT
825677 AAAGGTAAAG
Statistics
Matches: 1051, Mismatches: 151, Indels: 65
0.83 0.12 0.05
Matches are distributed among these distances:
169 7 0.01
170 1 0.00
171 83 0.08
172 19 0.02
173 6 0.01
174 64 0.06
175 13 0.01
176 233 0.22
177 219 0.21
178 83 0.08
179 45 0.04
180 128 0.12
181 124 0.12
184 1 0.00
185 21 0.02
186 4 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (176 bp):
AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
TTCCGGTGGACAAGTTGCTGGTATGTACAATATCAGTTTATTAATAAAACTCTTGTGATACATGT
ACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTCTCGTCAAT
Found at i:825356 original size:361 final size:352
Alignment explanation
Indices: 824269--825675 Score: 1635
Period size: 361 Copynumber: 4.0 Consensus size: 352
824259 TTTAGAACAA
* * * * * * * **
824269 AAAGGCAAAAAGGATATTCCGGTGGAAGACTCTTCTTGCATTGACCCACCATTCCTCAATAGTTC
1 AAAGGTAAAGAGGATATTCAGGTGGAAGACACGTCTTGCATTGACCCACCATTCTTCAAAAGCGC
* * * * * * *
824334 TTTCGGTGGACAAGTTGCTAGTATGTAAAAAATACTAGTTTATCAATAAAACTCTTGTGAAACAT
66 TTCCGATGGACAAGTTGCTGGTATGTACAATAT-C-AGTTTATTAA-AAAACTCTTGTGATACAT
* * * *
824399 GAA---C--TT--CCATATAAGTCATTATGTCCTTTTTTCTCGTCAATAAAGGTAAAGAGGATAC
128 GAACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTCTCGTCAATAAAGCTGAAGAGGATAC
* * * *
824457 CCAGGTGGAAGACACTTTTTGCATTGACCCACCATTCCTCAAAAGCGCTTCCGGTGGGCAAGTTG
193 TCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGCTTCCTGTGGACAAGTTG
* *
824522 CTGGTATGTACAATATCAGTTTATCTAAAAAAAAACTT-TTGTGATACATGTACTTCTATTAACC
258 CTGGTATGTACAATATCAGTTTATC---AATAAAA-TTATTGTGATACATGTACTTCTGTTAACC
* *
824586 ATATAATACATTTTGTCCTTTTTT-CTCGTAAAT
319 ATATAAGACATTTTGTCCTTTTTTCCTCGTCAAT
* * * * **
824619 AAAGATGAAGAGGA-ACTCAGGTGGAAGACACGTCTTGCATTGACCCACCATTCTTCAATAGTTC
1 AAAGGTAAAGAGGATATTCAGGTGGAAGACACGTCTTGCATTGACCCACCATTCTTCAAAAGCGC
* * * * * * *
824683 TTCCGGTGGACAAGTTGTTAGTATGTACAATATCAGGTTTTTTTAATAAAATTATTGTGATAAAT
66 TTCCGATGGACAAGTTGCTGGTATGTACAATATCA-G-TTTATTAA-AAAACTCTTGTGATACAT
* * * * * *
824748 GTACTTCTGTTAACCATATCAGACATTTTGTCCTTTTCTCTCTTCAAGAAAGGT-AAG-GGATAC
128 GAACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTCTCGTCAATAAAGCTGAAGAGGATAC
* * **
824811 TCAGGTGGAAGACACTTCTTGCATTGACCCAGCATTCCTCAATAGTTCTTCCTGTGGACAAGTTG
193 TCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGCTTCCTGTGGACAAGTTG
* * * *
824876 CTGGTATGAACAATA-CTAGTTTATCAATAAAATTCTTGTGATACATGTACTTTTGTTAACCATG
258 CTGGTATGTACAATATC-AGTTTATCAATAAAATTATTGTGATACATGTACTTCTGTTAACCATA
*
824940 TAAGACATTTTGT-C-TTTTTCTCTTGTCAAT
322 TAAGACATTTTGTCCTTTTTTC-CTCGTCAAT
* * * * *
824970 AAAGGTAAAGAGAATATTCAGGTGGAAAACACGTCTTACATTGACCCACAATTCCTCAAAAGCGC
1 AAAGGTAAAGAGGATATTCAGGTGGAAGACACGTCTTGCATTGACCCACCATTCTTCAAAAGCGC
* * *
825035 TTCCGATGGACAAGCTGCTGGTATGTTCAATATCAGTTTATTAAAAAAGCTCTTGTGATACATGC
66 TTCCGATGGACAAGTTGCTGGTATGTACAATATCAGTTTATTAAAAAA-CTCTTGTGATACATGA
* * *
825100 ACTTCAATCTGTAAACCATATAAGACATTTTGTCTTTTTTTCTTGTCAATAAAGCTGAAGAGGAT
130 AC-T---TCTGTTAACCATATAAGACATTTTGTCCTTTTTTCTCGTCAATAAAGCTGAAGAGGAT
* * ** *
825165 ACTCAGGTGGAAGACACCTCTTGCATTGACCCACCATTCCTCAATAGTTCTTCCTGTGAACAAGT
191 ACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGCTTCCTGTGGACAAGT
* * *
825230 TGCTGGTATGTACAATATCAGGTTTTTTTTTTAATAAAATTATTGTGATAAATGTACTTCTGTTA
256 TGCTGGTATGTACAATATCA-G----TTTATCAATAAAATTATTGTGATACATGTACTTCTGTTA
* *
825295 ACCATATAAGACATTTTG-GCTTTTTTCCTCGCCAAT
316 ACCATATAAGACATTTTGTCCTTTTTTCCTCGTCAAT
* *
825331 AAAGGTAAAGAGGATATTCAGGTGGAAGACACTTCTTGTATTGACCCACCATTCTTCAAAAGCGC
1 AAAGGTAAAGAGGATATTCAGGTGGAAGACACGTCTTGCATTGACCCACCATTCTTCAAAAGCGC
* * * **
825396 TTCCTATGGACAAGTTGCTGGTGTGTGCAATATCAGTTTATTTATTAAACTCTTGTGATACATGA
66 TTCCGATGGACAAGTTGCTGGTATGTACAATATCAGTTTA-TTAAAAAACTCTTGTGATACATGA
** *
825461 ACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTTCTCGTCAATAAAGCTGAAGATAATATT
130 ACTTCTGTTAACCATATAAGACATTTTGTCC-TTTTTTCTCGTCAATAAAGCTGAAGAGGATACT
* *
825526 CAGATGGAAGACACTTCTCT-AATTGACCCACCATTCCTCAAAAGCGCTT-CTCGTGGACAAGTT
194 CAGGTGGAAGACACTTCT-TGCATTGACCCACCATTCCTCAAAAGCGCTTCCT-GTGGACAAGTT
* *
825589 GCTGGTATGTACAATATCAGTTTATCAATTAAACTATTGTGATACATGTACTTCTGTTAACCATA
257 GCTGGTATGTACAATATCAGTTTATCAATAAAATTATTGTGATACATGTACTTCTGTTAACCATA
825654 TAAGACATTTTGTCCTTTTTTC
322 TAAGACATTTTGTCCTTTTTTC
825676 TAAAGGTAAA
Statistics
Matches: 907, Mismatches: 116, Indels: 64
0.83 0.11 0.06
Matches are distributed among these distances:
347 1 0.00
348 2 0.00
349 106 0.12
350 34 0.04
351 64 0.07
352 73 0.08
353 53 0.06
354 136 0.15
355 6 0.01
356 118 0.13
357 31 0.03
358 99 0.11
359 1 0.00
360 1 0.00
361 170 0.19
362 12 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (352 bp):
AAAGGTAAAGAGGATATTCAGGTGGAAGACACGTCTTGCATTGACCCACCATTCTTCAAAAGCGC
TTCCGATGGACAAGTTGCTGGTATGTACAATATCAGTTTATTAAAAAACTCTTGTGATACATGAA
CTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTCTCGTCAATAAAGCTGAAGAGGATACTCA
GGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGCTTCCTGTGGACAAGTTGCTG
GTATGTACAATATCAGTTTATCAATAAAATTATTGTGATACATGTACTTCTGTTAACCATATAAG
ACATTTTGTCCTTTTTTCCTCGTCAAT
Found at i:825543 original size:177 final size:177
Alignment explanation
Indices: 824269--825674 Score: 1531
Period size: 177 Copynumber: 7.9 Consensus size: 177
824259 TTTAGAACAA
* * * * * * **
824269 AAAGGCAAAAAGGATATTCCGGTGGAAGACTCTTCTTGCATTGACCCACCATTCCTCAATAGTTC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
* * * * * ** * *
824334 TTTCGGTGGACAAGTTGCTAGTATGTAAAAAATACTAGTTTATCAATAAAACTCTTGTGAAACAT
66 TTCCTGTGGACAAGTTGCTGGTATGTACAATAT-C-AGTTTATTTATAAAACTATTGTGATACAT
* * *
824399 G-A--AC--TT--CCATATAAGTCATTATGTCC-TTTTTTCTCGTCAAT
129 GTACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTTCTCGTCAAT
* *
824440 AAAGGTAAAGAGGATACCCAGGTGGAAGACACTTTTTGCATTGACCCACCATTCCTCAAAAGCGC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
* * * * *
824505 TTCCGGTGGGCAAGTTGCTGGTATGTACAATATCAGTTTATCTAAAAAAAAACTTTTGTGATACA
66 TTCCTGTGGACAAGTTGCTGGTATGTACAATATCAGTTTAT-T--TATAAAACTATTGTGATACA
* * *
824570 TGTACTTCTATTAACCATATAATACATTTTGTCC-TTTTTTCTCGTAAAT
128 TGTACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTTCTCGTCAAT
* * * * * **
824619 AAAGATGAAGAGGA-ACTCAGGTGGAAGACACGTCTTGCATTGACCCACCATTCTTCAATAGTTC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
* * * * * *
824683 TTCCGGTGGACAAGTTGTTAGTATGTACAATATCAGGTTTTTTTAATAAAATTATTGTGATAAAT
66 TTCCTGTGGACAAGTTGCTGGTATGTACAATATCA-GTTTATTT-ATAAAACTATTGTGATACAT
* * * *
824748 GTACTTCTGTTAACCATATCAGACATTTTGTCC-TTTTCTCTCTTCAAG
129 GTACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTTCTCGTCAAT
* * **
824796 AAAGGT-AAG-GGATACTCAGGTGGAAGACACTTCTTGCATTGACCCAGCATTCCTCAATAGTTC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
* ** * *
824859 TTCCTGTGGACAAGTTGCTGGTATGAACAATA-CTAGTTTATCAATAAAATTCTTGTGATACATG
66 TTCCTGTGGACAAGTTGCTGGTATGTACAATATC-AGTTTATTTATAAAACTATTGTGATACATG
* * * *
824923 TACTTTTGTTAACCATGTAAGACATTTTGT-CTTTTTCTCTTGTCAAT
130 TACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTTCTCGTCAAT
* * * * * *
824970 AAAGGTAAAGAGAATATTCAGGTGGAAAACACGTCTTACATTGACCCACAATTCCTCAAAAGCGC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
* * * *
825035 TTCC-GATGGACAAGCTGCTGGTATGTTCAATATCAGTTTA-TTAAAAAAGCTCTTGTGATACAT
66 TTCCTG-TGGACAAGTTGCTGGTATGTACAATATCAGTTTATTTATAAAA-CTATTGTGATACAT
* * *
825098 GCACTTCAATCTGTAAACCATATAAGACATTTTGT-CTTTTTTTCTTGTCAAT
129 GTAC-T---TCTGTTAACCATATAAGACATTTTGTCCTTTTTTTCTCGTCAAT
* * * * **
825150 AAAGCTGAAGAGGATACTCAGGTGGAAGACACCTCTTGCATTGACCCACCATTCCTCAATAGTTC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
* * *
825215 TTCCTGTGAACAAGTTGCTGGTATGTACAATATCAGGTTTTTTTTTTAATAAAATTATTGTGATA
66 TTCCTGTGGACAAGTTGCTGGTATGTACAATATCA-G---TTTATTT-ATAAAACTATTGTGATA
* * * *
825280 AATGTACTTCTGTTAACCATATAAGACATTTTG-GCTTTTTTCCTCGCCAAT
126 CATGTACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTTCTCGTCAAT
* * *
825331 AAAGGTAAAGAGGATATTCAGGTGGAAGACACTTCTTGTATTGACCCACCATTCTTCAAAAGCGC
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
* * * * * *
825396 TTCCTATGGACAAGTTGCTGGTGTGTGCAATATCAGTTTATTTATTAAACTCTTGTGATACATGA
66 TTCCTGTGGACAAGTTGCTGGTATGTACAATATCAGTTTATTTATAAAACTATTGTGATACATGT
825461 ACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTTCTCGTCAAT
131 ACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTTCTCGTCAAT
* * ** * * *
825508 AAAGCTGAAGATAATATTCAGATGGAAGACACTTCTCT-AATTGACCCACCATTCCTCAAAAGCG
1 AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCT-TGCATTGACCCACCATTCCTCAAAAGCG
** *
825572 CTT-CTCGTGGACAAGTTGCTGGTATGTACAATATCAGTTTATCAATTAAACTATTGTGATACAT
65 CTTCCT-GTGGACAAGTTGCTGGTATGTACAATATCAGTTTATTTATAAAACTATTGTGATACAT
825636 GTACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTT
129 GTACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTT
825675 CTAAAGGTAA
Statistics
Matches: 1050, Mismatches: 150, Indels: 64
0.83 0.12 0.05
Matches are distributed among these distances:
169 7 0.01
170 1 0.00
171 83 0.08
172 19 0.02
173 2 0.00
174 64 0.06
175 19 0.02
176 219 0.21
