Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007777.1 Hibiscus syriacus cultivar Beakdansim tig00110059_pilon, whole genome shotgun sequence
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: 1720799
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 10
Found at i:189211 original size:21 final size:21
Alignment explanation
Indices: 189185--189249 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
189175 AAGATAATCA
*
189185 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
189206 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
189227 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
189248 AG
1 AG
189250 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:191625 original size:200 final size:200
Alignment explanation
Indices: 191282--192058 Score: 1326
Period size: 200 Copynumber: 3.9 Consensus size: 200
191272 CAATATGGCT
* * *
191282 AACAGGGTGCAACCATAAAGTCTCAAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
191347 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
191412 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCATAATTAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
191477 TGGAA
196 TGGAA
191482 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
191547 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
191612 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
191677 TGGAA
196 TGGAA
*
191682 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAATATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
191747 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
191812 TAATAGGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
*
191877 TGGCA
196 TGGAA
* * *
191882 AACAGGCTGTAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
191947 CCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGATA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * * *
192012 GAAT-TGGTATATAAT-ATGTATCGACACTGTTTAATGTTT-TGTCGATA
131 GAATAT-GTCTA-AATAATGTGTCGACACTTTTTTA-GTTTGTGTCGATA
192059 CTAATTTAAA
Statistics
Matches: 550, Mismatches: 24, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
200 543 0.99
201 7 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:193539 original size:18 final size:18
Alignment explanation
Indices: 193518--193596 Score: 92
Period size: 18 Copynumber: 4.6 Consensus size: 18
193508 CAAGCGGTCA
193518 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGCTGACG
*
193536 ATGAAGATG-A--TGATG
1 ATGAAGATGAAGCTGACG
* * *
193551 ATGAAGATGATGATGATG
1 ATGAAGATGAAGCTGACG
*
193569 ATGACGATGAAGCTGACG
1 ATGAAGATGAAGCTGACG
193587 ATGAAGATGA
1 ATGAAGATGA
193597 TGATGATGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
15 13 0.25
17 1 0.02
18 37 0.73
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (18 bp):
ATGAAGATGAAGCTGACG
Found at i:193540 original size:12 final size:12
Alignment explanation
Indices: 193518--193632 Score: 95
Period size: 12 Copynumber: 9.3 Consensus size: 12
193508 CAAGCGGTCA
*
193518 ATGAAGATGAAG
1 ATGACGATGAAG
*
193530 CTGACGATGAAGATG
1 ATGACGATG-A-A-G
*
193545 ATGATGATGAAG
1 ATGACGATGAAG
* *
193557 ATGATGATGATG
1 ATGACGATGAAG
193569 ATGACGATGAAG
1 ATGACGATGAAG
*
193581 CTGACGATGAAG
1 ATGACGATGAAG
* *
193593 ATGATGATGATG
1 ATGACGATGAAG
* *
193605 ATGATGATGATG
1 ATGACGATGAAG
* *
193617 ATGATGATGATG
1 ATGACGATGAAG
193629 ATGA
1 ATGA
193633 TCCAAACAAG
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
12 77 0.87
13 2 0.02
14 2 0.02
15 8 0.09
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.25
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:193549 original size:3 final size:3
Alignment explanation
Indices: 193535--193633 Score: 135
Period size: 3 Copynumber: 33.0 Consensus size: 3
193525 TGAAGCTGAC
* * * * *
193535 GAT GAA GAT GAT GAT GAT GAA GAT GAT GAT GAT GAT GAC GAT GAA GCT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
193583 GAC GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
193631 GAT
1 GAT
193634 CCAAACAAGT
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.36, C:0.03, G:0.33, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:195071 original size:183 final size:182
Alignment explanation
Indices: 194843--196144 Score: 2171
Period size: 183 Copynumber: 7.1 Consensus size: 182
194833 CAAAGTTTTC
* ** * *
194843 ACACTTTTTAATATTGTGTATGCACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATT-
1 ACACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
* * * *
194907 TAAAAAAGTGTCG-ATTGAAAAACATCAGAACCCAGAATTATAATGTAATAGATAATTTTGTAAT
65 TCAAAAAGTGTCGAATT--TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAAT
194971 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
195026 ACACTTTTTAATATTGTGTCGGAACTTTATGTCTAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
195091 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
195156 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTATAACCTATATCG
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
195209 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGAAAGAAAAATGTGTCGATACATTGT
1 ACACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
195274 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
195339 AACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
195392 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGTAAGAAAAATGTGTCGATACCATT-
1 ACACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
* * *
195456 TAAAAAAGTGTCGATATTTACACATCGAAACCCATAATTATAATGTAATAGATAATTTTGTAATA
65 TCAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
195521 TAACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCT-CAACCTATATCG
129 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
195574 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATAGT
1 ACACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
*
195639 CAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
195704 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
195757 ACACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
195822 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
195887 AATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* * *
195940 ACACTTTCTAATATTGTGTCGAAACTTTATGTCCAGATTGGAAGAAAATTGTGTCAATACATTGT
1 ACACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
* *
196005 CAAAAAGTGTTGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTGATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* ** *
196070 AACTGGTATAAATATATTGGTTTTATGAGCGAATAGGTCTACAACCTGTATCG
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
196123 ACACTTTTTAATATTGTGTCGG
1 ACACTTTCTAATATTGTGTCGG
196145 TAATTTTAAG
Statistics
Matches: 1066, Mismatches: 47, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
181 3 0.00
182 174 0.16
183 882 0.83
184 4 0.00
185 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (182 bp):
ACACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
CAAAAAGTGTCGAATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:195880 original size:548 final size:549
Alignment explanation
Indices: 194843--196144 Score: 2270
Period size: 548 Copynumber: 2.4 Consensus size: 549
194833 CAAAGTTTTC
* ** * *
194843 ACACTTTTTAATATTGTGTATGCACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
** *
194908 AAAAAAGTGTCGAT-TGAAAAACATC-AGAACCCAGAATTATAATGTAATAGATAATTTTGTAAT
66 AAAAAAGTGTCGATAT-TTACACATCGA-AACCCAGAATTATAATGTAATAGATAATTTTGTAAT
*
194971 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTA
129 ATAACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTA
* *
195036 ATATTGTGTCGGAACTTTATGTCTAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGT
194 ATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATAGTCAAAAAGTGT
195101 CGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATA
259 CGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATA
*
195166 AATATACCGGTTTTATGAGCGAATAGGTCTATAACCTATATCGACACTTTCTAATATTGTGTCGG
324 AATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGG
*
195231 TACTTTATGTCCAGATTGAAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACAC
389 AACTTTATGTCCAGATTGAAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACAC
195296 ATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTT
454 ATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTT
195361 TTATGAGCGAATAGGTCTACAACCTATATCG
519 TTATGAGCGAATAGGTCTACAACCTATATCG
* *
195392 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGTAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
195457 AAAAAAGTGTCGATATTTACACATCGAAACCCATAATTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGATATTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
195522 AACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCT-CAACCTATATCGACACTTTTTAAT
131 AACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
195586 ATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATAGTCAAAAAGTGTCG
196 ATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATAGTCAAAAAGTGTCG
*
195651 ACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
261 ACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
195716 TATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGAA
326 TATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGAA
*
195781 CTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACACAT
391 CTTTATGTCCAGATTGAAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACACAT
* *
195846 CGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGTTTT
456 CGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTT
195911 ATGAGCGAATAGGTCTACAACCTATATCG
521 ATGAGCGAATAGGTCTACAACCTATATCG
* * *
195940 ACACTTTCTAATATTGTGTCGAAACTTTATGTCCAGATTGGAAGAAAATTGTGTCAATA-CATTG
1 ACACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-
* * * * *
196004 TCAAAAAGTGTTGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTGATA
65 TAAAAAAGTGTCGATATTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
** *
196069 TAACTGGTATAAATATATTGGTTTTATGAGCGAATAGGTCTACAACCTGTATCGACACTTTTTAA
130 TAACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAA
196134 TATTGTGTCGG
195 TATTGTGTCGG
196145 TAATTTTAAG
Statistics
Matches: 716, Mismatches: 33, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
547 4 0.01
548 522 0.73
549 188 0.26
550 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (549 bp):
ACACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGATATTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
ATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATAGTCAAAAAGTGTCG
ACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
TATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGAA
CTTTATGTCCAGATTGAAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACACAT
CGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTT
ATGAGCGAATAGGTCTACAACCTATATCG
Found at i:199019 original size:23 final size:23
Alignment explanation
Indices: 198988--199060 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
198978 ATAGGTAAAA
*
198988 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
199011 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
199034 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
199057 ATAT
1 ATAT
199061 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:199509 original size:23 final size:23
Alignment explanation
Indices: 199478--199550 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
199468 ATAGGTAAAA
*
199478 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
199501 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
199524 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
199547 ATAT
1 ATAT
199551 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:199999 original size:23 final size:23
Alignment explanation
Indices: 199968--200040 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
199958 ATAGGTAAAA
* *
199968 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
199991 ATATAATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
