Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold366
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: 222455
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
File 2 of 2
Found at i:187566 original size:12 final size:12
Alignment explanation
Indices: 187549--187574 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
187539 TAATTCACAC
187549 ATATCAAAATTT
1 ATATCAAAATTT
187561 ATATCAAAATTT
1 ATATCAAAATTT
187573 AT
1 AT
187575 TTGCATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATCAAAATTT
Found at i:189379 original size:13 final size:13
Alignment explanation
Indices: 189361--189412 Score: 86
Period size: 13 Copynumber: 4.0 Consensus size: 13
189351 ATAATCCTCC
*
189361 TGTATCGATACAG
1 TGTATCGATACAA
189374 TGTATCGATACAA
1 TGTATCGATACAA
189387 TGTATCGATACAA
1 TGTATCGATACAA
*
189400 AGTATCGATACAA
1 TGTATCGATACAA
189413 AGAAAAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:191495 original size:15 final size:15
Alignment explanation
Indices: 191475--191505 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
191465 ATTTCGTTTG
*
191475 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
191490 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
191505 G
1 G
191506 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:193338 original size:21 final size:21
Alignment explanation
Indices: 193309--193353 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
193299 AAGTTTTCAT
*
193309 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
193329 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
193351 TTT
1 TTT
193354 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:195596 original size:13 final size:13
Alignment explanation
Indices: 195578--195603 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
195568 CAATTTTTTG
195578 TGTATCGATACAT
1 TGTATCGATACAT
195591 TGTATCGATACAT
1 TGTATCGATACAT
195604 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:197422 original size:476 final size:474
Alignment explanation
Indices: 195986--198242 Score: 2970
Period size: 476 Copynumber: 4.7 Consensus size: 474
195976 GATCCTAACA
* *
195986 AATATCATTTATCCTGATGAGGAGAATGTGTTTACAGTGCCTAATCCCAAAATGAATGAAGATCA
1 AATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCA
* * * *
196051 TTACTAGAATCCATGTTTGTCTCATTTGAGGTATGAACTTAAACTTTACGAAATTTGGTGGGAAA
66 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGTGGGAAA
* * * * * * * *
196116 AATGCCTTTCTTGCGAAACTAAAGGATGAATATCGCGTATCATAATTAAAAGACTATGTTTATGC
131 AATGCCTTTCTTGCGAAACCAAAGCATCAATAT-GTGTATCCTAATGAGAAGACTATGTTTATGG
* * *
196181 AGCCTAATCCTGAAAAGGGTGAGGATTAGTATGAGTATTCATGTTTGTCGTATTTAAGAGACAAA
195 TGCCTAATCCTGAAAAGGATG-GGATTAGTATGAGTATTCATGTTTGTCATATTTAAGAGACAAA
* * *
196246 CTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGTAACCCCAAAGCATCAATGTCAT
259 CTTTGATTCTATAAAAAACGGT-GAAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATGTCAT
* * **
196311 GTTTCCTAATGAAGGGAATGTGTTTTTGGCTTCCCAGTCTTGAAAAGAATGGAGACTATTATGAG
323 GTATCCTAATGAAGGGAATGTGTTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTATTACAAG
* * * *
196376 AATCGATGCTTGCCTTATATAAGGTATGAACTTAGAATTGAAGGAAAATAGGGCAAAGAAAAGAT
388 AATCGATGCTTGCCTTATTTAAGGTATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGAT
* *
196441 TCCCATGCAAAAGAAAATCATG
453 TTCCATGCAAAAGAAAATCATC
* **
196463 AATATTATTTATCCTAATGAGGAGAATGTGTTTATTGTGCCTAATCACAAAATGAATGAAGATCA
1 AATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCA
* * ** ** *
196528 TTACTAGAATCCATGTTTGTTTCATTTGGGGCACAAACAAAGACTTTACAAAAATTGGTCGGAAA
66 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGTGGGAAA
* * ** * **
196593 AATTACCTTTCTTGCGAAACCAAAGCATCAATGTTGTGTATTATAATGATAAGACTATGTTTACA
131 AA-TGCCTTTCTTGCGAAACCAAAGCATCAAT-ATGTGTATCCTAATGAGAAGACTATGTTTATG
* * * *
196658 GTGCCTAATCCTGAAAAGGATGGGCATCAGTGTGAGTATTATTCATGTTTTTCATATTTAAGAGG
194 GTGCCTAATCCTGAAAAGGATGGG-ATTAGTATGAG---TATTCATGTTTGTCATATTTAAGAGA
* * *
196723 CAAACTTTGATTCTATAAAAAACGGTGAAAAGAAAAGCATTTCTCGTGACACCAAAGCTTCAATG
255 CAAACTTTGATTCTATAAAAAACGGTG-AAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATG
* * *
196788 TC----CTCCTAAGGAAGGGAATGTGTTTTTGGCTTCGC-AGTCTTGAAAAGAATGGAGACTGTT
319 TCATGTATCCTAATGAAGGGAATGTGTTTTTGGCTTC-CTAGTCTTGAAAAGAATGGAGACTATT
* * *
196848 ACAAGAATCGATGCTTGTCTTATTTAAGGTATGAACTTTTATTTGAAGGAAAATAGGGCAAAGAA
383 ACAAGAATCGATGCTTGCCTTATTTAAGGTATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAA
* * *
196913 AAGA-TTCTCGTGCAAAAGATAATCATA
448 AAGATTTC-CATGCAAAAGAAAATCATC
* *
196940 AATATCATTTATCCTAACGAGGAGAATGTGTTTACAGTGTCTAATCACAAAATGAATGAAGATCA
1 AATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCA
* * * *
197005 TTACTAGATTCCATGTTTGTTTCATTTGAGGCACGAACATAGACTTTACAAAAATTGGTGGGAAA
66 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGTGGGAAA
* * *
197070 AATACCTTTCTTGCGAAACCAAATCATCAATATGTGTATCCTAATAAGAAGACTATGTTTATGGT
131 AATGCCTTTCTTGCGAAACCAAAGCATCAATATGTGTATCCTAATGAGAAGACTATGTTTATGGT
* * * * * *
197135 GCCTAATCTTGAAAAGGATGGGCATCAGTGTGAGTATTCTTGTTTTTCATATTTAAAAGACAAAC
196 GCCTAATCCTGAAAAGGATGGG-ATTAGTATGAGTATTCATGTTTGTCATATTTAAGAGACAAAC
* * * *
197200 TTTGATTCTATAAAAAACGGTCGAAAGAAAAGCATTTCTCGCGACACCAAAGCATCAATGTCAAG
260 TTTGATTCTATAAAAAACGGT-GAAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATGTCATG
* *
197265 TATCCTAATGAAGGGATTGTGCTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTATTACAAGA
324 TATCCTAATGAAGGGAATGTGTTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTATTACAAGA
*
197330 ATCGATGCTTGCCTTATTTAAGGTATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAATGATT
389 ATCGATGCTTGCCTTATTTAAGGTATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATT
* * *
197395 TCCAAGTAAAAAAAAATCATC
454 TCCATGCAAAAGAAAATCATC
* *
197416 AATATCATTTATCCTGATGAGGAGAATGTGTTTACAGTGCCTAATCCCAAAATGAATGAAGATCA
1 AATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCA
* *
197481 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACTAAAATTGAT-GGAAA
66 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGTGGGAAA
* * *
197545 AATTGCCTTTCTTGCGAGAGCAAAGCATCAATATCATGTATCCTAATGAGAAGACTATGTTTATG
131 AA-TGCCTTTCTTGCGAAACCAAAGCATCAATAT-GTGTATCCTAATGAGAAGACTATGTTTATG
* * * *
197610 GTGCCTAATCCTGAAAAGAATGGGGATTAGTATTAGTATTAATGTTTGTCATTTTTAAGAGACAA
194 GTGCCTAATCCTGAAAAGGAT-GGGATTAGTATGAGTATTCATGTTTGTCATATTTAAGAGACAA
* * * * * *
197675 ACTTTGACTCTAT-CAAATCGATGGAAAGAAAAGCTTTTCTTGTGACACCAAAGCAGCAATGTGA
258 ACTTTGATTCTATAAAAAACGGT-GAAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATGTCA
* * * *
197739 TGTATCCTAATGAAGGGAATGTGTTTTTGGCTTCCTAGTGTTGAAAAGATTGGAGTCTATTGCAA
322 TGTATCCTAATGAAGGGAATGTGTTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTATTACAA
* * * ** * *
197804 GAATCGATGCTTGGCTTATTTATGGCATGAACTTTGACGTAAAGGAAAGTAGGGCAAAGAAAGGA
387 GAATCGATGCTTGCCTTATTTAAGGTATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGA
* * *