177 235 0.22
178 77 0.07
179 48 0.05
180 124 0.12
181 127 0.12
184 4 0.00
185 16 0.02
186 5 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (177 bp):
AAAGGTAAAGAGGATACTCAGGTGGAAGACACTTCTTGCATTGACCCACCATTCCTCAAAAGCGC
TTCCTGTGGACAAGTTGCTGGTATGTACAATATCAGTTTATTTATAAAACTATTGTGATACATGT
ACTTCTGTTAACCATATAAGACATTTTGTCCTTTTTTTCTCGTCAAT
Found at i:828828 original size:2 final size:2
Alignment explanation
Indices: 828821--828865 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
828811 ACAGTAACTT
828821 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
828863 AG A
1 AG A
828866 TTGGAATTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:833701 original size:18 final size:18
Alignment explanation
Indices: 833671--833714 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
833661 AACTAACAAT
833671 CCATCCAACCCACCCAACC
1 CCATCC-ACCCACCCAACC
833690 CCATCCACCCACCCAACC
1 CCATCCACCCACCCAACC
833708 CCATCCA
1 CCATCCA
833715 ACCCCAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.30, C:0.64, G:0.00, T:0.07
Consensus pattern (18 bp):
CCATCCACCCACCCAACC
Found at i:833710 original size:10 final size:10
Alignment explanation
Indices: 833675--833720 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
833665 AACAATCCAT
833675 CCAA-CCCAC
1 CCAACCCCAC
*
833684 CCAACCCCAT
1 CCAACCCCAC
833694 CC-A-CCCAC
1 CCAACCCCAC
*
833702 CCAACCCCAT
1 CCAACCCCAC
833712 CCAACCCCA
1 CCAACCCCA
833721 AAAATTGCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
8 6 0.19
9 6 0.19
10 19 0.61
ACGTcount: A:0.30, C:0.65, G:0.00, T:0.04
Consensus pattern (10 bp):
CCAACCCCAC
Found at i:836870 original size:20 final size:20
Alignment explanation
Indices: 836812--836862 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
836802 AAGTACTTGT
*
836812 TTGTTTTGTA-AAGTATGATA
1 TTGTATTGTATAA-TATGATA
836832 TTGTATTGTATAATATGATA
1 TTGTATTGTATAATATGATA
836852 TTGTATTGTAT
1 TTGTATTGTAT
836863 TCTATGATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (20 bp):
TTGTATTGTATAATATGATA
Found at i:837943 original size:21 final size:21
Alignment explanation
Indices: 837919--837969 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
837909 ATCACCGTTT
* *
837919 AGCGTTTCGTGTGAATCGTGA
1 AGCGTTTCGTGTAAACCGTGA
**
837940 AGCGTTTCGTGTAAACCGTTT
1 AGCGTTTCGTGTAAACCGTGA
837961 AGCGTTTCG
1 AGCGTTTCG
837970 GACAAAGCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (21 bp):
AGCGTTTCGTGTAAACCGTGA
Found at i:859921 original size:21 final size:21
Alignment explanation
Indices: 859890--859938 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
859880 ACGCTTTGCC
*
859890 CGAAACGCTAAACGGTTTACA
1 CGAAACGCTAAAAGGTTTACA
* *
859911 TGAAACTCTAAAAGGTTTACA
1 CGAAACGCTAAAAGGTTTACA
859932 CGAAACG
1 CGAAACG
859939 TTTCTCGCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (21 bp):
CGAAACGCTAAAAGGTTTACA
Found at i:864775 original size:2 final size:2
Alignment explanation
Indices: 864768--864835 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
864758 AGATCAGATC
*
864768 AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
864810 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
864836 CGGGGATTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:865753 original size:45 final size:47
Alignment explanation
Indices: 865694--865782 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
865684 GCAGACAAGA
* *
865694 CAAGAAGTT-AAAAAAAAT-TAAATATAACTGCAGCGGTGAGTGCAG
1 CAAGAACTTAAAAAAAAATGTAAATATAACTGCAGCCGTGAGTGCAG
*
865739 CAAGAACTTTAAAAAAAATGTAAATATAACTGCAGCCGTGAGTG
1 CAAGAACTTAAAAAAAAATGTAAATATAACTGCAGCCGTGAGTG
865783 TAAACAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 8 0.20
46 9 0.22
47 23 0.57
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.21
Consensus pattern (47 bp):
CAAGAACTTAAAAAAAAATGTAAATATAACTGCAGCCGTGAGTGCAG
Found at i:869033 original size:19 final size:19
Alignment explanation
Indices: 869009--869068 Score: 120
Period size: 19 Copynumber: 3.2 Consensus size: 19
868999 CTTAATTGGC
869009 CTTAAATCACTCACCTGTA
1 CTTAAATCACTCACCTGTA
869028 CTTAAATCACTCACCTGTA
1 CTTAAATCACTCACCTGTA
869047 CTTAAATCACTCACCTGTA
1 CTTAAATCACTCACCTGTA
869066 CTT
1 CTT
869069 GTTTTCATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.30, C:0.32, G:0.05, T:0.33
Consensus pattern (19 bp):
CTTAAATCACTCACCTGTA
Found at i:869123 original size:13 final size:13
Alignment explanation
Indices: 869105--869265 Score: 313
Period size: 13 Copynumber: 12.4 Consensus size: 13
869095 TTAAGTACTG
869105 GTAAATGTACCAT
1 GTAAATGTACCAT
869118 GTAAATGTACCAT
1 GTAAATGTACCAT
869131 GTAAATGTACCAT
1 GTAAATGTACCAT
869144 GTAAATGTACCAT
1 GTAAATGTACCAT
869157 GTAAATGTACCAT
1 GTAAATGTACCAT
*
869170 GTAAATGTACCGT
1 GTAAATGTACCAT
869183 GTAAATGTACCAT
1 GTAAATGTACCAT
869196 GTAAATGTACCAT
1 GTAAATGTACCAT
869209 GTAAATGTACCAT
1 GTAAATGTACCAT
869222 GTAAATGTACCAT
1 GTAAATGTACCAT
869235 GTAAATGTACCAT
1 GTAAATGTACCAT
869248 GTAAATGTACCAT
1 GTAAATGTACCAT
869261 GTAAA
1 GTAAA
869266 CAAATCTAAT
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
13 146 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (13 bp):
GTAAATGTACCAT
Found at i:869986 original size:2 final size:2
Alignment explanation
Indices: 869979--870020 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
869969 AGTTATAAAT
869979 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
870021 TAGTTTGTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:875248 original size:12 final size:12
Alignment explanation
Indices: 875231--875255 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
875221 TTTTGTCTAT
875231 CGTCCGTCTGTC
1 CGTCCGTCTGTC
875243 CGTCCGTCTGTC
1 CGTCCGTCTGTC
875255 C
1 C
875256 ATAAACTTTT
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:0.00, C:0.44, G:0.24, T:0.32
Consensus pattern (12 bp):
CGTCCGTCTGTC
Found at i:877546 original size:19 final size:19
Alignment explanation
Indices: 877522--877559 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
877512 TATGCTGAAT
877522 AGAACGCCTTTCATATCTG
1 AGAACGCCTTTCATATCTG
877541 AGAACGCCTTTCATATCTG
1 AGAACGCCTTTCATATCTG
877560 CGTGTTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (19 bp):
AGAACGCCTTTCATATCTG
Found at i:881137 original size:2 final size:2
Alignment explanation
Indices: 881130--881213 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
881120 GATCTAGAGT
881130 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
881172 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
881214 NTATATATAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:881220 original size:2 final size:2
Alignment explanation
Indices: 881215--881240 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
881205 ACACACACAN
881215 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
881241 CATCCTCTTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:881826 original size:21 final size:22
Alignment explanation
Indices: 881781--881826 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
881771 GCAATTTCTA
*
881781 AGTAAACCCAAAGCAAACCCGG
1 AGTAAACCCAAAGCAAACCCCG
* *
881803 AGTAAATCCAAAG-TAACCCCG
1 AGTAAACCCAAAGCAAACCCCG
881824 AGT
1 AGT
881827 GGACCCACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.43, C:0.28, G:0.17, T:0.11
Consensus pattern (22 bp):
AGTAAACCCAAAGCAAACCCCG
Found at i:884518 original size:2 final size:2
Alignment explanation
Indices: 884511--884538 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
884501 TAGATAAATC
884511 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
884539 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:894686 original size:2 final size:2
Alignment explanation
Indices: 894679--894734 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
894669 AAAAGTGCAC
894679 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
894721 CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT
894735 TAACTGATTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:900710 original size:15 final size:16
Alignment explanation
Indices: 900692--900732 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
900682 AATTGTGGTA
900692 TATAACGAA-CACGGC
1 TATAACGAATCACGGC
*
900707 TATAACGAATTTACGGC
1 TATAACGAA-TCACGGC
900724 TATAACGAA
1 TATAACGAA
900733 GTAATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
17 14 0.61
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (16 bp):
TATAACGAATCACGGC
Found at i:902897 original size:2 final size:2
Alignment explanation
Indices: 902886--902958 Score: 125
Period size: 2 Copynumber: 38.0 Consensus size: 2
902876 CTGTTAATTC
902886 AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
902927 AG AG AG AG AG AG AG AG A- AG -G AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
902959 GGAGTCACTT
Statistics
Matches: 68, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
1 3 0.04
2 65 0.96
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:912327 original size:56 final size:56
Alignment explanation
Indices: 912248--912356 Score: 200