200014 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
200037 ATAT
1 ATAT
200041 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:200337 original size:489 final size:490
Alignment explanation
Indices: 198641--201421 Score: 5212
Period size: 490 Copynumber: 5.7 Consensus size: 490
198631 AGGTATGTAC
198641 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTTA
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTTA
198706 CGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTAT
65 CGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTAT
* *
198771 CTTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAAT
130 CTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAAT
*
198836 AATTTTTTGTGCAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TAAA
195 AATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
*
198900 AAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATAGA
260 AAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGA
198965 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
325 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
199030 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
390 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
199095 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
455 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
199131 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
199196 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
* *
199261 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
199326 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* *
199391 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATTCGTTTTATAAAAAGTATAGAC
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
199456 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
199521 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
391 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
199586 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
456 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
199621 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
199686 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
199751 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAATAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
* *
199816 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAATACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
199881 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCGTTTTATAAAAAGTATAGAC
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
* *
199946 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTAACG
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
* *
200011 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATACTTTTTATAAAAGTGTTCAT
391 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
200076 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
456 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
200111 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
* *
200175 GTTACGATATATATTATTATTAAATTAAAAAAAATAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
200240 TTGGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
200305 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* *
200370 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATTGATCATTTTTATAAAAAGTATAGAC
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
200435 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
200500 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
391 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
200565 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
456 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
*
200600 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
200665 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
200730 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
200795 ATGTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
200860 AAAATTAAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
*
200925 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTAGCG
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
*
200990 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTCAT
391 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
*
201055 ACTTTTTTCATTGTGGAAAACATTAATTTAAGGTT
456 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
201090 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
201154 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
* *
201219 ATGGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
201284 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT--AA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
201347 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTTATAAAAATGTATAG
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATC-CTTTTTATAAAAA-GTATAG
201412 ACACTTTCAA
324 ACACTTTCAA
201422 CATATTATAA
Statistics
Matches: 2240, Mismatches: 47, Indels: 9
0.98 0.02 0.00
Matches are distributed among these distances:
487 45 0.02
488 12 0.01
489 880 0.39
490 1303 0.58
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (490 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
Found at i:200488 original size:23 final size:23
Alignment explanation
Indices: 200457--200529 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
200447 ATAGGTAAAA
*
200457 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
200480 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
200503 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
200526 ATAT
1 ATAT
200530 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:200539 original size:979 final size:978
Alignment explanation
Indices: 198641--201421 Score: 5244
Period size: 979 Copynumber: 2.8 Consensus size: 978
198631 AGGTATGTAC
198641 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTTA
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTTA
198706 CGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTAT
65 CGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTAT
* *
198771 CTTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAAT
130 CTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAAT
*
198836 AATTTTTTGTGCAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TAAA
195 AATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
*
198900 AAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATAGA
260 AAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGA
198965 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
325 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
*
199030 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
390 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTCA
199095 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAAT
455 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAAT
*
199160 TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAA
520 TTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGATATATATTATTATTAAATTAAA
* *
199225 AACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACT
584 AACAATAAACATATATATTACATATTTATTATTATCTTGGGTTAATATTGTTAAATTTAAATTCT
* *
199290 AAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATT
649 AAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATT
199355 AATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTA
714 AATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTA
*
199420 AAAAAAGTATCGATTCGTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGAT
779 AAAAAAGTATCGA-TCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGAT
199485 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
843 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
199550 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTT
908 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTT
199615 AAGGTT
973 AAGGTT
199621 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
199686 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
199751 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAATAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
* *
199816 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAATACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
199881 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCGTTTTATAAAAAGTATAGAC
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
* *
199946 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTAACG
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
*
200011 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATACTTTTTATAAAAGTGTTCAT
391 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTCAT
200076 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATT
456 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATT
200141 TAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATTATTATTAAATTAAAAA
521 TAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATTATTATTAAATTAAAAA
*
200206 AAATAAACATATATATTACATATTTATTATTATCTTGGGTTAATATTGTTAAATTTAAATTCTAA
586 CAATAAACATATATATTACATATTTATTATTATCTTGGGTTAATATTGTTAAATTTAAATTCTAA
200271 ATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
651 ATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
200336 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
716 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
*
200401 AAAAGTATTGATCATTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGT
781 AAAAGTATCGATC-TTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGT
200466 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
845 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
200531 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
910 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
200596 GGTT
975 GGTT
*
200600 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
200665 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
200730 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
200795 ATGTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
200860 AAAATTAAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
*
200925 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTAGCG
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
200990 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTCAT
391 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTCAT
*
201055 ACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATT
456 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATT
201120 TAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATTATTATTAAATTAAAAA
521 TAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATTATTATTAAATTAAAAA
*
201185 CAATAAACATATATATTACATATTTATTATTATCATGGGTTAATATTGTTAAATTTAAATTCTAA
586 CAATAAACATATATATTACATATTTATTATTATCTTGGGTTAATATTGTTAAATTTAAATTCTAA
201250 ATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
651 ATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
201315 TATTGTAGGTGGAAAACATGAAACACTATT--AAAAAATTGAAACATAAATTACATAACTTTAAA
716 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
201378 AAAAGTATCGATCTTTTTTTATAAAAATGTATAGACACTTTCAA
781 AAAAGTATCGATC--TTTTTATAAAAA-GTATAGACACTTTCAA
201422 CATATTATAA
Statistics
Matches: 1761, Mismatches: 36, Indels: 9
0.98 0.02 0.00
Matches are distributed among these distances:
977 45 0.03
978 14 0.01
979 1359 0.77
980 343 0.19
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (978 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTCAT
ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATT
TAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATTATTATTAAATTAAAAA
CAATAAACATATATATTACATATTTATTATTATCTTGGGTTAATATTGTTAAATTTAAATTCTAA
ATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
AAAAGTATCGATCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
TAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
GTT
Found at i:200978 original size:23 final size:23
Alignment explanation
