Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 55 of 172
Found at i:17943507 original size:41 final size:42
Alignment explanation
Indices: 17943455--17943650 Score: 157
Period size: 41 Copynumber: 4.7 Consensus size: 42
17943445 TTTCGACATG
*
17943455 TGATTACGTGTAAGGCCATGTCTGGGACATCGGCATCGTATT
1 TGATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
* * * * * *
17943497 TGATT-TGTGTAAGACCACGT-TAGGGACGTTGGCATAGATATG
1 TGATTACGTGTAAGACCATGTCT-GGGACATCGGCATCG-TATT
* * *
17943539 TGATTACGTGTAAGACCATGTCTAGGACATCAGCGTCGTATT
1 TGATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
* * * * * *
17943581 TGATT-CATGTAAGACCCTATTTGGGACAGT-AGCATCGATATG
1 TGATTACGTGTAAGACCATGTCTGGGACA-TCGGCATCG-TATT
* * *
17943623 TGATTACATGTAAGACCACGTTTGGGAC
1 TGATTACGTGTAAGACCATGTCTGGGAC
17943651 GTTGGCATTG
Statistics
Matches: 121, Mismatches: 26, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
40 1 0.01
41 48 0.40
42 30 0.25
43 41 0.34
44 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (42 bp):
TGATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
Found at i:17943555 original size:43 final size:42
Alignment explanation
Indices: 17943452--17943658 Score: 147
Period size: 43 Copynumber: 4.9 Consensus size: 42
17943442 TATTTTCGAC
* * * *
17943452 ATGTGATTACGTGTAAGGCCATGTCT-GGGACATCGGCATCGT
1 ATGTGATTACGTGTAAGACCACGT-TAGGGACGTTGGCATCGT
* * *
17943494 ATTTGATT-TGTGTAAGACCACGTTAGGGACGTTGGCATAGAT
1 ATGTGATTACGTGTAAGACCACGTTAGGGACGTTGGCATCG-T
* * ** *
17943536 ATGTGATTACGTGTAAGACCATGTCTA-GGACATCAGCGTCGT
1 ATGTGATTACGTGTAAGACCACGT-TAGGGACGTTGGCATCGT
* * * * *
17943578 ATTTGATT-CATGTAAGACC-CTATTTGGGACAG-TAGCATCGAT
1 ATGTGATTACGTGTAAGACCAC-GTTAGGGAC-GTTGGCATCG-T
* *
17943620 ATGTGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 ATGTGATTACGTGTAAGACCACGTTAGGGACGTTGGCAT
17943659 TGTACGATAT
Statistics
Matches: 128, Mismatches: 26, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
40 2 0.02
41 45 0.35
42 32 0.25
43 46 0.36
44 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (42 bp):
ATGTGATTACGTGTAAGACCACGTTAGGGACGTTGGCATCGT
Found at i:17943593 original size:84 final size:84
Alignment explanation
Indices: 17943452--17943640 Score: 247
Period size: 84 Copynumber: 2.2 Consensus size: 84
17943442 TATTTTCGAC
* * * ** *
17943452 ATGTGATTACGTGTAAGGCCATGTCTGGGACATCGGCATCGTATTTGATTTGTGTAAGACCAC-G
1 ATGTGATTACGTGTAAGACCATGTCTAGGACATCAGCATCGTATTTGATTCATGTAAGACC-CTA
*
17943516 TTAGGGAC-GTTGGCATAGAT
65 TTAGGGACAG-TAGCATAGAT
*
17943536 ATGTGATTACGTGTAAGACCATGTCTAGGACATCAGCGTCGTATTTGATTCATGTAAGACCCTAT
1 ATGTGATTACGTGTAAGACCATGTCTAGGACATCAGCATCGTATTTGATTCATGTAAGACCCTAT
* *
17943601 TTGGGACAGTAGCATCGAT
66 TAGGGACAGTAGCATAGAT
*
17943620 ATGTGATTACATGTAAGACCA
1 ATGTGATTACGTGTAAGACCA
17943641 CGTTTGGGAC
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
83 1 0.01
84 90 0.98
85 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (84 bp):
ATGTGATTACGTGTAAGACCATGTCTAGGACATCAGCATCGTATTTGATTCATGTAAGACCCTAT
TAGGGACAGTAGCATAGAT
Found at i:17943751 original size:56 final size:56
Alignment explanation
Indices: 17943663--17943910 Score: 361
Period size: 56 Copynumber: 4.4 Consensus size: 56
17943653 TGGCATTGTA
*
17943663 CGATATGTGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCAATATGTGATTC
1 CGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTC
* * *
17943719 CGATATGTGTGTGCGAGTAAGATCACGCTTAATACGTTGGCATCAATATGTGATAC
1 CGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTC
* * * *
17943775 CGATATGTGTGTGCAAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTT
1 CGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTC
* * * *
17943831 TGATATGTGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTC
1 CGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTC
* **
17943887 CGATATGTGTTTATGAGTAAGACC
1 CGATATGTGTGTGCGAGTAAGACC
17943911 CTATCTAGGA
Statistics
Matches: 171, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 171 1.00
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (56 bp):
CGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTC
Found at i:17958150 original size:25 final size:24
Alignment explanation
Indices: 17958108--17958155 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
17958098 AAACTGAAAT
17958108 AGTATTAAATGAAAATAAAATAAAA
1 AGTATTAAATGAAAAT-AAATAAAA
*
17958133 AGTACTTAAA-GAAGATAAATAAA
1 AGTA-TTAAATGAAAATAAATAAA
17958156 GATAGAAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 9 0.43
26 5 0.24
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (24 bp):
AGTATTAAATGAAAATAAATAAAA
Found at i:17964448 original size:21 final size:20
Alignment explanation
Indices: 17964405--17964448 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
17964395 ATTTCCCACG
* *
17964405 TTGGCCCGTTTTCTCTGTTT
1 TTGGCCCGTTTTCGCTCTTT
*
17964425 TTGGCTCGTTTCTCGCTCTTT
1 TTGGCCCGTTT-TCGCTCTTT
17964446 TTG
1 TTG
17964449 CCCTCCTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.00, C:0.25, G:0.20, T:0.55
Consensus pattern (20 bp):
TTGGCCCGTTTTCGCTCTTT
Found at i:17964670 original size:51 final size:51
Alignment explanation
Indices: 17964615--17964756 Score: 155
Period size: 51 Copynumber: 2.8 Consensus size: 51
17964605 ATGCGTACCC
* *
17964615 GATAGCTTTGATCACATGTGTGGTACTAAGTGCAGGCCACGCTGTGTAA-AA
1 GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACGCTGTG-AAGAA
* * **
17964666 GATAGTTTTTG-TCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAA
1 GATAG-CTTTGATCACAAGTGTGGTACTATGTGCAGGCCACGCTGTGAAGAA
* * *
17964717 GGTCGCTTTGA-CTACAAGGGTGGTACTATGTGCAGGCCAC
1 GATAGCTTTGATC-ACAAGTGTGGTACTATGTGCAGGCCAC
17964757 CGGGCATCTG
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
50 7 0.09
51 65 0.86
52 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (51 bp):
GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACGCTGTGAAGAA
Found at i:17965177 original size:12 final size:11
Alignment explanation
Indices: 17965151--17965178 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
17965141 GAAAATAATT
17965151 AAAAATTGTAC
1 AAAAATTGTAC
17965162 AAAAATTGTAC
1 AAAAATTGTAC
17965173 AAAAAT
1 AAAAAT
17965179 GAGTCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (11 bp):
AAAAATTGTAC
Found at i:17968646 original size:287 final size:287
Alignment explanation
Indices: 17967820--17969328 Score: 1789
Period size: 288 Copynumber: 5.3 Consensus size: 287
17967810 GTACCTCGAG
* * * *
17967820 TTTGAATGCAAATTCGACCAAAGAGCGTTTCAAATTATTTATTTCG-AAAAGCGCAAATAACTAA
1 TTTGAATGCAAATTCGACCAAATAACGTTTCAAATGATTTATTTCGCAAAA-CGAAAATAACTAA
* * *
17967884 TTAGCTAAACAATATTTAAAAAAAATTATATGAAATAAAATGGGAGGGGTGCAACACGATG-ACT
65 TTAGTTAAACGATGTTT-AAAAAAATTATATGAAATAAAATGGGAGGGGTGCAACACGA-GAACT
* * * *
17967948 TCCTAGGAGGACACCCATCCTAGTACTACTCTCACCCAAGCACGCTTCACTGCGGAGTTCTGATG
128 TCCTAGAAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATG
* * * * * * * *
17968013 GGATCCCA-CGCATTAGTGCTAGTATAATTGCACTCATCAACTCTTGCGCAATTTATTTATATAA
193 GGAT-CCAGTGCATTAGTGTTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTTATATAA
***
17968077 AGGCTACCCCTTATTGCACTTTTTCCTTGAA
257 AGGCTACCCCTTATTGCACTTGCGCCTTGAA
* * * * *
17968108 TTTGAATGCAAATTCAACAAAATAATGTTTCAAATAATTTATTTCGCAAAACAAAAATAACTAAT
1 TTTGAATGCAAATTCGACCAAATAACGTTTCAAATGATTTATTTCGCAAAACGAAAATAACTAAT
* * *
17968173 TAGTTAAACGATGTTTAAAAATGATTATATGAAATAAAATGGGAGGGGTACAACACGAGGACTTC
66 TAGTTAAACGATGTTTAAAAA-AATTATATGAAATAAAATGGGAGGGGTGCAACACGAGAACTTC
* * * **
17968238 CTAAAAGGTCACCCATCCTAGTACAACTCTCTCCCAAGCACGCTTAGTTGCGGAGTTCTGATGGG
130 CTAGAAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGG
* * *
17968303 ATCCAGTACATTAGTGTTGGTACGATCGCACCCGTCAACTCTTGCACAATCTATTTATATAAAGG
195 ATCCAGTGCATTAGTGTTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTTATATAAAGG
17968368 CTACCCCTTATTGCACTTGCGCCTTGAA
260 CTACCCCTTATTGCACTTGCGCCTTGAA
* * * *
17968396 TTTGAATGCAAATTGGACTAAATAACGTTTTAAATGATTTATTTCGCAAAACAAAAATAACTAAT
1 TTTGAATGCAAATTCGACCAAATAACGTTTCAAATGATTTATTTCGCAAAACGAAAATAACTAAT
* *
17968461 TA-TTGAAAC-AGTGTTTAAAAAAATTGTATGAAATAAAATGGGAGGGGTTCAACACGAGAACTT
66 TAGTT-AAACGA-TGTTTAAAAAAATTATATGAAATAAAATGGGAGGGGTGCAACACGAGAACTT
* * * * *
17968524 CCCACAAGGTCACCCATCCTAGTACTGCTCTCGCCCAAGCACACTTAACTGTGGAGTTCTGATGG
129 CCTAGAAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGG
* * * * * * *
17968589 GATCTAATGCATTAGTGATGGAATGATCGCACCCGGCAACTCCTGCGCAAGCTATTTATATAAAG
194 GATCCAGTGCATTAGTGTTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTTATATAAAG
* * *
17968654 GCTACCCATTATCGCACTTGCGCC-TCATA
259 GCTACCCCTTATTGCACTTGCGCCTTGA-A
* * * * * *
17968683 TTTGAATGCAAATTTGACCAAATAACATTTCAAATGATTTATTTTGCAAAATGCAAATAACAAAT
1 TTTGAATGCAAATTCGACCAAATAACGTTTCAAATGATTTATTTCGCAAAACGAAAATAACTAAT
* * *
17968748 TAGTTAAACGATGTTTTAAAAAAATTATATCAAATGAAATGGGAGGGGTGCAACATGAGAACTTC
66 TAGTTAAACGATG-TTTAAAAAAATTATATGAAATAAAATGGGAGGGGTGCAACACGAGAACTTC
* * * * * * * * *
17968813 CCA-AGAGGTCACCTATCTTAGTACTACTCCTAG-CCGAGCATGCTTAGCTGCGGAGTTCTAATT
130 CTAGA-AGGTCACCCATCCTAGTACTACT-CTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATG
* * * * *
17968876 GGATCCGGTGTATTAGTGTTGGTATGATCGCACCCATCAACTCTTGCGTATTCTATTTATATAAA
193 GGATCCAGTGCATTAGTGTTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTTATATAAA
* * *
17968941 GGCTACCCCTTATCGCACGTGCGCTTTGAA
258 GGCTACCCCTTATTGCACTTGCGCCTTGAA
* * ** * * *
17968971 TTTGAATGCAAATTTGACCAAATAATGTTTCAAATGATTTATTTAACAAAATGTAAATAATTAAT
1 TTTGAATGCAAATTCGACCAAATAACGTTTCAAATGATTTATTTCGCAAAACGAAAATAACTAAT
* * *
17969036 TAGTTAAATGATGTTTAAAAAACTTATATGAAATAAAA--GG-GGGGTGCAACACGAGGACTTCC
66 TAGTTAAACGATGTTTAAAAAAATTATATGAAATAAAATGGGAGGGGTGCAACACGAGAACTTCC
* * * * *
17969098 TAGGAGGTCACCCATTCTAGTACTACTCTCGCCCAAGCACGCTTCACTGCAGTGTTCTGATGGGA
131 TAGAAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGA
** ** * * * *
17969163 TCCAGCACATTTCTGTCGGTATGATCGCAGCCGTCAACTCTTGCACAATTTATTTATATAAAGGC
196 TCCAGTGCATTAGTGTTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTTATATAAAGGC
* *
17969228 TACCCCTTATTGCACTTGCACCTCGAA
261 TACCCCTTATTGCACTTGCGCCTTGAA
* * * * * * *
17969255 TCTGAATGTAAATTCGACTAAATAACGTTTCAAATGATTTATTTTGCAAAATGTAAATAATTAAT
1 TTTGAATGCAAATTCGACCAAATAACGTTTCAAATGATTTATTTCGCAAAACGAAAATAACTAAT
17969320 TAGTTAAAC
66 TAGTTAAAC
17969329 TATAAAAAAT
Statistics
Matches: 1045, Mismatches: 161, Indels: 34
0.84 0.13 0.03
Matches are distributed among these distances:
283 3 0.00
284 206 0.20
285 2 0.00
286 2 0.00
287 271 0.26
288 552 0.53
289 9 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (287 bp):