197869 TTTGCACGCAAAATAAAATCATC
452 TTTCCATGCAAAAGAAAATCATC
* * *
197892 AATATCATTTATCCCAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCG
1 AATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCA
* *
197957 TTACTAGAATCCAAGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGCGGGAAA
66 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGTGGGAAA
* * * *
198022 AATGCCTTTCTTGC-AAGCCCAAAGCATCAATATGATGTGTCCTAATGAGAAGACGATGTTTACG
131 AATGCCTTTCTTGCGAA-ACCAAAGCATCAATATG-TGTATCCTAATGAGAAGACTATGTTTATG
** * * *
198086 GTGCCTAATCCTGAAAATAACTGGGATTAGTATGAGTATACATGTTTATCGTATTTAAGAGACAA
194 GTGCCTAATCCTGAAAAGGA-TGGGATTAGTATGAGTATTCATGTTTGTCATATTTAAGAGACAA
* * * *
198151 ACTTTGATTTCTATCAAAAACGGTGAAAAGAAAAACTTTTCTTGCGACACCAAAGCATCAATATC
258 ACTTTGA-TTCTATAAAAAACGGTG-AAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATGTC
*
198216 ATTTAT-CTGAAT-AAGGAGAATGTGTTT
321 ATGTATCCT-AATGAAGG-GAATGTGTTT
198243 ACAGTGCCTA
Statistics
Matches: 1571, Mismatches: 181, Indels: 55
0.87 0.10 0.03
Matches are distributed among these distances:
472 86 0.05
473 1 0.00
475 69 0.04
476 707 0.45
477 485 0.31
478 139 0.09
479 1 0.00
480 1 0.00
481 82 0.05
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (474 bp):
AATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCA
TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGTGGGAAA
AATGCCTTTCTTGCGAAACCAAAGCATCAATATGTGTATCCTAATGAGAAGACTATGTTTATGGT
GCCTAATCCTGAAAAGGATGGGATTAGTATGAGTATTCATGTTTGTCATATTTAAGAGACAAACT
TTGATTCTATAAAAAACGGTGAAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATGTCATGTA
TCCTAATGAAGGGAATGTGTTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTATTACAAGAAT
CGATGCTTGCCTTATTTAAGGTATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTTC
CATGCAAAAGAAAATCATC
Found at i:197614 original size:158 final size:158
Alignment explanation
Indices: 196940--199359 Score: 631
Period size: 160 Copynumber: 15.3 Consensus size: 158
196930 GATAATCATA
* * * ** * *
196940 AATATCATTTATCCTAACGAGGAGAATGTGTTTACAGTGTCTAATCACAAAATGAATGAAGATCA
1 AATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCCCAAAATGAATGAAGATCA
* * * * * *
197005 TTACTAGATTCCATGTTTGTTTCATTTGAGGCACGAACATAGACTTTACAAAAATTGGTGGGAAA
66 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACTAAAATTGAT-GGAAA
* *
197070 -AATA-CCTTTCTTGCGAAACCAAATCATC
130 GAA-AGCCTTTCTTGCGACACCAAAGCATC
* * * * ** * *
197098 AATAT-GTGTATCCTAATAAGAAGACTATGTTTATGGTGCCTAATCTTGAAAA-GGATG-GGCAT
1 AATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATC-CCAAAATGAATGAAG-AT
* * * * * * * * * **
197160 CAGT-GTGAGTATTCTTGTTTTTCAT-ATTTAAAAGACA--AACTTTGA-TTCTA-TAAAAAACG
64 CATTACT-AGAATCCATGTTTGTC-TCATTT--GAGGCATGAACTTAGACTT-TACT-AAAATTG
* * * *
197219 GTCGAAAGAAAAGCATTTCTCGCGACACCAAAGCATC
123 ATGGAAAG-AAAGCCTTTCTTGCGACACCAAAGCATC
* * * * * * ** *
197256 AATGTCAAGTATCCTAATGA-AGGGATTGTGCTTT-TGGCTTCCTAGTCTTGAAAA-GAATGGAG
1 AATATCATGTATCCTAATGAGA-AGAATGTG-TTTATGG-TGCCTAATC-CCAAAATGAATGAAG
* * * * * * * * * *
197318 A-CTATTACAAGAATCGATGCTTGCCTTATTTAAGGTATGAACTTTGA-TTTA-AAGGAAAAT-A
62 ATC-ATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACTA--AAATTGA
* * ** ** * ** *
197379 GGGCAAAGAAATG-ATTTCCAAGTAAAAAAAAATCATC
124 TGG-AAAGAAA-GCCTTT-CTTGCGACACCAAAGCATC
* * * **
197416 AATATCATTTATCCTGATGAGGAGAATGTGTTTACAGTGCCTAATCCCAAAATGAATGAAGATCA
1 AATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCCCAAAATGAATGAAGATCA
197481 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACTAAAATTGATGGAAA-
66 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACTAAAATTGATGGAAAG
* * *
197545 AATTGCCTTTCTTGCGAGAGCAAAGCATC
131 AA-AGCCTTTCTTGCGACACCAAAGCATC
* * * ** *
197574 AATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCCTGAAAA-GAATGGGGATT
1 AATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCC-CAAAATGAATGAAGATC
* * * ** * * * * * *
197638 AGTATTAGTATTAATGTTTGTCAT-TTTTAAGAGACA--AACTTTGACTCTA-TCAAATCGATGG
65 ATTACTAGAATCCATGTTTGTC-TCATTT--GAGGCATGAACTTAGACTTTACTAAAATTGATGG
* * *
197699 AAAGAAAAGCTTTTCTTGTGACACCAAAGCAGC
127 AAAG-AAAGCCTTTCTTGCGACACCAAAGCATC
* * * * * * *** * *
197732 AATGTGATGTATCCTAATGA-AGGGAATGTGTTTTTGGCTTCCTAGTGTTGAAAA-GATTGGAG-
1 AATATCATGTATCCTAATGAGA-AGAATGTGTTTATGG-TGCCTAAT-CCCAAAATGAATGAAGA
* * * * * * * * * *** * *
197794 TCTATTGCAAGAATCGATGCTTGGCTTATTT-ATGGCATGAACTTTGACGTAAAGGAAAGT-AGG
63 TC-ATTACTAGAATCCATGTTTGTCTCATTTGA-GGCATGAACTTAGACTTTACTAAAATTGATG
** ** * * ** *
197857 GCAAAGAAAGGATTTGCACGCAAAATAAAATCATC
126 G-AAAGAAAGCCTTT-CTTGCGACACCAAAGCATC
* * * * * *
197892 AATATCATTTATCCCAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCG
1 AATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCCCAAAATGAATGAAGATCA
* * **
197957 TTACTAGAATCCAAGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGCGGGAAA
66 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACTAAAATT-GATGGAAA
* *
198022 -AATGCCTTTCTTGCAAGC-CCAAAGCATC
130 GAAAGCCTTTCTTGCGA-CACCAAAGCATC
* * * * * *
198050 AATATGATGTGTCCTAATGAGAAG-ACGATGTTTACGGTGCCTAATCCTGAAAAT-AACTG-GGA
1 AATATCATGTATCCTAATGAGAAGAATG-TGTTTATGGTGCCTAATCC-CAAAATGAA-TGAAGA
* * * * * * * * **
198112 TTAGTA-TGAGTATACATGTTTATCGT-ATTTAAGAGACA--AACTTTGATTTCTA-TCAAAAAC
63 TCATTACT-AGAATCCATGTTTGTC-TCATTT--GAGGCATGAACTTAGACTT-TACT-AAAATT
* * * *
198172 GGTGAAAAGAAAAACTTTTCTTGCGACACCAAAGCATC
122 GATGGAAAG-AAAGCCTTTCTTGCGACACCAAAGCATC
* * * ** *
198210 AATATCATTTAT-CTGAATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATC
1 AATATCATGTATCCT-AATGAGAAGAATGTGTTTATGGTGCCTAATCCCAAAATGAATGAAGATC
* * * * * *
198274 ATTTCTGGAATCCATATTTGTCTCATTTGAGGCACGAACTTAGACTTTACGAAATTTCG-TAGGA
65 ATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACTAAAATT-GAT-GGA
* * *
198338 AA-AATG-C---CTTGCGAAACTAAAGCATC
128 AAGAAAGCCTTTCTTGCGACACCAAAGCATC
* * * * * ** * * *
198364 AATATCGTGTATCCTAATTAAAACACTACGTTTATGCTGCCTAATCCTGAAAA-G-GTCG-AGAA
1 AATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCC-CAAAATGAAT-GAAG-A
* * * * * * * * * *
198426 TTAGTACGAGTATTCATGTTTGTCAT-ATTTAAGAG-ATAAACTTTGA-TTCTA-TGAAAAATGG
63 TCATTACTAGAATCCATGTTTGTC-TCATTTGAG-GCATGAACTTAGACTT-TACT-AAAATTGA
* * * * *
198487 TGAAAAGAAAAGCTTTTCTTGTGGCCCCAAAGCATC
124 TGGAAAG-AAAGCCTTTCTTGCGACACCAAAGCATC
* * * * * * ** *
198523 AATGTCATGTTTCCTAATGA-AGGGAATGTGTTTTTGGCTTCGC-AGTCTTGAAAA-GAATGGAG
1 AATATCATGTATCCTAATGAGA-AGAATGTGTTTATGG-TGC-CTAATC-CCAAAATGAATGAAG
* * * * * * * * **
198585 A-CTGTTACGAGAATCGATGCTTGTCTTATTTAAGGTATGAACTTTGA-TTTGAAGGAAAA-T-A
62 ATC-ATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTT--ACTAAAATTGA
* * * * * ** * *
198646 GGGCAAAGAAAAG-ATTCTCGTGCAAAAGAAAATCATA
124 TGG-AAAG-AAAGCCTT-TCTTGCGACACCAAAGCATC
* * * ** * *
198683 AATATCATTTATCCTAACGAGGAGAATGTGTTTACAGTGTCTAATCACAAAATGAATGAAGATCA
1 AATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCCCAAAATGAATGAAGATCA
* * * * *