Indices: 200947--201019 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
200937 ATAGGTAAAA
*
200947 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
200970 ATATAATGTAATATGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
200993 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
201016 ATAT
1 ATAT
201020 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:201044 original size:46 final size:45
Alignment explanation
Indices: 200947--201044 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
200937 ATAGGTAAAA
* * *
200947 ATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT-ATGTAATATCTAGCCTTT
* *
200993 ATATAATGTAATAGGTAGTGCTTATAT-TGTAAAGTATCTATCCTTT
1 ATATAATGTAATAGGTAGCGCTTATATATGT-AA-TATCTAGCCTTT
*
201039 TTATAA
1 ATATAA
201045 AAGTGTTCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 3 0.07
45 2 0.05
46 39 0.89
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGCGCTTATATATGTAATATCTAGCCTTT
Found at i:204075 original size:19 final size:20
Alignment explanation
Indices: 204038--204081 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
204028 ACTGGGTGGG
204038 ACCGG-TCAGACCGGTTCAA
1 ACCGGTTCAGACCGGTTCAA
*
204057 TCCGGTTCAGACCGG-TCAA
1 ACCGGTTCAGACCGGTTCAA
204076 ACCGGT
1 ACCGGT
204082 CAAACAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.23, C:0.32, G:0.27, T:0.18
Consensus pattern (20 bp):
ACCGGTTCAGACCGGTTCAA
Found at i:204084 original size:9 final size:9
Alignment explanation
Indices: 204038--204086 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
204028 ACTGGGTGGG
*
204038 ACCGGTCAG
1 ACCGGTCAA
204047 ACCGGTTCAA
1 ACCGG-TCAA
* *
204057 TCCGGTTCAG
1 ACCGG-TCAA
204067 ACCGGTCAA
1 ACCGGTCAA
204076 ACCGGTCAA
1 ACCGGTCAA
204085 AC
1 AC
204087 AACAACACCC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
9 19 0.56
10 15 0.44
ACGTcount: A:0.27, C:0.33, G:0.24, T:0.16
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:206895 original size:57 final size:57
Alignment explanation
Indices: 206802--206967 Score: 226
Period size: 57 Copynumber: 2.9 Consensus size: 57
206792 AGTCCACATT
* * *
206802 AAAA-AATTCTCAAAATGTCACATTTTTTCAAAATAATTCCCAAAATGTCACATTTTTC
1 AAAATAATTCCCAAAATGTCAC--TTTTTCAAAATAATTCCTAAAATATCACATTTTTC
* * * *
206860 AAAATAATTCCCCAAATGTCACTTTTTCAAAATAATTCATAGAATATCACCTTTTTC
1 AAAATAATTCCCAAAATGTCACTTTTTCAAAATAATTCCTAAAATATCACATTTTTC
*
206917 AAAATAATTCCTAAAATGTCACCTTTTTCAAAATAATTCCTAAAATATCAC
1 AAAATAATTCCCAAAATGTCA-CTTTTTCAAAATAATTCCTAAAATATCAC
206968 CGAGTCGGGT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 49 0.52
58 31 0.33
59 15 0.16
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.36
Consensus pattern (57 bp):
AAAATAATTCCCAAAATGTCACTTTTTCAAAATAATTCCTAAAATATCACATTTTTC
Found at i:206968 original size:29 final size:29
Alignment explanation
Indices: 206813--206968 Score: 215
Period size: 29 Copynumber: 5.4 Consensus size: 29
206803 AAAAATTCTC
* *
206813 AAAATGTCACATTTTTTCAAAATAATTCCC
1 AAAATGTCAC-CTTTTTCAAAATAATTCCT
* *
206843 AAAATGTCACATTTTTCAAAATAATTCCC
1 AAAATGTCACCTTTTTCAAAATAATTCCT
* *
206872 CAAATGTCA-CTTTTTCAAAATAATTCAT
1 AAAATGTCACCTTTTTCAAAATAATTCCT
* *
206900 AGAATATCACCTTTTTCAAAATAATTCCT
1 AAAATGTCACCTTTTTCAAAATAATTCCT
206929 AAAATGTCACCTTTTTCAAAATAATTCCT
1 AAAATGTCACCTTTTTCAAAATAATTCCT
*
206958 AAAATATCACC
1 AAAATGTCACC
206969 GAGTCGGGTC
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
28 22 0.19
29 81 0.72
30 10 0.09
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATGTCACCTTTTTCAAAATAATTCCT
Found at i:207057 original size:19 final size:20
Alignment explanation
Indices: 207011--207061 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
207001 GGTCGGACTG
* *
207011 AACCGGGTCAGACCGGTTCA
1 AACCGGTTCAGACCAGTTCA
* *
207031 ATCTGGTTCAGACCAG-TCA
1 AACCGGTTCAGACCAGTTCA
207050 AACCGGTTCAGA
1 AACCGGTTCAGA
207062 TCGACTTAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20
Consensus pattern (20 bp):
AACCGGTTCAGACCAGTTCA
Found at i:208270 original size:24 final size:24
Alignment explanation
Indices: 208243--208295 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
208233 GAAGTTCCAT
*
208243 ATAGAATTTGTCCTAAATGACCAC
1 ATAGAATTTGTCCCAAATGACCAC
*
208267 ATAG-ATTTGTCCCGAATGACCAC
1 ATAGAATTTGTCCCAAATGACCAC
208290 ATAGAA
1 ATAGAA
208296 CCCTCGACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATAGAATTTGTCCCAAATGACCAC
Found at i:209089 original size:29 final size:29
Alignment explanation
Indices: 209045--209101 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
209035 TCCATTTTAA
209045 ACTGATAGTATAAGTAAT-GTTCTTTCAGT
1 ACTGATAGTATAAGT-ATCGTTCTTTCAGT
*
209074 ACTGATAGTATCAGTATCGTTCTTTCAG
1 ACTGATAGTATAAGTATCGTTCTTTCAG
209102 CACTAATACC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (29 bp):
ACTGATAGTATAAGTATCGTTCTTTCAGT
Found at i:215196 original size:23 final size:24
Alignment explanation
Indices: 215153--215209 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
215143 CACTGAAGTG
*
215153 CCACATAGAATTTGTCCCGAAGGA
1 CCACACAGAATTTGTCCCGAAGGA
*
215177 CCACACAG-ATTTGTCTCGAAGGA
1 CCACACAGAATTTGTCCCGAAGGA
* *
215200 CAACATAGAA
1 CCACACAGAA
215210 CCCTCGACTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (24 bp):
CCACACAGAATTTGTCCCGAAGGA
Found at i:217300 original size:23 final size:23
Alignment explanation
Indices: 217274--217323 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
217264 ATCAAGTTCA
**
217274 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAAAAGGTAGCGCTTAT
*
217297 ATAATATAAAAGGTAGCGCTTAT
1 ATAACATAAAAGGTAGCGCTTAT
217320 ATAA
1 ATAA
217324 TAAAATAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (23 bp):
ATAACATAAAAGGTAGCGCTTAT
Found at i:217869 original size:200 final size:198
Alignment explanation
Indices: 217403--217925 Score: 606
Period size: 200 Copynumber: 2.6 Consensus size: 198
217393 TAGGTAGCGC
* * * *
217403 TTATATTGACCTATTTTCTAAGTAAACCGGTTTATTTATACCGGTAACATTGCAAATTTACCTAT
1 TTATGTTGACCTATTTTCTAA-TAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* * * *
217468 TACATTC-TAATTATCGGTTTT-GATGTTTTTAGGATCGATACAATTT--TAAATGTATAGATAC
65 TACA-TCATAATTATC-GTTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACAC
* * * *
217529 TTTATGCGTGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACATATTTAAAAATTGT
127 TTTATGCGTCCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAAATTCAAAAAGTGT
217594 CGATACA
192 CGATACA
* * * **
217601 TTATGTTGACCTATTCTCTCATAAAACCGGTATATTTATATCAATTACATTGTAAATTTACCTAT
1 TTATGTTGACCTATTTTCTAAT-AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
*
217666 TACATCATAATTATCGTTTTCGATGTTTTTGGGATCGATACTTTTAATAAATATATCGACACTTT
65 TACATCATAATTATCGTTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
* * * * *
217731 ATGCGTCCACCTCGTTTGGGCATTCATTTTGGACAATAGGTATCGACACAAATTCCACAAGTGTC
130 ATGCGTCCACCTCG-TTGGGCATTCATTCTGGA-AAAAAGTATCGACACAAATTCAAAAAGTGTC
217796 GATACA
193 GATACA
* * * * * * * *
217802 TTATGTTTACCTATTTTGTAATTAATCGGTATATTTATACCGGTTACATTTTTAATGTACATATT
1 TTATGTTGACCTATTTTCTAATAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
* * * * * *
217867 ACATTATAATTATTGGTTTCGATATTTTTGGGGTTGATACTTTTAGA-AAATGTATCGAC
66 ACATCATAATTATCGTTTTCGATGTTTTTGGGATCGATACTTTTA-ATAAATGTATCGAC
217926 CCATATTTTT
Statistics
Matches: 274, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
197 11 0.04
198 85 0.31
199 28 0.10
200 101 0.37
201 49 0.18
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (198 bp):
TTATGTTGACCTATTTTCTAATAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
ACATCATAATTATCGTTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTA
TGCGTCCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAAATTCAAAAAGTGTCGAT
ACA
Found at i:220644 original size:19 final size:19
Alignment explanation
Indices: 220620--220686 Score: 98
Period size: 19 Copynumber: 3.5 Consensus size: 19
220610 TTACATTCAC
220620 ATACAAAATTATAAATCAT
1 ATACAAAATTATAAATCAT
*
220639 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCAT
* * *
220658 ATAAAAAATTATGAATCGT
1 ATACAAAATTATAAATCAT
220677 ATACAAAATT
1 ATACAAAATT
220687 TTCTCTGTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCAT
Found at i:222227 original size:200 final size:200
Alignment explanation
Indices: 221878--223071 Score: 1522
Period size: 200 Copynumber: 6.0 Consensus size: 200
221868 CGTAATTTAA
* * * * *
221878 AAAACGTATCGACACAACTTTAAAATGTGTCGATACATTATGTAGACCTATTTTCTA-AT-TAAC
1 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTC-ACATAAAAA
* * * * * *
221941 CGGTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATGATATTTATCGGT-TTCGATGT
65 CAGTATATTTCTACCGGTTACATTGAAAAATTACCTATTACATTATAATTATC-TTATTCGATGT
* * * * * *
222005 TTATGAGATAGATACTTTTTATAAATGTATCGACACTTTATTCGTACACCCCGTTGGGTATTCTT
129 TTTTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTACACCCCGTTGGGCATTCAT
* *
222070 TCTTGTT
194 TCTGGTC
* *
222077 AAAACGTATCGACACAAATTTTAAAAGTGTCAATACATTATGTAGACCTATTCTCACATAAAAAC
1 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAAAC
*
222142 AGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCTTATTCGATGTTT
66 AGTATATTTCTACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCTTATTCGATGTTT
* * * *
222207 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCATTGGGCATTCATTA
131 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTACACCCCGTTGGGCATTCATTC
222272 TGGTC
196 TGGTC
* * *
222277 AAAACATATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATT-T-TC-TAATTAA
1 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAA-AAA
* * *
222339 CTGATATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTAT-TGGT-TTCGAT
65 CAG-TATATTTCTACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCT--TATTCGAT
* * * * *
222402 GTTGTTGGGATTGATACAATTT-TAAATGTATCGACACTTTATTCATACACCCCATTGGGCATTC
127 GTTTTTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTACACCCCGTTGGGCATTC
*
222466 TTTCTGGTC
192 ATTCTGGTC
* * * * *
222475 AAAATGTATCGACACAAATTTTAAAAGTGTTGATACATTATGTAGACCTATT-T-TC-TAATTAA
1 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAA-AAA
* * * *
222537 CCGATATATTTCTACCGGTTACATT-AGAAATTGACCTATTACATTATAATTATCTTTTTTGAT-
65 CAG-TATATTTCTACCGGTTACATTGAAAAATT-ACCTATTACATTATAATTATCTTATTCGATG
222600 TTTTTGGGATCGATA-AGTTTTATAAATGTATCGACACTTTATTCGTACACCCCGTTGGGCATTC
128 TTTTTGGGATCGATACA-TTTTATAAATGTATCGACACTTTATTCGTACACCCCGTTGGGCATTC
*
222664 TTTCTGGTC
192 ATTCTGGTC
* * * *
222673 AAAACGTATCGACACAAATTTAAAAAGTCTTGATACATTATGTAGACCTCTTCTCACATAAAACC
1 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAAAC
* * *
222738 AGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTTTAATTATCTTATTCGATGATT
66 AGTATATTTCTACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCTTATTCGATGTTT
* * * **
222803 TTGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTTGTCCATTCATTC
131 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTACACCCCGTTGGGCATTCATTC
222868 TGGTC
196 TGGTC
*
222873 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
1 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAAAC
* * * *
222938 GGTATATATCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTTACTT-GATGTT
66 AGTATATTTCTACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCTTA-TTCGATGTT
** * * *
223002 TTTTTGATCGATAC-TTTTAATAAATGTATCGACACTTTATTTGTGCACCTCGGTTGGGCATTCA
130 TTTGGGATCGATACATTTT-ATAAATGTATCGACACTTTATTCGTACACC-CCGTTGGGCATTCA
223066 TTCTGG
193 TTCTGG
223072 AGATTACTGA
Statistics
Matches: 880, Mismatches: 94, Indels: 40
0.87 0.09 0.04
Matches are distributed among these distances:
196 1 0.00
197 24 0.03
198 257 0.29
199 178 0.20
200 399 0.45
201 21 0.02
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (200 bp):
AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAAAC
AGTATATTTCTACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCTTATTCGATGTTT
TTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTACACCCCGTTGGGCATTCATTC
TGGTC
Found at i:225270 original size:44 final size:43