Period size: 56 Copynumber: 1.9 Consensus size: 56
912238 AATAGGGAAA
*
912248 AAGAAACCGAACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATAAT
1 AAGAAACAGAACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATAAT
*
912304 AAGAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAAT
1 AAGAAACAGAACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAAT
912357 TATGCAAATC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.18
Consensus pattern (56 bp):
AAGAAACAGAACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATAAT
Found at i:915632 original size:14 final size:14
Alignment explanation
Indices: 915613--915639 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
915603 TCTCCATGCA
915613 CTTTCGTTCTCTTC
1 CTTTCGTTCTCTTC
915627 CTTTCGTTCTCTT
1 CTTTCGTTCTCTT
915640 TATTATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.33, G:0.07, T:0.59
Consensus pattern (14 bp):
CTTTCGTTCTCTTC
Found at i:924213 original size:32 final size:32
Alignment explanation
Indices: 924157--924235 Score: 131
Period size: 32 Copynumber: 2.4 Consensus size: 32
924147 TATAGTCAGC
*
924157 TTTCCGTGGGAGAAAAACTGCTATATAGCCATT
1 TTTCCG-GGGGGAAAAACTGCTATATAGCCATT
*
924190 TTTCCGGGGGGAAGAACTGCTATATAGCCATT
1 TTTCCGGGGGGAAAAACTGCTATATAGCCATT
924222 TTTCCGGGGGGAAA
1 TTTCCGGGGGGAAA
924236 GATGGCTAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 37 0.86
33 6 0.14
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (32 bp):
TTTCCGGGGGGAAAAACTGCTATATAGCCATT
Found at i:943314 original size:27 final size:27
Alignment explanation
Indices: 943283--943338 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
943273 TTGAAACATA
943283 TACATGTATATCCCCCTCGCATGCAAT
1 TACATGTATATCCCCCTCGCATGCAAT
943310 TACATGTATATCCCCCTCGCATGCAAT
1 TACATGTATATCCCCCTCGCATGCAAT
943337 TA
1 TA
943339 TTCTGCATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.32, G:0.11, T:0.30
Consensus pattern (27 bp):
TACATGTATATCCCCCTCGCATGCAAT
Found at i:946466 original size:17 final size:16
Alignment explanation
Indices: 946441--946475 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
946431 CTGGCGTGCG
946441 ACCAGTTCTCGCCGAGT
1 ACCAGTTCTCGCC-AGT
*
946458 ACCATTTCTCGCCAGT
1 ACCAGTTCTCGCCAGT
946474 AC
1 AC
946476 ATTGTGACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.20, C:0.37, G:0.17, T:0.26
Consensus pattern (16 bp):
ACCAGTTCTCGCCAGT
Found at i:946559 original size:17 final size:16
Alignment explanation
Indices: 946532--946566 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
946522 ACGTCACAAT
946532 GTACTGGCGAGAAATG
1 GTACTGGCGAGAAATG
*
946548 GTACTCGGCGAGAACTG
1 GTACT-GGCGAGAAATG
946565 GT
1 GT
946567 CGCACGCCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.26, C:0.17, G:0.37, T:0.20
Consensus pattern (16 bp):
GTACTGGCGAGAAATG
Found at i:947441 original size:20 final size:18
Alignment explanation
Indices: 947416--947452 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
947406 TTTTTAACAA
947416 ATATATATGGTAGTAGAG
1 ATATATATGGTAGTAGAG
947434 ATATATATGGTAGTAGAG
1 ATATATATGGTAGTAGAG
947452 A
1 A
947453 AGAAGATTTT
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:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (18 bp):
ATATATATGGTAGTAGAG
Found at i:948263 original size:166 final size:166
Alignment explanation
Indices: 947861--948665 Score: 1082
Period size: 166 Copynumber: 4.9 Consensus size: 166
947851 TCTCTATATA
* * * *
947861 TAAAAATTCATCCCCC-ATTGTGGCCCCGCCCT-TCACCCAGGGACCATGATTTGAACAAACTTA
1 TAAAAATCCATCCCCCAATTGTGGCCCCACCATACCA-CCAGGGACCATGATTTGAACAAACTTA
* *
947924 AATCTACACTACCTGAGGATGCTTCAACTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTT--G-
65 AATCTACACTACCTGAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGA
947986 AGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
130 AGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
* ** * * * *
948023 TAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCTGGGACCATGATTTGAACAAACTTGA
1 TAAAAATCCATCCCCCAATTGTGGCCCCACCATACCACCAGGGACCATGATTTGAACAAACTTAA
* * * *
948088 ATCTACACTATCTGAGGATGCTCCCATTTTAATATGAGCTTTTCTGGCCTTATAGTTTTTGAGAA
66 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAA
948153 GAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
131 GAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
* * * * * * *
948189 TAAAAATCCATTCCCCTATTGTTGCACCACCATACTACCAGGGACTATGATTTGAATAAACTTAA
1 TAAAAATCCATCCCCCAATTGTGGCCCCACCATACCACCAGGGACCATGATTTGAACAAACTTAA
* * * *
948254 ATGTACACTACCTGAGAATGCTTCCACTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTCGAGAA
66 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAA
*
948319 GAAGATTTTTAAAGATTTTCTCTACATATTCCTATG
131 GAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
* ** * * * **
948355 TAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCCGGGACCATGATTTGAACAAACTGGA
1 TAAAAATCCATCCCCCAATTGTGGCCCCACCATACCACCAGGGACCATGATTTGAACAAACTTAA
* * * * *
948420 ATCTACACTATCTGAGGATGCTCCCATTTTAATATGAGCTTTTCTGGTCTAATAGTTTTTTAGAA
66 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAA
948485 GAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
131 GAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
* * * * *
948521 TAAAAATCCATTCCCACAA-TGTAGCCCCACCATACCACCAGGGACTAAGATTTGAACAAACTTT
1 TAAAAATCCA-TCCCCCAATTGTGGCCCCACCATACCACCAGGGACCATGATTTGAACAAACTTA
* * *
948585 AATCTACACTACCGGAGGATGGTTCCATTTTAATTTGAGCTTTTCTGGCCTTATAGTTTTTGAGA
65 AATCTACACTACCTGAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGA
* *
948650 GGAGGATTTTTAAAGA
130 AGAAGATTTTTAAAGA
948666 ACTTGATCCC
Statistics
Matches: 554, Mismatches: 83, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
162 14 0.03
163 95 0.17
164 1 0.00
165 1 0.00
166 436 0.79
167 7 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (166 bp):
TAAAAATCCATCCCCCAATTGTGGCCCCACCATACCACCAGGGACCATGATTTGAACAAACTTAA
ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAA
GAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
Found at i:948500 original size:332 final size:331
Alignment explanation
Indices: 947897--948665 Score: 1274
Period size: 332 Copynumber: 2.3 Consensus size: 331
947887 CGCCCTTCAC
* *
947897 CCAGGGACCATGATTTGAACAAACTTAAATCTACACTACCTGAGGATGCTTCAACTTTAATTTGA
1 CCAGGGACTATGATTTGAACAAACTTAAATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* *
947962 GCTTTTCTGGCCTAATAGTTTT-TG-AGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTA
66 GCTTTTCTGGCCTAATAGTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTACATATTCCTATGTA
* *
948025 AAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCTGGGACCATGATTTGAACAAACTTGAAT
131 AAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCCGGGACCATGATTTGAACAAACTGGAAT
*
948090 CTACACTATCTGAGGATGCTCCCATTTTAATATGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGA
196 CTACACTATCTGAGGATGCTCCCATTTTAATATGAGCTTTTCTGGCCTAATAGTTTTTGAGAAGA
* *
948155 AGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATCCATTCCC-CTATTGTTGCACCAC
261 AGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATCCATTCCCAC-AATGTAGCACCAC
*
948219 CATACTA
325 CATACCA
* * *
948226 CCAGGGACTATGATTTGAATAAACTTAAATGTACACTACCTGAGAATGCTTCCACTTTAATTTGA
1 CCAGGGACTATGATTTGAACAAACTTAAATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
948291 GCTTTTCTGGCCTAATAGTTTTCGAGAAGAAGATTTTTAAAGATTTTCTCTACATATTCCTATGT
66 GCTTTTCTGGCCTAATAGTTTT-GAGAAGAAGATTTTTAAAGATTTTCTCTACATATTCCTATGT
948356 AAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCCGGGACCATGATTTGAACAAACTGGAA
130 AAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCCGGGACCATGATTTGAACAAACTGGAA
* *
948421 TCTACACTATCTGAGGATGCTCCCATTTTAATATGAGCTTTTCTGGTCTAATAGTTTTTTAGAAG
195 TCTACACTATCTGAGGATGCTCCCATTTTAATATGAGCTTTTCTGGCCTAATAGTTTTTGAGAAG
*
948486 AAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATCCATTCCCACAATGTAGCCCCAC
260 AAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATCCATTCCCACAATGTAGCACCAC
948551 CATACCA
325 CATACCA
* * * * *
948558 CCAGGGACTAAGATTTGAACAAACTTTAATCTACACTACCGGAGGATGGTTCCATTTTAATTTGA
1 CCAGGGACTATGATTTGAACAAACTTAAATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * *
948623 GCTTTTCTGGCCTTATAGTTTTTGAGAGGAGGATTTTTAAAGA
66 GCTTTTCTGGCCTAATAG-TTTTGAGAAGAAGATTTTTAAAGA
948666 ACTTGATCCC
Statistics
Matches: 408, Mismatches: 27, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
329 82 0.20
331 1 0.00
332 320 0.78
333 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (331 bp):
CCAGGGACTATGATTTGAACAAACTTAAATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
GCTTTTCTGGCCTAATAGTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTACATATTCCTATGTA
AAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCCGGGACCATGATTTGAACAAACTGGAAT
CTACACTATCTGAGGATGCTCCCATTTTAATATGAGCTTTTCTGGCCTAATAGTTTTTGAGAAGA
AGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATCCATTCCCACAATGTAGCACCACC
ATACCA
Found at i:952707 original size:8 final size:8
Alignment explanation
Indices: 952694--952732 Score: 51