198748 TTACTAGAATCCATGTTTGTTTCATTTGAAGCATGAACATAGACTTTACAAAAATTGGTGGGAAA
66 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACTAAAATTGAT-GGAAA
* * * *
198813 -ATTA-CTTTTCTTGCGAAACCATAGCATC
130 GA-AAGCCTTTCTTGCGACACCAAAGCATC
* * * * * * * * * * *
198841 AATATCGTGTATCTTAATGAAAAGACTATATTTATGGTGCCCAATCCTAAAAAGGATG-GGCATC
1 AATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCCCAAAATGAATGAAG-ATC
* * * * * * * ** *
198905 AGGGT-CT-GTATTCATGTTTTTCAT-ATTTAAGAGACA--AACTTTGA-TTCTATTAAAAACGG
65 A--TTACTAGAATCCATGTTTGTC-TCATTT--GAGGCATGAACTTAGACTT-TACTAAAATTGA
* * *
198964 TGCGAAAAAAAAGCATTTCTCGCGACACCAAAGCATC
124 TG-G-AAAGAAAGCCTTTCTTGCGACACCAAAGCATC
* * * * ** *
199001 AATGTCATGTATCCTAATGA-AGCGAATGTGCTTT-TGGCTTCCTAGTCTTGAAAA-GAATGGAG
1 AATATCATGTATCCTAATGAGA-AGAATGTG-TTTATGG-TGCCTAATC-CCAAAATGAATGAAG
* * * * * * * * * *
199063 A-CTGTTACAAGAATCGATGCTTGCCTTATTT-AAGCTATGAACTTTGA-TTTA-AAGGAAAAT-
62 ATC-ATTACTAGAATCCATGTTTGTCTCATTTGAGGC-ATGAACTTAGACTTTACTA--AAATTG
* ** * * * ** *
199123 AGGGCAAAGAAAGGATTTCCATGCAAAAAAAAATTCATC
123 ATGG-AAAGAAAGCCTTT-CTTGCGACACCAAA-GCATC
* **
199162 AATATCACT-TATCCTAATGAGGAGAATGTGTTTACAGTGCCTAAT--C--AATGAATGAAGATC
1 AATATCA-TGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCCCAAAATGAATGAAGATC
* * *
199222 ATTACTAGAATCCATGTTTGTCTCATTTAAGGCATGAACTTAGACTTTACTAAAATTGGTGGGAA
65 ATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACTAAAATTGATGGAAA
* *
199287 -AATGCC-TTCTGGCGTA-ACCAAAGCATC
130 GAAAGCCTTTCTTGCG-ACACCAAAGCATC
* * ** * *
199314 AATATTATGTATCCTAATGACAAGGCTATGTTTATGGTGTCTAATC
1 AATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATC
199360 TTGAAAAGAA
Statistics
Matches: 1594, Mismatches: 508, Indels: 325
0.66 0.21 0.13
Matches are distributed among these distances:
151 1 0.00
152 38 0.02
153 17 0.01
154 91 0.06
155 16 0.01
156 55 0.03
157 103 0.06
158 389 0.24
159 364 0.23
160 425 0.27
161 89 0.06
162 6 0.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (158 bp):
AATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCCCAAAATGAATGAAGATCA
TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACTAAAATTGATGGAAAG
AAAGCCTTTCTTGCGACACCAAAGCATC
Found at i:198067 original size:953 final size:949
Alignment explanation
Indices: 195985--198212 Score: 3066
Period size: 953 Copynumber: 2.3 Consensus size: 949
195975 AGATCCTAAC
* *
195985 AAATATCATTTATCCTGATGAGGAGAATGTGTTTACAGTGCCTAATCCCAAAATGAATGAAGATC
1 AAATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATC
* * * *
196050 ATTACTAGAATCCATGTTTGTCTCATTTGAGGTATGAACTTAAACTTTACGAAATTTGGTGGGAA
66 ATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGTGGGAA
* * * * *
196115 AAATGCCTTTCTTGCGAAACTAAAGGATGAATATCGCGTATCATAATTAA-AAGACTATGTTTAT
131 AAATGCCTTTCTTGCGAAACCAAAGCATCAATAT-GTGTATCCTAA-TAAGAAGACTATGTTTAT
** * *
196179 GCAGCCTAATCCTGAAAAGGGTGAGGATTAGTATGAGTATTCATGTTTGTCGTATTTAAGAGACA
194 GGTGCCTAATCCTGAAAAGGATG-GGATTAGTATGAGTATTCATGTTTATCGTATTTAAGAGACA
** *
196244 AACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGTAACCCCAAAGCATCAATGTC
258 AACTTTGATTCTATCAAAAACGGT-GAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTC
* * * **
196309 ATGTTTCCTAATGAAGGGAATGTGTTTTTGGCTTCCCAGTCTTGAAAAGAATGGAGACTATTATG
322 AAGTATCCTAATGAAGGGAATGTGCTTTTGGCTTCCCAGTCTTGAAAAGAATGGAGACTATTACA
*
196374 AGAATCGATGCTTGCCTTATATAAGGTATGAACTTAGAATTGAAGGAAAATAGGGCAAAGAAAAG
387 AGAATCGATGCTTGCCTTATATAAGGTATGAACTTAGAATTAAAGGAAAATAGGGCAAAGAAAAG
* * * * **
196439 ATTCCCATGCAAAAGAAAATCATGAATATTATTTATCCTAATGAGGAGAATGTGTTTATTGTGCC
452 ATTCCCAAGCAAAAAAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCC
* *
196504 TAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTTTCATTTGGGGCACAAACAAA
517 TAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACAAA
* * **
196569 GACTTTACAAAAATTGGTCGGAAAAATTACCTTTCTTGCGAAACCAAAGCATCAATGTTGTGTAT
582 GACTTTACAAAAATTGATCGGAAAAATTACCTTTCTTGCGAAACCAAAGCATCAATATCATGTAT
* * * *
196634 TATAATGATAAGACTATGTTTACAGTGCCTAATCCTGAAAAGGATGGGCATCAGTGTGAGTATTA
647 CATAATGAGAAGACTATGTTTACAGTGCCTAATCCTGAAAAGAATGGGCATCAGTATGAGTATTA
* * * *
196699 TTCATGTTTTTCATATTTAAGAGGCAAACTTTGATTCTATAAAAAACGGTGAAAAGAAAAGCATT
712 -T-ATGTTTGTCATATTTAAGAGACAAACTTTGACTCTATAAAAAACGATGAAAAGAAAAGCATT
** *
196764 TCTCGTGACACCAAAGCTTCAATGTCCTCCTAAGGAAGGGAATGTGTTTTTGGCTTCGCAGTCTT
775 TCTCGTGACACCAAAGCAGCAATGTCATCCTAAGGAAGGGAATGTGTTTTTGGCTTCGCAGTCTT
* * * * ** *
196829 GAAAAGAATGGAGACTGTTACAAGAATCGATGCTTGTCTTATTTAAGGTATGAACTTTTATTTGA
840 GAAAAGAATGGAGACTATTACAAGAATCGATGCTTGGCTTATTTAAGGCATGAACTTTGACGTAA
** *
196894 AGGAAAATAGGGCAAAGAAAAGATTCTCGTGCAAAAGATAATCAT
905 AGGAAAATAGGGCAAAGAAAAGATTCTCACGCAAAAGAAAATCAT
* *
196939 AAATATCATTTATCCTAACGAGGAGAATGTGTTTACAGTGTCTAATCACAAAATGAATGAAGATC
1 AAATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATC
* * * *
197004 ATTACTAGATTCCATGTTTGTTTCATTTGAGGCACGAACATAGACTTTACAAAAATTGGTGGGAA
66 ATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGTGGGAA
* *
197069 AAATACCTTTCTTGCGAAACCAAATCATCAATATGTGTATCCTAATAAGAAGACTATGTTTATGG
131 AAATGCCTTTCTTGCGAAACCAAAGCATCAATATGTGTATCCTAATAAGAAGACTATGTTTATGG
* * * * * * *
197134 TGCCTAATCTTGAAAAGGATGGGCATCAGTGTGAGTATTCTTGTTTTTCATATTTAAAAGACAAA
196 TGCCTAATCCTGAAAAGGATGGG-ATTAGTATGAGTATTCATGTTTATCGTATTTAAGAGACAAA
* * *
197199 CTTTGATTCTATAAAAAACGGTCGAAAGAAAAGCATTTCTCGCGACACCAAAGCATCAATGTCAA
260 CTTTGATTCTATCAAAAACGGT-GAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCAA
* *
197264 GTATCCTAATGAAGGGATTGTGCTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTATTACAAG
324 GTATCCTAATGAAGGGAATGTGCTTTTGGCTTCCCAGTCTTGAAAAGAATGGAGACTATTACAAG
* * * *
197329 AATCGATGCTTGCCTTATTTAAGGTATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAATGAT
389 AATCGATGCTTGCCTTATATAAGGTATGAACTTAGAATTAAAGGAAAATAGGGCAAAGAAAAGAT
* * *
197394 TTCCAAGTAAAAAAAAATCATCAATATCATTTATCCTGATGAGGAGAATGTGTTTACAGTGCCTA
454 TCCCAAGCAAAAAAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTA
* ** **
197459 ATCCCAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGA
519 ATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACAAAGA
* * * * *
197524 CTTTACTAAAATTGAT-GGAAAAATTGCCTTTCTTGCGAGAGCAAAGCATCAATATCATGTATCC
584 CTTTACAAAAATTGATCGGAAAAATTACCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCA
** * * *
197588 TAATGAGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATTAGTATTA-A
649 TAATGAGAAGACTATGTTTACAGTGCCTAATCCTGAAAAGAATGGGCATCAGTATGAGTATTATA
* * * * * *
197652 TGTTTGTCATTTTTAAGAGACAAACTTTGACTCTAT-CAAATCGATGGAAAGAAAAGCTTTTCTT
714 TGTTTGTCATATTTAAGAGACAAACTTTGACTCTATAAAAAACGATGAAAAGAAAAGCATTTCTC
* * *
197716 GTGACACCAAAGCAGCAATGTGATGTATCCTAATGAAGGGAATGTGTTTTTGGCTTC-CTAGTGT
779 GTGACACCAAAGCAGCAA--TG-T-CATCCTAAGGAAGGGAATGTGTTTTTGGCTTCGC-AGTCT
* * * *
197780 TGAAAAGATTGGAGTCTATTGCAAGAATCGATGCTTGGCTTATTTATGGCATGAACTTTGACGTA
839 TGAAAAGAATGGAGACTATTACAAGAATCGATGCTTGGCTTATTTAAGGCATGAACTTTGACGTA
* * *
197845 AAGGAAAGTAGGGCAAAGAAAGGATT-TGCACGCAAAATAAAATCAT