Alignment explanation
Indices: 225221--225343 Score: 126
Period size: 44 Copynumber: 2.9 Consensus size: 43
225211 AATCTGGTCA
225221 GGTGATGACACTGCTCATCTGTTAATGAGTCTTGGCCATCTAAG
1 GGTGATGACACTGCTCATCTGTTAATGAGTCTTGGCCATCT-AG
* * * * **
225265 GGTGATAACACTGCTCATACT-ATGATAAGTCTTGGTTATCTAG
1 GGTGATGACACTGCTCAT-CTGTTAATGAGTCTTGGCCATCTAG
* * *
225308 GGT--TGACACTGCTCATATGTTCATGAGTCTAGGCCA
1 GGTGATGACACTGCTCATCTGTTAATGAGTCTTGGCCA
225344 GGGGATTTTG
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
40 1 0.02
41 23 0.37
43 5 0.08
44 32 0.51
45 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (43 bp):
GGTGATGACACTGCTCATCTGTTAATGAGTCTTGGCCATCTAG
Found at i:225659 original size:32 final size:32
Alignment explanation
Indices: 225605--225678 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
225595 TTCACATCAG
* *
225605 GATGTTGAATCCCCGAAGATTCCCTAATATTC
1 GATGTTGAATCCCCAAAGATTCCCTAACATTC
* * *
225637 GATGTTGAATCTCCAAATATTCCTTAACATTC
1 GATGTTGAATCCCCAAAGATTCCCTAACATTC
* *
225669 GCTATTGAAT
1 GATGTTGAAT
225679 TTTTAAAGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (32 bp):
GATGTTGAATCCCCAAAGATTCCCTAACATTC
Found at i:232942 original size:32 final size:31
Alignment explanation
Indices: 232892--232986 Score: 100
Period size: 32 Copynumber: 3.0 Consensus size: 31
232882 ATGAAACATG
* * * *
232892 ACACAATCAAAAGAAAATAAATAGGTTAGTGT
1 ACACAAACAAAAGGAAATAAATA-GTTAATAT
*
232924 ACATAAACAAAAGGAAATAAATTAGTTAATAT
1 ACACAAACAAAAGGAAATAAA-TAGTTAATAT
* *
232956 ACACAAACAAAAGGAAAGAAATCATTTAATA
1 ACACAAACAAAAGGAAATAAAT-AGTTAATA
232987 CAGGTGAGAC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
31 1 0.02
32 50 0.94
33 2 0.04
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (31 bp):
ACACAAACAAAAGGAAATAAATAGTTAATAT
Found at i:236587 original size:3 final size:3
Alignment explanation
Indices: 236579--236646 Score: 93
Period size: 3 Copynumber: 22.3 Consensus size: 3
236569 TAAACAAAAT
* *
236579 TAA TAA TAA TAA TAA TAT TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
236627 TAA TAAA TAA GT-A TAA TAA T
1 TAA T-AA TAA -TAA TAA TAA T
236647 TTAAGCCCGG
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 1 0.02
3 53 0.91
4 4 0.07
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:237832 original size:18 final size:18
Alignment explanation
Indices: 237809--237845 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
237799 CAAAATTTAT
237809 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
237827 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
237845 A
1 A
237846 GTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:240456 original size:201 final size:201
Alignment explanation
Indices: 240007--241231 Score: 1778
Period size: 201 Copynumber: 6.1 Consensus size: 201
239997 GTATTGTAGT
* * *
240007 ATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGG-ACTTCATTCTGG
1 ATCGATACTTTTTATAAATGTATCAACACTTTATGCGTGCACCCAGTTTGGGCA-TTCATTCTGG
* * * * * * *
240071 AAAAAAAGTATCGACACAAATT-TAAAAATATTGATACATTATGTAGACCTATTCTCTCTTAAAA
65 ACAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA
* * *
240135 CAGGTATATTTATACCGGTTACATTGAAAAA-TACATATTACATTATAATTATGGGTTTCGATGT
130 CCGGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
240199 TTTTGGG
195 TTTTGGG
* * *
240206 ATCAATACATTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGGCATTCATTCTGGA
1 ATCGATACTTTTTATAAATGTATCAACACTTTATGCGTGCACCCAGTTTGGGCATTCATTCTGGA
* ** * *
240271 CAAAAAATATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAAAAC
66 CAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* * * * *
240336 CGGTATATTTATGTCGGTTACATTGAAAAATTACCTATTACATTATCATTATGGCTTTTGATATT
131 CGGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
240401 TTTGGG
196 TTTGGG
* ** *
240407 ATCGATACTTTTTGTAAATGTATCAACACTTTATGCGTGCACTTAGTTTGGGAATTCATTCTGGA
1 ATCGATACTTTTTATAAATGTATCAACACTTTATGCGTGCACCCAGTTTGGGCATTCATTCTGGA
* *
240472 CAAAAAGTATCGACACAAATTCCACAAGCGTCGATACATTATGTAGACCTATTCTCTCATAAAAT
66 CAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* * *
240537 TGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTT-GATGCT
131 CGGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
240601 TTTGGG
196 TTTGGG
* * * *
240607 ATCGATACTTTTTATAAATGTATCGACACTTTATGC-TAACATCCATTTTGGGCATTCATTCTGG
1 ATCGATACTTTTTATAAATGTATCAACACTTTATGCGT-GCACCCAGTTTGGGCATTCATTCTGG
* *
240671 ACAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTAAGTAGACATATTCTCTCATAAAA
65 ACAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA
* * ** * *
240736 CCGATCTATTTATATCGGTTATGTTGAAAAATTACTTATTACATTATAATTATGGATTTCGATGT
130 CCGGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
240801 TTTTGGG
195 TTTTGGG
* * *
240808 ATCGATACTTTTTATAAATGTATCAACACTTTATACGAGCACCCATTTTGGGCATTCATTCTGGA
1 ATCGATACTTTTTATAAATGTATCAACACTTTATGCGTGCACCCAGTTTGGGCATTCATTCTGGA
*
240873 CAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAAC
66 CAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* * * *
240938 CGGTATATTTATATCGATTACTTTGAAAAATTACCTATTATATTATAATTATGGGGTTCGATGTT
131 CGGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
*
241003 TTTGGA
196 TTTGGG
** * * *
241009 ATCGATACTTTTTATAAATGTATTGACGCTTTATGCGTGCACCCATTTTGGGCATTCATTGTGGA
1 ATCGATACTTTTTATAAATGTATCAACACTTTATGCGTGCACCCAGTTTGGGCATTCATTCTGGA
* * *
241074 CAAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTAGACCTATTCTTTCATAAAAT
66 CAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* *
241139 CGGTATATTTATA-CAGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTTGATAT
131 CGGTATATTTATATC-GGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
241203 TTTTGGG
195 TTTTGGG
*
241210 ATCGATACTTTTTATAACTGTA
1 ATCGATACTTTTTATAAATGTA
241232 GCGACACATA
Statistics
Matches: 927, Mismatches: 92, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
199 79 0.09
200 244 0.26
201 604 0.65
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (201 bp):
ATCGATACTTTTTATAAATGTATCAACACTTTATGCGTGCACCCAGTTTGGGCATTCATTCTGGA
CAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
CGGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
TTTGGG
Found at i:240756 original size:401 final size:400
Alignment explanation
Indices: 240007--241231 Score: 1828
Period size: 401 Copynumber: 3.1 Consensus size: 400
239997 GTATTGTAGT
* * *
240007 ATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGACTTCATTCTGGA
1 ATCGATACTTTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGGAATTCATTCTGGA
* * * * * * *
240072 AAAAAAGTATCGACACAAATT-TAAAAATATTGATACATTATGTAGACCTATTCTCTCTTAAAAC
66 CAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
*
240136 AGGTATATTTATACCGGTTACATTGAAAAA-TACATATTACATTATAATTATGGGTTTCGATGTT
131 AGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTT-GATGTT
* * * *
240200 TTTGGGATCAATACATTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
195 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACC-ATTTTGGGCATTCAT
* * * *
240265 TCTGGACAAAAAATATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCT
259 TCTGGACAAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTAGACCTATTCTCTCA
* * *
240330 TAAAACCGGTATATTTATGTCGGTTACATTGAAAAATTACCTATTACATTATCATTATGGCTTTT
324 TAAAACCGGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTT
240395 GATATTTTTGGG
389 GATATTTTTGGG
* *
240407 ATCGATACTTTTTGTAAATGTATCAACACTTTATGCGTGCACTTAGTTTGGGAATTCATTCTGGA
1 ATCGATACTTTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGGAATTCATTCTGGA
* *
240472 CAAAAAGTATCGACACAAATTCCACAAGCGTCGATACATTATGTAGACCTATTCTCTCATAAAAT
66 CAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* *
240537 TGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTGATGCTT
131 AGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTGATGTTT
*
240602 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGC-TAACATCCATTTTGGGCATTCAT
196 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGT-GCA-CCATTTTGGGCATTCAT
* * *
240666 TCTGGACAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTAAGTAGACATATTCTCTCA
259 TCTGGACAAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTAGACCTATTCTCTCA
* * ** * *
240731 TAAAACCGATCTATTTATATCGGTTATGTTGAAAAATTACTTATTACATTATAATTATGGATTTC
324 TAAAACCGGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTT
*
240796 GATGTTTTTGGG
389 GATATTTTTGGG
* * * * *
240808 ATCGATACTTTTTATAAATGTATCAACACTTTATACGAGCACCCATTTTGGGCATTCATTCTGGA
1 ATCGATACTTTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGGAATTCATTCTGGA
*
240873 CAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAAC
66 CAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* * * * * *
240938 CGGTATATTTATATCGATTACTTTGAAAAATTACCTATTATATTATAATTATGGGGTTCGATGTT
131 AGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTAT-GGGTTTGATGTT
* * *
241003 TTTGGAATCGATACTTTTTATAAATGTATTGACGCTTTATGCGTGCACCCATTTTGGGCATTCAT
195 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCA-CCATTTTGGGCATTCAT
* *
241068 TGTGGACAAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTAGACCTATTCTTTCA
259 TCTGGACAAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTAGACCTATTCTCTCA
* *
241133 TAAAATCGGTATATTTATA-CAGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTT
324 TAAAACCGGTATATTTATATC-GGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTT
241197 TGATATTTTTGGG
388 TGATATTTTTGGG
*
241210 ATCGATACTTTTTATAACTGTA
1 ATCGATACTTTTTATAAATGTA
241232 GCGACACATA
Statistics
Matches: 742, Mismatches: 76, Indels: 12
0.89 0.09 0.01
Matches are distributed among these distances:
400 81 0.11
401 417 0.56
402 243 0.33
403 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (400 bp):
ATCGATACTTTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGGAATTCATTCTGGA
CAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
AGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTGATGTTT
TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTC
TGGACAAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATA
AAACCGGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTTGA
TATTTTTGGG
Found at i:241711 original size:19 final size:19
Alignment explanation
Indices: 241687--241735 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
241677 TTACATTCAC
241687 ATACAAAATTATAAATCG-T
1 ATACAAAATTATAAAT-GTT
241706 ATACAAAATTATAAATGTT
1 ATACAAAATTATAAATGTT
241725 ATACAAAATTA
1 ATACAAAATTA
241736 ACCCTACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 1 0.03
19 28 0.97
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATGTT
Found at i:243314 original size:18 final size:18
Alignment explanation
Indices: 243291--243325 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
243281 TCCTCCTCAT
243291 TTCCTCCATCTTTTCTTA
1 TTCCTCCATCTTTTCTTA
243309 TTCCTCCATCTTTTCTT
1 TTCCTCCATCTTTTCTT
243326 CTTCATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.09, C:0.34, G:0.00, T:0.57
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTA
Found at i:243532 original size:21 final size:21
Alignment explanation
Indices: 243490--243534 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
243480 CATAAATTTT
* * * *
243490 TTCACCCGTCATCATCTTAAC
1 TTCACCCCTCAACACCTCAAC
243511 TTCACCCCTCAACACCTCAAC
1 TTCACCCCTCAACACCTCAAC
243532 TTC
1 TTC
243535 TTTCACCACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.44, G:0.02, T:0.29
Consensus pattern (21 bp):
TTCACCCCTCAACACCTCAAC
Found at i:243706 original size:15 final size:16
Alignment explanation
Indices: 243682--243717 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
243672 TACTCTATTT
243682 TCCCTCACCGTCATCC
1 TCCCTCACCGTCATCC
*
243698 -CCCTGACCGTCATCC
1 TCCCTCACCGTCATCC
243713 TCCCT
1 TCCCT
243718 ACTACCATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.11, C:0.56, G:0.08, T:0.25
Consensus pattern (16 bp):
TCCCTCACCGTCATCC
Found at i:244012 original size:22 final size:24
Alignment explanation
Indices: 243984--244031 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