Period size: 8 Copynumber: 4.5 Consensus size: 8
952684 TGATGGGCAG
952694 ATATTCAA
1 ATATTCAA
952702 ATATTCAA
1 ATATTCAA
952710 ATATTCAA
1 ATATTCAA
952718 CTGATATTCAA
1 ---ATATTCAA
952729 ATAT
1 ATAT
952733 CCAACACTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 20 0.71
11 8 0.29
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (8 bp):
ATATTCAA
Found at i:955093 original size:39 final size:40
Alignment explanation
Indices: 955039--955119 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 40
955029 TCTCTACGGA
* *
955039 AGCCCTGGGAGGAC-ATTGACTTACTCCTTAATTGTTATG
1 AGCCCTGGAAGGACAATTGACTTACTCCTGAATTGTTATG
* *
955078 AGCCCTGGAAGGACATATTGACTTCCTTCTGAATTGTTATG
1 AGCCCTGGAAGGACA-ATTGACTTACTCCTGAATTGTTATG
955119 A
1 A
955120 CTTATTTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 13 0.36
41 23 0.64
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (40 bp):
AGCCCTGGAAGGACAATTGACTTACTCCTGAATTGTTATG
Found at i:956219 original size:21 final size:21
Alignment explanation
Indices: 956167--956225 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
956157 TACCTATTAC
** *
956167 TTAATACTTGCTTGTTAATTG
1 TTAATACTTATTTTTTAATTG
**
956188 TTAATTTTTATTTTTTAATTG
1 TTAATACTTATTTTTTAATTG
*
956209 TTAATACTTATTATTTA
1 TTAATACTTATTTTTTA
956226 CTGGTTATTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (21 bp):
TTAATACTTATTTTTTAATTG
Found at i:957805 original size:41 final size:39
Alignment explanation
Indices: 957742--957822 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 39
957732 CAAAAATAAG
* *
957742 TCATAACAATTAAGAAGGAAGTCAATATGTCCTTCCAGGGC
1 TCATAACAATTAAGAAGCAAGTCAATA--TCCTCCCAGGGC
*
957783 TCATAACAATTAAGGAGCAAGTCAATATCCTCCCAGGGC
1 TCATAACAATTAAGAAGCAAGTCAATATCCTCCCAGGGC
957822 T
1 T
957823 TCCGTATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 12 0.32
41 25 0.68
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (39 bp):
TCATAACAATTAAGAAGCAAGTCAATATCCTCCCAGGGC
Found at i:963356 original size:21 final size:21
Alignment explanation
Indices: 963330--963389 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
963320 TTTTTCTATC
*
963330 AAATATGTCGACATGCATGAT
1 AAATATGTCGACATGCAAGAT
*
963351 AAATATGTTGACATGCAAGAT
1 AAATATGTCGACATGCAAGAT
*
963372 AATTATGTC-ACCATGCAA
1 AAATATGTCGA-CATGCAA
963390 TCAGATAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 1 0.03
21 33 0.97
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
AAATATGTCGACATGCAAGAT
Found at i:963552 original size:21 final size:21
Alignment explanation
Indices: 963465--963600 Score: 114
Period size: 21 Copynumber: 6.5 Consensus size: 21
963455 GCTAGCTGGT
*
963465 ACTTATTTATGTCGACATG-A
1 ACTTATTTATGTCAACATGCA
* *
963485 ACCTTATTCATGTTAACATGCA
1 A-CTTATTTATGTCAACATGCA
** ** * * *
963507 AGATAAATATG-CTGATATGCC
1 ACTTATTTATGTC-AACATGCA
*
963528 ACTTATTTATGTCAACCTGCA
1 ACTTATTTATGTCAACATGCA
*
963549 ACTTATTTATGTCGACATGCA
1 ACTTATTTATGTCAACATGCA
*
963570 ACTTATTTATATCAACATGCA
1 ACTTATTTATGTCAACATGCA
*
963591 ACTTTTTTAT
1 ACTTATTTAT
963601 ACTGACATGC
Statistics
Matches: 87, Mismatches: 25, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
20 1 0.01
21 83 0.95
22 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (21 bp):
ACTTATTTATGTCAACATGCA
Found at i:963574 original size:42 final size:42
Alignment explanation
Indices: 963465--963600 Score: 141
Period size: 42 Copynumber: 3.2 Consensus size: 42
963455 GCTAGCTGGT
* *
963465 ACTTATTTATGTCGACATG-AACCTTATTCATGTTAACATGCA
1 ACTTATTTATGTCGACATGCAA-CTTATTTATGTCAACATGCA
** ** * * *
963507 AGATAAATATG-CTGATATGCCACTTATTTATGTCAACCTGCA
1 ACTTATTTATGTC-GACATGCAACTTATTTATGTCAACATGCA
*
963549 ACTTATTTATGTCGACATGCAACTTATTTATATCAACATGCA
1 ACTTATTTATGTCGACATGCAACTTATTTATGTCAACATGCA
*
963591 ACTTTTTTAT
1 ACTTATTTAT
963601 ACTGACATGC
Statistics
Matches: 73, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
41 1 0.01
42 70 0.96
43 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (42 bp):
ACTTATTTATGTCGACATGCAACTTATTTATGTCAACATGCA
Found at i:963608 original size:21 final size:21
Alignment explanation
Indices: 963523--963610 Score: 97
Period size: 21 Copynumber: 4.2 Consensus size: 21
963513 ATATGCTGAT
* * *
963523 ATGCCACTTATTTATGTCAAC
1 ATGCAACTTATTTATATCGAC
* *
963544 CTGCAACTTATTTATGTCGAC
1 ATGCAACTTATTTATATCGAC
*
963565 ATGCAACTTATTTATATCAAC
1 ATGCAACTTATTTATATCGAC
*
963586 ATGCAACTTTTTTATA-CTGAC
1 ATGCAACTTATTTATATC-GAC
963607 ATGC
1 ATGC
963611 GAGATGAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 1 0.02
21 57 0.98
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.39
Consensus pattern (21 bp):
ATGCAACTTATTTATATCGAC
Found at i:963608 original size:42 final size:41
Alignment explanation
Indices: 963518--963610 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 41
963508 GATAAATATG
* * * *
963518 CTGATATGCCACTTATTTATGTCAACCTGCAACTTATTTAT
1 CTGACATGCAACTTATTTATATCAACATGCAACTTATTTAT
* *
963559 GTCGACATGCAACTTATTTATATCAACATGCAACTTTTTTAT
1 CT-GACATGCAACTTATTTATATCAACATGCAACTTATTTAT
963601 ACTGACATGC
1 -CTGACATGC
963611 GAGATGAATA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.02
42 41 0.95
43 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.39
Consensus pattern (41 bp):
CTGACATGCAACTTATTTATATCAACATGCAACTTATTTAT
Found at i:963631 original size:42 final size:42
Alignment explanation
Indices: 963585--963679 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 42
963575 TTTATATCAA
** * * *
963585 CATGCAACTTTTTTATACTGACATGCGAGATGAATATGTTGT
1 CATGCAACTTAGTTATACTGACATGCGAGATAAATAGGTTGC
** * *
963627 CATGCAACTTAGTTATGTTTACATGCGAGATAAATGGGTTGC
1 CATGCAACTTAGTTATACTGACATGCGAGATAAATAGGTTGC
963669 CATGCAACTTA
1 CATGCAACTTA
963680 TAAGTTGTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (42 bp):
CATGCAACTTAGTTATACTGACATGCGAGATAAATAGGTTGC
Found at i:963746 original size:21 final size:21
Alignment explanation
Indices: 963694--963803 Score: 105
Period size: 21 Copynumber: 5.2 Consensus size: 21
963684 TTGTTGACAG
* *
963694 AAATATGTTGCATGTCAACAT
1 AAATAAGTTGCATGTTAACAT
** **
963715 ATTTATCTTGCATGTTAACAT
1 AAATAAGTTGCATGTTAACAT
* **
963736 AACTAAGTTGCATGTCGACAT
1 AAATAAGTTGCATGTTAACAT
963757 AAATAAGTTGCATG-TATACAT
1 AAATAAGTTGCATGTTA-ACAT
*
963778 AAATAAGTTGCATGTTGACAT
1 AAATAAGTTGCATGTTAACAT
*
963799 CAATA
1 AAATA
963804 GGTAGCGTAT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
21 71 0.99
22 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (21 bp):
AAATAAGTTGCATGTTAACAT
Found at i:963768 original size:42 final size:42
Alignment explanation
Indices: 963694--963803 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
963684 TTGTTGACAG
* * ** **
963694 AAATATGTTGCATGTCAACATATTTATCTTGCATGT-TAACAT
1 AAATAAGTTGCATGTCGACATAAATAAGTTGCATGTAT-ACAT
*
963736 AACTAAGTTGCATGTCGACATAAATAAGTTGCATGTATACAT
1 AAATAAGTTGCATGTCGACATAAATAAGTTGCATGTATACAT
* *
963778 AAATAAGTTGCATGTTGACATCAATA
1 AAATAAGTTGCATGTCGACATAAATA
963804 GGTAGCGTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (42 bp):
AAATAAGTTGCATGTCGACATAAATAAGTTGCATGTATACAT
Found at i:964706 original size:2 final size:2
Alignment explanation
Indices: 964699--964764 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
964689 AATTCAGCAC
964699 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* *
964741 CT GT CT CT CT TT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT
964765 GCATGTATTG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.47, G:0.02, T:0.52
Consensus pattern (2 bp):
CT
Found at i:971950 original size:15 final size:15
Alignment explanation
Indices: 971930--971961 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
971920 TCAACACAGA
971930 AAGAAACTATTCAAC
1 AAGAAACTATTCAAC
971945 AAGAAACTATTCAAC
1 AAGAAACTATTCAAC
971960 AA
1 AA
971962 ACAATAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (15 bp):
AAGAAACTATTCAAC
Found at i:973994 original size:4 final size:4
Alignment explanation
Indices: 973985--974097 Score: 210
Period size: 4 Copynumber: 28.5 Consensus size: 4
973975 ACTTGATTAT
*
973985 GATA GATA GATG GATA GATA GATA GATA GATA GAT- GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
974032 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
974080 GATA GATA GATA GATA GA
1 GATA GATA GATA GATA GA
974098 CTGGTAGCAT
Statistics
Matches: 106, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
3 3 0.03
4 103 0.97
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.25
Consensus pattern (4 bp):
GATA
Found at i:974129 original size:24 final size:24
Alignment explanation
Indices: 974102--974168 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
974092 GATAGACTGG
* * **
974102 TAGCATGGTTGATAAGAAGATGGA
1 TAGCATGATGGATAAGAAGATACA
*
974126 TAGCGTGATGGATAAGAAGATACA
1 TAGCATGATGGATAAGAAGATACA
*
974150 TAGCATGATGGACAAGAAG
1 TAGCATGATGGATAAGAAG
974169 TATATAAGTC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.40, C:0.07, G:0.31, T:0.21
Consensus pattern (24 bp):
TAGCATGATGGATAAGAAGATACA