TTTGAATGCAAATTCGACCAAATAACGTTTCAAATGATTTATTTCGCAAAACGAAAATAACTAAT
TAGTTAAACGATGTTTAAAAAAATTATATGAAATAAAATGGGAGGGGTGCAACACGAGAACTTCC
TAGAAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGA
TCCAGTGCATTAGTGTTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTTATATAAAGGC
TACCCCTTATTGCACTTGCGCCTTGAA
Found at i:17968716 original size:575 final size:572
Alignment explanation
Indices: 17967820--17969328 Score: 1891
Period size: 575 Copynumber: 2.6 Consensus size: 572
17967810 GTACCTCGAG
* * * *
17967820 TTTGAATGCAAATTCGACCAAAGAGCGTTTCAAATTATTTATTTCG-AAAAGCGCAAATAACTAA
1 TTTGAATGCAAATTCGACCAAATAACGTTTCAAATGATTTATTTCGCAAAA-CGAAAATAACTAA
* * *
17967884 TTAGCTAAACAATATTTAAAAAAAATTATATGAAATAAAATGGGAGGGGTGCAACACGATGACTT
65 TTAGTTAAACAGTGTTT-AAAAAAATTATATGAAATAAAATGGGAGGGGTGCAACACGA-GACTT
* *
17967949 CCTAGGAGGACACCCATCCTAGTACTACTCTCACCCAAGCACGCTTCACTGCGGAGTTCTGATGG
128 CCTAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTCACTGCGGAGTTCTGATGG
* * * * * *
17968014 GATCCCACGCATTAGTGCTAGTATAATTGCACTCATCAACTCTTGCGCAATTTATTTATATAAAG
193 GATCCAACGCATTAGTG-TGGTATGATCGCACCCGTCAACTCTTGCGCAATTTATTTATATAAAG
*** * * * *
17968079 GCTACCCCTTATTGCACTTTTTCCTTGAATTTGAATGCAAATTCAACAAAATAATGTTTCAAATA
257 GCTACCCCTTATTGCACTTGCACC-TCAATTTGAATGCAAATTCGACAAAATAACGTTTCAAATG
* ** * *
17968144 ATTTATTTCGCAAAACAAAAATAACTAATTAGTTAAACGATG-TTTAAAAATGATTATATGAAAT
321 ATTTATTTTGCAAAATGAAAATAACTAATTAGTTAAACGATGTTTTAAAAA-AATTATATCAAAT
* *
17968208 AAAATGGGAGGGGTACAACACGAGGACTTCCTAAAAGGTCACCCATCCTAGTACAACTCTCT-CC
385 AAAATGGGAGGGGTACAACACGAGAACTTCCCAAAAGGTCACCCATCCTAGTACAACTC-CTACC
* * *
17968272 CAAGCACGCTTAGTTGCGGAGTTCTGATGGGATCCAGTACATTAGTGTTGGTACGATCGCACCCG
449 CAAGCACGCTTAGCTGCGGAGTTCTAATGGGATCCAGTACATTAGTGTTGGTACGATCGCACCCA
* *
17968337 TCAACTCTTGCACAATCTATTTATATAAAGGCTACCCCTTATTGCACTTGCGCCTTGAA
514 TCAACTCTTGCACAATCTATTTATATAAAGGCTACCCCTTATCGCACGTGCGCCTTGAA
* * * *
17968396 TTTGAATGCAAATTGGACTAAATAACGTTTTAAATGATTTATTTCGCAAAACAAAAATAACTAAT
1 TTTGAATGCAAATTCGACCAAATAACGTTTCAAATGATTTATTTCGCAAAACGAAAATAACTAAT
* *
17968461 TA-TTGAAACAGTGTTTAAAAAAATTGTATGAAATAAAATGGGAGGGGTTCAACACGAGAACTTC
66 TAGTT-AAACAGTGTTTAAAAAAATTATATGAAATAAAATGGGAGGGGTGCAACACGAG-ACTTC
* ** * * * *
17968525 CCACAAGGTCACCCATCCTAGTACTGCTCTCGCCCAAGCACACTTAACTGTGGAGTTCTGATGGG
129 CTAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTCACTGCGGAGTTCTGATGGG
* * * * * **
17968590 ATCTAATGCATTAGTGATGGAATGATCGCACCCGGCAACTCCTGCGCAAGCTATTTATATAAAGG
194 ATCCAACGCATTAGTG-TGGTATGATCGCACCCGTCAACTCTTGCGCAATTTATTTATATAAAGG
* * * * * *
17968655 CTACCCATTATCGCACTTGCGCCTCATATTTGAATGCAAATTTGACCAAATAACATTTCAAATGA
258 CTACCCCTTATTGCACTTGCACCTCA-ATTTGAATGCAAATTCGACAAAATAACGTTTCAAATGA
* * *
17968720 TTTATTTTGCAAAATGCAAATAACAAATTAGTTAAACGATGTTTTAAAAAAATTATATCAAATGA
322 TTTATTTTGCAAAATGAAAATAACTAATTAGTTAAACGATGTTTTAAAAAAATTATATCAAATAA
* * * * * * * *
17968785 AATGGGAGGGGTGCAACATGAGAACTTCCCAAGAGGTCACCTATCTTAGTACTACTCCTAGCCGA
387 AATGGGAGGGGTACAACACGAGAACTTCCCAAAAGGTCACCCATCCTAGTACAACTCCTACCCAA
* * * ** *
17968850 GCATGCTTAGCTGCGGAGTTCTAATTGGATCCGGTGTATTAGTGTTGGTATGATCGCACCCATCA
452 GCACGCTTAGCTGCGGAGTTCTAATGGGATCCAGTACATTAGTGTTGGTACGATCGCACCCATCA
** * *
17968915 ACTCTTGCGTATTCTATTTATATAAAGGCTACCCCTTATCGCACGTGCGCTTTGAA
517 ACTCTTGCACAATCTATTTATATAAAGGCTACCCCTTATCGCACGTGCGCCTTGAA
* * ** * * *
17968971 TTTGAATGCAAATTTGACCAAATAATGTTTCAAATGATTTATTTAACAAAATGTAAATAATTAAT
1 TTTGAATGCAAATTCGACCAAATAACGTTTCAAATGATTTATTTCGCAAAACGAAAATAACTAAT
* *
17969036 TAGTTAAA-TGATGTTTAAAAAACTTATATGAAATAAAA--GG-GGGGTGCAACACGAGGACTTC
66 TAGTTAAACAG-TGTTTAAAAAAATTATATGAAATAAAATGGGAGGGGTGCAACACGA-GACTTC
* * *
17969097 CTAGGAGGTCACCCATTCTAGTACTACTCTCGCCCAAGCACGCTTCACTGCAGTGTTCTGATGGG
129 CTAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTCACTGCGGAGTTCTGATGGG
* * ** * *
17969162 ATCCAGCACATTTCTGTCGGTATGATCGCAGCCGTCAACTCTTGCACAATTTATTTATATAAAGG
194 ATCCAACGCATTAGTGT-GGTATGATCGCACCCGTCAACTCTTGCGCAATTTATTTATATAAAGG
* * *
17969227 CTACCCCTTATTGCACTTGCACCTCGAATCTGAATGTAAATTCGACTAAATAACGTTTCAAATGA
258 CTACCCCTTATTGCACTTGCACCTC-AATTTGAATGCAAATTCGACAAAATAACGTTTCAAATGA
* *
17969292 TTTATTTTGCAAAATGTAAATAATTAATTAGTTAAAC
322 TTTATTTTGCAAAATGAAAATAACTAATTAGTTAAAC
17969329 TATAAAAAAT
Statistics
Matches: 793, Mismatches: 129, Indels: 26
0.84 0.14 0.03
Matches are distributed among these distances:
571 1 0.00
572 212 0.27
573 4 0.01
574 6 0.01
575 493 0.62
576 73 0.09
577 4 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (572 bp):
TTTGAATGCAAATTCGACCAAATAACGTTTCAAATGATTTATTTCGCAAAACGAAAATAACTAAT
TAGTTAAACAGTGTTTAAAAAAATTATATGAAATAAAATGGGAGGGGTGCAACACGAGACTTCCT
AGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTCACTGCGGAGTTCTGATGGGAT
CCAACGCATTAGTGTGGTATGATCGCACCCGTCAACTCTTGCGCAATTTATTTATATAAAGGCTA
CCCCTTATTGCACTTGCACCTCAATTTGAATGCAAATTCGACAAAATAACGTTTCAAATGATTTA
TTTTGCAAAATGAAAATAACTAATTAGTTAAACGATGTTTTAAAAAAATTATATCAAATAAAATG
GGAGGGGTACAACACGAGAACTTCCCAAAAGGTCACCCATCCTAGTACAACTCCTACCCAAGCAC
GCTTAGCTGCGGAGTTCTAATGGGATCCAGTACATTAGTGTTGGTACGATCGCACCCATCAACTC
TTGCACAATCTATTTATATAAAGGCTACCCCTTATCGCACGTGCGCCTTGAA
Found at i:17976366 original size:41 final size:41
Alignment explanation
Indices: 17976320--17976401 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
17976310 ACATAATTTA
17976320 TTCACTATTTAATTCCATTCATGCTATTTTTAGTGATTTTC
1 TTCACTATTTAATTCCATTCATGCTATTTTTAGTGATTTTC
* *
17976361 TTCACTATTTAATTCCCTTCCTGCTATTTTTAGTGATTTTC
1 TTCACTATTTAATTCCATTCATGCTATTTTTAGTGATTTTC
17976402 CAAATCTACC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.54
Consensus pattern (41 bp):
TTCACTATTTAATTCCATTCATGCTATTTTTAGTGATTTTC
Found at i:17977261 original size:79 final size:80
Alignment explanation
Indices: 17977150--17977330 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 80
17977140 GCTCCTCGTT
* **
17977150 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGT-ATCTCGCACAAATGCCTTCGGG-CTTAACCCG
*
17977214 GAT-TTAGTAAC-TCGCA
64 GATATT-GTAACTTAGCA
*
17977230 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCC-GAATATAGTATCTCGCACAAATGCCTTCGGGCTTAACCCGG
*
17977293 ATATTGTCACTTAGCA
65 ATATTGTAACTTAGCA
17977309 C-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
17977331 GACATCATTC
Statistics
Matches: 90, Mismatches: 6, Indels: 13
0.83 0.06 0.12
Matches are distributed among these distances:
77 10 0.11
78 27 0.30
79 37 0.41
80 16 0.18
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTATCTCGCACAAATGCCTTCGGGCTTAACCCGGA
TATTGTAACTTAGCA
Found at i:17977331 original size:39 final size:41
Alignment explanation
Indices: 17977150--17977332 Score: 215
Period size: 39 Copynumber: 4.6 Consensus size: 41
17977140 GCTCCTCGTT
* * *
17977150 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTACTTCGCA
*
17977190 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGT-ACTTCGCA
*
17977230 CAAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTACT-TCGCA
*
17977269 CAAATGCCTTCGGG-CTTAGCCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGT-ACTTCGCA
17977309 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17977333 CATCATTCAA
Statistics
Matches: 126, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
38 10 0.08
39 58 0.46
40 56 0.44
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTACTTCGCA
Found at i:17991754 original size:10 final size:10
Alignment explanation
Indices: 17991739--17991764 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
17991729 TGGAAACTTT
17991739 AAACTACACA
1 AAACTACACA
17991749 AAACTACACA
1 AAACTACACA
17991759 AAACTA
1 AAACTA
17991765 TACGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.27, G:0.00, T:0.12
Consensus pattern (10 bp):
AAACTACACA
Found at i:17992949 original size:15 final size:15
Alignment explanation
Indices: 17992929--17992957 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17992919 CTCGGTTCAT
17992929 TAACCCAATTTTTAA
1 TAACCCAATTTTTAA
17992944 TAACCCAATTTTTA
1 TAACCCAATTTTTA
17992958 GGATGTGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (15 bp):
TAACCCAATTTTTAA
Found at i:17994999 original size:27 final size:27
Alignment explanation
Indices: 17994969--17995046 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
17994959 CTTTTAGAGA
17994969 TTTCCACAAATGCTATTCTTTCATAAT
1 TTTCCACAAATGCTATTCTTTCATAAT
*
17994996 TTTCCACAAAAT-TTATTCTTTCATAAT
1 TTTCCAC-AAATGCTATTCTTTCATAAT
*
17995023 TTTCCACAAAAGCTATTCTTTCAT
1 TTTCCACAAATGCTATTCTTTCAT
17995047 GACATGTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
27 39 0.85
28 4 0.09
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.45
Consensus pattern (27 bp):
TTTCCACAAATGCTATTCTTTCATAAT
Found at i:17996787 original size:29 final size:29
Alignment explanation
Indices: 17996755--17996884 Score: 131
Period size: 29 Copynumber: 4.5 Consensus size: 29
17996745 TTTATCAAGC
17996755 ACTATGTACTGGTGTTATATTTATTAGGT
1 ACTATGTACTGGTGTTATATTTATTAGGT
** *
17996784 ACTATGTA-TCGGTGACCATA-TTATCAGGT
1 ACTATGTACT-GGTG-TTATATTTATTAGGT
* *
17996813 ACTTTGTA-TCGGTGTTATATTTATTAGGC
1 ACTATGTACT-GGTGTTATATTTATTAGGT
* * * *
17996842 ATTATATGCTGGTGTTATATTTATAAGGT
1 ACTATGTACTGGTGTTATATTTATTAGGT
17996871 ACTATGTACTGGTG
1 ACTATGTACTGGTG
17996885 GTGGATACCA
Statistics
Matches: 80, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
28 4 0.05
29 72 0.90
30 4 0.05
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.44
Consensus pattern (29 bp):
ACTATGTACTGGTGTTATATTTATTAGGT
Found at i:18004875 original size:30 final size:30
Alignment explanation
Indices: 18004839--18004901 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
18004829 CCTTTTCATA
18004839 TTTCATATTTCATAACACTGGGCCGAAACC
1 TTTCATATTTCATAACACTGGGCCGAAACC
**
18004869 TTTCATATTTCATATTACTGGGCCGAAACC
1 TTTCATATTTCATAACACTGGGCCGAAACC
18004899 TTT
1 TTT
18004902 ACTATAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (30 bp):
TTTCATATTTCATAACACTGGGCCGAAACC
Found at i:18005169 original size:23 final size:23
Alignment explanation
Indices: 18005115--18005233 Score: 202
Period size: 23 Copynumber: 5.1 Consensus size: 23
18005105 CCTAGCCTCT
*
18005115 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
18005138 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
18005162 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
18005185 TTTAATAACTGGGGCATAAGCTC
1 TTTAATAACTGGGGCATAAGCCC
18005208 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
18005231 TTT
1 TTT
18005234 TACACTTCCT
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
23 68 0.76
24 22 0.24