243974 AACTTGCATT
*
243984 TATAATAA-AAT-TTATCATTTTA
1 TATAATAATAATACTATCATTTTA
*
244006 TATAATAATTATACTATCATTTTA
1 TATAATAATAATACTATCATTTTA
244030 TA
1 TA
244032 AAAAAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 2 0.09
24 12 0.55
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (24 bp):
TATAATAATAATACTATCATTTTA
Found at i:246299 original size:182 final size:182
Alignment explanation
Indices: 245992--246473 Score: 700
Period size: 182 Copynumber: 2.6 Consensus size: 182
245982 TACGCGTACT
* * *
245992 TATTAAAGTATCGACACTTTCAATATATCCTGTAGCGCTTTACCGGTTTTATCATTTCGAGGCCA
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCA
* * * *
246057 GTTTTTTCATATTTTTACCTTTTATATCGTTATGAATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTATCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
* * *
246122 TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCTCGAAGTGTCGATACTTA
131 TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCAATACTTA
*
246174 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTATTGTCATTTCGAGACCA
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCA
* *
246239 GTTTTATCATATTTTTACATGTTATATGGTTATGGATCGACACATTTTTATAAAGTATCGACACT
66 GTTTTATCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
246304 TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCAATACTTA
131 TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCAATACTTA
** * * *
246356 T-TTCAATCTAATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATAATT--AA
1 TATT-AAAGT-ATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCAT--TTCGAG
* * * *
246418 ACTAGTTTTGTCATATTTTTACATGTTATATTGATATGGATCGATACAATTTTTAT
62 ACCAGTTTTATCATATTTTTACATGTTATATCGTTATGGATCGATAC-ATTTTTAT
246474 TTGGATCGAC
Statistics
Matches: 271, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
181 2 0.01
182 173 0.64
183 86 0.32
184 8 0.03
185 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCA
GTTTTATCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCAATACTTA
Found at i:248879 original size:30 final size:30
Alignment explanation
Indices: 248844--248915 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
248834 TTCCTTTTCA
248844 GTGTGGATGTTCATGCTCGTTGTAAAACAT
1 GTGTGGATGTTCATGCTCGTTGTAAAACAT
248874 GTGTGGATGTTCATGCTCGTTGTAAAACAT
1 GTGTGGATGTTCATGCTCGTTGTAAAACAT
248904 GTGTGGATGTTC
1 GTGTGGATGTTC
248916 CTTGTATTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.21, C:0.12, G:0.29, T:0.38
Consensus pattern (30 bp):
GTGTGGATGTTCATGCTCGTTGTAAAACAT
Found at i:253270 original size:19 final size:16
Alignment explanation
Indices: 253245--253296 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 16
253235 CAAGTATATG
253245 TCTATGTGTTACATGTCA
1 TCTATGTGTTACATG--A
*
253263 TACTATGTGTTAAATGA
1 T-CTATGTGTTACATGA
253280 TCTATGTGATTACATGA
1 TCTATGTG-TTACATGA
253297 GAATATGACA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 7 0.23
17 9 0.30
18 1 0.03
19 13 0.43
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (16 bp):
TCTATGTGTTACATGA
Found at i:253557 original size:23 final size:23
Alignment explanation
Indices: 253437--253548 Score: 143
Period size: 23 Copynumber: 4.9 Consensus size: 23
253427 GAGTCGAGGG
*
253437 TTCTACGCGGTCCTTCGGGATAA
1 TTCTACGTGGTCCTTCGGGATAA
*
253460 TTCTACGTGGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGATAA
* *
253483 TTCTACGTGGTCATTCGGGATAT
1 TTCTACGTGGTCCTTCGGGATAA
**
253506 TTCTACGCAGTCCTTCGGGATAA
1 TTCTACGTGGTCCTTCGGGATAA
* * *
253529 TACTATGTGGTTCTTCGGGA
1 TTCTACGTGGTCCTTCGGGA
253549 CATTTCTATA
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 75 1.00
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGATAA
Found at i:260434 original size:23 final size:24
Alignment explanation
Indices: 260403--260465 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
260393 GGGTTCTACA
*
260403 CGGTCCTTCGGGATAA-CTCTAAG
1 CGGTACTTCGGGATAATCTCTAAG
* *
260426 TGGTACTTCGGGA-AATTTCTAAG
1 CGGTACTTCGGGATAATCTCTAAG
*
260449 CGGTTCTTCGGGATAAT
1 CGGTACTTCGGGATAAT
260466 ACTATGTGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 2 0.06
23 28 0.85
24 3 0.09
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (24 bp):
CGGTACTTCGGGATAATCTCTAAG
Found at i:261344 original size:35 final size:35
Alignment explanation
Indices: 261299--261423 Score: 112
Period size: 35 Copynumber: 3.6 Consensus size: 35
261289 GTGGCACACT
* * *
261299 TTGGTGAAGAGACATGAATTCTGGTGAAGCATCTC
1 TTGGTAAAGAGACATGACTTCTGGTGAAGCACCTC
* * *
261334 TTGGTAAAGAGGCATGACTTTTGG-GAAAACACCTC
1 TTGGTAAAGAGACATGACTTCTGGTG-AAGCACCTC
* *
261369 TTGATGAAGAGAGACA--ACTTCTGGTGAGGCACCTC
1 TTGGT-AA-AGAGACATGACTTCTGGTGAAGCACCTC
**
261404 TTGGTAAAGAGTTATGACTT
1 TTGGTAAAGAGACATGACTT
261424 TTCATGAAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
33 5 0.07
34 3 0.04
35 53 0.76
36 3 0.04
37 6 0.09
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (35 bp):
TTGGTAAAGAGACATGACTTCTGGTGAAGCACCTC
Found at i:263536 original size:2 final size:2
Alignment explanation
Indices: 263529--263584 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
263519 GTAGTCCTGC
263529 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
263571 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
263585 GGATTGTTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:269370 original size:18 final size:20
Alignment explanation
Indices: 269339--269375 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
269329 ATAATATAAT
269339 ATTACCAGTGGGAATAAAAG
1 ATTACCAGTGGGAATAAAAG
269359 ATTACCA-T-GGAATAAAA
1 ATTACCAGTGGGAATAAAA
269376 TTACTGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.22
Consensus pattern (20 bp):
ATTACCAGTGGGAATAAAAG
Found at i:270490 original size:2 final size:2
Alignment explanation
Indices: 270483--270529 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
270473 ACCATATAAG
270483 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
270524 AT AT AT
1 AT AT AT
270530 TATTTTCACA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:271610 original size:32 final size:35
Alignment explanation
Indices: 271565--271656 Score: 95
Period size: 37 Copynumber: 2.7 Consensus size: 35
271555 TATATCTACA
271565 ATTTTA-T-AAATAAAAATA-TA-AAAATAT-TTT
1 ATTTTATTAAAATAAAAATATTATAAAATATATTT
* *
271595 ATTTTATTAAAATAAAATTATTATAAATTATATTT
1 ATTTTATTAAAATAAAAATATTATAAAATATATTT
* *
271630 ATTATTTATTAAAATAAGAATAATATA
1 A-T-TTTATTAAAATAAAAATATTATA
271657 TTATTAATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
30 6 0.12
31 1 0.02
32 10 0.20
33 2 0.04
34 6 0.12
35 4 0.08
36 1 0.02
37 20 0.40
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (35 bp):
ATTTTATTAAAATAAAAATATTATAAAATATATTT
Found at i:271645 original size:37 final size:38
Alignment explanation
Indices: 271597--271703 Score: 119
Period size: 42 Copynumber: 2.7 Consensus size: 38
271587 AATATTTTAT
*
271597 TTTATTAAAAT-AAAATTATTATAAATTATATTTATTA
1 TTTATTAAAATAAAAATTATTATAAATTATATTAATTA
*
271634 TTTATTAAAATAAGAATAATATATTATTAATTATATTAATTA
1 TTTATTAAAAT-A-AA-AAT-TATTATAAATTATATTAATTA
*
271676 TTTATTAAAATGATAATATTATTA-AAAT
1 TTTATTAAAAT-A-AAAATTATTATAAAT
271704 ATTAAAAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
37 11 0.19
39 3 0.05
40 7 0.12
41 5 0.08
42 33 0.56
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.49
Consensus pattern (38 bp):
TTTATTAAAATAAAAATTATTATAAATTATATTAATTA
Found at i:271708 original size:8 final size:8
Alignment explanation
Indices: 271695--271727 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
271685 ATGATAATAT
271695 TATTAAAA
1 TATTAAAA
271703 TATTAAAA
1 TATTAAAA
*
271711 -ATAAAAA
1 TATTAAAA
271718 TATTAAAA
1 TATTAAAA
271726 TA
1 TA
271728 AAAATATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
TATTAAAA
Found at i:271731 original size:14 final size:15
Alignment explanation
Indices: 271699--271734 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
271689 TAATATTATT
271699 AAAATATTAAAAATA
1 AAAATATTAAAAATA
271714 AAAATATT-AAAATA
1 AAAATATTAAAAATA
271728 AAAATAT
1 AAAATAT
271735 GATATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATATTAAAAATA
Found at i:271869 original size:49 final size:48
Alignment explanation
Indices: 271781--271877 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 48
271771 TAATTCAATA
*
271781 ATATTATTGAAATAATAAATAATATTAATTTTATTAATAATTTATTAT
1 ATATTATTAAAATAATAAATAATATTAATTTTATTAATAATTTATTAT
**
271829 ATATTATTAAAATAA-AAGTATAATATTGTTTATTA-TAATAATTTATTAT
1 ATATTATTAAAATAATAA--ATAATATTAATT-TTATTAATAATTTATTAT
271878 TAATAAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 2 0.05
48 14 0.33
49 24 0.56
50 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (48 bp):
ATATTATTAAAATAATAAATAATATTAATTTTATTAATAATTTATTAT
Found at i:271875 original size:13 final size:14
Alignment explanation
Indices: 271857--271909 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 14
271847 TATAATATTG
271857 TTTATTA-TAATAA
1 TTTATTATTAATAA
271870 TTTATTATTAATAA
1 TTTATTATTAATAA
* *
271884 -ATAATATTAAT--
1 TTTATTATTAATAA
*
271895 TTTATTAATAATAA
1 TTTATTATTAATAA
271909 T
1 T
271910 GTCTTGCATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
12 8 0.26
13 16 0.52
14 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTATTATTAATAA
Found at i:272741 original size:17 final size:17
Alignment explanation
Indices: 272721--272754 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
272711 AAAATTTTAA
*
272721 TAATTTTGTATATAATT
1 TAATTTTGTAAATAATT
*
272738 TAATTTTTTAAATAATT
1 TAATTTTGTAAATAATT
272755 AAGTTTTACA
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:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TAATTTTGTAAATAATT
Found at i:279132 original size:46 final size:46
Alignment explanation
Indices: 279071--279207 Score: 159
Period size: 46 Copynumber: 3.0 Consensus size: 46
279061 AATAATAACT
* * * *
279071 GAATTACAAGATGGTGCATCCTTATTGGATGATAATTTCACTAATT
1 GAATAACAAGTTGGTGCATCCTTATTGGATGATAATTTCAATAATC
* * **
279117 TAATAACAAGTTGGTGTATCCTTATCAGATGATAATTTCAATAATC
1 GAATAACAAGTTGGTGCATCCTTATTGGATGATAATTTCAATAATC
* *
279163 GAATAACAGGTTGGTGCAT-CTTCATTGGATGATAAAGTTCAATAA
1 GAATAACAAGTTGGTGCATCCTT-ATTGGATGAT-AATTTCAATAA
279208 CCATATTATA
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
45 3 0.04
46 62 0.83
47 10 0.13
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (46 bp):
GAATAACAAGTTGGTGCATCCTTATTGGATGATAATTTCAATAATC
Found at i:280307 original size:16 final size:18
Alignment explanation
Indices: 280275--280309 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
280265 ATATAAAAAC
280275 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
280293 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
280309 A
1 A
280310 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:280345 original size:20 final size:20
Alignment explanation
Indices: 280320--280357 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
280310 AATGAGTAAA
280320 ATATATAAAAAAGTAAAAGC
1 ATATATAAAAAAGTAAAAGC
* *
280340 ATATATATATAAGTAAAA
1 ATATATAAAAAAGTAAAA
280358 TAATAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
ATATATAAAAAAGTAAAAGC
Found at i:281442 original size:239 final size:238
Alignment explanation
Indices: 280982--281502 Score: 673
Period size: 239 Copynumber: 2.2 Consensus size: 238
280972 TGTGTGTTGA
* ** *
280982 CATTATT-AAAAAGATTGTTAAATATCAAGTTAGAAAAATATATATTTGGAAATATTTTTTATAT
1 CATTATTAAAAAAAATCATTAAATACCAAGTTAGAAAAATATATATTTGGAAATATTTTTTATAT
*
281046 GAGATATTGAACTTTATTTTGACATGCATCATTTTATGAATTTATAGAATTTTATTTTAATATCT
66 GAGATATTGAACTTTATTTTGACATGCATCATTTTATGAATTTATAGAATTTTATTTTAAGATCT
* * *
281111 TATGATTTGACAAATTTTCGTCAGTGTGATCTTCAACATTCGATCATAACGTCTAAACTAGATTT
131 TATAATTTGACAAATTTTCGTCAATGTGATCTTCAACATTCGATCATAACATCTAAACTAGATTT
281176 AAGAGTAAACACAAATATTACTTTTATAAAAATTAGAAGACCT
196 AAGAGTAAACACAAATATTACTTTTATAAAAATTAGAAGACCT
* *
281219 CATTATTAAAAAAAATCATTAAATACCAAGTCAAAAAAATATATATTTGGAGAA-ATTTTTTTAT