904 AAGGAAAATAGGGCAAAGAAAAGATTCT-CACGCAAAAGAAAATCAT
* * *
197891 CAATATCATTTATCCCAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATC
1 AAATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATC
* * *
197956 GTTACTAGAATCCAAGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGCGGGAA
66 ATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGTGGGAA
* * * * *
198021 AAATGCCTTTCTTGC-AAGCCCAAAGCATCAATATGATGTGTCCTAATGAGAAGACGATGTTTAC
131 AAATGCCTTTCTTGCGAA-ACCAAAGCATCAATATG-TGTATCCTAATAAGAAGACTATGTTTAT
** *
198085 GGTGCCTAATCCTGAAAATAACTGGGATTAGTATGAGTATACATGTTTATCGTATTTAAGAGACA
194 GGTGCCTAATCCTGAAAAGGA-TGGGATTAGTATGAGTATTCATGTTTATCGTATTTAAGAGACA
*
198150 AACTTTGATTTCTATCAAAAACGGTGAAAAGAAAAACTTTTCTTGCGACACCAAAGCATCAAT
258 AACTTTGA-TTCTATCAAAAACGGTG-AAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAAT
198213 ATCATTTATC
Statistics
Matches: 1113, Mismatches: 148, Indels: 26
0.86 0.11 0.02
Matches are distributed among these distances:
948 38 0.03
949 33 0.03
950 2 0.00
951 5 0.00
952 372 0.33
953 464 0.42
954 199 0.18
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (949 bp):
AAATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATC
ATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGTGGGAA
AAATGCCTTTCTTGCGAAACCAAAGCATCAATATGTGTATCCTAATAAGAAGACTATGTTTATGG
TGCCTAATCCTGAAAAGGATGGGATTAGTATGAGTATTCATGTTTATCGTATTTAAGAGACAAAC
TTTGATTCTATCAAAAACGGTGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCAAGT
ATCCTAATGAAGGGAATGTGCTTTTGGCTTCCCAGTCTTGAAAAGAATGGAGACTATTACAAGAA
TCGATGCTTGCCTTATATAAGGTATGAACTTAGAATTAAAGGAAAATAGGGCAAAGAAAAGATTC
CCAAGCAAAAAAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAAT
CACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACAAAGACT
TTACAAAAATTGATCGGAAAAATTACCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCATA
ATGAGAAGACTATGTTTACAGTGCCTAATCCTGAAAAGAATGGGCATCAGTATGAGTATTATATG
TTTGTCATATTTAAGAGACAAACTTTGACTCTATAAAAAACGATGAAAAGAAAAGCATTTCTCGT
GACACCAAAGCAGCAATGTCATCCTAAGGAAGGGAATGTGTTTTTGGCTTCGCAGTCTTGAAAAG
AATGGAGACTATTACAAGAATCGATGCTTGGCTTATTTAAGGCATGAACTTTGACGTAAAGGAAA
ATAGGGCAAAGAAAAGATTCTCACGCAAAAGAAAATCAT
Found at i:198269 original size:318 final size:312
Alignment explanation
Indices: 197888--198555 Score: 833
Period size: 318 Copynumber: 2.1 Consensus size: 312
197878 AAAATAAAAT
* * *
197888 CATCAATATCATTTATCCCAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATGAAG
1 CATCAATATCATTTAT-CTAATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
* * * *
197953 ATCGTTACTAGAATCCA-AGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTGGCG
65 ATCATTACTAGAATCCATA-TTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTCGCA
* * * * * *
198017 GGAAAAATGCCTTTCTTGCAAGCCCAAAGCATCAATAT-GATGTGTCCTAATGAGAAGACGATGT
129 GGAAAAATGCCTTGC--G-AA-ACCAAAGCATCAATATCG-TGTATCCTAATGAAAACACGACGT
* * * * *
198081 TTACGGTGCCTAATCCTGAAAATAACTG-GGATTAGTATGAGTATACATGTTTATCGTATTTAAG
189 TTACGCTGCCTAATCCTGAAAAGAAC-GAGAATTAGTACGAGTATACATGTTTATCATATTTAAG
198145 AGACAAACTTTGATTTCTATCAAAAACGGTGAAAAGAAAAACTTTTCTTGCGACACCAAAG
253 AGACAAACTTTGA-TTCTATCAAAAACGGTGAAAAGAAAAACTTTTCTTGCGACACCAAAG
198206 CATCAATATCATTTATCTGAATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
1 CATCAATATCATTTATCT-AATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
* * * * *
198271 ATCATTTCTGGAATCCATATTTGTCTCATTTGAGGCACGAACTTAGACTTTACGAAATTTCGTAG
65 ATCATTACTAGAATCCATATTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTCGCAG
* * * *
198336 GAAAAATGCCTTGCGAAACTAAAGCATCAATATCGTGTATCCTAATTAAAACACTACGTTTATGC
130 GAAAAATGCCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAAAACACGACGTTTACGC
** * * *
198401 TGCCTAATCCTGAAAAGGTCGAGAATTAGTACGAGTATTCATGTTTGTCATATTTAAGAGATAAA
195 TGCCTAATCCTGAAAAGAACGAGAATTAGTACGAGTATACATGTTTATCATATTTAAGAGACAAA
* * * * * *
198466 CTTTGATTCTATGAAAAATGGTGAAAAGAAAAGCTTTTCTTGTGGCCCCAAAG
260 CTTTGATTCTATCAAAAACGGTGAAAAGAAAAACTTTTCTTGCGACACCAAAG
*
198519 CATCAATGTCATGTT-TCCTAATGAAGG-GAATGTGTTT
1 CATCAATATCAT-TTAT-CTAAT-AAGGAGAATGTGTTT
198556 TTGGCTTCGC
Statistics
Matches: 304, Mismatches: 39, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
313 67 0.22
314 104 0.34
315 3 0.01
316 1 0.00
317 1 0.00
318 127 0.42
319 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (312 bp):
CATCAATATCATTTATCTAATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGA
TCATTACTAGAATCCATATTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTCGCAGG
AAAAATGCCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAAAACACGACGTTTACGCT
GCCTAATCCTGAAAAGAACGAGAATTAGTACGAGTATACATGTTTATCATATTTAAGAGACAAAC
TTTGATTCTATCAAAAACGGTGAAAAGAAAAACTTTTCTTGCGACACCAAAG
Found at i:198775 original size:791 final size:790
Alignment explanation
Indices: 197412--199013 Score: 2150
Period size: 791 Copynumber: 2.0 Consensus size: 790
197402 AAAAAAAAAT
* *
197412 CATCAATATCATTTATCCTGATGAGGAGAATGTGTTTACAGTGCCTAATCCCAAAATGAATGAAG
1 CATCAATATCATTTAT-CTGATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
* * *
197477 ATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACTAAAATTGATGG
65 ATCATTACTAGAATCCATATTTGTCTCATTTGAGGCACGAACTTAGACTTTACGAAAATTGATGG
* * * *
197542 AAAAATTGCCTTTCTTGCGAGAGCAAAGCATCAATATCATGTATCCTAATGAGAAGACTATGTTT
130 AAAAATTGCC--TCTTGCGAGAACAAAGCATCAATATCATGTATCCTAATGAAAACACTACGTTT
* * * ** *
197607 ATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATTAGTATTAATGTTTGTCATTTTTAAGAGA
193 ATGCTGCCTAATCCTGAAAAGAATGAGAATTAGTACGAGTATTAATGTTTGTCATATTTAAGAGA
* *
197672 CAAACTTTGACTCTATCAAATCGATGGAAAGAAAAGCTTTTCTTGTGACACCAAAGCAGCAATGT
258 CAAACTTTGACTCTATAAAATCGATGAAAAGAAAAGCTTTTCTTGTGACACCAAAGCAGCAATGT
* * * * *
197737 GATGTATCCTAATGAAGGGAATGTGTTTTTGGCTTCCTAGTGTTGAAAAGATTGGAGTCTATTGC
323 CATGTATCCTAATGAAGGGAATGTGTTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTATTAC
* * *
197802 AAGAATCGATGCTTGGCTTATTTATGGCATGAACTTTGACGTAAAGGAAAGTAGGGCAAAGAAAG
388 AAGAATCGATGCTTGGCTTATTTAAGGCATGAACTTTGACGTAAAGGAAAATAGGGCAAAGAAAA
* * * *
197867 GATTTGCACGCAAAATAAAATCATCAATATCATTTATCCCAATGAGGAGAATGTGTTTATAGTGC
453 GATTTGCACGCAAAAGAAAATCATAAATATCATTTATCCCAACGAGGAGAATGTGTTTACAGTGC
* * *
197932 CTAATCACAAAATGAATGAAGATCGTTACTAGAATCCAAGTTTGTCTCATTTGAGGCATGAACTT
518 CTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAAGCATGAACAT
* *
197997 AGACTTTACAAAAATTGGCGGGAAAAATGCCTTTCTTGC-AAGCCCAAAGCATCAATAT-GATGT
583 AGACTTTACAAAAATTGGCGGGAAAAATACCTTTCTTGCGAA-ACCAAAGCATCAATATCG-TGT
* * * * * * * * *
198060 GTCCTAATGAGAAGACGATGTTTACGGTGCCTAATCCTGAAAATAACTGGG-ATTAGTATGAGTA
646 ATCCTAATGAAAAGACGATATTTACGGTGCCCAATCCTAAAAAGAA-TGGGCATCAGGATCAGTA
* *
198124 TACATGTTTATCGTATTTAAGAGACAAACTTTGATTTCTATCAAAAACGGT-GAAAAGAAAAACT
710 TACATGTTTATCATATTTAAGAGACAAACTTTGA-TTCTATCAAAAACGGTCGAAAA-AAAAACA
*
198188 TTTCTTGCGACACCAAAG
773 TTTCTCGCGACACCAAAG
198206 CATCAATATCATTTATCTGAATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