Found at i:977776 original size:12 final size:11
Alignment explanation
Indices: 977736--977775 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
977726 NNNNNNNNNN
*
977736 AAAAAACAAAT
1 AAAAAACAAAC
*
977747 AAAAAACAACC
1 AAAAAACAAAC
*
977758 AAAAACCAAAC
1 AAAAAACAAAC
977769 AAAAAAC
1 AAAAAAC
977776 CCCCCCAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.78, C:0.20, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAAAACAAAC
Found at i:978249 original size:14 final size:15
Alignment explanation
Indices: 978223--978258 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
978213 GGTTATAATT
978223 AAATAAC-ATCCCA-
1 AAATAACAATCCCAC
978236 AAATAACAATCCCAC
1 AAATAACAATCCCAC
978251 AAA-AACAA
1 AAATAACAA
978259 GTTATGATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.33
14 11 0.52
15 3 0.14
ACGTcount: A:0.61, C:0.28, G:0.00, T:0.11
Consensus pattern (15 bp):
AAATAACAATCCCAC
Found at i:981191 original size:20 final size:20
Alignment explanation
Indices: 981163--981211 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
981153 ATTAAATAAT
*
981163 AAAAA-AAAACCAATGAAAC
1 AAAAACAAAAACAATGAAAC
981182 AAAAACAAAAACAATGAAAC
1 AAAAACAAAAACAATGAAAC
981202 -AAAACAAAAA
1 AAAAACAAAAA
981212 AACCCCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.78, C:0.14, G:0.04, T:0.04
Consensus pattern (20 bp):
AAAAACAAAAACAATGAAAC
Found at i:981205 original size:19 final size:21
Alignment explanation
Indices: 981163--981211 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
981153 ATTAAATAAT
981163 AAAA-AAAAACCAATGAAACA
1 AAAACAAAAACCAATGAAACA
981183 AAAACAAAAA-CAATGAAAC-
1 AAAACAAAAACCAATGAAACA
981202 AAAACAAAAA
1 AAAACAAAAA
981212 AACCCCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.36
20 13 0.46
21 5 0.18
ACGTcount: A:0.78, C:0.14, G:0.04, T:0.04
Consensus pattern (21 bp):
AAAACAAAAACCAATGAAACA
Found at i:987914 original size:23 final size:20
Alignment explanation
Indices: 987876--987924 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
987866 AGGAAATTTT
*
987876 AAAAACAAAACAAAACAAACC
1 AAAAAAAAAACAAAACAAA-C
987897 AAAAAAAAAACACCAAACAAAC
1 AAAAAAAAAACA--AAACAAAC
987919 AAAAAA
1 AAAAAA
987925 GAAATTAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 11 0.44
22 7 0.28
23 7 0.28
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAACAAAACAAAC
Found at i:989211 original size:189 final size:189
Alignment explanation
Indices: 988885--989265 Score: 717
Period size: 189 Copynumber: 2.0 Consensus size: 189
988875 TACCATTGAT
*
988885 TGTAACAGTGTTAGCATTGCTCTTATTTGGAGATCCCAGCTGGTCTCGGGAAGCACTTTGGCTTC
1 TGTAACAGTGTTAGCATTGCTCTTATATGGAGATCCCAGCTGGTCTCGGGAAGCACTTTGGCTTC
988950 TACATTAATAAATATAATATTCGAGTAAAACATAATGCAAAAACAGTTTATAGGTATGCCAATTT
66 TACATTAATAAATATAATATTCGAGTAAAACATAATGCAAAAACAGTTTATAGGTATGCCAATTT
* *
989015 TAACAAAACCTTTTTGCTTAAATAAAAATGCTCCACAGAAACAAACACTCCCAACTATG
131 AAACAAAACATTTTTGCTTAAATAAAAATGCTCCACAGAAACAAACACTCCCAACTATG
989074 TGTAACAGTGTTAGCATTGCTCTTATATGGAGATCCCAGCTGGTCTCGGGAAGCACTTTGGCTTC
1 TGTAACAGTGTTAGCATTGCTCTTATATGGAGATCCCAGCTGGTCTCGGGAAGCACTTTGGCTTC
* *
989139 TACATTAATAAATATAGTATTCGAGTAAAACATAATGCAAAAACAGTTTATAGTTATGCCAATTT
66 TACATTAATAAATATAATATTCGAGTAAAACATAATGCAAAAACAGTTTATAGGTATGCCAATTT
989204 AAACAAAACATTTTTGCTTAAATAAAAATGCTCCACAGAAACAAACACTCCCAACTATG
131 AAACAAAACATTTTTGCTTAAATAAAAATGCTCCACAGAAACAAACACTCCCAACTATG
989263 TGT
1 TGT
989266 CAATTGGTAG
Statistics
Matches: 187, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
189 187 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (189 bp):
TGTAACAGTGTTAGCATTGCTCTTATATGGAGATCCCAGCTGGTCTCGGGAAGCACTTTGGCTTC
TACATTAATAAATATAATATTCGAGTAAAACATAATGCAAAAACAGTTTATAGGTATGCCAATTT
AAACAAAACATTTTTGCTTAAATAAAAATGCTCCACAGAAACAAACACTCCCAACTATG
Found at i:992709 original size:2 final size:2
Alignment explanation
Indices: 992702--992763 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
992692 AAACAGAAAA
992702 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
992744 CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT
992764 TGTAAATGTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:998954 original size:8 final size:8
Alignment explanation
Indices: 998943--999036 Score: 125
Period size: 8 Copynumber: 11.8 Consensus size: 8
998933 GCGTCCGTCC
998943 GTCCGTGT
1 GTCCGTGT
*
998951 GTCCGTGG
1 GTCCGTGT
998959 GTCCGTGT
1 GTCCGTGT
998967 GTCCGTGT
1 GTCCGTGT
*
998975 GTCCGTGG
1 GTCCGTGT
*
998983 GTCTGTGT
1 GTCCGTGT
*
998991 GTCCGTGG
1 GTCCGTGT
998999 GTCCGTGT
1 GTCCGTGT
*
999007 GTCCGTGC
1 GTCCGTGT
*
999015 GTCCGTGG
1 GTCCGTGT
*
999023 GTCCGTGC
1 GTCCGTGT
999031 GTCCGT
1 GTCCGT
999037 CCGTCACACT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 75 1.00
ACGTcount: A:0.00, C:0.27, G:0.41, T:0.32
Consensus pattern (8 bp):
GTCCGTGT
Found at i:999041 original size:8 final size:8
Alignment explanation
Indices: 998933--999041 Score: 110
Period size: 8 Copynumber: 13.6 Consensus size: 8
998923 GAAATGCCGG
998933 GCGTCCGT
1 GCGTCCGT
*
998941 CCGTCCGT
1 GCGTCCGT
*
998949 GTGTCCGT
1 GCGTCCGT
*
998957 GGGTCCGT
1 GCGTCCGT
*
998965 GTGTCCGT
1 GCGTCCGT
*
998973 GTGTCCGT
1 GCGTCCGT
* *
998981 GGGTCTGT
1 GCGTCCGT
*
998989 GTGTCCGT
1 GCGTCCGT
*
998997 GGGTCCGT
1 GCGTCCGT
*
999005 GTGTCCGT
1 GCGTCCGT
999013 GCGTCCGT
1 GCGTCCGT
*
999021 GGGTCCGT
1 GCGTCCGT
999029 GCGTCCGT
1 GCGTCCGT
*
999037 CCGTC
1 GCGTC
999042 ACACTTTTTT
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 86 1.00
ACGTcount: A:0.00, C:0.30, G:0.39, T:0.30
Consensus pattern (8 bp):
GCGTCCGT
Found at i:999041 original size:24 final size:24
Alignment explanation
Indices: 998933--999041 Score: 128
Period size: 24 Copynumber: 4.5 Consensus size: 24
998923 GAAATGCCGG
* *
998933 GCGTCCGTCCGTCCGTGTGTCCGT
1 GCGTCCGTGCGTCCGTGGGTCCGT
* * *
998957 GGGTCCGTGTGTCCGTGTGTCCGT
1 GCGTCCGTGCGTCCGTGGGTCCGT
* * *
998981 GGGTCTGTGTGTCCGTGGGTCCGT
1 GCGTCCGTGCGTCCGTGGGTCCGT
*
999005 GTGTCCGTGCGTCCGTGGGTCCGT
1 GCGTCCGTGCGTCCGTGGGTCCGT
*
999029 GCGTCCGTCCGTC
1 GCGTCCGTGCGTC
999042 ACACTTTTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 75 1.00
ACGTcount: A:0.00, C:0.30, G:0.39, T:0.30
Consensus pattern (24 bp):
GCGTCCGTGCGTCCGTGGGTCCGT
Found at i:999336 original size:172 final size:172
Alignment explanation
Indices: 999050--999846 Score: 1319
Period size: 172 Copynumber: 4.6 Consensus size: 172
999040 TCACACTTTT
999050 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* *
999115 CCACTATTACCTCGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGAGTTATGGGA
66 CCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGTGTTATGGGA
**
999180 CTTTGACTGCAATAATGACTCCGTTTTATCCAAAAATTGACC
131 CTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
999222 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* *
999287 CCACTATTACCTCGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGCGTTATGGGA
66 CCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGTGTTATGGGA
**
999352 CTTTGACTGCAATAATGACTCCGTTTTATCCAAAAATTGACC
131 CTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
*
999394 TTGTAAGCGCTCTCATGCCTACAAATTTTGACAGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* * *
999459 CCACTATTACCTTGGTCAAGTTCGAAAATCAGCGTTAGTCGATACTTTTTGTTGGTGTTATAGGA
66 CCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGTGTTATGGGA
* *
999524 CTTTGACCACAATAAAGACTCCGTTTCATCCAAAAATTGACC
131 CTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
* *
999566 TTGTAAGCGCTCTCATGTCTACAAATTTTGACAGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* * * *
999631 CCACTAATACTTTGGTCAAGTTCAAAAATCAGCATTGTTCGATACTTTTTGTTGGTGTTATGGGA
66 CCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGTGTTATGGGA
* * *
999696 -TTTGGCCACAATCATGACTCCGTTTTTTTCCAAAAATTGACC
131 CTTTGACCACAATAATGACTCCG-TTTTATCCAAAAATTGACC
999738 TTGTAAGCG-TGCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTAT
1 TTGTAAGCGCT-CTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTAT
* ** *
999802 ACCACTAATACCTTGGTCAAGTTCCTAAATCAGCCTTGGTCGATA
65 ACCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATA
999847 GACTCGATAC
Statistics
Matches: 592, Mismatches: 31, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
171 20 0.03
172 572 0.97
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (172 bp):
TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
CCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGTGTTATGGGA
CTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
Found at i:1000006 original size:33 final size:33
Alignment explanation
Indices: 999964--1000033 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
999954 TTGGATTCAT
*
999964 TTTTAAATAATTTACATGACTATCTTCTTATTG
1 TTTTAAATAATTTACATGACTATCTTCTAATTG
999997 TTTTAAATAATTTACATGACTATCTTCTAATTG
1 TTTTAAATAATTTACATGACTATCTTCTAATTG
1000030 TTTT
1 TTTT
1000034 CTGGGGTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.53
Consensus pattern (33 bp):
TTTTAAATAATTTACATGACTATCTTCTAATTG
Found at i:1001039 original size:17 final size:17