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:18005309 original size:20 final size:20
Alignment explanation
Indices: 18005284--18005350 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
18005274 TTATGATTAC
18005284 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
18005304 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
18005324 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
18005344 ACCATGT
1 ATCATGT
18005351 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:18005315 original size:11 final size:11
Alignment explanation
Indices: 18005284--18005339 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
18005274 TTATGATTAC
18005284 ATCATGTGCAT
1 ATCATGTGCAT
*
18005295 ATCA--TACAT
1 ATCATGTGCAT
18005304 ATCATGTGCAT
1 ATCATGTGCAT
*
18005315 ATCA--TACAT
1 ATCATGTGCAT
*
18005324 GTCATGTGCAT
1 ATCATGTGCAT
18005335 ATCAT
1 ATCAT
18005340 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:18009929 original size:73 final size:73
Alignment explanation
Indices: 18009824--18009963 Score: 181
Period size: 73 Copynumber: 1.9 Consensus size: 73
18009814 AGGTTTTTGC
* * * * * * **
18009824 GTATAGTAGTAAAATAGTTTGTCTAGCGAAGTGTAATCTACCCAATTTCATATTGTGGTGTATAC
1 GTATAGTAGTAAAATAATCTGTCTAGCAAAGTGCAATCCACCCAAGTTCATATTGTGGCATATAC
18009889 GTGTGGGT
66 GTGTGGGT
* * *
18009897 GTATAGTAGTAAAATAATCTGTCTGGCAAAGTGCAATCCGCCCAAGTTCATGTTGTGGCATATAC
1 GTATAGTAGTAAAATAATCTGTCTAGCAAAGTGCAATCCACCCAAGTTCATATTGTGGCATATAC
18009962 GT
66 GT
18009964 AATCAAATAA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 56 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (73 bp):
GTATAGTAGTAAAATAATCTGTCTAGCAAAGTGCAATCCACCCAAGTTCATATTGTGGCATATAC
GTGTGGGT
Found at i:18011877 original size:13 final size:13
Alignment explanation
Indices: 18011806--18011840 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
18011796 CAAAAACAAC
*
18011806 TTAATAAGCTTAA
1 TTAATAAACTTAA
*
18011819 TTAATAGACTTAA
1 TTAATAAACTTAA
18011832 TTAATAAAC
1 TTAATAAAC
18011841 ACATTTAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (13 bp):
TTAATAAACTTAA
Found at i:18015905 original size:11 final size:11
Alignment explanation
Indices: 18015877--18015911 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
18015867 ATCAACCAAA
*
18015877 AAATTTATTTT
1 AAATTGATTTT
18015888 AAA-TGATTTT
1 AAATTGATTTT
18015898 AAATTGATTTT
1 AAATTGATTTT
18015909 AAA
1 AAA
18015912 AACCACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (11 bp):
AAATTGATTTT
Found at i:18023446 original size:23 final size:23
Alignment explanation
Indices: 18023419--18023464 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
18023409 TTGCAAACTC
18023419 CTTATTGTATACTCTTTATGAAA
1 CTTATTGTATACTCTTTATGAAA
18023442 CTTATTGTATACTCTTTATGAAA
1 CTTATTGTATACTCTTTATGAAA
18023465 GCAATTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (23 bp):
CTTATTGTATACTCTTTATGAAA
Found at i:18032758 original size:50 final size:48
Alignment explanation
Indices: 18032633--18032808 Score: 174
Period size: 51 Copynumber: 3.5 Consensus size: 48
18032623 TGAGGTCACG
* * * * *
18032633 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATAA-TT-GGTC-CA
** * * **
18032684 TGTGTAGTACTAAGTGCAACCTACTACGTGTATCAGATGGTTAGGT-CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATAATT-GGTCCA
*
18032732 TGTGGGTAGTACTAAGTGCAGGCTACTACGTGCACCGGATAATTGGTCGCA
1 TGT--GTAGTACTAAGTGCAGGCTACTACGTGCACCAGATAATTGGTC-CA
18032783 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
18032809 TGCGTACCAG
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
48 5 0.05
49 26 0.25
50 36 0.35
51 37 0.36
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATAATTGGTCCA
Found at i:18039164 original size:43 final size:42
Alignment explanation
Indices: 18039117--18039216 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
18039107 TCCCAAACGT
* *
18039117 GGTCTTACATGTAATCAAATATCGATGC-CACTATCCCAGACAG
1 GGTCTTACAAGAAATCAAATA-CGATGCTCA-TATCCCAGACAG
* * * *
18039160 GGTCTTACAAGAAATCATATACGATGCTGATGTCCCAGACAT
1 GGTCTTACAAGAAATCAAATACGATGCTCATATCCCAGACAG
*
18039202 GGTCTTACACGAAAT
1 GGTCTTACAAGAAAT
18039217 ATCAAGTTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 30 0.61
43 19 0.39
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACAAGAAATCAAATACGATGCTCATATCCCAGACAG
Found at i:18040339 original size:39 final size:39
Alignment explanation
Indices: 18040286--18040408 Score: 158
Period size: 39 Copynumber: 3.2 Consensus size: 39
18040276 GGACTTTAGC
* * *
18040286 CCGGACATATTTCCAGCACGTAGCCTGCTGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCTGACCTTAAGT
* *
18040325 CCGGTTATAATTCCAGCACATAGCCT-ATGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCT-GACCTTAAGT
* * *
18040364 CCGGATATAATTCTAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCTGACCTTAAGT
18040403 CCGGAT
1 CCGGAT
18040409 GAACATCACT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 71 0.99
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCTGACCTTAAGT
Found at i:18041713 original size:27 final size:27
Alignment explanation
Indices: 18041652--18041781 Score: 217
Period size: 27 Copynumber: 4.9 Consensus size: 27
18041642 ATTACCAAAG
18041652 TACCCTCGATTTATAGAA-TACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
18041678 TACCATCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
18041705 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
18041732 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
18041759 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
18041782 AAAATACCCT
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
26 17 0.18
27 80 0.82
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:18041789 original size:27 final size:27
Alignment explanation
Indices: 18041613--18042033 Score: 158
Period size: 27 Copynumber: 15.6 Consensus size: 27
18041603 TTAGTTTACC
* * * *
18041613 AAATTACTAAAATGCCCTCAAATTGTA
1 AAATTACTAAAATACCCTCGATTTATA
* *
18041640 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
* **** *
18041667 GAA-TACTGTTTTACCATCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
* *****
18041693 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
* ****
18041720 GAATTACTGTTTTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
* **** *
18041747 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTATA
* * *
18041774 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACTAAAATACCCTCGATTTATA
* * * * *
18041801 AAATTACCAAAAAAACCTC-AATCAGTA
1 AAATTACTAAAATACCCTCGATTTA-TA
* * * *
18041828 AAATTACCAAAATACCCTAG-TCTGTA
1 AAATTACTAAAATACCCTCGATTTATA
* * *
18041854 AAATTGCTAAAATACCC-CTGGTTTGTA
1 AAATTACTAAAATACCCTC-GATTTATA
* * *
18041881 AAATTACCAAAATACCACT-GGTTTGTA
1 AAATTACTAAAATACC-CTCGATTTATA
* * *
18041908 AAATTA-TCGAAATACCCTCAATTTGTA
1 AAATTACT-AAAATACCCTCGATTTATA
* *
18041935 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACTAAAATACCCTC-GATTTATA
* * *
18041962 AAGTTAC-AGAAATACCCTTGACTTTCTAA
1 AAATTACTA-AAATACCCTCGA-TTTAT-A
* * * *
18041991 AAATTA-TAGAAATACCATTGGTTTACA
1 AAATTACTA-AAATACCCTCGATTTATA
*
18042018 AAATTACTGAAATACC
1 AAATTACTAAAATACC
18042034 ATTGGTTTGT
Statistics
Matches: 313, Mismatches: 64, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
26 44 0.14
27 243 0.78
28 8 0.03
29 18 0.06
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTATA
Found at i:18041806 original size:81 final size:80
Alignment explanation
Indices: 18041652--18041807 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 80
18041642 ATTACCAAAG
* * ****
18041652 TACCCTCGATTTATAGAATACTGTTTTACCATCGATTTATAGAATTACCGTTTTACCCTCGATTT
1 TACCCTCGATTTATAGAATACTGTTTTACCATCGATTTACAAAATTACCAAAATACCCTCGATTT
* *
18041717 ATAGAATTACTGTTT
66 ACAAAATTACTGTTT
* * * *
18041732 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTATAGAA-TACTGTTTTACCATCGATTTACAAAATTACCAAAATACCCTCGATT
18041797 TACAAAATTAC
65 TACAAAATTAC
18041808 CAAAAAAACC
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
80 18 0.29
81 45 0.71
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.40
Consensus pattern (80 bp):
TACCCTCGATTTATAGAATACTGTTTTACCATCGATTTACAAAATTACCAAAATACCCTCGATTT
ACAAAATTACTGTTT
Found at i:18041876 original size:80 final size:81
Alignment explanation
Indices: 18041773--18041968 Score: 216
Period size: 80 Copynumber: 2.4 Consensus size: 81
18041763 CTCGATTTAC
* *
18041773 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAAAAAC-CTCAATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAAAACCACT-AATCAGTAAAATTACCA
*
18041837 AAATACCCT-AGTCTGT
65 AAATACCCTCAATCTGT
* ** * ** ** * *
18041853 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCACTGGTTTGTAAAATTATCGA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAAAACCACTAATCAGTAAAATTACCAA
*
18041918 AATACCCTCAATTTGT
66 AATACCCTCAATCTGT
* * *
18041934 AAAATTACCAAAATACCCCTGATTTACAAAGTTAC
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTAC
18041969 AGAAATACCC
Statistics
Matches: 94, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
80 58 0.62
81 36 0.38
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAAAACCACTAATCAGTAAAATTACCAA
AATACCCTCAATCTGT
Found at i:18041933 original size:54 final size:53
Alignment explanation
Indices: 18041759--18041951 Score: 190
Period size: 54 Copynumber: 3.6 Consensus size: 53
18041749 ATTACTGTTT
* ** * **
18041759 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCC-TGGTTTGTAAAATTACCAAAA
* * ** * * * *
18041813 AAACCTCAATCAGTAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAA
** * *
18041866 TACCC-CTGGTTTGTAAAATTACCAAAATACCACTGGTTTGTAAAATTATCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACC-CTGGTTTGTAAAATTACCAAAA
18041920 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
18041952 CTGATTTACA
Statistics
Matches: 108, Mismatches: 28, Indels: 7
0.76 0.20 0.05
Matches are distributed among these distances:
52 1 0.01
53 39 0.36
54 67 0.62
55 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAA
Found at i:18042051 original size:27 final size:27
Alignment explanation
Indices: 18041990--18042041 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
18041980 TGACTTTCTA
18041990 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
18042017 AAAATTACTGAAATACCATTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
18042042 GTAGATTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:18042186 original size:27 final size:27
Alignment explanation
Indices: 18042096--18042186 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