1 CATCAATATCATTTATCTG-ATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
* * *
198271 ATCATTTCTGGAATCCATATTTGTCTCATTTGAGGCACGAACTTAGACTTTACGAAATTTCG-TA
65 ATCATTACTAGAATCCATATTTGTCTCATTTGAGGCACGAACTTAGACTTTACGAAAATT-GAT-
* *
198335 GGAAAAA-TG-C-CTTGCGA-AACTAAAGCATCAATATCGTGTATCCTAATTAAAACACTACGTT
128 GGAAAAATTGCCTCTTGCGAGAAC-AAAGCATCAATATCATGTATCCTAATGAAAACACTACGTT
* *
198396 TATGCTGCCTAATCCTGAAAAG-GTCGAGAATTAGTACGAGTATTCATGTTTGTCATATTTAAGA
192 TATGCTGCCTAATCCTGAAAAGAAT-GAGAATTAGTACGAGTATTAATGTTTGTCATATTTAAGA
* * * * * *
198460 GATAAACTTTGATTCTATGAAAAAT-GGTGAAAAGAAAAGCTTTTCTTGTGGCCCCAAAGCATCA
256 GACAAACTTTGACTCTAT--AAAATCGATGAAAAGAAAAGCTTTTCTTGTGACACCAAAGCAGCA
*
198524 ATGTCATGTTTCCTAATGAAGGGAATGTGTTTTTGGCTTCGC-AGTCTTGAAAAGAATGGAGACT
319 ATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGCTTC-CTAGTCTTGAAAAGAATGGAGACT
* * * * ** *
198588 GTTACGAGAATCGATGCTTGTCTTATTTAAGGTATGAACTTTGATTTGAAGGAAAATAGGGCAAA
383 ATTACAAGAATCGATGCTTGGCTTATTTAAGGCATGAACTTTGACGTAAAGGAAAATAGGGCAAA
** *
198653 GAAAAGATTCT-CGTGCAAAAGAAAATCATAAATATCATTTATCCTAACGAGGAGAATGTGTTTA
448 GAAAAGATT-TGCACGCAAAAGAAAATCATAAATATCATTTATCCCAACGAGGAGAATGTGTTTA
* * *
198717 CAGTGTCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTTTCATTTGAAGCAT
512 CAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAAGCAT
* * * *
198782 GAACATAGACTTTACAAAAATTGGTGGGAAAATTACTTTTCTTGCGAAACCATAGCATCAATATC
577 GAACATAGACTTTACAAAAATTGGCGGGAAAAATACCTTTCTTGCGAAACCAAAGCATCAATATC
* * * * * *
198847 GTGTATCTTAATGAAAAGACTATATTTATGGTGCCCAATCCTAAAAAGGATGGGCATCAGGGTCT
642 GTGTATCCTAATGAAAAGACGATATTTACGGTGCCCAATCCTAAAAAGAATGGGCATCAGGATCA
* * * *
198912 GTATTCATGTTTTTCATATTTAAGAGACAAACTTTGATTCTATTAAAAACGGTGCGAAAAAAAAG
707 GTATACATGTTTATCATATTTAAGAGACAAACTTTGATTCTATCAAAAACGGT-CGAAAAAAAAA
198977 CATTTCTCGCGACACCAAAG
771 CATTTCTCGCGACACCAAAG
* *
198997 CATCAATGTCATGTATC
1 CATCAATATCATTTATC
199014 CTAATGAAGC
Statistics
Matches: 705, Mismatches: 89, Indels: 31
0.85 0.11 0.04
Matches are distributed among these distances:
789 3 0.00
790 131 0.19
791 429 0.61
792 14 0.02
793 4 0.01
794 116 0.16
795 8 0.01
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (790 bp):
CATCAATATCATTTATCTGATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGA
TCATTACTAGAATCCATATTTGTCTCATTTGAGGCACGAACTTAGACTTTACGAAAATTGATGGA
AAAATTGCCTCTTGCGAGAACAAAGCATCAATATCATGTATCCTAATGAAAACACTACGTTTATG
CTGCCTAATCCTGAAAAGAATGAGAATTAGTACGAGTATTAATGTTTGTCATATTTAAGAGACAA
ACTTTGACTCTATAAAATCGATGAAAAGAAAAGCTTTTCTTGTGACACCAAAGCAGCAATGTCAT
GTATCCTAATGAAGGGAATGTGTTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTATTACAAG
AATCGATGCTTGGCTTATTTAAGGCATGAACTTTGACGTAAAGGAAAATAGGGCAAAGAAAAGAT
TTGCACGCAAAAGAAAATCATAAATATCATTTATCCCAACGAGGAGAATGTGTTTACAGTGCCTA
ATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAAGCATGAACATAGA
CTTTACAAAAATTGGCGGGAAAAATACCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCT
AATGAAAAGACGATATTTACGGTGCCCAATCCTAAAAAGAATGGGCATCAGGATCAGTATACATG
TTTATCATATTTAAGAGACAAACTTTGATTCTATCAAAAACGGTCGAAAAAAAAACATTTCTCGC
GACACCAAAG
Found at i:199083 original size:478 final size:476
Alignment explanation
Indices: 198206--201086 Score: 3604
Period size: 478 Copynumber: 6.0 Consensus size: 476
198196 GACACCAAAG
*
198206 CATCAATATCATTTAT-CTGAATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAA
1 CATCAATATCATTTATCCT-AATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAA
* * * * * * * * *
198270 GATCATTTCTGGAATCCATATTTGTCTCATTTGAGGCACGAACTTAGACTTTACGAAATTTCGTA
65 GATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACATAGACTTTACAAAAATTGGTG
** * * * *
198335 GGAAAA--A-TGCCTTGCGAAACTAAAGCATCAATATCGTGTATCCTAATTAAAACACTACGTTT
130 GGAAAATTACTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAAAAGACTATGTTT
* * * * * *
198397 ATGCTGCCTAATCCTGAAAAGG-TCGAGAATTA--GTACGAGTATTCATGTTTGTCATATTTAAG
195 ATGGTGCCTAATCCTGAAAAGGAT-GGGCATCAGGGT-C-TGTATTCATGTTTTTCATATTTAAG
* * * * * * *
198459 AGATAAACTTTGATTCTATGAAAAATGGTGAAAAGAAAAGCTTTTCTTGTGGCCCCAAAGCATCA
257 AGACAAACTTTGATTCTATCAAAAACGGTGAAAAGAAAAGCATTTCTCGTGACACCAAAGCATCA
* *
198524 ATGTCATGTTTCCTAATGAAGGGAATGTGTTTTTGGCTTCGC-AGTCTTGAAAAGAATGGAGACT
322 ATGTCATGTATCCTAATGAAGGGAATGTGCTTTTGGCTTC-CTAGTCTTGAAAAGAATGGAGACT
*
198588 GTTACGAGAATCGATGCTTGTCTTATTTAAGGTATGAACTTTGATTTGAAGGAAAATAGGGCAAA
386 GTTACAAGAATCGATGCTTGTCTTATTTAAGGTATGAACTTTGATTTGAAGGAAAATAGGGCAAA
*
198653 GAAAAGATTCTCGTGCAAAAGAAAAT
451 GAAAAGATTCTCATGCAAAAGAAAAT
* * *
198679 CATAAATATCATTTATCCTAACGAGGAGAATGTGTTTACAGTGTCTAATCACAAAATGAATGAAG
1 CATCAATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
* *
198744 ATCATTACTAGAATCCATGTTTGTTTCATTTGAAGCATGAACATAGACTTTACAAAAATTGGTGG
66 ATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACATAGACTTTACAAAAATTGGTGG
* * *
198809 GAAAATTACTTTTCTTGCGAAACCATAGCATCAATATCGTGTATCTTAATGAAAAGACTATATTT
131 GAAAATTAC-TTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAAAAGACTATGTTT
* *
198874 ATGGTGCCCAATCCTAAAAAGGATGGGCATCAGGGTCTGTATTCATGTTTTTCATATTTAAGAGA
195 ATGGTGCCTAATCCTGAAAAGGATGGGCATCAGGGTCTGTATTCATGTTTTTCATATTTAAGAGA
* *
198939 CAAACTTTGATTCTATTAAAAACGGTGCGAAAA-AAAAGCATTTCTCGCGACACCAAAGCATCAA
260 CAAACTTTGATTCTATCAAAAACGGT--GAAAAGAAAAGCATTTCTCGTGACACCAAAGCATCAA
*
199003 TGTCATGTATCCTAATGAAGCGAATGTGCTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTGT
323 TGTCATGTATCCTAATGAAGGGAATGTGCTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTGT
* * *
199068 TACAAGAATCGATGCTTGCCTTATTTAAGCTATGAACTTTGATTTAAAGGAAAATAGGGCAAAGA
388 TACAAGAATCGATGCTTGTCTTATTTAAGGTATGAACTTTGATTTGAAGGAAAATAGGGCAAAGA
* *
199133 AAGGATT-TCCATGCAAAAAAAAATT
453 AAAGATTCT-CATGCAAAAGAAAA-T
*
199158 CATCAATATCACTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAAT--C--AATGAATGAAG
1 CATCAATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
* * *
199219 ATCATTACTAGAATCCATGTTTGTCTCATTTAAGGCATGAACTTAGACTTTACTAAAATTGGTGG
66 ATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACATAGACTTTACAAAAATTGGTGG
* * * * ** * *
199284 GAAAA-TGCCTTCTGGCGTAACCAAAGCATCAATATTATGTATCCTAATGACAAGGCTATGTTTA
131 GAAAATTACTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAAAAGACTATGTTTA
* * * * * * *
199348 TGGTGTCTAATCTTGAAAAGAACAGGG-ATTA--GTACTAGTATACATTACTTGTTTGTT-GTAT
196 TGGTGCCTAATCCTGAAAAGGA-TGGGCATCAGGGT-CT-G--T--ATT-CATGTTT-TTCATAT
* * * *
199409 TT-AGAAGACAAACTTTGATTCTATCAAAAATGGTGAAAAGAAAAGCTTTTCTTGTGATACCAAA
252 TTAAG-AGACAAACTTTGATTCTATCAAAAACGGTGAAAAGAAAAGCATTTCTCGTGACACCAAA
* * * * * * *
199473 GCATCAATGTCATTTATCCCAATGGAGGGAAAG-G-TTTTGGGCTTCCCAATCTTGAAAAGAAAG
316 GCATCAATGTCATGTATCCTAATGAAGGGAATGTGCTTTT-GGCTTCCTAGTCTTGAAAAGAATG
* * * *
199536 GAGACTGTTACGAGAATCGATACTTGTCGTATTTAAGGTATGAACTTTGATTTGAAGGAAAACAG
380 GAGACTGTTACAAGAATCGATGCTTGTCTTATTTAAGGTATGAACTTTGATTTGAAGGAAAATAG
199601 GGCAAAGAAAAGATTC-CAATGCAAAAGAAAAT
445 GGCAAAGAAAAGATTCTC-ATGCAAAAGAAAAT