1 CATTATTAAAAAAAATCATTAAATACCAAGTTAGAAAAATATATATTTGGA-AATA-TTTTTTAT
* *
281283 ATGAGATATTGAATTTTTTTTTGACATGCATCATTTTATGAATTTAT-GAAATTTTATTTTAAGA
64 ATGAGATATTGAACTTTATTTTGACATGCATCATTTTATGAATTTATAG-AATTTTATTTTAAGA
* * * * * * **
281347 TGTTATAATTTGACGAATTTTCGTTAATTTGATCTTCAAGATTTGATTGTAACATCTAGAAC-AG
128 TCTTATAATTTGACAAATTTTCGTCAATGTGATCTTCAACATTCGATCATAACATCTA-AACTAG
* *
281411 ATTTAAAAGAGTTTAAA-A-AAA-A-TATTTTTATAAAAGTTAGAAGACCT
192 ATTT--AAGAG--TAAACACAAATATTACTTTTATAAAAATTAGAAGACCT
* * *
281458 TATTGTTAAAAAAAGA-CATTAAATACCCAGTTAGAAAAATATATA
1 CATTATTAAAAAAA-ATCATTAAATACCAAGTTAGAAAAATATATA
281503 AACAGTAGAG
Statistics
Matches: 247, Mismatches: 27, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
237 7 0.03
238 39 0.16
239 183 0.74
240 5 0.02
241 8 0.03
242 1 0.00
243 4 0.02
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (238 bp):
CATTATTAAAAAAAATCATTAAATACCAAGTTAGAAAAATATATATTTGGAAATATTTTTTATAT
GAGATATTGAACTTTATTTTGACATGCATCATTTTATGAATTTATAGAATTTTATTTTAAGATCT
TATAATTTGACAAATTTTCGTCAATGTGATCTTCAACATTCGATCATAACATCTAAACTAGATTT
AAGAGTAAACACAAATATTACTTTTATAAAAATTAGAAGACCT
Found at i:283879 original size:43 final size:42
Alignment explanation
Indices: 283806--283887 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 42
283796 GAATGTATAG
283806 TTCGAGTCGTAATTGAGTTTGTTACTTGTAATTCAAGGTGCA
1 TTCGAGTCGTAATTGAGTTTGTTACTTGTAATTCAAGGTGCA
* *
283848 TTCGAGTTGTAATTGGGTTTTGTTACTTGTAATTCAAGGT
1 TTCGAGTCGTAATTGAG-TTTGTTACTTGTAATTCAAGGT
283888 AAAAATTGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
42 15 0.41
43 22 0.59
ACGTcount: A:0.22, C:0.10, G:0.24, T:0.44
Consensus pattern (42 bp):
TTCGAGTCGTAATTGAGTTTGTTACTTGTAATTCAAGGTGCA
Found at i:288570 original size:16 final size:16
Alignment explanation
Indices: 288551--288590 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
288541 GATATGATAA
*
288551 AATTTAAATTTAAATT
1 AATTTAAATTTAAAAT
*
288567 AATTTAATTTTAAAAT
1 AATTTAAATTTAAAAT
288583 AATGTTAA
1 AAT-TTAA
288591 TAAATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
AATTTAAATTTAAAAT
Found at i:291911 original size:45 final size:45
Alignment explanation
Indices: 291825--291912 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
291815 GCTATATGAT
* **
291825 ATTGACCTATGTGAATACATGAAAATGTGATATAAGTTATGTGGC
1 ATTGACCTATGTGAATACATGAAAATGTGAAATAACATATGTGGC
*
291870 ATTGACCTATGTGATTATC-TGAAAATGTGAAATAACATATGTG
1 ATTGACCTATGTGAATA-CATGAAAATGTGAAATAACATATGTG
291913 ATAATGATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 37 0.97
46 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (45 bp):
ATTGACCTATGTGAATACATGAAAATGTGAAATAACATATGTGGC
Found at i:291948 original size:15 final size:15
Alignment explanation
Indices: 291907--291958 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
291897 TGAAATAACA
*
291907 TATGTGATA-ATGATG
1 TATGTGATATATG-TC
291922 TATGTGATTATATGTC
1 TATGTGA-TATATGTC
*
291938 TATGTGATATAAG-C
1 TATGTGATATATGTC
291952 TATGTGA
1 TATGTGA
291959 AATGTTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 8 0.24
15 12 0.36
16 10 0.30
17 3 0.09
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.42
Consensus pattern (15 bp):
TATGTGATATATGTC
Found at i:291954 original size:14 final size:16
Alignment explanation
Indices: 291922--291958 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
291912 GATAATGATG
*
291922 TATGTGATTATATGTC
1 TATGTGATTATAAGTC
291938 TATGTGA-TATAAG-C
1 TATGTGATTATAAGTC
291952 TATGTGA
1 TATGTGA
291959 AATGTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 5 0.25
16 7 0.35
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (16 bp):
TATGTGATTATAAGTC
Found at i:292135 original size:24 final size:23
Alignment explanation
Indices: 292049--292130 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
292039 GCGGTCATTT
* *
292049 GGGACAATTCTACATGGTCCTTT
1 GGGACATTTCTACATGGTCCTTC
**
292072 GGGACATTTCTACACAGTCCTTC
1 GGGACATTTCTACATGGTCCTTC
* **
292095 GGGACATATCTATGTGGTCCTTC
1 GGGACATTTCTACATGGTCCTTC
292118 GGGACAATTTCTA
1 GGGAC-ATTTCTA
292131 TGTGGCACTT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 42 0.88
24 6 0.12
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (23 bp):
GGGACATTTCTACATGGTCCTTC
Found at i:292141 original size:24 final size:23
Alignment explanation
Indices: 292088--292143 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
292078 TTTCTACACA
292088 GTCCTTCGGGACATATCTATGTG
1 GTCCTTCGGGACATATCTATGTG
*
292111 GTCCTTCGGGACAATTTCTATGTG
1 GTCCTTCGGGAC-ATATCTATGTG
292135 G-CACTTCGG
1 GTC-CTTCGG
292144 TGCAATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 13 0.43
24 17 0.57
ACGTcount: A:0.16, C:0.23, G:0.27, T:0.34
Consensus pattern (23 bp):
GTCCTTCGGGACATATCTATGTG
Found at i:292149 original size:24 final size:24
Alignment explanation
Indices: 292049--292143 Score: 81
Period size: 23 Copynumber: 4.1 Consensus size: 24
292039 GCGGTCATTT
** *
292049 GGGACAA-TTCTACATGGTCCTTT
1 GGGACAATTTCTATGTGGTCCTTC
****
292072 GGGAC-ATTTCTACACAGTCCTTC
1 GGGACAATTTCTATGTGGTCCTTC
*
292095 GGGAC-ATATCTATGTGGTCCTTC
1 GGGACAATTTCTATGTGGTCCTTC
292118 GGGACAATTTCTATGTGG-CACTTC
1 GGGACAATTTCTATGTGGTC-CTTC
292142 GG
1 GG
292144 TGCAATATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.02
23 42 0.70
24 17 0.28
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (24 bp):
GGGACAATTTCTATGTGGTCCTTC
Found at i:296442 original size:213 final size:213
Alignment explanation
Indices: 296069--296457 Score: 652
Period size: 213 Copynumber: 1.8 Consensus size: 213
296059 TCATTGAAGA
*
296069 GAATTCTGACAGAAGCTCCAGTATTGGTCCAATCAGAATCTGGAAAGGATTTTATGGTTTACAGT
1 GAATTCTGACAGAAGCTCCAGTATTGGTCCAACCAGAATCTGGAAAGGATTTTATGGTTTACAGT
* * * *
296134 GATGTGTCCCATAATGGCTTGGGATGTGTATTGATGCAAGAAGGTAAAGTGGTGTCATATGCATC
66 GATGTGTCCCATAATGGCTTGGGATGTGTATTGACGCAAGAAGGTAAAGTAGTGGCATATACATC
* ** * *
296199 GAGACAATTGAAATCGTATGAAAAGAATTATCTGACGCATGATTTGGAGTTGGCTGTAATGATGT
131 GAGACAATTGAAACCACATAAAAAGAATTATCTGACGCATAATTTGGAGTTGGCTGTAATGATGT
296264 TCGCTCTAAAAATATGAT
196 TCGCTCTAAAAATATGAT
* * *
296282 GAATTTTGACAGAAGCTCCAGTATTGGTTCAACCAGAATCTGGAAAGGATTTTGTGGTTTACAGT
1 GAATTCTGACAGAAGCTCCAGTATTGGTCCAACCAGAATCTGGAAAGGATTTTATGGTTTACAGT
*
296347 GATGTGTCCCATAATGTCTTGGGATGTGTATTGACGCAAGAAGGTAAAGTAGTGGCATATACATC
66 GATGTGTCCCATAATGGCTTGGGATGTGTATTGACGCAAGAAGGTAAAGTAGTGGCATATACATC
296412 GAGACAATTGAAACCACATAAAAAGAATTATCTGACGCATAATTTG
131 GAGACAATTGAAACCACATAAAAAGAATTATCTGACGCATAATTTG
296458 AAGTATATGA
Statistics
Matches: 162, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
213 162 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.30
Consensus pattern (213 bp):
GAATTCTGACAGAAGCTCCAGTATTGGTCCAACCAGAATCTGGAAAGGATTTTATGGTTTACAGT
GATGTGTCCCATAATGGCTTGGGATGTGTATTGACGCAAGAAGGTAAAGTAGTGGCATATACATC
GAGACAATTGAAACCACATAAAAAGAATTATCTGACGCATAATTTGGAGTTGGCTGTAATGATGT
TCGCTCTAAAAATATGAT
Found at i:299606 original size:45 final size:45
Alignment explanation
Indices: 299502--299610 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 45
299492 TCATGTTATA
* * * *
299502 TGATATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATG
1 TGATATTGACCTATGTGATTACATAAAAAAGTGAAACAAGCTATG
**
299547 TGGCATTGACCTATGTGATTATC-TAAAAAAGTGAAACAAGCTATG
1 TGATATTGACCTATGTGATTA-CATAAAAAAGTGAAACAAGCTATG
* *
299592 TGATAATGATCTATGTGAT
1 TGATATTGACCTATGTGAT
299611 ATAAGCTATG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (45 bp):
TGATATTGACCTATGTGATTACATAAAAAAGTGAAACAAGCTATG
Found at i:299621 original size:14 final size:15
Alignment explanation
Indices: 299584--299623 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
299574 AAAGTGAAAC
299584 AAGCTATGTGATAAT
1 AAGCTATGTGATAAT
* *
299599 GATCTATGTGAT-AT
1 AAGCTATGTGATAAT
299613 AAGCTATGTGA
1 AAGCTATGTGA
299624 AATGTTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (15 bp):
AAGCTATGTGATAAT
Found at i:299734 original size:23 final size:23
Alignment explanation
Indices: 299707--299766 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
299697 GGGTTCTGCA
*
299707 CGGTCCTTCGGGACAATTCTATG
1 CGGTCCTTCGGGACAATTCTACG
* * ** *
299730 TGGTCTTTCGAAACATTTCTACG
1 CGGTCCTTCGGGACAATTCTACG
*
299753 CGGTTCTTCGGGAC
1 CGGTCCTTCGGGAC
299767 GTATATTTGT
Statistics
Matches: 26, Mismatches: 11, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (23 bp):
CGGTCCTTCGGGACAATTCTACG
Found at i:306983 original size:22 final size:22
Alignment explanation
Indices: 306940--306984 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
306930 TAAACCCTTC
* *
306940 GGTGAGTCACCGGATCTACGAT
1 GGTGACTCACCGGAGCTACGAT
* *
306962 GGTGACTCACCGTAGCTTCGAT
1 GGTGACTCACCGGAGCTACGAT
306984 G
1 G
306985 AGTTGTGCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.24
Consensus pattern (22 bp):
GGTGACTCACCGGAGCTACGAT
Found at i:307091 original size:22 final size:22
Alignment explanation
Indices: 307063--307113 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
307053 GCGGGAGAGT
* * *
307063 AGTTGGATGTAGGCGATGGGGC
1 AGTTGGATATAGGCGACGGAGC
*
307085 AGTTGGATATAGGCGGCGGAGC
1 AGTTGGATATAGGCGACGGAGC
307107 AGTTGGA
1 AGTTGGA
307114 GGCAGCAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.10, G:0.47, T:0.22
Consensus pattern (22 bp):
AGTTGGATATAGGCGACGGAGC
Found at i:307386 original size:14 final size:14
Alignment explanation
Indices: 307367--307401 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
307357 AATAATATTT
307367 ATAATAATA-ATAAA
1 ATAATAATATAT-AA
307381 ATAATAATATATAA
1 ATAATAATATATAA
307395 ATAATAA
1 ATAATAA
307402 CGAGACGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 18 0.90
15 2 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAATAATATATAA
Found at i:307616 original size:43 final size:42
Alignment explanation
Indices: 307563--307704 Score: 123
Period size: 43 Copynumber: 3.4 Consensus size: 42
307553 ATGACATTGT
*
307563 TCCTTCATGATGAAGAAATCTGGCTATCTAAGGATGATGCTGC
1 TCCTTCATGATGAGGAAATCTGG-TATCTAAGGATGATGCTGC
* * *
307606 TCCTTTATGATGAGGAATTCT--TATC-AATGGATG--GCATTGT
1 TCCTTCATGATGAGGAAATCTGGTATCTAA-GGATGATGC--TGC
* *
307646 TCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGCTGC
1 TCCTTCATGATGAGGAAATCTGG-TATCTAAGGATGATGCTGC
** *
307689 TTTTTCGTGATGAGGA
1 TCCTTCATGATGAGGA
307705 GTTCTGATCG
Statistics
Matches: 79, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
38 2 0.03
39 2 0.03
40 28 0.35
43 43 0.54
44 2 0.03
45 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.35
Consensus pattern (42 bp):
TCCTTCATGATGAGGAAATCTGGTATCTAAGGATGATGCTGC
Found at i:307742 original size:83 final size:83
Alignment explanation
Indices: 307556--307745 Score: 256
Period size: 83 Copynumber: 2.3 Consensus size: 83
307546 CTAGTGTATG
* *
307556 ACATTGTTCCTTCATGATGAAGAAATCTGGCTATCTAAGGATGATGCTGCTCCTTTATGATGAGG
1 ACATTGTTCCTTCATGATGAGGACATCTGGCTATCTAAGGATGATGCTGCTCCTTTATGATGAGG
* *
307621 AATTCTTATCAATGGATG
66 AATTCTGATCAATGGATA
* * * * *
307639 GCATTGTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGCTGCT-TTTTCGTGATGAG
1 ACATTGTTCCTTCATGATGAGGACATCTGGCTATCTAAGGATGATGCTGCTCCTTT-ATGATGAG
* **
307703 GAGTTCTGATCGGTGGATA
65 GAATTCTGATCAATGGATA
307722 ACATTGTTCCTTCATGATGAGGAC
1 ACATTGTTCCTTCATGATGAGGAC
307746 GTCTAGCCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
82 3 0.03
83 89 0.97
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (83 bp):
ACATTGTTCCTTCATGATGAGGACATCTGGCTATCTAAGGATGATGCTGCTCCTTTATGATGAGG
AATTCTGATCAATGGATA
Found at i:307892 original size:137 final size:137
Alignment explanation
Indices: 307644--308231 Score: 996
Period size: 137 Copynumber: 4.3 Consensus size: 137
307634 GGATGGCATT
* *
307644 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGCTGCTTTTTCGTGATGAGGAGTTC
1 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATACTGCTTCTTCGTGATGAGGAGTTC
* * *
307709 TGATCGGTGGATAACATTGTTCCTTCATGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGA
66 TGATCGGTGGATGACATTGCTCCTTCATGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGA
* **
307774 TGACATA