18042086 CCCCAATTAA
*
18042096 GTAAAAAGACCGTAAAGCCCCTGTAGG
1 GTAAAATGACCGTAAAGCCCCTGTAGG
*
18042123 GTAAAGA-GACCGTAAAGCTCCTGTAGG
1 GTAAA-ATGACCGTAAAGCCCCTGTAGG
* *
18042150 GTAAAGTGACCGTAATA-CCCCTGTATG
1 GTAAAATGACCGTAA-AGCCCCTGTAGG
18042177 GTAAAATGAC
1 GTAAAATGAC
18042187 GAATATGCCC
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
27 54 0.96
28 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GTAAAATGACCGTAAAGCCCCTGTAGG
Found at i:18043014 original size:26 final size:26
Alignment explanation
Indices: 18042985--18043172 Score: 258
Period size: 26 Copynumber: 7.3 Consensus size: 26
18042975 GAGGAAGTGC
18042985 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
18043011 AAAAGGGCTTATACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
18043037 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
***
18043063 AAAAGGGCTTATGCCCCAGTTTGCCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
18043089 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
18043115 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
18043140 AAAAGGG-TTTTGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
18043163 AAAAGAGGCT
1 AAAAG-GGCT
18043173 AGGCCTCCAG
Statistics
Matches: 143, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
23 5 0.03
24 7 0.05
25 29 0.20
26 102 0.71
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:18043047 original size:52 final size:52
Alignment explanation
Indices: 18042985--18043172 Score: 312
Period size: 52 Copynumber: 3.7 Consensus size: 52
18042975 GAGGAAGTGC
*
18042985 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
18043037 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTGCCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
18043089 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
18043140 AAAAGGG-TTTTGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
18043173 AGGCCTCCAG
Statistics
Matches: 131, Mismatches: 4, Indels: 5
0.94 0.03 0.04
Matches are distributed among these distances:
48 5 0.04
49 9 0.07
50 10 0.08
51 21 0.16
52 86 0.66
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:18043455 original size:31 final size:31
Alignment explanation
Indices: 18043378--18043456 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
18043368 CGTTTACAAT
*
18043378 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
18043409 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
18043440 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
18043457 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:18049826 original size:46 final size:46
Alignment explanation
Indices: 18049759--18049933 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 46
18049749 TGTAACCCGC
*
18049759 CCATAAGCGAACTCGGACTCAACTCAACGAACTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAATTCGGGCGTTCGCAT
* * *
18049805 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAATTCGG--G-C--GTTCGCAT
* * ** *
18049855 -C-TCA-CGAACTTGGACTCAACTCAAC-AAGTTCGTACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAA-TTCGGGCGTTCGCAT
*
18049898 CCATAAGTGAACTCGGACTCAACTCAAC-AAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAA-TTCGG
18049934 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 16, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.58
47 23 0.22
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAATTCGGGCGTTCGCAT
Found at i:18049879 original size:93 final size:93
Alignment explanation
Indices: 18049766--18049937 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
18049756 CGCCCATAAG
* *
18049766 CGAACTCGGACTCAACTCAACGAA-CTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAAC-AAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
18049830 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACAAGTTCGGATGCCTAGTTACATCTCA
* * *
18049859 CGAACTTGGACTCAACTCAACAAGTTCGTACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18049924 ACAAGTTCGGATGC
66 ACAAGTTCGGATGC
18049938 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:18049953 original size:46 final size:44
Alignment explanation
Indices: 18049810--18049953 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 44
18049800 CGCATCCATA
*
18049810 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACAAGTTCGGATGCC-A---ACCATCT
* * * * * *
18049857 CA-CGAACTTGGACTCAACTCAACAAGTTCGTACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACAAGTTCG--GATGC-CAACCATCT
18049903 AGTGAACTCGGACTCAACTCAACAAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACAAGTTCGGATGC-CAACCAT-CT
18049949 AGTGA
1 AGTGA
18049954 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 31 0.41
47 28 0.37
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCAACCATCT
Found at i:18051292 original size:26 final size:27
Alignment explanation
Indices: 18051222--18051301 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
18051212 TGGGATATTA
* *
18051222 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTCATTAATTTTACAAAC
*
18051249 CAAGGGTATTTCATTAATTTTACAATC
1 CAAGGGTATTTCATTAATTTTACAAAC
*
18051276 C-GGGGTATTTCGA-TAATTTTACAAAC
1 CAAGGGTATTTC-ATTAATTTTACAAAC
18051302 TGGGGTCTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
26 21 0.45
27 26 0.55
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCATTAATTTTACAAAC
Found at i:18051306 original size:26 final size:26
Alignment explanation
Indices: 18051225--18051307 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
18051215 GATATTACAA
* * *
18051225 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTCATTAATTTTACAAA-CAG
* *
18051252 GGGTATTTCATTAATTTTACAATCCG
1 GGGTATTTCATTAATTTTACAAACAG
*
18051278 GGGTATTTCGA-TAATTTTACAAACTG
1 GGGTATTTC-ATTAATTTTACAAACAG
18051304 GGGT
1 GGGT
18051308 CTTAACGACC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 27 0.56
27 21 0.44
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (26 bp):
GGGTATTTCATTAATTTTACAAACAG
Found at i:18054281 original size:14 final size:15
Alignment explanation
Indices: 18054262--18054290 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18054252 TTACATTCTT
18054262 TTTAG-TTATTTTTA
1 TTTAGTTTATTTTTA
18054276 TTTAGTTTATTTTTA
1 TTTAGTTTATTTTTA
18054291 GTGAGTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTAGTTTATTTTTA
Found at i:18056108 original size:184 final size:184
Alignment explanation
Indices: 18055600--18056156 Score: 803
Period size: 185 Copynumber: 3.0 Consensus size: 184
18055590 GAGATAATAA
* * * *
18055600 TAAATTACAATTATTTCTAGAAATCACAACTTTGGAAAAATTACTTTATCATCCACAGCAATAAA
1 TAAATTACATTTATTTCTAGGAATCACAAATTTGGAAAAATTACTTTATCATCCATAGCAATAAA
* * * ** * *
18055665 ATAATTGCATATATTCATTCATATGCATTCCCTGAAACATGCATACAATTACAAGAATGTCACAT
66 TTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTACAAGAATGTCACAT
* * *
18055730 CTTATCAAAAATAATCATACATAAAGAAGAGAGAATTTTGGTCTCAGTTTACAC
131 CTTATCAAATATAATCATACATGAAGAAGAGAGAATTTTGGTCTAAGTTTACAC
* * ** *
18055784 TAAATTACATTTAATCTCTAGGAATCATAAATTTGGAAATTTTACTTTATCTTCCATAGCAATAA
1 TAAATTACATTT-ATTTCTAGGAATCACAAATTTGGAAAAATTACTTTATCATCCATAGCAATAA
* *
18055849 ATTAATTACATACATTCATTCGCATACATTCCTCAAAACATGCATACAATTACAAGAATGTCACA
65 ATTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTACAAGAATGTCACA
*
18055914 TCTTATCAAATATAATCATACATGAAGAATAGAGAATTTTGGTCTAAGTTTACAC
130 TCTTATCAAATATAATCATACATGAAGAAGAGAGAATTTTGGTCTAAGTTTACAC
* * *
18055969 TAAATTACATTTATTTTCTAGGAATCACAAATTT-AAAAAATTACTTTATCAGCTATAGCAATAA
1 TAAATTACATTTA-TTTCTAGGAATCACAAATTTGGAAAAATTACTTTATCATCCATAGCAATAA
*
18056033 ATTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTATAAGAATGTCACA
65 ATTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTACAAGAATGTCACA
* *
18056098 TCTTATCAAATATACTCATACATGAAGAAGAGAAAGAATTTTTGTCTCAA-TTTACAC
130 TCTTATCAAATATAATCATACATGAAGAAGAG--AGAATTTTGGTCT-AAGTTTACAC
18056155 TA
1 TA
18056157 TAAACATAGC
Statistics
Matches: 332, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
184 128 0.39
185 181 0.55
186 21 0.06
187 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (184 bp):
TAAATTACATTTATTTCTAGGAATCACAAATTTGGAAAAATTACTTTATCATCCATAGCAATAAA
TTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTACAAGAATGTCACAT
CTTATCAAATATAATCATACATGAAGAAGAGAGAATTTTGGTCTAAGTTTACAC
Found at i:18060275 original size:21 final size:18
Alignment explanation
Indices: 18060249--18060295 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 18
18060239 TTTTCCGTTA
18060249 TTTATAAATTGTAAAGTTATT
1 TTTATAAATT-TAAA--TATT
18060270 TTTATAATATTTAAATATT
1 TTTATAA-ATTTAAATATT
18060289 TTT-TAAA
1 TTTATAAA
18060296 AAAATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.04
18 3 0.12
19 7 0.28
21 11 0.44
22 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
TTTATAAATTTAAATATT
Found at i:18060338 original size:27 final size:27
Alignment explanation
Indices: 18060304--18060359 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
18060294 AAAAAATTAT
*
18060304 ATTTT-AT-TTTTAA-TTTATAATATA
1 ATTTTAATATTTTAATTTTACAATATA
*
18060328 ATTTTAATATTTTAATTTTACAATATC
1 ATTTTAATATTTTAATTTTACAATATA
18060355 ATTTT
1 ATTTT
18060360 TATTTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 5 0.19
25 2 0.07
26 6 0.22
27 14 0.52
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (27 bp):
ATTTTAATATTTTAATTTTACAATATA
Found at i:18061827 original size:8 final size:9
Alignment explanation
Indices: 18061797--18061858 Score: 52
Period size: 10 Copynumber: 6.2 Consensus size: 9
18061787 TTAAAAATTT
18061797 AAAAATTACA
1 AAAAATTA-A
18061807 AAAAATTACA
1 AAAAATTA-A
18061817 AAAAATTAA
1 AAAAATTAA
18061826 AATAAATTAA
1 AA-AAATTAA
*
18061836 TTCAAAAAATAA
1 ---AAAAATTAA
*
18061848 AAAAACTAA
1 AAAAATTAA
18061857 AA
1 AA
18061859 TTCATCAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
9 13 0.28
10 25 0.54
12 6 0.13
13 2 0.04
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATTAA
Found at i:18061835 original size:10 final size:10
Alignment explanation
Indices: 18061797--18061834 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
18061787 TTAAAAATTT
18061797 AAAAATTACA
1 AAAAATTACA
18061807 AAAAATTACA
1 AAAAATTACA
18061817 AAAAATTA-A
1 AAAAATTACA
18061826 AATAAATTA
1 AA-AAATTA
18061835 ATTCAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 3 0.11
10 24 0.89
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATTACA
Found at i:18061860 original size:23 final size:24
Alignment explanation
Indices: 18061808--18061862 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
18061798 AAAATTACAA
18061808 AAAATTACAAAAAATTAAAATAAAT