* * *
199633 CATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTG-CT-ATCACAAATTGAATGAAA
1 CATCAATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
* * * * * * *
199696 ATCATTACTAGATTCTATGTTTGTCTCATTTGAGGCACGAACTTAAACTTTACGAAATTTGGTGG
66 ATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACATAGACTTTACAAAAATTGGTGG
* * * * * * *
199761 GAAAAATGACTTTCTTGCGAAACTAAAGCA-CGAATATTGCGTATCGTAATTAAAAGACTACGTT
131 G-AAAATTACTTTCTTGCGAAACCAAAGCATC-AATATCGTGTATCCTAATGAAAAGACTATGTT
* ** ** ** * *
199825 TATGGTGCCTAATCCTGAAAAAGG-TAAGG-ATTTGTATGAGTATTCATGTTTGTCGTATTTAAG
194 TATGGTGCCTAATCCTG-AAAAGGAT-GGGCATCAGGGTCTGTATTCATGTTTTTCATATTTAAG
* * * * *
199888 AGACAAACTTGGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGTGACCCCAAAGCATCA
257 AGACAAACTTTGATTCTATCAAAAACGGTGAAAAGAAAAGCATTTCTCGTGACACCAAAGCATCA
* * * * * *
199953 ATGTCACGTTTCCTAATGAAGGGAATGTGTTTTTGGCTTCCCAGTCTTGAAAAGAATGGAAACTA
322 ATGTCATGTATCCTAATGAAGGGAATGTGCTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTG
** * * *
200018 TTATGAGAATTGATGCTTGCCTTATATAAGGTATGAACTTTGATTTGAAGGAAAATAGGGCAAAG
387 TTACAAGAATCGATGCTTGTCTTATTTAAGGTATGAACTTTGATTTGAAGGAAAATAGGGCAAAG
*
200083 AAAAGATTCTCACGCAAAAGAAAAT
452 AAAAGATTCTCATGCAAAAGAAAAT
* * **
200108 CATGAATATTATTTATCCTAATGAGGAGAATGTGTTTATTGTGCCTAATCACAAAAATGAATGAA
1 CATCAATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCAC-AAAATGAATGAA
* *
200173 GATCATTACTAGAATCCATGTTTGTTTCATTTG-GGTCATGAACAAAGACTTTACAAAAATTGGT
65 GATCATTACTAGAATCCATGTTTGTCTCATTTGAGG-CATGAACATAGACTTTACAAAAATTGGT
* * *
200237 GGGAAAAATTACCTTTCTTGCGAAACCAAAGCATCAATGTCATGTATCCTAATGATAAGACTATG
129 GGG-AAAATTA-CTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAAAAGACTATG
* * *
200302 TTTACGGTGCCTAATTCTGAAAAGGATGGGCATCAGTGTGAGTAT-TATTCATGTTTTTCATATT
192 TTTATGGTGCCTAATCCTGAAAAGGATGGGCATCA--G-G-GTCTGTATTCATGTTTTTCATATT
* * *
200366 TAAGA-AGCAAACTTTGATTCTATCAAAAATGGTGCAAAGAAAAGCATTTCTCGTGAAACCAAAG
253 TAAGAGA-CAAACTTTGATTCTATCAAAAACGGTGAAAAGAAAAGCATTTCTCGTGACACCAAAG
* * *
200430 CTTCAATGTC----CTCCTAAGGAAGGGAATGTGCTTTTGGCTTCCTAGTCTTGAAAAGAATGGA
317 CATCAATGTCATGTATCCTAATGAAGGGAATGTGCTTTTGGCTTCCTAGTCTTGAAAAGAATGGA
* *
200491 GACTGTTACAAGAATCGATGCTTGTCTTGTTTAAGGTATGAACTTTGATTTGAAGAAAAATAGGG
382 GACTGTTACAAGAATCGATGCTTGTCTTATTTAAGGTATGAACTTTGATTTGAAGGAAAATAGGG
*
200556 CAAAGAAAAGATTCCCATGCAAAAGAAAAT
447 CAAAGAAAAGATTCTCATGCAAAAGAAAAT
* * * *
200586 CATCAATATCATCTATCCTAATGAGGATAATGTGTTTACTGTGCCTAATCACAAAATGGATGAAG
1 CATCAATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
*
200651 ATCATTACTAGAATCCATGTTTGTTTCATTTGAGGCATGAACATAGACTTTACAAAAATTGGTGG
66 ATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACATAGACTTTACAAAAATTGGTGG
* * **
200716 GAAAAATACCTTTCTTGCGAAACCAAAGCATCAATGTCGTGTATCCTAATGGGAAGACTATGTTT
131 GAAAATTA-CTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAAAAGACTATGTTT
* *
200781 ATGGTGCCTAATCTTGAAAAGGATGGGCATCAGTGTGAGTAT-TATTCATGTTTTTCATATTTAA
195 ATGGTGCCTAATCCTGAAAAGGATGGGCATCA--G-G-GTCTGTATTCATGTTTTTCATATTTAA
* * * *
200845 GAGGCAAACTTTGATTCTATCAAAAACAGTGAAAAGAAAAGCATTTCTCGCGACACCAAAGCTTC
256 GAGACAAACTTTGATTCTATCAAAAACGGTGAAAAGAAAAGCATTTCTCGTGACACCAAAGCATC
*
200910 AATGTCATGTATCCTACTGAAGGGAATGTGCTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACT
321 AATGTCATGTATCCTAATGAAGGGAATGTGCTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACT
* *
200975 GTTACAAGGATCGATGTTTGTCTTATTTAAGGTATGAACTTTGA-TTGTAAGGAAAATAGGGCAA
386 GTTACAAGAATCGATGCTTGTCTTATTTAAGGTATGAACTTTGATTTG-AAGGAAAATAGGGCAA
* * *
201039 AGAAAAAATTCCCATGCAAAAGAAGAT
450 AGAAAAGATTCTCATGCAAAAGAAAAT
201066 CATCAATATCATTTATCCTAA
1 CATCAATATCATTTATCCTAA
201087 CTAGAATCCA
Statistics
Matches: 2097, Mismatches: 248, Indels: 119
0.85 0.10 0.05
Matches are distributed among these distances:
471 2 0.00
472 2 0.00
473 187 0.09
474 102 0.05
475 279 0.13
476 303 0.14
477 325 0.15
478 470 0.22
479 183 0.09
480 159 0.08
481 3 0.00
482 81 0.04
483 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (476 bp):
CATCAATATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
ATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACATAGACTTTACAAAAATTGGTGG
GAAAATTACTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAAAAGACTATGTTTA
TGGTGCCTAATCCTGAAAAGGATGGGCATCAGGGTCTGTATTCATGTTTTTCATATTTAAGAGAC
AAACTTTGATTCTATCAAAAACGGTGAAAAGAAAAGCATTTCTCGTGACACCAAAGCATCAATGT
CATGTATCCTAATGAAGGGAATGTGCTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTGTTAC
AAGAATCGATGCTTGTCTTATTTAAGGTATGAACTTTGATTTGAAGGAAAATAGGGCAAAGAAAA
GATTCTCATGCAAAAGAAAAT
Found at i:199310 original size:791 final size:785
Alignment explanation
Indices: 197412--199333 Score: 1726
Period size: 791 Copynumber: 2.4 Consensus size: 785
197402 AAAAAAAAAT
* * *
197412 CATCAATATCATTTATCCTG-ATGAGGAGAATGTGTTTACAGTGCCTAATCCCAAAATGAATGAA
1 CATCAATATCATGTAT-CTGAATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAA
* * ** * * * * ** *
197476 GATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTTACTAAA-ATTGAT
65 GATCATTTCAAGAATCCATACTTGCCTCATTTGAAGCACGAACTTAGACTTTACGAAATAGCGAA
* * * * ** * * * * *
197540 GGAAAAATTGCCTTTCTTGCGAGAGCAAAGCATCAATATCATGTATCCTAATGAGAAGACTATGT
130 AGAAAAA-TG-C---CATGCAAAAAAAAAGCATCAATATCCTGTATCCTAATGAAAACAATACGT
* * * ** * ** ** *
197605 TTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATTAGTATTAATGTTTGTCATTTTTAAGA
190 TTAAGCTGCCTAATCATGAAAAG-AT--CAATTACTACGAG-ATCCATGTTTGTCATATTTAAGA
* * * * * * * * * *
197670 GACAAACTTTGACTCTATCAAATCGATGG-AAAGAAAAGCTTTTCTTG-TGACACCAAAGCAGCA
251 GATAAACTTAGATTCTATGAAA--AATGGTGAAGAAAAGCTCTTCTGGCGGA-ACCAAAGCATCA
* * * *
197733 ATGTGATGTATCCTAATGAAGGGAATGTGTTTTTGGCTTCCTAGTGTTGAAAAGATTGGAGTCTA
313 ATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTA
* * *
197798 TTGCAAGAATCGATGCTTGGCTTATTTATGGCATGAACTTTGACGTAAAGGAAAGTAGGGCAAAG
378 TTACAAGAATCGATGCTTGGCTTATTTAAGGCATGAACTTTGACGTAAAGGAAAATAGGGCAAAG
* * * * *
197863 AAAGGATTTGCACGCAAAATAAAATCATCAATATCATTTATCCCAATGAGGAGAATGTGTTTATA
443 AAAAGATTTGCACGCAAAAGAAAATCATAAATATCATTTATCCCAACGAGGAGAATGTGTTTACA
* *
197928 GTGCCTAATCACAAAATGAATGAAGATCGTTACTAGAATCCAAGTTTGTCTCATTTGAGGCATGA
508 GTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAAGCATGA
* * *
197993 ACTTAGACTTTACAAAAATTGGCGGGAAAAATGCCTTTCTTGCAAGCCCAAAGCATCAATATGAT
573 ACATAGACTTTACAAAAATTGGCGGGAAAAATACCTTTCTTGCAAGACCAAAGCATCAATATGAT
* * * * * * * * *
198058 GTGTCCTAATGAGAAGACGATGTTTACGGTGCCTAATCCTGAAAATAACTGGGATTAGTATGAGT
638 GTATCCTAATGAAAAGACGATATTTACGGTGCCCAATCCTAAAAAGAACTGGGATCAGGATCAGT
* *
198123 ATACATGTTTATCGTATTTAAGAGACAAACTTTGATTTCTATCAAAAACGGTGAAAAGAAAAACT
703 ATACATGTTTATCATATTTAAGAGACAAACTTTGATTTCTATCAAAAACGGTGAAAAGAAAAACA
*
198188 TTTCTTGCGACACCAAAG
768 TTTCTCGCGACACCAAAG
*
198206 CATCAATATCATTTATCTGAATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
1 CATCAATATCATGTATCTGAATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