131 TAACACG
* *
307781 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATAATGCTGCTTCTTCGTGATGAGGAGTTC
1 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATACTGCTTCTTCGTGATGAGGAGTTC
*
307846 TGATCGGTGGATGACATTGCTCCTTCATGATGAGGACGTCTGGCCATCTTTAAAGATATTTGATA
66 TGATCGGTGGATGACATTGCTCCTTCATGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGA
307911 TAACACG
131 TAACACG
307918 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATACTGCTTCTTCGTGATGAGGAGTTC
1 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATACTGCTTCTTCGTGATGAGGAGTTC
307983 TGATCGGTGGATGACATTGCTCCTTCATGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGA
66 TGATCGGTGGATGACATTGCTCCTTCATGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGA
308048 TAACACG
131 TAACACG
308055 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATACTGCTTCTTCGTGATGAGGAGTTC
1 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATACTGCTTCTTCGTGATGAGGAGTTC
** * * * * *
308120 TGATCGGTGGATGACATTATTCCTTCGTGATGTGAATGTCTGACCATCTTTAAAGATATTTGAGA
66 TGATCGGTGGATGACATTGCTCCTTCATGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGA
308185 TAACACG
131 TAACACG
* *
308192 GTTCATTCGTGATGAGGACGTCTGGTTATCTAAGGATGAT
1 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGAT
308232 GTTTCCTAAA
Statistics
Matches: 430, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 430 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (137 bp):
GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATACTGCTTCTTCGTGATGAGGAGTTC
TGATCGGTGGATGACATTGCTCCTTCATGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGA
TAACACG
Found at i:307970 original size:43 final size:43
Alignment explanation
Indices: 307922--308115 Score: 133
Period size: 43 Copynumber: 4.3 Consensus size: 43
307912 AACACGGTTC
307922 CTTCGTGATGAGGACATCTGGTTATCTAAGGATGATACTGCTT
1 CTTCGTGATGAGGACATCTGGTTATCTAAGGATGATACTGCTT
** *** * * *
307965 CTTCGTGATGAGGAGTTCT-G--ATCGGTGGATGACATTGCTC
1 CTTCGTGATGAGGACATCTGGTTATCTAAGGATGATACTGCTT
* * ** * * *
308005 CTTCATGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGATAACACGGTT
1 CTTCGTGATGAGGACATCTGGTTATC--T-AAG-GA--T--GAT-AC-TGCTT
308058 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATACTGCTT
1 -CTTCGTGATGAGGACATCTGGTTATCTAAGGATGATACTGCTT
308102 CTTCGTGATGAGGA
1 CTTCGTGATGAGGA
308116 GTTCTGATCG
Statistics
Matches: 110, Mismatches: 27, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
40 30 0.27
41 1 0.01
42 1 0.01
43 34 0.31
44 3 0.03
45 2 0.02
46 4 0.04
47 1 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 5 0.05
52 2 0.02
53 2 0.02
54 22 0.20
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
CTTCGTGATGAGGACATCTGGTTATCTAAGGATGATACTGCTT
Found at i:318163 original size:2 final size:2
Alignment explanation
Indices: 318158--318184 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
318148 AATAAAGTAA
318158 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
318185 ACAAAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:319045 original size:22 final size:22
Alignment explanation
Indices: 318990--319048 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
318980 ACCGGCCGAC
* *
318990 CACTATTTCGGCCACCGTCGAT
1 CACTATTCCGGTCACCGTCGAT
* *
319012 CACTATTCCGGTCATCGTCGGT
1 CACTATTCCGGTCACCGTCGAT
319034 CACTATTCCGGTCAC
1 CACTATTCCGGTCAC
319049 TTCCTGTCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.17, C:0.36, G:0.19, T:0.29
Consensus pattern (22 bp):
CACTATTCCGGTCACCGTCGAT
Found at i:319554 original size:22 final size:22
Alignment explanation
Indices: 319527--319570 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
319517 GGGGAACATA
*
319527 GCGGCGGAGCAGTTGGATGTAG
1 GCGGCGGAGCAGTTGGAGGTAG
319549 GCGGCGGAGCAGTTGGAGGTAG
1 GCGGCGGAGCAGTTGGAGGTAG
319571 CACCAAAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.14, G:0.52, T:0.16
Consensus pattern (22 bp):
GCGGCGGAGCAGTTGGAGGTAG
Found at i:319730 original size:17 final size:17
Alignment explanation
Indices: 319708--319749 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
319698 CTGGTCTTGG
319708 TGGGCCT-TCGGGTTATT
1 TGGGCCTAT-GGGTTATT
319725 TGGGCCTGATGGGTTATT
1 TGGGCCT-ATGGGTTATT
319743 TGGGCCT
1 TGGGCCT
319750 GACTCGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.30
18 15 0.65
19 1 0.04
ACGTcount: A:0.07, C:0.17, G:0.38, T:0.38
Consensus pattern (17 bp):
TGGGCCTATGGGTTATT
Found at i:319740 original size:18 final size:18
Alignment explanation
Indices: 319717--319751 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
319707 GTGGGCCTTC
319717 GGGTTATTTGGGCCTGAT
1 GGGTTATTTGGGCCTGAT
319735 GGGTTATTTGGGCCTGA
1 GGGTTATTTGGGCCTGA
319752 CTCGGGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.40, T:0.37
Consensus pattern (18 bp):
GGGTTATTTGGGCCTGAT
Found at i:319856 original size:14 final size:13
Alignment explanation
Indices: 319837--319883 Score: 69
Period size: 14 Copynumber: 3.5 Consensus size: 13
319827 AATAATATTT
319837 ATAATAATAATACA
1 ATAATAATAATA-A
319851 ATAATAATATATAA
1 ATAATAATA-ATAA
319865 ATAATAAT-ATAA
1 ATAATAATAATAA
319877 ATAATAA
1 ATAATAA
319884 CGGGACGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.34
14 18 0.56
15 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATAATAA
Found at i:319860 original size:26 final size:26
Alignment explanation
Indices: 319826--319883 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
319816 TAGTATTTAT
* *
319826 TAATAATATTTATAATAATAATA-CAA
1 TAATAATATATA-AATAATAATATAAA
319852 TAATAATATATAAATAATAATATAAA
1 TAATAATATATAAATAATAATATAAA
319878 TAATAA
1 TAATAA
319884 CGGGACGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
TAATAATATATAAATAATAATATAAA
Found at i:320953 original size:13 final size:13
Alignment explanation
Indices: 320935--320968 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
320925 TAAGATTTTC
*
320935 TTTGAAAATCATT
1 TTTGAAAATCAAT
320948 TTTG-AAATCAAT
1 TTTGAAAATCAAT
320960 TTTGAAAAT
1 TTTGAAAAT
320969 TACTCGCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:321228 original size:20 final size:21
Alignment explanation
Indices: 321192--321230 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
321182 ATGATGCAAA
*
321192 AATCAACATTAAGTTCAAATT
1 AATCAACATTAAATTCAAATT
321213 AATCAA-ATTAAATTCAAA
1 AATCAACATTAAATTCAAA
321231 CACTCAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (21 bp):
AATCAACATTAAATTCAAATT
Found at i:323257 original size:20 final size:20
Alignment explanation
Indices: 323232--323287 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
323222 AAAACCCGAC
323232 GAGTGTATCGGTACACTGCA
1 GAGTGTATCGGTACACTGCA
323252 GAGTGTATCGGTACACTGCA
1 GAGTGTATCGGTACACTGCA
*
323272 GAGTGTATCGATACAC
1 GAGTGTATCGGTACAC
323288 ATTCAAGGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (20 bp):
GAGTGTATCGGTACACTGCA
Found at i:325673 original size:74 final size:74
Alignment explanation
Indices: 325562--325710 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 74
325552 ATTTTTCTGA
325562 ATTAAAGCTTTTTCCGTATTCATTGCGTGACCGAGCAAGGGC-TGGTTGAGTGGTGTACCAGCCG
1 ATTAAAGCTTTTTCCGTATTCATTGCGTGACCGAGCAAGGGCTTGGTTGAGTGGTGTACCAGCCG
325626 GTTCGATGG
66 GTTCGATGG
325635 ATTAAAGCTTTTT-CGTATTCATTGCGCGTGACCGAGCAAGGGCTTGGTTGAGTGGTGTACCAGC
1 ATTAAAGCTTTTTCCGTATTCATT--GCGTGACCGAGCAAGGGCTTGGTTGAGTGGTGTACCAGC
325699 CGGTTCGATGG
64 CGGTTCGATGG
325710 A
1 A
325711 ATCATGGGCC
Statistics
Matches: 73, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
72 10 0.14
73 13 0.18
74 18 0.25
75 32 0.44
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (74 bp):
ATTAAAGCTTTTTCCGTATTCATTGCGTGACCGAGCAAGGGCTTGGTTGAGTGGTGTACCAGCCG
GTTCGATGG
Found at i:330749 original size:64 final size:63
Alignment explanation
Indices: 330664--330822 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 63
330654 TTGTTTAAGG
* * *
330664 TGCATCGATGCACATGTAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGA-TTT
1 TGCATCGATGCACAAGTAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAAT-GCATTTT
330727 A
63 A
* * *
330728 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTTA
1 TGCATCGATGCACAAGTAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATGCATTTTA
*
330792 TG-AACGATGCACAAGTAGTGCATCGATGCAT
1 TGCATCGATGCACAAGTAGTGCATCGATGCAT
330823 ACATTCTTGA
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
63 28 0.34
64 47 0.57
65 7 0.08
66 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (63 bp):
TGCATCGATGCACAAGTAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATGCATTTTA
Found at i:331329 original size:17 final size:19
Alignment explanation
Indices: 331307--331342 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
331297 GATTTACATG
331307 AATACATGT-ATAT-ATAT
1 AATACATGTGATATGATAT
331324 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
331343 GAGATATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:331516 original size:31 final size:31
Alignment explanation
Indices: 331478--331569 Score: 87
Period size: 31 Copynumber: 3.0 Consensus size: 31
331468 TCGAGGGTTT
331478 TACCTATGTCTTTCGAGACATATGGACAGTA
1 TACCTATGTCTTTCGAGACATATGGACAGTA
*** *
331509 TACCTATGTTCTAAGGA-ACATATGGACAGTT
1 TACCTATG-TCTTTCGAGACATATGGACAGTA
* * * * *
331540 TACCTAGGTTTTTTGGGACCTATGGACAGT
1 TACCTATGTCTTTCGAGACATATGGACAGT
331570 TGCCGAGGTT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
30 3 0.06
31 40 0.83
32 5 0.10
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (31 bp):
TACCTATGTCTTTCGAGACATATGGACAGTA
Found at i:331590 original size:30 final size:30
Alignment explanation
Indices: 331498--331604 Score: 81
Period size: 31 Copynumber: 3.5 Consensus size: 30
331488 TTTCGAGACA
* * * *
331498 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCGAGGTTCTTTAGG-ACC
* * *
331529 TATGGACAGTTTACCTAGGTTTTTTGGGACC
1 TATGGACAG-TTACCGAGGTTCTTTAGGACC
* *
331560 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
331590 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
331605 GGGTCTGTGT
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
30 28 0.46
31 29 0.48
32 4 0.07
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:334864 original size:63 final size:62
Alignment explanation
Indices: 334797--334953 Score: 176
Period size: 62 Copynumber: 2.5 Consensus size: 62
334787 TTGTTTAAGG
* * * *
334797 TGCATCGATGCACATGCAGTGCATTGATGCAT-GAATTTAAATAGAAACATCGAATAGGA-TTTA
1 TGCATCGATGCACAAGCAGTGCATCGATGCATCCAA-TTAAATA-AAACATCGAAT-GCATTTTA
* * *
334860 TGCATCGATGCATAAGGAG-GCATCGATGCATCCCCATTAAATAAAACATCGAATGCATTTTA
1 TGCATCGATGCACAAGCAGTGCATCGATGCAT-CCAATTAAATAAAACATCGAATGCATTTTA
* *
334922 TGCACCGATGCACAAGTAGTGCATCGATGCAT
1 TGCATCGATGCACAAGCAGTGCATCGATGCAT
334954 ACATTCATTG
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
61 2 0.03
62 42 0.52
63 35 0.44
64 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (62 bp):
TGCATCGATGCACAAGCAGTGCATCGATGCATCCAATTAAATAAAACATCGAATGCATTTTA
Found at i:335463 original size:17 final size:19
Alignment explanation
Indices: 335441--335476 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
335431 GATTTACATG
335441 AATACATGT-ATAT-ATAT
1 AATACATGTGATATGATAT
335458 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
335477 GAGATATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:335661 original size:31 final size:31
Alignment explanation
Indices: 335626--335700 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
335616 GTCTTTCGAG
*
335626 ACATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGTATACCTAGGTTCTAAGGA
* ** *
335657 ACATA-GGACAGTTTTACCTAGGTTCTTTGGG
1 ACATATGGACAG-TATACCTAGGTTCTAAGGA
*
335688 ACCTATGGACAGT
1 ACATATGGACAGT
335701 TGCCGAGGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 6 0.17
31 24 0.67
32 6 0.17
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (31 bp):
ACATATGGACAGTATACCTAGGTTCTAAGGA
Found at i:335728 original size:27 final size:29
Alignment explanation
Indices: 335687--335755 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 29