1 AAAATT-CAAAAAATTAAAATAAAT
*
18061833 -TAATTCAAAAAA-TAAAA-AAACT
1 AAAATTCAAAAAATTAAAATAAA-T
18061855 AAAATTCA
1 AAAATTCA
18061863 TCAAACTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 6 0.23
23 13 0.50
24 4 0.15
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (24 bp):
AAAATTCAAAAAATTAAAATAAAT
Found at i:18066481 original size:63 final size:63
Alignment explanation
Indices: 18066382--18066508 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 63
18066372 TTACCATTCA
18066382 ACCCAATACTTACAGAGTTGCCCCCTCACATTTTGTAAAGATTAAATTAAGCTATGAAATGTG
1 ACCCAATACTTACAGAGTTGCCCCCTCACATTTTGTAAAGATTAAATTAAGCTATGAAATGTG
* * *
18066445 ACCCAATACTTACAGAGTTGTCCCCTCATATTTTGTAAAGATTAAATTAAGCTATGAAGTGTG
1 ACCCAATACTTACAGAGTTGCCCCCTCACATTTTGTAAAGATTAAATTAAGCTATGAAATGTG
18066508 A
1 A
18066509 TACATCAAGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (63 bp):
ACCCAATACTTACAGAGTTGCCCCCTCACATTTTGTAAAGATTAAATTAAGCTATGAAATGTG
Found at i:18083583 original size:15 final size:16
Alignment explanation
Indices: 18083563--18083592 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18083553 ACTATTTAAG
18083563 TTTAAT-AATAAATTA
1 TTTAATAAATAAATTA
18083578 TTTAATAAATAAATT
1 TTTAATAAATAAATT
18083593 TAAATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAATAAATAAATTA
Found at i:18087256 original size:28 final size:28
Alignment explanation
Indices: 18087216--18087275 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
18087206 GTCATTATCA
18087216 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
18087244 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
18087272 ACCC
1 ACCC
18087276 TATTAATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.30, G:0.07, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:18089262 original size:18 final size:18
Alignment explanation
Indices: 18089239--18089274 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18089229 TCAAGGCAAT
*
18089239 AAACAAATTGTTGAGAAA
1 AAACAAATTATTGAGAAA
18089257 AAACAAATTATTGAGAAA
1 AAACAAATTATTGAGAAA
18089275 TTGCCTGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (18 bp):
AAACAAATTATTGAGAAA
Found at i:18093042 original size:35 final size:38
Alignment explanation
Indices: 18092973--18093043 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
18092963 TAAATATAAA
* * *
18092973 AATAATTATATTAAGAATGTTATTAAGTTATATTTAAT
1 AATAATTATATTAAGAATATGATTAAGATATATTTAAT
18093011 AATAATTATATTAA-AATATGATTAA-AT-TATTTA
1 AATAATTATATTAAGAATATGATTAAGATATATTTA
18093044 TTTTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 6 0.20
36 1 0.03
37 9 0.30
38 14 0.47
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (38 bp):
AATAATTATATTAAGAATATGATTAAGATATATTTAAT
Found at i:18093267 original size:16 final size:16
Alignment explanation
Indices: 18093246--18093296 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
18093236 TGAATTACTG
18093246 ATTACAGGCCTATTCC
1 ATTACAGGCCTATTCC
18093262 ATTACA-GCTCTATTCC
1 ATTACAGGC-CTATTCC
18093278 ATTAC-GGCCCTATTCC
1 ATTACAGG-CCTATTCC
18093294 ATT
1 ATT
18093297 CCAGTGAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.06
16 29 0.91
17 1 0.03
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.35
Consensus pattern (16 bp):
ATTACAGGCCTATTCC
Found at i:18093915 original size:21 final size:21
Alignment explanation
Indices: 18093876--18093919 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
18093866 TAGTCAATGG
18093876 GATTAAAATTAACTTTTTATAT
1 GATTAAAATTAACTTTTTA-AT
18093898 GATTAAAATTAA-TTTTTAAT
1 GATTAAAATTAACTTTTTAAT
18093918 GA
1 GA
18093920 AAATAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.18
21 6 0.27
22 12 0.55
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (21 bp):
GATTAAAATTAACTTTTTAAT
Found at i:18094022 original size:53 final size:53
Alignment explanation
Indices: 18093919--18094025 Score: 144
Period size: 53 Copynumber: 2.0 Consensus size: 53
18093909 ATTTTTAATG
* * **
18093919 AAAATAGTAAAGAAGTGAGTTATGGAGTATTCTTTAATGGATGGGAGATTAAA
1 AAAATAGCAAAGAAGTGAGTTATGGAGTATTCTCTAATCAATGGGAGATTAAA
* *
18093972 AAAATAGCGAAGAAGTGAGTTGTGGAGTATTCTCTAATCAATGTGG-GATTAAA
1 AAAATAGCAAAGAAGTGAGTTATGGAGTATTCTCTAATCAATG-GGAGATTAAA
18094025 A
1 A
18094026 TTAACTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 45 0.96
54 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.26, T:0.29
Consensus pattern (53 bp):
AAAATAGCAAAGAAGTGAGTTATGGAGTATTCTCTAATCAATGGGAGATTAAA
Found at i:18098225 original size:52 final size:52
Alignment explanation
Indices: 18098147--18098251 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
18098137 AAATGTGAAA
18098147 GTGGTGACATTCTTCGGGTTGAATTAGATGAATCGGATAGCTTGCCTGTAGT
1 GTGGTGACATTCTTCGGGTTGAATTAGATGAATCGGATAGCTTGCCTGTAGT
*
18098199 GTGGTGGCATTCTTCGGGTTGAATTAGATGAATCGGATAGCTTGCCTGTAGT
1 GTGGTGACATTCTTCGGGTTGAATTAGATGAATCGGATAGCTTGCCTGTAGT
18098251 G
1 G
18098252 ATTTCTTCTA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.20, C:0.13, G:0.32, T:0.34
Consensus pattern (52 bp):
GTGGTGACATTCTTCGGGTTGAATTAGATGAATCGGATAGCTTGCCTGTAGT
Found at i:18102944 original size:30 final size:30
Alignment explanation
Indices: 18102910--18102970 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 30
18102900 AATATTAGCG
18102910 AAAATAACCTATACACT-CCATTATAACCAA
1 AAAATAACCTATACA-TGCCATTATAACCAA
18102940 AAAATAACCTATACATGCCATTATAACCAA
1 AAAATAACCTATACATGCCATTATAACCAA
18102970 A
1 A
18102971 CTCAAACCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.51, C:0.25, G:0.02, T:0.23
Consensus pattern (30 bp):
AAAATAACCTATACATGCCATTATAACCAA
Found at i:18103330 original size:30 final size:30
Alignment explanation
Indices: 18103275--18103336 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
18103265 CACTAAGCAA
18103275 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
18103304 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
18103335 GT
1 GT
18103337 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:18103521 original size:25 final size:25
Alignment explanation
Indices: 18103493--18103541 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
18103483 ATGTATGCTC
18103493 TCACGAGCTGTGAATCGATAAGCTT
1 TCACGAGCTGTGAATCGATAAGCTT
* *
18103518 TCACGAGTTGTGAATCGGTAAGCT
1 TCACGAGCTGTGAATCGATAAGCT
18103542 CATATGAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (25 bp):
TCACGAGCTGTGAATCGATAAGCTT
Found at i:18103554 original size:25 final size:25
Alignment explanation
Indices: 18103493--18103554 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
18103483 ATGTATGCTC
*
18103493 TCACGAGCTGTGAATCGATAAGCTT
1 TCACGAGCTGTGAATCGATAAGCTA
* *
18103518 TCACGAGTTGTGAATCGGTAAGCTCA
1 TCACGAGCTGTGAATCGATAAGCT-A
*
18103544 T-ATGAGCTGTG
1 TCACGAGCTGTG
18103555 GTGTGTCTGC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (25 bp):
TCACGAGCTGTGAATCGATAAGCTA
Found at i:18106037 original size:17 final size:17
Alignment explanation
Indices: 18106017--18106050 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18106007 TGGCAGATAG
* *
18106017 TATCGTGTGGCGGACAC
1 TATCGTCTGGCGAACAC
18106034 TATCGTCTGGCGAACAC
1 TATCGTCTGGCGAACAC
18106051 GGTCGCAACT
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:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (17 bp):
TATCGTCTGGCGAACAC
Found at i:18107024 original size:17 final size:17
Alignment explanation
Indices: 18106990--18107030 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
18106980 GACTGACAAA
*
18106990 AGACTCACACAAGCTGG
1 AGACTCACACAAACTGG
* *
18107007 ATACTCACACAAATTGG
1 AGACTCACACAAACTGG
18107024 AGACTCA
1 AGACTCA
18107031 AAGAAGGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (17 bp):
AGACTCACACAAACTGG
Found at i:18108878 original size:21 final size:20
Alignment explanation
Indices: 18108853--18108914 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
18108843 CCCAAACCAT
*
18108853 GCATATAATGAGTATATCATA
1 GCATATCATG-GTATATCATA
*
18108874 GCATATCATGTTCATATCATA
1 GCATATCATGGT-ATATCATA
* *
18108895 ACATATCATGTGCATATCAT
1 GCATATCATG-GTATATCAT
18108915 GTCCTATCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.03
21 33 0.97
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.35
Consensus pattern (20 bp):
GCATATCATGGTATATCATA
Found at i:18108891 original size:11 final size:11
Alignment explanation
Indices: 18108875--18108926 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
18108865 TATATCATAG
18108875 CATATCATGTT
1 CATATCATGTT
**
18108886 CATATCAT-AA
1 CATATCATGTT
*
18108896 CATATCATGTG
1 CATATCATGTT
18108907 CATATCATG-T
1 CATATCATGTT
*
18108917 CCTATCATGT
1 CATATCATGT
18108927 ATAACAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (11 bp):
CATATCATGTT
Found at i:18108922 original size:10 final size:11
Alignment explanation
Indices: 18108852--18108926 Score: 57
Period size: 10 Copynumber: 7.1 Consensus size: 11
18108842 ACCCAAACCA
*
18108852 TGCATATAATG
1 TGCATATCATG
* *
18108863 AGTATATCAT-
1 TGCATATCATG
*
18108873 AGCATATCATG
1 TGCATATCATG
*
18108884 TTCATATCAT-
1 TGCATATCATG
**
18108894 AACATATCATG
1 TGCATATCATG
18108905 TGCATATCATG
1 TGCATATCATG
*
18108916 T-CCTATCATG
1 TGCATATCATG
18108926 T
1 T
18108927 ATAACAATAT
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
10 26 0.51
11 25 0.49
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.37
Consensus pattern (11 bp):
TGCATATCATG
Found at i:18108926 original size:21 final size:21
Alignment explanation
Indices: 18108866--18108914 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
18108856 TATAATGAGT
* *
18108866 ATATCATAGCATATCATGTTC
1 ATATCATAACATATCATGTGC
18108887 ATATCATAACATATCATGTGC
1 ATATCATAACATATCATGTGC
18108908 ATATCAT
1 ATATCAT
18108915 GTCCTATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (21 bp):
ATATCATAACATATCATGTGC
Found at i:18109179 original size:27 final size:27
Alignment explanation
Indices: 18109038--18109167 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
18109028 GGGGCAAAAT
* * * * *
18109038 GGTAATTTTACCCCACAAAGTTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18109065 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18109092 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18109119 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
18109146 GGTAATTCTACCCTACAAGGGT
1 GGTAATTCTACCCTACAAGGGT
18109168 GCTTTGGTAA
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:18109179 original size:54 final size:54
Alignment explanation
Indices: 18109038--18109167 Score: 179
Period size: 54 Copynumber: 2.4 Consensus size: 54