Alignment explanation
Indices: 1001019--1001052 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1001009 TATATCTGTC
1001019 AATTTTACAACATGTAA
1 AATTTTACAACATGTAA
1001036 AATTTTACAACATGTAA
1 AATTTTACAACATGTAA
1001053 TAAAGTCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (17 bp):
AATTTTACAACATGTAA
Found at i:1015822 original size:16 final size:16
Alignment explanation
Indices: 1015801--1015832 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1015791 TTTAATGACA
1015801 TTCAGGTCTTTAGTAT
1 TTCAGGTCTTTAGTAT
1015817 TTCAGGTCTTTAGTAT
1 TTCAGGTCTTTAGTAT
1015833 GTCCCGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (16 bp):
TTCAGGTCTTTAGTAT
Found at i:1019942 original size:21 final size:21
Alignment explanation
Indices: 1019903--1019952 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
1019893 TTGCATTTTG
**
1019903 ACATATTTATCTTGCATGTCA
1 ACATATTTATCTCACATGTCA
* *
1019924 ACATATTTATCTCATATGTCG
1 ACATATTTATCTCACATGTCA
1019945 ACATATTT
1 ACATATTT
1019953 CACAGAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (21 bp):
ACATATTTATCTCACATGTCA
Found at i:1021611 original size:13 final size:13
Alignment explanation
Indices: 1021593--1021624 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
1021583 TTTGAGATTT
1021593 GAAATTCAATATC
1 GAAATTCAATATC
1021606 GAAATTCAATATC
1 GAAATTCAATATC
1021619 GAAATT
1 GAAATT
1021625 AACTAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (13 bp):
GAAATTCAATATC
Found at i:1030831 original size:2 final size:2
Alignment explanation
Indices: 1030824--1030876 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
1030814 TCACAAATTT
1030824 TC TC TC TC TC TC TC TC TC T- TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1030865 TC TC TC TC TC TC
1 TC TC TC TC TC TC
1030877 GTGAACAGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1034635 original size:3 final size:3
Alignment explanation
Indices: 1034627--1034660 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1034617 CATGACATTC
*
1034627 TGT TGT TGT TG- TGT TTT TGT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TG
1034661 CATTGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TGT
Found at i:1035417 original size:5 final size:5
Alignment explanation
Indices: 1035407--1035470 Score: 50
Period size: 5 Copynumber: 13.6 Consensus size: 5
1035397 TATTTGCTGT
* *
1035407 TTTTG TTTTG TTTTG TTTTG TGTGTTG -CTTG -TTTG TTTT- TTTT- TTTGG
1 TTTTG TTTTG TTTTG TTTTG T-T-TTG TTTTG TTTTG TTTTG TTTTG TTTTG
1035455 TTTT- TTTTG -TTTG TTT
1 TTTTG TTTTG TTTTG TTT
1035471 GGTTATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
4 21 0.43
5 24 0.49
6 1 0.02
7 3 0.06
ACGTcount: A:0.00, C:0.02, G:0.20, T:0.78
Consensus pattern (5 bp):
TTTTG
Found at i:1035470 original size:13 final size:13
Alignment explanation
Indices: 1035435--1035470 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1035425 TGTGTGTTGC
1035435 TTGTTTGTTTTTT
1 TTGTTTGTTTTTT
1035448 TT-TTTGGTTTTTT
1 TTGTTT-GTTTTTT
1035461 TTGTTTGTTT
1 TTGTTTGTTT
1035471 GGTTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 3 0.14
13 15 0.71
14 3 0.14
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (13 bp):
TTGTTTGTTTTTT
Found at i:1035483 original size:37 final size:37
Alignment explanation
Indices: 1035406--1035483 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
1035396 GTATTTGCTG
*
1035406 TTTTTGTTTTGTTTTGTTTTGTGTGTTGCTTGTTTGT
1 TTTTTGTTTTGTTTTGTTTTGTGTGTTGCTTATTTGT
* * *
1035443 TTTTTTTTTTGGTTTT-TTTTGTTTGTTTGGTTATTT-T
1 TTTTTGTTTT-GTTTTGTTTTGTGTG-TTGCTTATTTGT
1035480 TTTT
1 TTTT
1035484 CGGGGGGGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
37 22 0.63
38 13 0.37
ACGTcount: A:0.01, C:0.01, G:0.19, T:0.78
Consensus pattern (37 bp):
TTTTTGTTTTGTTTTGTTTTGTGTGTTGCTTATTTGT
Found at i:1037154 original size:8 final size:8
Alignment explanation
Indices: 1037133--1037194 Score: 63
Period size: 8 Copynumber: 7.4 Consensus size: 8
1037123 GATCACCTTT
1037133 TGTCCGTC
1 TGTCCGTC
1037141 -GTCCGTC
1 TGTCCGTC
1037148 TGTCCGTC
1 TGTCCGTC
*
1037156 CGTCCGTC
1 TGTCCGTC
1037164 TGTCTGTCTGTC
1 TGTC---C-GTC
*
1037176 TGTCCATC
1 TGTCCGTC
1037184 TGTCCGTC
1 TGTCCGTC
1037192 TGT
1 TGT
1037195 AAACCTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
7 7 0.16
8 29 0.64
9 1 0.02
11 1 0.02
12 7 0.16
ACGTcount: A:0.02, C:0.35, G:0.24, T:0.39
Consensus pattern (8 bp):
TGTCCGTC
Found at i:1037157 original size:12 final size:12
Alignment explanation
Indices: 1037140--1037191 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
1037130 TTTTGTCCGT
1037140 CGTCCGTCTGTC
1 CGTCCGTCTGTC
*
1037152 CGTCCGTCCGTC
1 CGTCCGTCTGTC
* *
1037164 TGTCTGTCTGTC
1 CGTCCGTCTGTC
* *
1037176 TGTCCATCTGTC
1 CGTCCGTCTGTC
1037188 CGTC
1 CGTC
1037192 TGTAAACCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.02, C:0.38, G:0.23, T:0.37
Consensus pattern (12 bp):
CGTCCGTCTGTC
Found at i:1043776 original size:15 final size:17
Alignment explanation
Indices: 1043744--1043777 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
1043734 ATTAATTAAT
1043744 TATTTAAATAGTGAATA
1 TATTTAAATAGTGAATA
1043761 TATTT-AATAG-GAATA
1 TATTTAAATAGTGAATA
1043776 TA
1 TA
1043778 CTTGGATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 5 0.29
17 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (17 bp):
TATTTAAATAGTGAATA
Found at i:1045104 original size:9 final size:9
Alignment explanation
Indices: 1045078--1045113 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
1045068 TCTTGAAACG
*
1045078 AAAAACTAC
1 AAAATCTAC
1045087 AATAATCTAC
1 AA-AATCTAC
1045097 AAAATCTAC
1 AAAATCTAC
1045106 AAAATCTA
1 AAAATCTA
1045114 GCATTTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAATCTAC
Found at i:1045111 original size:18 final size:19
Alignment explanation
Indices: 1045078--1045113 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1045068 TCTTGAAACG
1045078 AAAAACTACAATAATCTAC
1 AAAAACTACAATAATCTAC
*
1045097 AAAATCTACAA-AATCTA
1 AAAAACTACAATAATCTA
1045114 GCATTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAACTACAATAATCTAC
Found at i:1045909 original size:16 final size:17
Alignment explanation
Indices: 1045888--1045920 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1045878 CAAGTACCTT
1045888 TAAATTG-CGAAAATTC
1 TAAATTGTCGAAAATTC
*
1045904 TAAATTGTGGAAAATTC
1 TAAATTGTCGAAAATTC
1045921 GAAACTGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.33
Consensus pattern (17 bp):
TAAATTGTCGAAAATTC
Found at i:1045929 original size:17 final size:17
Alignment explanation
Indices: 1045896--1045929 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1045886 TTTAAATTGC
* *
1045896 GAAAATTCTAAATTGTG
1 GAAAATTCGAAACTGTG
1045913 GAAAATTCGAAACTGTG
1 GAAAATTCGAAACTGTG
1045930 ACCCCCTAGA
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:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (17 bp):
GAAAATTCGAAACTGTG
Found at i:1057771 original size:32 final size:32
Alignment explanation
Indices: 1057726--1057842 Score: 182
Period size: 32 Copynumber: 3.7 Consensus size: 32
1057716 GTTATCTTTC
*
1057726 TAGA-AATTTTGTCAACATGCAGGATACGAGA
1 TAGATAATTATGTCAACATGCAGGATACGAGA
*
1057757 TAGATAATTTTGTCAACATGCAGGATACGAGA
1 TAGATAATTATGTCAACATGCAGGATACGAGA
* *
1057789 TAGATAATTATGTCTACATGCAGGAAACGAGA
1 TAGATAATTATGTCAACATGCAGGATACGAGA
*
1057821 TAGAAAATTATGTCAACATGCA
1 TAGATAATTATGTCAACATGCA
1057843 AAATAATAAC
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 4 0.05
32 76 0.95
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (32 bp):
TAGATAATTATGTCAACATGCAGGATACGAGA
Found at i:1059228 original size:14 final size:14
Alignment explanation
Indices: 1059209--1059241 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
1059199 GGTAACGTTA
1059209 GCTACTAGTAACTG
1 GCTACTAGTAACTG
1059223 GCTACTAGTAACTG
1 GCTACTAGTAACTG
1059237 GCTAC
1 GCTAC
1059242 CAGAAGTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (14 bp):
GCTACTAGTAACTG
Found at i:1059275 original size:37 final size:37
Alignment explanation
Indices: 1059223--1059365 Score: 182
Period size: 37 Copynumber: 3.9 Consensus size: 37
1059213 CTAGTAACTG
*
1059223 GCTACTAGTAACTGGCTACCAGAAGTAAGAAAAGCTA
1 GCTACTAGTAACTGGCTACGAGAAGTAAGAAAAGCTA
* * ** *
1059260 GTTACTAGTAACTGGCTACGAG-ATTAA-ATAAATATTG
1 GCTACTAGTAACTGGCTACGAGAAGTAAGA-AAA-GCTA
1059297 GCTACTAGTAACTGGCTACGAGAAGTAAGAAAAGCTA
1 GCTACTAGTAACTGGCTACGAGAAGTAAGAAAAGCTA
* *
1059334 GCTACTAGTAACTGGCTACGAGATGAAAGAAA
1 GCTACTAGTAACTGGCTACGAGAAGTAAGAAA
1059366 CTTGGCTTCT
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
35 1 0.01
36 7 0.08
37 73 0.82
38 7 0.08
39 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.22
Consensus pattern (37 bp):
GCTACTAGTAACTGGCTACGAGAAGTAAGAAAAGCTA
Found at i:1060674 original size:167 final size:166
Alignment explanation
Indices: 1060047--1060866 Score: 959
Period size: 166 Copynumber: 4.9 Consensus size: 166
1060037 CTTTAAAAAG
* * * * * *
1060047 AAGATTTTTTCTATATATTCCTAAGTAAAAATTTATCCCC-CATTGTGGCCTCACCCTACCCCCC