335677 GGTTCTTTGG
* * *
335687 GACCTATGGACAGTTGCCGAGGT-T-TAT
1 GACCTCTGGATAGTTACCGAGGTCTGTAT
* * *
335714 GACCTCTGTATAGTTACCGGGGTCTGTGT
1 GACCTCTGGATAGTTACCGAGGTCTGTAT
335743 GACCTCTGGATAG
1 GACCTCTGGATAG
335756 GTCCTTCGGA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
27 18 0.55
28 1 0.03
29 14 0.42
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (29 bp):
GACCTCTGGATAGTTACCGAGGTCTGTAT
Found at i:336421 original size:42 final size:42
Alignment explanation
Indices: 336374--336457 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
336364 TCCCGGGATT
336374 TTTCTTAAGAGTCAAGGTTTGAAAAGTCAATGTGACACTTCG
1 TTTCTTAAGAGTCAAGGTTTGAAAAGTCAATGTGACACTTCG
336416 TTTCTTAAGAGTCAAGGTTTGAAAAGTCAATGTGACACTTCG
1 TTTCTTAAGAGTCAAGGTTTGAAAAGTCAATGTGACACTTCG
336458 AACTCGTATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (42 bp):
TTTCTTAAGAGTCAAGGTTTGAAAAGTCAATGTGACACTTCG
Found at i:337767 original size:19 final size:21
Alignment explanation
Indices: 337730--337772 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
337720 TAACTTTTTC
337730 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
337750 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
337770 TTT
1 TTT
337773 ACCTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:337778 original size:19 final size:20
Alignment explanation
Indices: 337729--337778 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
337719 TTAACTTTTT
*
337729 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
337749 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
337768 CTTTTACCTTT
1 CTTTTACCTTT
337779 TCTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:341605 original size:17 final size:16
Alignment explanation
Indices: 341574--341607 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
341564 CACGTGAGGA
341574 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
341590 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
341607 T
1 T
341608 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:375196 original size:3 final size:3
Alignment explanation
Indices: 375182--375232 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
375172 CAGTTTGCTT
* * *
375182 TTA TTT TTA TTA TTA TTA TTA TTA TTA TACA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
*
375228 ATA TT
1 TTA TT
375233 TAAATAAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:375735 original size:22 final size:23
Alignment explanation
Indices: 375701--375746 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
375691 CAAGGAGAGA
*
375701 ACAAAACATAAGAG-GAGAGAAAC
1 ACAAAACACAAGAGAGA-AGAAAC
375724 ACAAAAC-CAAGAGAGAAGAAAC
1 ACAAAACACAAGAGAGAAGAAAC
375746 A
1 A
375747 GACAACAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.63, C:0.15, G:0.20, T:0.02
Consensus pattern (23 bp):
ACAAAACACAAGAGAGAAGAAAC
Found at i:376629 original size:29 final size:30
Alignment explanation
Indices: 376581--376639 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
376571 AGGGCTGTAA
376581 ATTTTAATATTTTATATTTTAATC-CTATT
1 ATTTTAATATTTTATATTTTAATCACTATT
* *
376610 ATTTTAAT-TTTATATGTTTTAGTCACTATT
1 ATTTTAATATTT-TATATTTTAATCACTATT
376640 TAATTACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (30 bp):
ATTTTAATATTTTATATTTTAATCACTATT
Found at i:376735 original size:2 final size:2
Alignment explanation
Indices: 376728--376753 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
376718 TATATTAGTC
376728 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
376754 TTAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:377031 original size:21 final size:19
Alignment explanation
Indices: 377006--377053 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
376996 ATCAATTATA
377006 TATATTAATCTATTTTTTAT
1 TATATTAATCTATTTTTT-T
* *
377026 TAATATTTATTTATTTTTTT
1 T-ATATTAATCTATTTTTTT
377046 TATATTAA
1 TATATTAA
377054 GAAAATAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 6 0.25
20 3 0.12
21 15 0.62
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATATTAATCTATTTTTTT
Found at i:377036 original size:25 final size:23
Alignment explanation
Indices: 377003--377048 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
376993 TTTATCAATT
377003 ATATATATTAATCTATTTTTTATTA
1 ATATATATTAAT-T-TTTTTTATTA
* *
377028 ATATTTATTTATTTTTTTTAT
1 ATATATATTAATTTTTTTTAT
377049 ATTAAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 1 0.05
25 10 0.53
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATATATTAATTTTTTTTATTA
Found at i:379907 original size:14 final size:13
Alignment explanation
Indices: 379855--379907 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
379845 GTATTGCACA
379855 ATTTT-CATTTTT
1 ATTTTACATTTTT
**
379867 ATTGTTACATTCAT
1 ATT-TTACATTTTT
*
379881 ATATTTACATTTTC
1 AT-TTTACATTTTT
379895 ATTTTACATTTTT
1 ATTTTACATTTTT
379908 GCATTTTTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
12 3 0.09
13 12 0.38
14 16 0.50
15 1 0.03
ACGTcount: A:0.25, C:0.11, G:0.02, T:0.62
Consensus pattern (13 bp):
ATTTTACATTTTT
Found at i:387221 original size:45 final size:45
Alignment explanation
Indices: 387147--387732 Score: 857
Period size: 45 Copynumber: 13.0 Consensus size: 45
387137 CTATTTCCTA
* * * *
387147 CATCTGTAAGCCCTTCACTTCATGATGTTTGCAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
387192 CATCTATAAGCCCTTCAGTGCATGTTGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
387237 CATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTCGAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
387282 CATCTGTAAGCCCTTTAGTGCATGATGTTTTAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
387327 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
387372 CATCTGTAAGCCCTTCAATGCATGATGTTTCCAAAACCTTCGAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
387417 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
387462 CATCTGTAAGTCCTTCAGTGCATGATGTTTTTAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
387507 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*** * * *
387552 CATCTGTAAATTCTTTAGTGAATGATGTTTTCAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
387597 CATCTGTAAGCCCTTCAGTGCATGGTGTTATCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
387642 CATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTAGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* ** * *
387687 CAACTGTAATACCTACAATGCATGATGTTTTCAAAAAGCCTTCGGG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
387733 AGCTTTTTGA
Statistics
Matches: 490, Mismatches: 49, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
45 479 0.98
46 4 0.01
47 7 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:387984 original size:3 final size:3
Alignment explanation
Indices: 387963--388008 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
387953 CAGTTTGCTT
* * *
387963 TTA TTT TTA TTA TTT TTA TTA TTA TTA TTA TACA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
388009 ATAATATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
3 34 0.94
4 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:389406 original size:29 final size:30
Alignment explanation
Indices: 389359--389416 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
389349 GGGTTGTAAG
389359 TTTTAATATTTTATATTTTAATC-CTATTA
1 TTTTAATATTTTATATTTTAATCACTATTA
* *
389388 TTTTAAT-TTTATATGTTTTAGTCACTATT
1 TTTTAATATTT-TATATTTTAATCACTATT
389417 TAATTGCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 17 0.68
30 5 0.20
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTTAATATTTTATATTTTAATCACTATTA
Found at i:389512 original size:2 final size:2
Alignment explanation
Indices: 389505--389532 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
389495 TATATTAGTC
389505 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
389533 TTGTTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:389825 original size:13 final size:13
Alignment explanation
Indices: 389789--389830 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
389779 CAATTATATA
* *
389789 TATTAATCTATTT
1 TATTAATATTTTT
*
389802 T-TTATTATTTTT
1 TATTAATATTTTT
389814 TATTAATATTTTT
1 TATTAATATTTTT
389827 TATT
1 TATT
389831 TTTTTATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTAATATTTTT
Found at i:389827 original size:23 final size:23
Alignment explanation
Indices: 389787--389842 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 23
389777 ATCAATTATA
389787 TATATTAATCTATTTTTTATTATTTT
1 TATATTAA--TATTTTTTATT-TTTT
389813 T-TATTAATATTTTTTATTTTTT
1 TATATTAATATTTTTTATTTTTT
389835 TATATTAA
1 TATATTAA
389843 GAAAAGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.17
23 17 0.59
25 6 0.21
26 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TATATTAATATTTTTTATTTTTT
Found at i:389835 original size:10 final size:10
Alignment explanation
Indices: 389797--389834 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
389787 TATATTAATC
389797 TATTTTTTAT
1 TATTTTTTAT
389807 TATTTTTTAT
1 TATTTTTTAT
*
389817 TAATATTTT-T
1 T-ATTTTTTAT
389827 TATTTTTT
1 TATTTTTT
389835 TATATTAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 6 0.24
10 13 0.52
11 6 0.24
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TATTTTTTAT
Found at i:392622 original size:21 final size:20
Alignment explanation
Indices: 392597--392642 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
392587 TTGGCTCAAA
392597 GGATCGAT-CCCTTAGTAAAAG
1 GGATCGATCCCCTT-G-AAAAG
*
392618 GGATCTATCCCCTTGAAAAG
1 GGATCGATCCCCTTGAAAAG
392638 GGATC
1 GGATC
392643 AATTCCTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 8 0.35
22 5 0.22
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (20 bp):
GGATCGATCCCCTTGAAAAG
Found at i:392702 original size:21 final size:21
Alignment explanation
Indices: 392673--392743 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
392663 CTTTTAGATA
*
392673 AATCTCTTATACAAAAGGATC
1 AATCCCTTATACAAAAGGATC
* *
392694 AATCCCTTA-AGAAAAAGGATT
1 AATCCCTTATA-CAAAAGGATC
* * * *
392715 GATCCATTCTCCAAAAGGATC
1 AATCCCTTATACAAAAGGATC
*
392736 GATCCCTT
1 AATCCCTT
392744 TCTTGTAACA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
20 1 0.03
21 37 0.97
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (21 bp):
AATCCCTTATACAAAAGGATC
Found at i:394618 original size:14 final size:14
Alignment explanation
Indices: 394570--394625 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
394560 CTATTCACCA
*
394570 AGTCAACTCAGTCCG
1 AGTCAACTC-GTTCG
* *
394585 AGTTAACTCGATCTG
1 AGTCAACTCGTTC-G
394600 AGTCAACTCGTTCG
1 AGTCAACTCGTTCG
*
394614 AGTCAACCCGTT
1 AGTCAACTCGTT
394626 GACTTTAACC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 14 0.41
15 20 0.59
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (14 bp):
AGTCAACTCGTTCG
Found at i:405990 original size:15 final size:15
Alignment explanation
Indices: 405970--406056 Score: 79
Period size: 15 Copynumber: 5.5 Consensus size: 15
405960 AAACGGGTAT
405970 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
*
405985 CGGGTACCATCAAAATT--
1 CGGGTACC--C--GATTAC
406002 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
**
406017 CGGGTACCCGCAAAATC
1 CGGGTACCCG-ATTA-C
406034 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
406049 CGGGTACC
1 CGGGTACC
406057 AGTAACATCC
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
15 28 0.48
16 4 0.07
17 20 0.34
19 3 0.05
ACGTcount: A:0.24, C:0.32, G:0.25, T:0.18
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:406010 original size:32 final size:32
Alignment explanation
Indices: 405969--406058 Score: 153
Period size: 32 Copynumber: 2.8 Consensus size: 32
405959 AAAACGGGTA
*
405969 TCGGGTACCCGATTACCGGGTACCATCAAAAT
1 TCGGGTACCCGATTACCGGGTACCAGCAAAAT
*
406001 TCGGGTACCCGATTACCGGGTACCCGCAAAAT
1 TCGGGTACCCGATTACCGGGTACCAGCAAAAT
*
406033 CCGGGTACCCGATTACCGGGTACCAG
1 TCGGGTACCCGATTACCGGGTACCAG
406059 TAACATCCGG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (32 bp):
TCGGGTACCCGATTACCGGGTACCAGCAAAAT
Done.