18109028 GGGGCAAAAT
* * * * * *
18109038 GGTAATTTTACCCCACAAAGTTATCTCAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
18109092 GGTATTTCTACCCTATAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
18109146 GGTAATTCTACCCTACAAGGGT
1 GGTAATTCTACCCTACAAGGGT
18109168 GCTTTGGTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:18109320 original size:27 final size:27
Alignment explanation
Indices: 18109224--18109449 Score: 226
Period size: 27 Copynumber: 8.4 Consensus size: 27
18109214 TCAGAAGTAC
* *
18109224 TTTGGTAATTTTACAAGTCGAGGGTAT
1 TTTGGTAATTTTACAAATCAAGGGTAT
** * ** *
18109251 TTCAGTAATTTTATAGGTCGAGGGTA-
1 TTTGGTAATTTTACAAATCAAGGGTAT
* *
18109277 TTCGGTAATTTCACAAATCAAGGGTAT
1 TTTGGTAATTTTACAAATCAAGGGTAT
*
18109304 TTTGGTAATTTTACAAA-CTAGGGGTAT
1 TTTGGTAATTTTACAAATC-AAGGGTAT
* *
18109331 TTTGGTAATTTTATAAA-CTAGGGGTAT
1 TTTGGTAATTTTACAAATC-AAGGGTAT
* * *
18109358 TTTGGTAATTTTATAAACCAAAGGTAT
1 TTTGGTAATTTTACAAATCAAGGGTAT
*
18109385 TTTGGTAATTTTACAAGTCAAGGGTAT
1 TTTGGTAATTTTACAAATCAAGGGTAT
*
18109412 TTTGGTAATTTTACAAA-CTAGGGGTAT
1 TTTGGTAATTTTACAAATC-AAGGGTAT
*
18109439 TTTGATAATTT
1 TTTGGTAATTT
18109450 GGTAAACTAA
Statistics
Matches: 172, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 22 0.13
27 149 0.87
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
TTTGGTAATTTTACAAATCAAGGGTAT
Found at i:18109456 original size:81 final size:80
Alignment explanation
Indices: 18109224--18109449 Score: 267
Period size: 81 Copynumber: 2.8 Consensus size: 80
18109214 TCAGAAGTAC
* ** * ** * *
18109224 TTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTATAGGTCGAGGGTA-TTCGGTAATTT
1 TTTGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTTAAAACTAG-GGGTATTTTGGTAATTT
* * *
18109288 CACAAATCAAGGGTAT
65 CATAAACCAAAGGTAT
* *
18109304 TTTGGTAATTTTACAA-ACTAGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATT
1 TTTGGTAATTTTACAAGTC-AAGGGTATTTTGGTAATTTTA-AAACTAGGGGTATTTTGGTAATT
*
18109368 TTATAAACCAAAGGTAT
64 TCATAAACCAAAGGTAT
*
18109385 TTTGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTT
1 TTTGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTTA-AAACTAGGGGTATTTTGGTAATTT
18109450 GGTAAACTAA
Statistics
Matches: 124, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 38 0.31
81 84 0.68
82 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (80 bp):
TTTGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTTAAAACTAGGGGTATTTTGGTAATTTC
ATAAACCAAAGGTAT
Found at i:18114073 original size:31 final size:32
Alignment explanation
Indices: 18113989--18114075 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
18113979 TCATAAATTT
* * * *
18113989 ATAAATTGATTACTTAAATTTAATAACTCATG
1 ATAAATTAATTAATTTAATTAAATAACTCATG
18114021 ATAAATTAATTAATTTAATTAAATAACTCAT-
1 ATAAATTAATTAATTTAATTAAATAACTCATG
* *
18114052 ATAGATTAATTGATCTT-ATTAAAT
1 ATAAATTAATTAAT-TTAATTAAAT
18114076 TTATGAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 19 0.40
32 29 0.60
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (32 bp):
ATAAATTAATTAATTTAATTAAATAACTCATG
Found at i:18116220 original size:116 final size:116
Alignment explanation
Indices: 18116016--18116251 Score: 445
Period size: 116 Copynumber: 2.0 Consensus size: 116
18116006 CCAAGAAAAG
18116016 AATTTCCACCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
1 AATTTCCACCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
*
18116081 AGGTATTAGTTTTAATTTTCAAATAAGTAATCTTATAATCAATTCAAATAT
66 AAGTATTAGTTTTAATTTTCAAATAAGTAATCTTATAATCAATTCAAATAT
*
18116132 AATTTCCAGCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
1 AATTTCCACCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
*
18116197 AAGTATTAGTTTTAATTTTCAAATAAGTAATCTTCTAATCAATTCAAATAT
66 AAGTATTAGTTTTAATTTTCAAATAAGTAATCTTATAATCAATTCAAATAT
18116248 AATT
1 AATT
18116252 CCCTTTTAAA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (116 bp):
AATTTCCACCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
AAGTATTAGTTTTAATTTTCAAATAAGTAATCTTATAATCAATTCAAATAT
Found at i:18120268 original size:7 final size:7
Alignment explanation
Indices: 18120256--18120296 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
18120246 TAATAATGCC
18120256 GATAAAT
1 GATAAAT
18120263 GATAAAT
1 GATAAAT
18120270 GATAAAT
1 GATAAAT
*
18120277 TATAAAT
1 GATAAAT
18120284 GATAAAT
1 GATAAAT
18120291 GATAAA
1 GATAAA
18120297 AATGTTACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (7 bp):
GATAAAT
Found at i:18123613 original size:39 final size:39
Alignment explanation
Indices: 18123549--18123690 Score: 230
Period size: 39 Copynumber: 3.6 Consensus size: 39
18123539 AACATAATTT
* * *
18123549 CCTTTGGGACTTAGCCCGGATATAACACCAGTATGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
*
18123588 CCTTCGGGATTTAGCCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
* *
18123627 CCTTCAGGACTTAGGCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
18123666 CCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAA
18123691 ATCTCACACA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
Found at i:18124344 original size:118 final size:118
Alignment explanation
Indices: 18124136--18124370 Score: 461
Period size: 118 Copynumber: 2.0 Consensus size: 118
18124126 CTTTAAATTT
*
18124136 GAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTTTAATAGTCACATTTGACAAATC
1 GAACAAATGAATTTGTTTAATGACTTACTCAACTTTAATTCTTTAATAGTCACATTTGACAAATC
18124201 ATATAATTTCAATGCAATTTATGTTTAATAAAATGTGCCATGACTCAATATCC
66 ATATAATTTCAATGCAATTTATGTTTAATAAAATGTGCCATGACTCAATATCC
18124254 GAACAAATGAATTTGTTTAATGACTTACTCAACTTTAATTCTTTAATAGTCACATTTGACAAATC
1 GAACAAATGAATTTGTTTAATGACTTACTCAACTTTAATTCTTTAATAGTCACATTTGACAAATC
18124319 ATATAATTTCAATGCAATTTATGTTTAATAAAATGTGCCATGACTCAATATC
66 ATATAATTTCAATGCAATTTATGTTTAATAAAATGTGCCATGACTCAATATC
18124371 ATGCTTATTA
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (118 bp):
GAACAAATGAATTTGTTTAATGACTTACTCAACTTTAATTCTTTAATAGTCACATTTGACAAATC
ATATAATTTCAATGCAATTTATGTTTAATAAAATGTGCCATGACTCAATATCC
Found at i:18126057 original size:25 final size:25
Alignment explanation
Indices: 18126022--18126080 Score: 109
Period size: 25 Copynumber: 2.3 Consensus size: 25
18126012 GAATGATTAA
18126022 TAATATAGTCAAAATTGAGAATGGGT
1 TAATA-AGTCAAAATTGAGAATGGGT
18126048 TAATAAGTCAAAATTGAGAATGGGT
1 TAATAAGTCAAAATTGAGAATGGGT
18126073 TAATAAGT
1 TAATAAGT
18126081 AAATATGGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 28 0.85
26 5 0.15
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (25 bp):
TAATAAGTCAAAATTGAGAATGGGT
Found at i:18129851 original size:39 final size:40
Alignment explanation
Indices: 18129806--18129990 Score: 187
Period size: 40 Copynumber: 4.7 Consensus size: 40
18129796 GCTCCTCGTT
* * * *
18129806 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
**
18129846 C-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
18129885 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
18129925 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
18129966 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
18129991 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 36 0.30
40 75 0.61
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:18129999 original size:41 final size:41
Alignment explanation
Indices: 18129922--18129999 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
18129912 TTAGTATCTC
* * *
18129922 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
18129963 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
18130000 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:18134668 original size:94 final size:94
Alignment explanation
Indices: 18134544--18134730 Score: 347
Period size: 94 Copynumber: 2.0 Consensus size: 94
18134534 CCAATCCAAA
* * *
18134544 CCAAGGATAACATCAAATTCATCAAACGGCAAGAGCATCAAGTTCGCCGGGAAACAGGAACCTCG
1 CCAAGGATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCG
18134609 AATTTCCAGGGGACATTTCTTACACACTC
66 AATTTCCAGGGGACATTTCTTACACACTC
18134638 CCAAGGATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCG
1 CCAAGGATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCG
18134703 AATTTCCAGGGGACATTTCTTACACACT
66 AATTTCCAGGGGACATTTCTTACACACT
18134731 TTGTCGACAA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.19
Consensus pattern (94 bp):
CCAAGGATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCG
AATTTCCAGGGGACATTTCTTACACACTC
Found at i:18138778 original size:27 final size:27
Alignment explanation
Indices: 18138748--18138864 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
18138738 TCTTCTGTGA
18138748 TAAAATGACCGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCTCATAGGG
* *
18138775 TAAAATGACTGAAATATCCC-CATAGCG
1 TAAAATGACCGAAATA-CCCTCATAGGG
* **
18138802 TAGAATGACCGAAATACCCTTGTAGGG
1 TAAAATGACCGAAATACCCTCATAGGG
* * * * *
18138829 TAAAATGACTGTAATAGCCTGATAAGG
1 TAAAATGACCGAAATACCCTCATAGGG
18138856 TAAAATGAC
1 TAAAATGAC
18138865 AGATTTGTTC
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
26 3 0.04
27 68 0.92
28 3 0.04
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCATAGGG
Found at i:18138863 original size:54 final size:54
Alignment explanation
Indices: 18138748--18138864 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
18138738 TCTTCTGTGA
*
18138748 TAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAATATCCCCATAGCG
1 TAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAATAGCCCCATAGCG
* ** * **
18138802 TAGAATGACCGAAATACCCTTGTAGGGTAAAATGACTGTAATAGCCTGATAAG-G
1 TAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAATAGCCCCAT-AGCG
18138856 TAAAATGAC
1 TAAAATGAC
18138865 AGATTTGTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
54 52 0.96
55 2 0.04
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (54 bp):
TAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAATAGCCCCATAGCG
Found at i:18139230 original size:18 final size:18
Alignment explanation
Indices: 18139207--18139263 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
18139197 TCTTCTTGCA
18139207 TACTGCACTGATTACTGT
1 TACTGCACTGATTACTGT
* *
18139225 TACTGCATTGATCA-TGGT
1 TACTGCACTGATTACT-GT
*
18139243 TACTGCACTGATTACTAT
1 TACTGCACTGATTACTGT
18139261 TAC
1 TAC
18139264 GAAAATGGGC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 1 0.03
18 30 0.94
19 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.39
Consensus pattern (18 bp):
TACTGCACTGATTACTGT
Found at i:18140412 original size:38 final size:38
Alignment explanation
Indices: 18140369--18140444 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