** * * * ** * *
198271 ATCATTTCTGGAATCCATATTTGTCTCATTTGAGGCACGAACTTAGACTTTACGAAATTTCGTAG
66 ATCATTTCAAGAATCCATACTTGCCTCATTTGAAGCACGAACTTAGACTTTACGAAATAGCGAAA
* * ** * * * *
198336 GAAAAATGCCTTGCGAAACTAAAGCATCAATATCGTGTATCCTAATTAAAACACTACGTTTATGC
131 GAAAAATGCCATGCAAAAAAAAAGCATCAATATCCTGTATCCTAATGAAAACAATACGTTTAAGC
* * * *
198401 TGCCTAATCCTGAAAAGGTCGAGAATTAGTACGAGTATTCATGTTTGTCATATTTAAGAGATAAA
196 TGCCTAATCATGAAAAGATC---AATTACTACGAG-ATCCATGTTTGTCATATTTAAGAGATAAA
* * * * **
198466 CTTTGATTCTATGAAAAATGGTGAAAAGAAAAGCTTTTCTTGTGGCCCCAAAGCATCAATGTCAT
257 CTTAGATTCTATGAAAAATGGTG--AAGAAAAGCTCTTCTGGCGGAACCAAAGCATCAATGTCAT
* * *
198531 GTTTCCTAATGAAGGGAATGTGTTTTTGGCTTCGC-AGTCTTGAAAAGAATGGAGACTGTTACGA
320 GTATCCTAATGAAGGGAATGTGTTTTTGGCTTC-CTAGTCTTGAAAAGAATGGAGACTATTACAA
* * ** *
198595 GAATCGATGCTTGTCTTATTTAAGGTATGAACTTTGATTTGAAGGAAAATAGGGCAAAGAAAAGA
384 GAATCGATGCTTGGCTTATTTAAGGCATGAACTTTGACGTAAAGGAAAATAGGGCAAAGAAAAGA
** * *
198660 TTCT-CGTGCAAAAGAAAATCATAAATATCATTTATCCTAACGAGGAGAATGTGTTTACAGTGTC
449 TT-TGCACGCAAAAGAAAATCATAAATATCATTTATCCCAACGAGGAGAATGTGTTTACAGTGCC
* *
198724 TAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTTTCATTTGAAGCATGAACATA
513 TAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAAGCATGAACATA
* * * *
198789 GACTTTACAAAAATTGGTGGGAAAATTACTTTTCTTGCGAA-ACCATAGCATCAATATCG-TGTA
578 GACTTTACAAAAATTGGCGGGAAAAATACCTTTCTTGC-AAGACCAAAGCATCAATAT-GATGTA
* * * * * *
198852 TCTTAATGAAAAGACTATATTTATGGTGCCCAATCCTAAAAAGGA-TGGGCATCAGGGTCTGTAT
641 TCCTAATGAAAAGACGATATTTACGGTGCCCAATCCTAAAAAGAACTGGG-ATCAGGATCAGTAT
* * * *
198916 TCATGTTTTTCATATTTAAGAGACAAACTTTGA-TTCTATTAAAAACGGTGCGAAAA-AAAAGCA
705 ACATGTTTATCATATTTAAGAGACAAACTTTGATTTCTATCAAAAACGGT--GAAAAGAAAAACA
198979 TTTCTCGCGACACCAAAG
768 TTTCTCGCGACACCAAAG
* * ** * * **
198997 CATCAATGTCATGTATCCT-AATGAA-GCGAATGTGCTTT-TGGCTTCCTAGTCTTGAAAA-GAA
1 CATCAATATCATGTAT-CTGAAT-AAGGAGAATGTG-TTTACAG-TGCCTAATC-ACAAAATGAA
* * * * * * *
199058 TGGAGA-C-TGTTACAAGAATCGATGCTTGCCTTATTT-AAGCTATGAACTTTGA-TTTAAAGGA
61 TGAAGATCAT-TT-CAAGAATCCATACTTGCCTCATTTGAAGC-ACGAACTTAGACTTT--ACG-
* * * * *
199119 AAATAGGGCAAAGAAAGGATTTCCATGCAAAAAAAAATTCATCAATATCACT-TATCCTAATGAG
120 AAATAGCG-AAAGAAA--AATGCCATGCAAAAAAAAA-GCATCAATATC-CTGTATCCTAATGAA
* * **
199183 GAGAATGTGTTTACAG-TGCCTAATCAATGAATGAAGATC-ATTACTA-GA-ATCCATGTTTGTC
180 AACAATACGTTTA-AGCTGCCTAATC-ATGAA--AAGATCAATTACTACGAGATCCATGTTTGTC
* * * *
199244 -TCATTTAAG-GCATGAACTTAGACTT-TACT-AAAATTGGTG-GGAAAATGC-CTTCTGGCGTA
241 AT-ATTTAAGAG-ATAAACTTAGA-TTCTA-TGAAAAATGGTGAAGAAAA-GCTCTTCTGGCGGA
* *
199303 ACCAAAGCATCAATATTATGTATCCTAATGA
301 ACCAAAGCATCAATGTCATGTATCCTAATGA
199334 CAAGGCTATG
Statistics
Matches: 935, Mismatches: 152, Indels: 85
0.80 0.13 0.07
Matches are distributed among these distances:
788 4 0.00
789 1 0.00
790 134 0.14
791 480 0.51
792 61 0.07
793 12 0.01
794 157 0.17
795 17 0.02
796 2 0.00
797 19 0.02
798 37 0.04
799 6 0.01
801 5 0.01
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (785 bp):
CATCAATATCATGTATCTGAATAAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAG
ATCATTTCAAGAATCCATACTTGCCTCATTTGAAGCACGAACTTAGACTTTACGAAATAGCGAAA
GAAAAATGCCATGCAAAAAAAAAGCATCAATATCCTGTATCCTAATGAAAACAATACGTTTAAGC
TGCCTAATCATGAAAAGATCAATTACTACGAGATCCATGTTTGTCATATTTAAGAGATAAACTTA
GATTCTATGAAAAATGGTGAAGAAAAGCTCTTCTGGCGGAACCAAAGCATCAATGTCATGTATCC
TAATGAAGGGAATGTGTTTTTGGCTTCCTAGTCTTGAAAAGAATGGAGACTATTACAAGAATCGA
TGCTTGGCTTATTTAAGGCATGAACTTTGACGTAAAGGAAAATAGGGCAAAGAAAAGATTTGCAC
GCAAAAGAAAATCATAAATATCATTTATCCCAACGAGGAGAATGTGTTTACAGTGCCTAATCACA
AAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAAGCATGAACATAGACTTTAC
AAAAATTGGCGGGAAAAATACCTTTCTTGCAAGACCAAAGCATCAATATGATGTATCCTAATGAA
AAGACGATATTTACGGTGCCCAATCCTAAAAAGAACTGGGATCAGGATCAGTATACATGTTTATC
ATATTTAAGAGACAAACTTTGATTTCTATCAAAAACGGTGAAAAGAAAAACATTTCTCGCGACAC
CAAAG
Found at i:202207 original size:477 final size:475
Alignment explanation
Indices: 201105--202508 Score: 2033
Period size: 478 Copynumber: 2.9 Consensus size: 475
201095 CATGTTTGTA
* * * * *
201105 AGGCACGAACTTTGACTTTAAGAAATTGGTGGGAAAAATGTCTTTCTTGCAAAACTACAGCATCA
1 AGGCACGAACTTAGACTTTACGAAATTGGTGGGAAAAATGCCTTTCTTGCGAAACTAAAGCATCA
*
201170 ATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGGTTAG
66 ATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAG
* * * * *
201235 TATGAGTATACATGTTTGTCGTATTTAAGAGACAAACTTTGATTCTTTCAAAAACGATGGAAAGA
131 TATGAGTATTCATGTTTGTCATATTTAAGAGACAAACTTTGATTCTATCAAAAACGGTGAAAAGA
* * * * ** * *
201300 AAAGCATTTCTCGCGACACCAAAGTATCAATGTCAAGTATCCTAATGAAGGGATTGTGCTTTTGG
196 AAAGCTTTTCTTGTGACACCAAAGCATCAATGTCATTTATCCTAATGAAGGGAATGTGTTTTTGG
* * ** *
201365 CTTCCTAGTCTTGAAAAGAATGGAGACTATTACAAGAATCGATGCTTGCCTTATTTAAGGTATGA
261 CTTCCTAGTCTTGAAAAGAATGGAGACTATTACGAGAATCAATATTTGTCTTATTTAAGGTATGA
* * * * *
201430 ACTTTGATTTAAAGGAAAATAGGGCAAATAAAGGATT-TCCAAGCAAAAAAAAAAATCATCAATA
326 ACTTT-ATTTGAAGGAAAATAGGGCAAAGAAAAGATTCT-CATGC--AAAAGAAAATCATCAATA
201494 TCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAAT-AATGAAGATCATTAC
387 TCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCATTAC
201558 TAGAATCCATGTTTGTCTCATTTG
452 TAGAATCCATGTTTGTCTCATTTG
* * * *
201582 AGGCATGAACTTAGATTTTACTAAAATTGGTGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATC
1 AGGCACGAACTTAGACTTTAC-GAAATTGGTGGGAAAAATGCCTTTCTTGCGAAACTAAAGCATC
*
201647 AATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAACGGGGATTA
65 AATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTA
* * * * *
201712 GTATGAGTATTAATGTTTGTTATTTTTAAGAAACAAACTTTGATTCTATCAAAAATGGTGAAAAG
130 GTATGAGTATTCATGTTTGTCATATTTAAGAGACAAACTTTGATTCTATCAAAAACGGTGAAAAG
* *
201777 AATAGCTTTTCTTGTGACACCAAAGCATCAATGTCATTTATCCTAATAAAGGGAATGTGTTTTTG
195 AAAAGCTTTTCTTGTGACACCAAAGCATCAATGTCATTTATCCTAATGAAGGGAATGTGTTTTTG
* *
201842 GCTTCCCAGTCTTGAAAATAAATGGAGACTATTACGAGAATCAATATTTGTCTTATTTAAGGTAT
260 GCTTCCTAGTCTTGAAAA-GAATGGAGACTATTACGAGAATCAATATTTGTCTTATTTAAGGTAT
*
201907 GAACTTTAATTTGAAGGAAAATAGGGAAAAGAAAAGATTCTCATGCAAAAGAAAATCATCAATAT
324 GAACTTT-ATTTGAAGGAAAATAGGGCAAAGAAAAGATTCTCATGCAAAAGAAAATCATCAATAT
* *
201972 CATTTATCCTAATGAGGAGAATGTGTTTACAATGCCCAATCACAAAATGAATGAAGATCATTACT
388 CATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCATTACT
*
202037 AGAATCTATGTTTGTCTCATTTG
453 AGAATCCATGTTTGTCTCATTTG
* * *
202060 AGGCACAAACTTAAACTTTACGAAATTTGGTGGG-AAAATGCCTTTCTTGTGAAACTAAAGCATC
1 AGGCACGAACTTAGACTTTACGAAA-TTGGTGGGAAAAATGCCTTTCTTGCGAAACTAAAGCATC
* * * * * * *
202124 AATATTATCTATCCTAATTAAAAGACTATGTTTATGGTGCCTAATCCTGCAAAGGATGAGGATTA
65 AATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTA
* *
202189 GTATGAGTATTCATGTTTGTCATATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGCAAAG
130 GTATGAGTATTCATGTTTGTCATATTTAAGAGACAAACTTTGATTCTATCAAAAACGGTGAAAAG
* *
202254 AAAAGCTTTTCTTGTGACCCCAAAGCATTAATGTCATATT-TCCTAATGAAGGGAATGTGTTTTT