1 AAGATTTTCTCTATATATTCCTATGTAAAAATTGATCCCCAAATTGTGGCCCCACCCTACCCCCG
* * ** * * *
1060111 GGGACCATGATTTGAACAAACTTGAATGTACATTATTTGAGGATGGTTACACGCCAATTTGAGCT
66 GGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCACTCCAATTTGAGCT
* * * ** *
1060176 TTCTTGGCCAAATAGTTTTT-AAAAGATATTTTTTTT
131 TTCCTGGCCTAATAGTTTTTGAGAAGA-AGATTTTTA
* ** *
1060212 AAGATTTTTTCTATATATTCCTATGTAAAAATTGATCCAAAAATTGTCGCCCCA-CCTACCCCCG
1 AAGATTTTCTCTATATATTCCTATGTAAAAATTGATCCCCAAATTGTGGCCCCACCCTACCCCCG
* * * * * *
1060276 GGAACCATGATTTGAACAAACTTTAATCTACACTACATAAGGATGCTTCCATTTCAATTTGAGCT
66 GGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCACTCCAATTTGAGCT
* * *
1060341 TTTCTGGCCTAA-AGGTTTTTGAGAGGAAGATTTTTT
131 TTCCTGGCCTAATA-GTTTTTGAGAAGAAGATTTTTA
* ** *
1060377 AATATTTTCTCTATATATTCCTATGTAAAACA-TGATCCCCCTATTGTGGCCCCACCCTTCCCCC
1 AAGATTTTCTCTATATATTCCTATGTAAAA-ATTGATCCCCAAATTGTGGCCCCACCCTACCCCC
* * * * *
1060441 GGGGACCATGAATTGAACAAATTTGAATCTACACTATCTGAGGATGCTTCCACTCGAAGTTGAGC
65 GGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCACTCCAATTTGAGC
*
1060506 TTTCCTGGCCTAATAGATTTTGAGAAGAAGATTTTTA
130 TTTCCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTA
*
1060543 AAGATATTCTCTATATATTCCTATGTAAAAATTGATCCCCAAAATTGTGGCCCCACCCTACCCCC
1 AAGATTTTCTCTATATATTCCTATGTAAAAATTGATCCCC-AAATTGTGGCCCCACCCTACCCCC
* * * * **
1060608 GGGGACCATGATTTGAACAAACTTAAATCTACACTACCTGATGATGCTCCCATTTTAATTTGAGC
65 GGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCACTCCAATTTGAGC
* * * *
1060673 TTTTCTGGCCTTATAGTTTTTGAGAAGAAAATTTTCA
130 TTTCCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTA
* *
1060710 AAGATGTTCTCTATATATTCCTATGTAAAAATTGATCCCCCAATTGTGGCCCCACCCTACCCCCG
1 AAGATTTTCTCTATATATTCCTATGTAAAAATTGATCCCCAAATTGTGGCCCCACCCTACCCCCG
* * * * * * * *
1060775 GGGACCATGAGTTGAATAAACCTGAATTTACACTACCTGATGATGCCTCCAC-ACAAGTTTAAGC
66 GGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCACTCCAA-TTTGAGC
* * *
1060839 TTTTCAGGCCGAATAGTTTTTGAGAAGA
130 TTTCCTGGCCTAATAGTTTTTGAGAAGA
1060867 TTTTTGAAAA
Statistics
Matches: 560, Mismatches: 86, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
164 1 0.00
165 168 0.30
166 243 0.43
167 148 0.26
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (166 bp):
AAGATTTTCTCTATATATTCCTATGTAAAAATTGATCCCCAAATTGTGGCCCCACCCTACCCCCG
GGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCACTCCAATTTGAGCT
TTCCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTA
Found at i:1060722 original size:333 final size:329
Alignment explanation
Indices: 1060056--1060867 Score: 1045
Period size: 333 Copynumber: 2.4 Consensus size: 329
1060046 GAAGATTTTT
* * * *
1060056 TCTATATATTCCTAAGTAAAAATTTATCCCCCATTGTGGCCTCACCCTACCCCCCGGGACCATGA
1 TCTATATATTCCTATGTAAAAATTGATCCCCCATTGTGGCCCCACCCTACCCCCGGGGACCATGA
* * * * * * * * *
1060121 TTTGAACAAACTTGAATGTACATTATTTGAGGATGGTTACACGCCAATTTGAGCTTTCTTGGCCA
66 ATTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCCAC-ACAAGTTGAGCTTTCCTGGCCA
* * ** * * *
1060186 AATAGTTTTTAAAAGATATTTTTTTTAAGATTTTTTCTATATATTCCTATGTAAAAATTGATCCA
130 AATAGTTTTGAGAAGATAGATTTTTAAAGATATTCTCTATATATTCCTATGTAAAAATTGATCCA
*
1060251 AAAATTGTCGCCCCACCTACCCCCGGGAACCATGATTTGAACAAACTTTAATCTACACTACATAA
195 AAAATTGTCGCCCCACCTACCCCCGGGAACCATGATTTGAACAAACTTAAATCTACACTACATAA
* * * ** *
1060316 GGATGCTTCCATTTCAATTTGAGCTTTTCTGGCCTAAAGGTTTTTGAGAGGAAGATTTTTTAATA
260 GGATGCTCCCATTTCAATTTGAGCTTTTCTGGCCTAAAGGTTTTTGAGAAGAAAATTTTCAAAGA
*
1060381 TTTTC
325 TGTTC
*
1060386 TCTATATATTCCTATGTAAAACA-TGATCCCCCTATTGTGGCCCCACCCTTCCCCCGGGGACCAT
1 TCTATATATTCCTATGTAAAA-ATTGATCCCCC-ATTGTGGCCCCACCCTACCCCCGGGGACCAT
* *
1060450 GAATTGAACAAATTTGAATCTACACTATCTGAGGATGCTTCCACTCGAAGTTGAGCTTTCCTGGC
64 GAATTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCCACAC-AAGTTGAGCTTTCCTGGC
*
1060515 CTAATAGATTTTGAGAAGA-AGATTTTTAAAGATATTCTCTATATATTCCTATGTAAAAATTGAT
128 CAAATAG-TTTTGAGAAGATAGATTTTTAAAGATATTCTCTATATATTCCTATGTAAAAATTGAT
* * *
1060579 CCCCAAAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTAAATCTACACTA
192 -CCAAAAATTGTCGCCCCA-CCTACCCCCGGGAACCATGATTTGAACAAACTTAAATCTACACTA
* * * * *
1060644 CCTGATGATGCTCCCATTTTAATTTGAGCTTTTCTGGCCTTATA-GTTTTTGAGAAGAAAATTTT
255 CATAAGGATGCTCCCATTTCAATTTGAGCTTTTCTGGCC-TAAAGGTTTTTGAGAAGAAAATTTT
1060708 CAAAGATGTTC
319 CAAAGATGTTC
1060719 TCTATATATTCCTATGTAAAAATTGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATG
1 TCTATATATTCCTATGTAAAAATTGATCCCCC-ATTGTGGCCCCACCCTACCCCCGGGGACCATG
* * * * * * * * * *
1060784 AGTTGAATAAACCTGAATTTACACTACCTGATGATGCCTCCACACAAGTTTAAGCTTTTCAGGCC
65 AATTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCCACACAAG-TTGAGCTTTCCTGGCC
*
1060849 GAATAGTTTTTGAGAAGAT
129 AAATAG-TTTTGAGAAGAT
1060868 TTTTGAAAAA
Statistics
Matches: 417, Mismatches: 55, Indels: 16
0.85 0.11 0.03
Matches are distributed among these distances:
330 29 0.07
331 128 0.31
332 29 0.07
333 228 0.55
334 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (329 bp):
TCTATATATTCCTATGTAAAAATTGATCCCCCATTGTGGCCCCACCCTACCCCCGGGGACCATGA
ATTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCCACACAAGTTGAGCTTTCCTGGCCAA
ATAGTTTTGAGAAGATAGATTTTTAAAGATATTCTCTATATATTCCTATGTAAAAATTGATCCAA
AAATTGTCGCCCCACCTACCCCCGGGAACCATGATTTGAACAAACTTAAATCTACACTACATAAG
GATGCTCCCATTTCAATTTGAGCTTTTCTGGCCTAAAGGTTTTTGAGAAGAAAATTTTCAAAGAT
GTTC
Found at i:1061055 original size:9 final size:9
Alignment explanation
Indices: 1061041--1061086 Score: 56
Period size: 9 Copynumber: 4.7 Consensus size: 9
1061031 TGAAAAGTTT
1061041 ACAACGACG
1 ACAACGACG
1061050 ACAACGACGACG
1 AC-A--ACGACG
1061062 ACAACGACG
1 ACAACGACG
1061071 ACAACGACAG
1 ACAACGAC-G
1061081 ACAACG
1 ACAACG
1061087 GACAAATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 16 0.48
10 8 0.24
11 1 0.03
12 8 0.24
ACGTcount: A:0.46, C:0.33, G:0.22, T:0.00
Consensus pattern (9 bp):
ACAACGACG
Found at i:1061061 original size:12 final size:12
Alignment explanation
Indices: 1061044--1061072 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1061034 AAAGTTTACA
1061044 ACGACGACAACG
1 ACGACGACAACG
1061056 ACGACGACAACG
1 ACGACGACAACG
1061068 ACGAC
1 ACGAC
1061073 AACGACAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.34, G:0.24, T:0.00
Consensus pattern (12 bp):
ACGACGACAACG
Found at i:1061479 original size:48 final size:48
Alignment explanation
Indices: 1061404--1062400 Score: 1341
Period size: 48 Copynumber: 20.9 Consensus size: 48
1061394 TTAAAATGCA
* * *
1061404 ATGATTAGACC-GATATTCTTGGACTGTACTCACTCCTCTGACAGTGCT
1 ATGATTGGACCAG-TATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
* * * *
1061452 CTGATTGGTCCAGTATTCTTGGTCTGTACTCACCCCTCTGACAATGCC
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
* *
1061500 ATGATTGGACCAGTATTCTTGGTCTGTATTCACCCCTCTGACAGTGAT
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
* * * *
1061548 GTGATTAGACCAGTATTCCTT-GTCTGTACTCACCTCTCTGACAATGCT
1 ATGATTGGACCAGTATT-CTTGGTCTGTACTCACCCCTCTGACAGTGCT
* * * *
1061596 ATGATTGGATCAGTAATCTTGGACCG-ACTCACCCCTCTGACAGTGCT
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
* *
1061643 ATGATTGAACCAGTATGT-TTGGTCTGTACTCACCCCTCTGACAATGCT
1 ATGATTGGACCAGTAT-TCTTGGTCTGTACTCACCCCTCTGACAGTGCT
* ** *
1061691 ATGATTGGATCAGTATTCTTATTCTGTATTCACCCCTCTGACAGTGCT
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
* * *
1061739 ATGATTAGATCAGTATTTTTGG-CTTGTACTCACCCCTCTGACAGTGCT
1 ATGATTGGACCAGTATTCTTGGTC-TGTACTCACCCCTCTGACAGTGCT
* * **
1061787 ATGATTAGACCAGTATTCTTGGTCTGTACTCA-CCCTCAGACAACGCT
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
* *
1061834 TTGATTGGACCAGTATTCTTGGAT-TGTACTCACCCCTCTGACAATGC-
1 ATGATTGGACCAGTATTCTTGG-TCTGTACTCACCCCTCTGACAGTGCT
* * *
1061881 -TGATTGGATCAGTATTCTTGG-CTTGTACTTACCCCTCTGACAGTGTT
1 ATGATTGGACCAGTATTCTTGGTC-TGTACTCACCCCTCTGACAGTGCT
* * *
1061928 ATGATTGGATCAGTATTCTTGGTCTGTACTCACCCCTCTAACAGTACT
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
* *
1061976 ATAATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTACT
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
*
1062024 ATGATTGGATCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
*
1062072 ATGATTCGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
* *
1062120 ATGATTAGACCAGTATTATTGGTCTGTACTCACCCCTCTGACAGTGCT
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
* * * *
1062168 ATGATTAGACCAGTAGTCCTT-GTCCGTACTCACCCCTCTGACAATGCT
1 ATGATTGGACCAGTA-TTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
* * *
1062216 ATGATTGGATCAGTATTCTTGGTTTGTACTCACCCCTCTGACAGTGTT
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
* * *
1062264 ATGATTGGATCAGTATTCTTGGTCTGTACTCACCCCTCTAACAGTACT
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
*
1062312 ATAATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
* *
1062360 ATGATTGGATCAGTATTATTGGTCTGTACTCACCCCTCTGA
1 ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGA
1062401 AATGCTTTTA
Statistics
Matches: 839, Mismatches: 93, Indels: 34
0.87 0.10 0.04