18140359 TTCATCCTTT
18140369 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
*
18140407 TTCATTTCTTTTGGCCGAAAATTCTAAGTAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
18140445 AGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:18141729 original size:40 final size:40
Alignment explanation
Indices: 18141635--18141779 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
18141625 TACTCGAATG
* *
18141635 ATATCCGGGCTAAGTCCCGGAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
18141676 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
18141716 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
18141756 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
18141780 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:18149507 original size:11 final size:11
Alignment explanation
Indices: 18149491--18149515 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18149481 ATATATCTTC
18149491 TTTCCAGAATT
1 TTTCCAGAATT
18149502 TTTCCAGAATT
1 TTTCCAGAATT
18149513 TTT
1 TTT
18149516 GGTTTTTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (11 bp):
TTTCCAGAATT
Found at i:18159012 original size:25 final size:24
Alignment explanation
Indices: 18158978--18159063 Score: 81
Period size: 24 Copynumber: 3.6 Consensus size: 24
18158968 TTTGAAAGTC
18158978 CGCACACATAGTGCTCTTAC-TTAT-T
1 CGCACACATAGTGC-C--ACGTTATCT
*
18159003 CGCACACATAGTGCCACGTTTTCT
1 CGCACACATAGTGCCACGTTATCT
* *
18159027 CGCACACATAGTGCCATGTAATCT
1 CGCACACATAGTGCCACGTTATCT
*
18159051 --AACACATAGTGCC
1 CGCACACATAGTGCC
18159064 GCATAGCCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
22 14 0.26
23 3 0.06
24 23 0.43
25 14 0.26
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (24 bp):
CGCACACATAGTGCCACGTTATCT
Found at i:18161223 original size:54 final size:54
Alignment explanation
Indices: 18161029--18161343 Score: 281
Period size: 55 Copynumber: 5.8 Consensus size: 54
18161019 TTTCCTTTTT
* * *
18161029 AAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * * * * * *
18161082 GAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCATTATCG
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-A
* ** * * * * * *
18161137 TAGTTTATCAATGCCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTGTA
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * * *
18161191 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCATTATCG
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-A
* ** * * * * * *
18161246 TAGTTTATCAATGCCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTGTA
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *
18161300 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCC
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC
18161344 ATAAACCCTA
Statistics
Matches: 197, Mismatches: 62, Indels: 5
0.75 0.23 0.02
Matches are distributed among these distances:
53 45 0.23
54 74 0.38
55 78 0.40
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (54 bp):
AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:18161234 original size:109 final size:109
Alignment explanation
Indices: 18161040--18161334 Score: 511
Period size: 109 Copynumber: 2.7 Consensus size: 109
18161030 AACTTACCAT
* * * * * * * *
18161040 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCATTGCCATGCCTT
1 TGCCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGCCATGCCTT
18161104 GGCATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTATCAA
66 GGCATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTATCAA
18161148 TGCCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGCCATGCCTT
1 TGCCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGCCATGCCTT
18161213 GGCATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTATCAA
66 GGCATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTATCAA
18161257 TGCCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGCCATGCCTT
1 TGCCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGCCATGCCTT
18161322 GGCATGGTCTTAC
66 GGCATGGTCTTAC
18161335 TTGGTATCCA
Statistics
Matches: 178, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
108 37 0.21
109 141 0.79
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (109 bp):
TGCCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGCCATGCCTT
GGCATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTATCAA
Found at i:18170056 original size:192 final size:192
Alignment explanation
Indices: 18169717--18170100 Score: 696
Period size: 192 Copynumber: 2.0 Consensus size: 192
18169707 ATGTCTCTGG
18169717 TTAATTTATAATGAATTTCCAAAGTCAGATCAGGGGATCAAGAAACCGTTCTGACCCTGTCTCAC
1 TTAATTTATAATGAATTTCCAAAGTCAGATCAGGGGATCAAGAAACCGTTCTGACCCTGTCTCAC
* *
18169782 GAAAACTTTAGCATCTCATAATATCCTGTTCATATGAATGTTTCGTTACATTCCTATGAAAATAG
66 GAAAACTTTAGCATCTCATAATATACTGTTCATATGAACGTTTCGTTACATTCCTATGAAAATAG
* *
18169847 ATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCATTCCTAATATTTTTAGT
131 ATTCACCAAGATTCGATTACATAATTTATTCACTATTTAATTCCATTCCTAATATTTTTAGT
* *
18169909 TTAATTTATAATGAATTTCCAAAGTCAGATCAGGGGATCCAGACACCGTTCTGACCCTGTCTCAC
1 TTAATTTATAATGAATTTCCAAAGTCAGATCAGGGGATCAAGAAACCGTTCTGACCCTGTCTCAC
*
18169974 GAAAACTTTAGCATCTCATAATATACTGTTCATATGAACGTTTCGTTACTTTCCTATGAAAATAG
66 GAAAACTTTAGCATCTCATAATATACTGTTCATATGAACGTTTCGTTACATTCCTATGAAAATAG
*
18170039 ATTCACCAAGATTCGATTACATAATTTATTCACTATTTAATTCCATTCCTACTATTTTTAGT
131 ATTCACCAAGATTCGATTACATAATTTATTCACTATTTAATTCCATTCCTAATATTTTTAGT
18170101 GATTTTTCAC
Statistics
Matches: 184, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
192 184 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (192 bp):
TTAATTTATAATGAATTTCCAAAGTCAGATCAGGGGATCAAGAAACCGTTCTGACCCTGTCTCAC
GAAAACTTTAGCATCTCATAATATACTGTTCATATGAACGTTTCGTTACATTCCTATGAAAATAG
ATTCACCAAGATTCGATTACATAATTTATTCACTATTTAATTCCATTCCTAATATTTTTAGT
Found at i:18170881 original size:21 final size:21
Alignment explanation
Indices: 18170857--18170896 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18170847 TCTAAACACT
18170857 TAAAGACATCATATTAAAATG
1 TAAAGACATCATATTAAAATG
*
18170878 TAAATACATCATATTAAAA
1 TAAAGACATCATATTAAAA
18170897 ATACTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAAGACATCATATTAAAATG
Found at i:18171050 original size:22 final size:22
Alignment explanation
Indices: 18171022--18171066 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
18171012 AATATTTATA
18171022 ATAAAATTAAAATGTATAAATT
1 ATAAAATTAAAATGTATAAATT
18171044 ATAAAATTAAAATGTATAAATT
1 ATAAAATTAAAATGTATAAATT
18171066 A
1 A
18171067 CACTAGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
ATAAAATTAAAATGTATAAATT
Found at i:18173605 original size:29 final size:27
Alignment explanation
Indices: 18173577--18173635 Score: 86
Period size: 25 Copynumber: 2.2 Consensus size: 27
18173567 TTATATTTTA
*
18173577 CTTACTTTTCATATTTTTTATTCTA-T
1 CTTACTTTTCATAATTTTTATTCTATT
18173603 -TTACTTTTCATAATTTTTATTCTATCT
1 CTTACTTTTCATAATTTTTATTCTAT-T
18173630 CTTACT
1 CTTACT
18173636 ATGCAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 23 0.79
27 1 0.03
28 5 0.17
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (27 bp):
CTTACTTTTCATAATTTTTATTCTATT
Found at i:18173606 original size:25 final size:25
Alignment explanation
Indices: 18173578--18173627 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
18173568 TATATTTTAC
*
18173578 TTACTTTTCATATTTTTTATTCTAT
1 TTACTTTTCATAATTTTTATTCTAT
18173603 TTACTTTTCATAATTTTTATTCTAT
1 TTACTTTTCATAATTTTTATTCTAT
18173628 CTCTTACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (25 bp):
TTACTTTTCATAATTTTTATTCTAT
Found at i:18175123 original size:42 final size:42
Alignment explanation
Indices: 18175065--18175151 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
18175055 CAACTAAAAC
*
18175065 AAACTCATCCCTATCATCTCCATTGTATCAAGGGCAAGGTCA
1 AAACTCATCCCTATCATCTCCATTGCATCAAGGGCAAGGTCA
18175107 AAACTCATCCCTATCATCTCCATTGCATCAAGGGCAAGGTCA
1 AAACTCATCCCTATCATCTCCATTGCATCAAGGGCAAGGTCA
18175149 AAA
1 AAA
18175152 AGTTGTTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (42 bp):
AAACTCATCCCTATCATCTCCATTGCATCAAGGGCAAGGTCA
Found at i:18182816 original size:24 final size:24
Alignment explanation
Indices: 18182724--18182816 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
18182714 GGAAACTCAT
* *
18182724 AAGAGCCATAATCAAGAAGTTCACA
1 AAGAGCCATAA-CAGGAAGCTCACA
* *
18182749 AAGAACCATATCAGGAAGCTCACA
1 AAGAGCCATAACAGGAAGCTCACA
* *** *
18182773 AATAGCC-TATTGGGAAGCTCAAA
1 AAGAGCCATAACAGGAAGCTCACA
*
18182796 AAGAGCCATAACGGGAAGCTC
1 AAGAGCCATAACAGGAAGCTC
18182817 CGGATAGCCA
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
23 19 0.35
24 27 0.49
25 9 0.16
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.15
Consensus pattern (24 bp):
AAGAGCCATAACAGGAAGCTCACA
Found at i:18187752 original size:19 final size:19
Alignment explanation
Indices: 18187728--18187766 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
18187718 CAAACGGTTT
18187728 ACACATAGCAACTTTGGTC
1 ACACATAGCAACTTTGGTC
18187747 ACACATAGCAACTTTGGTC
1 ACACATAGCAACTTTGGTC
18187766 A
1 A
18187767 GGATACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (19 bp):
ACACATAGCAACTTTGGTC
Found at i:18191535 original size:15 final size:17
Alignment explanation
Indices: 18191511--18191544 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
18191501 GCTAAGGACT
18191511 AAATTGAAAAG-TGATA
1 AAATTGAAAAGATGATA
18191527 AAATT-AAAAGATGATA
1 AAATTGAAAAGATGATA
18191543 AA
1 AA
18191545 TAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
AAATTGAAAAGATGATA
Found at i:18193800 original size:42 final size:42
Alignment explanation
Indices: 18193754--18193834 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
18193744 GACAAACAGT
* * * *
18193754 CGTGTGTCTTGACCGTATGTGACACACGGCTTGGTACATCGG
1 CGTGTATCTTGACCATATGTGACACACAGCCTGGTACATCGG
*
18193796 CGTGTATCTTGACCATGTGTGACACACAGCCTGGTACAT
1 CGTGTATCTTGACCATATGTGACACACAGCCTGGTACAT
18193835 GAGTGTGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.28
Consensus pattern (42 bp):
CGTGTATCTTGACCATATGTGACACACAGCCTGGTACATCGG
Found at i:18195843 original size:48 final size:48
Alignment explanation
Indices: 18195669--18195842 Score: 251
Period size: 48 Copynumber: 3.6 Consensus size: 48
18195659 ATGAGATCTC
18195669 GTGTAAGACCATGTTTGGGACATGGCATCGACGTTGATATGTGTGCCA
1 GTGTAAGACCATGTTTGGGACATGGCATCGACGTTGATATGTGTGCCA
* * *
18195717 ATGTAAGACCATGTCTGGGACATGGCATCAACGTTGATATGTGTGCCA
1 GTGTAAGACCATGTTTGGGACATGGCATCGACGTTGATATGTGTGCCA
* ** * *
18195765 GTGTAAAACCATGTTTGGGACATGGCATCGGTGATGATATGTGTGCTA