195 AAAAGCTTTTCTTGTGACACCAAAGCATCAATGTCAT-TTATCCTAATGAAGGGAATGTGTTTTT
* * * * *
202318 GGGTTCCTAGTCTTGAAAAGAATGGATACTATTATGAGAATCAAAGATGCTTGTCTTATGTAAGG
259 GGCTTCCTAGTCTTGAAAAGAATGGAGACTATTACGAGAATC-AATAT--TTGTCTTATTTAAGG
* *
202383 TATGAACTTTGTTTGAAGGAAAATAGGGCAAAGAAAAGATTCCCATGCAAAAGAAAATCATCAAT
321 TATGAACTTTATTTGAAGGAAAATAGGGCAAAGAAAAGATTCTCATGCAAAAGAAAATCATCAAT
** *
202448 ATCATTTATCCTAATGAGGAGAATGTGTTTATTGTGCTTAATCACAAAATGAATGAAGATC
386 ATCATTTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATC
202509 GTTTTTATTA
Statistics
Matches: 829, Mismatches: 89, Indels: 17
0.89 0.10 0.02
Matches are distributed among these distances:
476 20 0.02
477 305 0.37
478 401 0.48
479 102 0.12
480 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (475 bp):
AGGCACGAACTTAGACTTTACGAAATTGGTGGGAAAAATGCCTTTCTTGCGAAACTAAAGCATCA
ATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAG
TATGAGTATTCATGTTTGTCATATTTAAGAGACAAACTTTGATTCTATCAAAAACGGTGAAAAGA
AAAGCTTTTCTTGTGACACCAAAGCATCAATGTCATTTATCCTAATGAAGGGAATGTGTTTTTGG
CTTCCTAGTCTTGAAAAGAATGGAGACTATTACGAGAATCAATATTTGTCTTATTTAAGGTATGA
ACTTTATTTGAAGGAAAATAGGGCAAAGAAAAGATTCTCATGCAAAAGAAAATCATCAATATCAT
TTATCCTAATGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGA
ATCCATGTTTGTCTCATTTG
Found at i:205133 original size:12 final size:12
Alignment explanation
Indices: 205118--205145 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
205108 TTTCTTCAAG
205118 AATTATACCCTA
1 AATTATACCCTA
205130 AATTATACCCTA
1 AATTATACCCTA
205142 AATT
1 AATT
205146 CTTAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (12 bp):
AATTATACCCTA
Found at i:209685 original size:16 final size:18
Alignment explanation
Indices: 209664--209703 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
209654 GAAAACATGA
209664 TTTCAAAA-TA-GAGGTT
1 TTTCAAAATTAGGAGGTT
209680 TTTCAAAATTAGGAGGTT
1 TTTCAAAATTAGGAGGTT
*
209698 GTTCAA
1 TTTCAA
209704 CATAAACCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 2 0.10
18 11 0.52
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (18 bp):
TTTCAAAATTAGGAGGTT
Found at i:215038 original size:20 final size:20
Alignment explanation
Indices: 215013--215065 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
215003 ATTAGGCATA
** *
215013 ATGTATCGATACTTTTTACC
1 ATGTATCGATACAATGTACC
* *
215033 ATGTATCGACACAATGTCCC
1 ATGTATCGATACAATGTACC
215053 ATGTATCGATACA
1 ATGTATCGATACA
215066 TTTCACTTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:215120 original size:20 final size:20
Alignment explanation
Indices: 215095--215184 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
215085 TGCCAGTTTC
215095 ATGTATCGATACAAATGAGT
1 ATGTATCGATACAAATGAGT
* * *
215115 ATGTATCGATA-TAATAAGC
1 ATGTATCGATACAAATGAGT
*
215134 ATGTATTGATAC-AAT--GT
1 ATGTATCGATACAAATGAGT
215151 ATTGTATCGATACAAA-GCA-T
1 A-TGTATCGATACAAATG-AGT
215171 AATGTATCGATACA
1 -ATGTATCGATACA
215185 TCTGGATGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
17 2 0.04
18 10 0.18
19 20 0.35
20 24 0.42
21 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAAATGAGT
Found at i:215139 original size:19 final size:20
Alignment explanation
Indices: 215094--215147 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
215084 CTGCCAGTTT
*
215094 CATGTATCGATACAAATGAG
1 CATGTATCGATACAAATAAG
* *
215114 TATGTATCGATA-TAATAAG
1 CATGTATCGATACAAATAAG
*
215133 CATGTATTGATACAA
1 CATGTATCGATACAA
215148 TGTATTGTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAAATAAG
Found at i:218797 original size:12 final size:12
Alignment explanation
Indices: 218767--218843 Score: 59
Period size: 12 Copynumber: 5.9 Consensus size: 12
218757 AAGAGAAAGA
*
218767 AGAGATAAGAGG
1 AGAGATAGGAGG
218779 -GATGATAGGAGG
1 AGA-GATAGGAGG
218791 AGAGATATGAGAGATAG
1 AGAGATA-G-GAG---G
218808 TAGAGATAGGAGG
1 -AGAGATAGGAGG
218821 -GATGATAGGAGG
1 AGA-GATAGGAGG
218833 AGAGATAGGAG
1 AGAGATAGGAG
218844 AGATAATAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
11 4 0.07
12 29 0.54
13 6 0.11
14 3 0.06
16 3 0.06
17 2 0.04
18 7 0.13
ACGTcount: A:0.42, C:0.00, G:0.44, T:0.14
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:218821 original size:42 final size:42
Alignment explanation
Indices: 218758--218876 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
218748 TAGCCCTCAA
* * * *
218758 AGAGAAAGAAGAGATAAGAGGGATGATAGGAGGAGAGATATG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
218800 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
* * * *
218842 AGAGATAATAGAGAGAGGAGGGATAACAGGAGGAG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAG
218877 GAGAGAAGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.45, C:0.01, G:0.43, T:0.12
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
Found at i:218837 original size:24 final size:24
Alignment explanation
Indices: 218767--218852 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
218757 AAGAGAAAGA
*
218767 AGAGATAAGAGGGATGATAGGAGG
1 AGAGATAGGAGGGATGATAGGAGG
* *
218791 AGAGATATGA--GA-GAT---AGT
1 AGAGATAGGAGGGATGATAGGAGG
218809 AGAGATAGGAGGGATGATAGGAGG
1 AGAGATAGGAGGGATGATAGGAGG
* *
218833 AGAGATAGGAGAGATAATAG
1 AGAGATAGGAGGGATGATAG
218853 AGAGAGGAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 29 0.58
ACGTcount: A:0.43, C:0.00, G:0.42, T:0.15
Consensus pattern (24 bp):
AGAGATAGGAGGGATGATAGGAGG
Found at i:218844 original size:9 final size:9
Alignment explanation
Indices: 218788--218848 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
218778 GGATGATAGG
218788 AGGAGAGAT
1 AGGAGAGAT
*
218797 ATGAGAGAT
1 AGGAGAGAT
*
218806 AGTAGAGAT
1 AGGAGAGAT
*
218815 AGGAGGGAT
1 AGGAGAGAT
* *
218824 --GATAG-G
1 AGGAGAGAT
218830 AGGAGAGAT
1 AGGAGAGAT
218839 AGGAGAGAT
1 AGGAGAGAT
218848 A
1 A
218849 ATAGAGAGAG
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 32 0.82
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.15
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:218852 original size:12 final size:12
Alignment explanation
Indices: 218812--218857 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
218802 AGATAGTAGA
*
218812 GATAGGAGGGAT
1 GATAGGAGAGAT
218824 GATAGGAGGAGA-
1 GATAGGA-GAGAT
218836 GATAGGAGAGAT
1 GATAGGAGAGAT
*
218848 AATA-GAGAGA
1 GATAGGAGAGA
218858 GGAGGGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 10 0.33
12 17 0.57
13 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.13
Consensus pattern (12 bp):
GATAGGAGAGAT
Found at i:218860 original size:18 final size:18
Alignment explanation
Indices: 218833--218882 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
218823 TGATAGGAGG
* *
218833 AGAGATAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAC
*
218851 AGAGAGAGGAGGGATAAC
1 AGAGAGAGGAGAGATAAC
218869 AG-GAGGAGGAGAGA
1 AGAGA-GAGGAGAGA
218883 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.46, C:0.02, G:0.44, T:0.08
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAC
Done.