Matches are distributed among these distances:
46 40 0.05
47 87 0.10
48 703 0.84
49 9 0.01
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (48 bp):
ATGATTGGACCAGTATTCTTGGTCTGTACTCACCCCTCTGACAGTGCT
Found at i:1065939 original size:39 final size:39
Alignment explanation
Indices: 1065891--1066289 Score: 465
Period size: 39 Copynumber: 10.2 Consensus size: 39
1065881 TATTGGACCT
* * ** *
1065891 TTGATATTATAACCCTGTACAAGTATTTGGATGGGTACA
1 TTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACA
** *
1065930 TTGGCATTATAGCCCTCTACAAGTATTTGGATAGTTACA
1 TTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACA
* ** * ** *
1065969 ATGGCATTATAGCCCTGTACAAGTATTTGGATGGGTACA
1 TTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACA
* * **
1066008 TTGATATCATAGCCCTCTTCAAGTATTAAGACAGTTACA
1 TTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACA
* *
1066047 TCGATATTATAGCCCTCTACAAGTATTAGGACAGTTACA
1 TTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACA
* * *
1066086 TTAATATTATAGCCCTCTACAACTATTTGGTCAGTTACA
1 TTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACA
* * *
1066125 TTGATATCATAGCCCTCTACAAGTATTTGGACAGGTAAA
1 TTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACA
* * * * *
1066164 TTGATATTGTAGCCATCTACAGGTATTTGGACGGGTACA
1 TTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACA
* *
1066203 TTGAGATTATAGCCCTCTACAAGTATTTGGACGGTTACA
1 TTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACA
* *
1066242 TTGATATTATAGCCCTCTACAAATATTAGGACAGTTACA
1 TTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACA
1066281 TTGTATATT
1 TTG-ATATT
1066290 GCACACGTAC
Statistics
Matches: 308, Mismatches: 51, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
39 303 0.98
40 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (39 bp):
TTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACA
Found at i:1066591 original size:40 final size:39
Alignment explanation
Indices: 1066511--1066648 Score: 195
Period size: 39 Copynumber: 3.5 Consensus size: 39
1066501 ATGATTTCAC
* * *
1066511 AGTATTTAGACAGTTACATTGATATTATAGCCCTCCACA
1 AGTATTAAGACAGTTACATTTATATTATAGCCCTCTACA
** *
1066550 AGTATTTGGACAGTTACATTTATATTTATAACCCTCTACA
1 AGTATTAAGACAGTTACATTTATA-TTATAGCCCTCTACA
*
1066590 AGTAATAAGACAGTTACATTTATATTATAGCCCTCTACA
1 AGTATTAAGACAGTTACATTTATATTATAGCCCTCTACA
*
1066629 AGTATTAGGACAGTTACATT
1 AGTATTAAGACAGTTACATT
1066649 GTACATTGCA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 54 0.61
40 34 0.39
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (39 bp):
AGTATTAAGACAGTTACATTTATATTATAGCCCTCTACA
Found at i:1066816 original size:364 final size:366
Alignment explanation
Indices: 1066146--1067008 Score: 1408
Period size: 364 Copynumber: 2.4 Consensus size: 366
1066136 GCCCTCTACA
* * * * * * * * * *
1066146 AGTATTTGGACAGGTAAATTGATATTGTAGCCATCTACAGGTATTTGGACGGGTACATTGAGA-T
1 AGTATTTAGACAGTTACATTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACATTTATATT
* ** * *
1066210 TATAGCCCTCTACAAGTATTTGGACGGTTACATTGATATTATAGCCCTCTACAAATATTAGGACA
66 TATAACCCTCTACAAGTATTAAGACAGTTACATTGATATTATAGCCCTCTACAAGTATTAGGACA
* **
1066275 GTTACATTGTATATTGCACACGTACTGTAGAATCATTAAAATACGTGGGGGCCAATTTTCATGGA
131 GTTACATTGTACATTGCACAAATACTGTAGAATCATTAAAATACGTGGGGGCCAATTTTCATGGA
1066340 TTGCTTTAAATTTTACAGGTTAGTGGGGACGTAATTTCGTGTATTATCTTATATCTTCAAAAGAA
196 TTGCTTTAAATTTTACAGGTTAGTGGGGACGTAATTTCGTGTATTATCTTATATCTTCAAAAGAA
* *
1066405 TATATGACAATAACCCCAATTAATTAATGGAGGATGTTAATTCGTGGATGAGAGGTACCAACGAA
261 TATATGACAATAACCCCAATTAATTAATGGAAGATGTTAATTCGTGGATAAGAGGTACCAACGAA
1066470 TTCCACGAAAATTGAGCCACCACGAAATCTAATGATTTCAC
326 TTCCACGAAAATTGAGCCACCACGAAATCTAATGATTTCAC
*
1066511 AGTATTTAGACAGTTACATTGATATTATAGCCCTCCACAAGTATTTGGACAGTTACATTTATATT
1 AGTATTTAGACAGTTACATTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACATTTATATT
* *
1066576 TATAACCCTCTACAAGTAATAAGACAGTTACATTTATATTATAGCCCTCTACAAGTATTAGGACA
66 TATAACCCTCTACAAGTATTAAGACAGTTACATTGATATTATAGCCCTCTACAAGTATTAGGACA
*
1066641 GTTACATTGTACATTGCACAAATACTGTAGAATCATTAAAATACGT-GGGGCCAATTTTCGTGGA
131 GTTACATTGTACATTGCACAAATACTGTAGAATCATTAAAATACGTGGGGGCCAATTTTCATGGA
*
1066705 TTGC-TTAAATTTTACTGGTTAGTGGGGACGTAATTTCGTGTATTATCTTATATCTTCAAAAGAA
196 TTGCTTTAAATTTTACAGGTTAGTGGGGACGTAATTTCGTGTATTATCTTATATCTTCAAAAGAA
* * * *
1066769 TATATGACAATAGCCCCAATTTATTAATGGAAGATGTTCATTCGTGGATAAGAGGTACCCACGAA
261 TATATGACAATAACCCCAATTAATTAATGGAAGATGTTAATTCGTGGATAAGAGGTACCAACGAA
1066834 TTCCACGAAAATTGAGCCACCACGAAATCTAATGATTTCAC
326 TTCCACGAAAATTGAGCCACCACGAAATCTAATGATTTCAC
* * *
1066875 AGTATTTAAACGGTTACATTGATATTATAGCCCTCTACTAGTATTTGGACAGTTACATTTATATT
1 AGTATTTAGACAGTTACATTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACATTTATATT
*
1066940 TATAACCCTCTACAAGTATTAAGACAGTTACATTGATATTATAACCCTCTACAAGTATTAGGACA
66 TATAACCCTCTACAAGTATTAAGACAGTTACATTGATATTATAGCCCTCTACAAGTATTAGGACA
1067005 GTTA
131 GTTA
1067009 AATTAATATT
Statistics
Matches: 461, Mismatches: 36, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
364 286 0.62
365 73 0.16
366 102 0.22
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (366 bp):
AGTATTTAGACAGTTACATTGATATTATAGCCCTCTACAAGTATTTGGACAGTTACATTTATATT
TATAACCCTCTACAAGTATTAAGACAGTTACATTGATATTATAGCCCTCTACAAGTATTAGGACA
GTTACATTGTACATTGCACAAATACTGTAGAATCATTAAAATACGTGGGGGCCAATTTTCATGGA
TTGCTTTAAATTTTACAGGTTAGTGGGGACGTAATTTCGTGTATTATCTTATATCTTCAAAAGAA
TATATGACAATAACCCCAATTAATTAATGGAAGATGTTAATTCGTGGATAAGAGGTACCAACGAA
TTCCACGAAAATTGAGCCACCACGAAATCTAATGATTTCAC
Found at i:1066930 original size:39 final size:39
Alignment explanation
Indices: 1066887--1067331 Score: 550
Period size: 39 Copynumber: 11.4 Consensus size: 39
1066877 TATTTAAACG
*
1066887 GTTACATTGATATTATAGCCCTCTACTAGTATTTGGACA
1 GTTACATTGATATTATAGCCCTCTACAAGTATTTGGACA
* * **
1066926 GTTACATTTATATTTATAACCCTCTACAAGTATTAAGACA
1 GTTACATTGATA-TTATAGCCCTCTACAAGTATTTGGACA
* *
1066966 GTTACATTGATATTATAACCCTCTACAAGTATTAGGACA
1 GTTACATTGATATTATAGCCCTCTACAAGTATTTGGACA
* * * *
1067005 GTTAAATTAATATTATAGCCCTCTCCAAGTATTTAGACA
1 GTTACATTGATATTATAGCCCTCTACAAGTATTTGGACA
* *
1067044 ATTACATTGATATTATAGCCCTCTACAAGTATTTGGACG
1 GTTACATTGATATTATAGCCCTCTACAAGTATTTGGACA
* * * *
1067083 GGTACATTGAAATTATAGCCCTCTACAAGTATATGGGCA
1 GTTACATTGATATTATAGCCCTCTACAAGTATTTGGACA
* * **
1067122 GTTATATTGATATTATATCAATCTACAAGTATTTGGACA
1 GTTACATTGATATTATAGCCCTCTACAAGTATTTGGACA
* *
1067161 GTCT-CATTGATAGTATAGCCCTCTACAAGTATTTGGACG
1 GT-TACATTGATATTATAGCCCTCTACAAGTATTTGGACA
* * *
1067200 GGTACATTGATATTATAGCACTCTACAAGTATTTGGAAA
1 GTTACATTGATATTATAGCCCTCTACAAGTATTTGGACA
* *
1067239 GTTTCATTGATATTATAGCCCTCTACAATTATTTGGACA
1 GTTACATTGATATTATAGCCCTCTACAAGTATTTGGACA
* * * * **
1067278 GGTAAATTGATATTGTAGCCCTGTACAAGTATAAGGACA
1 GTTACATTGATATTATAGCCCTCTACAAGTATTTGGACA
1067317 GTTACATTGTATATT
1 GTTACATTG-ATATT
1067332 GCACACGTAC
Statistics
Matches: 343, Mismatches: 59, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
38 1 0.00
39 302 0.88
40 40 0.12
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (39 bp):
GTTACATTGATATTATAGCCCTCTACAAGTATTTGGACA
Found at i:1067610 original size:39 final size:39
Alignment explanation
Indices: 1067554--1067810 Score: 266
Period size: 39 Copynumber: 6.6 Consensus size: 39
1067544 ATGATTTCAC
*
1067554 AGTATTTAGACAGTTACATTGATATTATAGCCCTCTACA
1 AGTATTTGGACAGTTACATTGATATTATAGCCCTCTACA
* * * *
1067593 AATATTTGGACAGTTACATTTATATTTATAACCTTCTACA
1 AGTATTTGGACAGTTACATTGATA-TTATAGCCCTCTACA
* *
1067633 AGTATTAGGACAGTTA-ATTTGATATTATAGCCCTATACA
1 AGTATTTGGACAGTTACA-TTGATATTATAGCCCTCTACA
*
1067672 TGTATTTGGACAGTTACATTGATATTATAGCCCTCTACA
1 AGTATTTGGACAGTTACATTGATATTATAGCCCTCTACA
*** * * *
1067711 AGTATTTGGGTGGGTATATTGATATTATAGCCATCTACA
1 AGTATTTGGACAGTTACATTGATATTATAGCCCTCTACA
* *** * * * *
1067750 AGTAATTGGGTGGGTATATTAATATCATAGCCCTCTACA
1 AGTATTTGGACAGTTACATTGATATTATAGCCCTCTACA
*
1067789 AGTATCTAGG-CAGTTACATTGA
1 AGTAT-TTGGACAGTTACATTGA
1067811 CATAGTATTT
Statistics
Matches: 182, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 146 0.80
40 36 0.20
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (39 bp):
AGTATTTGGACAGTTACATTGATATTATAGCCCTCTACA
Found at i:1067988 original size:25 final size:25
Alignment explanation
Indices: 1067803--1067985 Score: 312
Period size: 25 Copynumber: 7.3 Consensus size: 25
1067793 TCTAGGCAGT
1067803 TACATTGACATAGTATTTGGACGGG
1 TACATTGACATAGTATTTGGACGGG
* *
1067828 TATATTGATATAGTATTTGGACGGG
1 TACATTGACATAGTATTTGGACGGG
1067853 TACATTGACATAGTATTTGGACGGG
1 TACATTGACATAGTATTTGGACGGG
1067878 TACATTGACATAGTATTTGGACGGG
1 TACATTGACATAGTATTTGGACGGG
*
1067903 TACATTGATATAGTATTTGGACGGG
1 TACATTGACATAGTATTTGGACGGG
*
1067928 TACATTGACATAGTATTTTGACGGG
1 TACATTGACATAGTATTTGGACGGG
* *
1067953 TACATTGATATAGTTTTTGGACGGG
1 TACATTGACATAGTATTTGGACGGG
1067978 TACATTGA
1 TACATTGA
1067986 TATTATAGCT
Statistics
Matches: 148, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 148 1.00
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.36
Consensus pattern (25 bp):
TACATTGACATAGTATTTGGACGGG
Done.