1 GTGTAAGACCATGTTTGGGACATGGCATCGACGTTGATATGTGTGCCA
*
18195813 GTGTAAGACCATGTCTAGGG-CATGGCATCG
1 GTGTAAGACCATGT-TTGGGACATGGCATCG
18195843 GCACCGATAT
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 108 0.96
49 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTTTGGGACATGGCATCGACGTTGATATGTGTGCCA
Found at i:18195880 original size:96 final size:96
Alignment explanation
Indices: 18195659--18195872 Score: 247
Period size: 96 Copynumber: 2.2 Consensus size: 96
18195649 ACCATGGTTA
*
18195659 ATGAGATCTCGTGTAAGACCATGTTTGGGACATGGCATCGACGTTGATATGTGTGCCAATGTAAG
1 ATGAGATCTCGTGTAAGACCATGTTTGGGACATGGCATCGACGATGATATGTGTGCCAATGTAAG
***
18195724 ACCATGTCTGGGACATGGCATCAACGTTGAT
66 ACCATGTCTGGGACATGGCATCAACACCGAT
* * ** * *
18195755 ATGTG-TGC-CAGTGTAAAACCATGTTTGGGACATGGCATCGGTGATGATATGTGTGCTAGTGTA
1 ATGAGAT-CTC-GTGTAAGACCATGTTTGGGACATGGCATCGACGATGATATGTGTGCCAATGTA
**
18195818 AGACCATGTCTAGGG-CATGGCATCGGCACCGAT
64 AGACCATGTCT-GGGACATGGCATCAACACCGAT
*
18195851 ATGAGA-CTTCGTATAAGACCAT
1 ATGAGATC-TCGTGTAAGACCAT
18195873 ATCTGGGATA
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
95 3 0.03
96 90 0.93
97 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (96 bp):
ATGAGATCTCGTGTAAGACCATGTTTGGGACATGGCATCGACGATGATATGTGTGCCAATGTAAG
ACCATGTCTGGGACATGGCATCAACACCGAT
Found at i:18197528 original size:27 final size:27
Alignment explanation
Indices: 18197511--18197634 Score: 149
Period size: 27 Copynumber: 4.6 Consensus size: 27
18197501 ATATTAAGTC
18197511 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
18197538 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
18197566 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
18197593 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
18197620 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
18197635 GCACAATTTA
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 66 0.72
28 26 0.28
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:18197595 original size:55 final size:54
Alignment explanation
Indices: 18197511--18197634 Score: 194
Period size: 55 Copynumber: 2.3 Consensus size: 54
18197501 ATATTAAGTC
* *
18197511 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATC-AACT
* * *
18197566 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAACT
18197620 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18197635 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
54 18 0.28
55 46 0.72
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:18197765 original size:19 final size:19
Alignment explanation
Indices: 18197743--18197783 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
18197733 TCTTTTCTTT
18197743 TCATTCAATACTTTCATCA
1 TCATTCAATACTTTCATCA
18197762 TCATTCAATACTTTCATCA
1 TCATTCAATACTTTCATCA
18197781 TCA
1 TCA
18197784 CATACGTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (19 bp):
TCATTCAATACTTTCATCA
Found at i:18205615 original size:28 final size:27
Alignment explanation
Indices: 18205552--18205703 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
18205542 ATATTAAGTC
* * *
18205552 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
18205579 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
18205607 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
18205634 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
18205662 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
18205689 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18205704 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:18205636 original size:55 final size:55
Alignment explanation
Indices: 18205552--18205703 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
18205542 ATATTAAGTC
* * *
18205552 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
18205607 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
18205662 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
18205704 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:18213121 original size:13 final size:13
Alignment explanation
Indices: 18213103--18213130 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18213093 CAATCTCTTT
18213103 TGGGTATTCTATA
1 TGGGTATTCTATA
18213116 TGGGTATTCTATA
1 TGGGTATTCTATA
18213129 TG
1 TG
18213131 TACTGTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:18214607 original size:28 final size:27
Alignment explanation
Indices: 18214552--18214664 Score: 106
Period size: 27 Copynumber: 4.1 Consensus size: 27
18214542 AGCATGGCTG
* * *
18214552 CCAGA-ACTGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
18214578 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
18214606 CCAGA-ACAGATATATGTGGCAGAGCGA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* *
18214633 CCAGAT-TAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAA--TGTGGCAGAGCCA
18214661 CCAG
1 CCAG
18214665 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
26 6 0.08
27 35 0.49
28 31 0.43
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:18214636 original size:55 final size:54
Alignment explanation
Indices: 18214552--18214664 Score: 131
Period size: 55 Copynumber: 2.1 Consensus size: 54
18214542 AGCATGGCTG
*
18214552 CCAGAACTGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGTCACCAGAT-CAGATAATTCGTGGCAGAACCA
* * * * *
18214606 CCAGAACAGATATATGTGGCAGAG-CGACCAGATTAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGTC-ACCAGATCAGATAATTCGTGGCAGAACCA
18214661 CCAG
1 CCAG
18214665 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 18 0.36
55 32 0.64
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGTCACCAGATCAGATAATTCGTGGCAGAACCA
Found at i:18216109 original size:24 final size:24
Alignment explanation
Indices: 18216082--18216128 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
18216072 TTAGATTTCC
**
18216082 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
18216106 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
18216129 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:18219537 original size:44 final size:44
Alignment explanation
Indices: 18219487--18219574 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
18219477 TTTTCGGCCC
*
18219487 TCAATGCTGACACCACATTAGACAAATAACCCCTTTGCTCACCT
1 TCAATGCTGACACCACATTAGACAAATAACCCCTTCGCTCACCT
*
18219531 TCAATGCTGACACCACATTAGACAAATAATCCCTTCGCTCACCT
1 TCAATGCTGACACCACATTAGACAAATAACCCCTTCGCTCACCT
18219575 ATCATCATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.32, C:0.34, G:0.09, T:0.25
Consensus pattern (44 bp):
TCAATGCTGACACCACATTAGACAAATAACCCCTTCGCTCACCT
Found at i:18222007 original size:37 final size:37
Alignment explanation
Indices: 18221948--18222056 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
18221938 AGCTCAGACG
* * *
18221948 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
18221985 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
18222022 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
18222057 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:18222327 original size:47 final size:47
Alignment explanation
Indices: 18222265--18222761 Score: 895
Period size: 47 Copynumber: 10.6 Consensus size: 47
18222255 ACACGTTTCG
* * * * **
18222265 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
* * * *
18222312 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
*
18222359 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
18222406 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
18222453 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
18222500 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
18222547 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
18222594 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
18222641 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
18222688 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
18222735 CATTGGCCATTCAGCCTTATCACACAT
1 CATTGGCCATTCAGCCTTATCACACAT
18222762 GGCCTTATAA
Statistics
Matches: 442, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 442 1.00
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:18226639 original size:27 final size:26
Alignment explanation
Indices: 18226600--18226712 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
18226590 AGCATGGCTG
* * **
18226600 CCAGAACTGATAATGTGACAGAGTAA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
18226626 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
18226654 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
18226681 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
18226709 CCAG
1 CCAG
18226713 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.08
27 37 0.50
28 31 0.42
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:18226684 original size:55 final size:54
Alignment explanation
Indices: 18226600--18226712 Score: 138
Period size: 55 Copynumber: 2.1 Consensus size: 54
18226590 AGCATGGCTG
* *
18226600 CCAGAACTGATAATGTGACAGAGTAACCAGATACAGATAA-TCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCAACCAGAT-CAGATAATTCGTGGCAGAACCA
* * * * *
18226654 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCAACCAGATCAGATAATTCGTGGCAGAACCA
18226709 CCAG
1 CCAG
18226713 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 18 0.36
55 32 0.64
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCAACCAGATCAGATAATTCGTGGCAGAACCA
Found at i:18228158 original size:24 final size:24
Alignment explanation
Indices: 18228131--18228201 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
18228121 CTTGATTTCG
**
18228131 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
18228155 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
18228179 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
18228202 CTCCTAACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:18231605 original size:20 final size:20
Alignment explanation
Indices: 18231576--18231616 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
18231566 GAGTGTTAGT
18231576 TTCAACAAGTTTGATAGAGA
1 TTCAACAAGTTTGATAGAGA
*
18231596 TTCAATAAGTTTGATAGAGA
1 TTCAACAAGTTTGATAGAGA
18231616 T
1 T
18231617 CCATGGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (20 bp):
TTCAACAAGTTTGATAGAGA
Found at i:18246554 original size:15 final size:15
Alignment explanation
Indices: 18246534--18246564 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18246524 AAACCTATAA
*
18246534 AAATTAAATTAAACT
1 AAATTAAATAAAACT
18246549 AAATTAAATAAAACT
1 AAATTAAATAAAACT
18246564 A
1 A
18246565 CAAAGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAAAACT
Done.