Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012212.1 Kokia drynarioides strain JFW-HI SEQ_127213, 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: 6077
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Found at i:388 original size:216 final size:213
Alignment explanation
Indices: 1--2509 Score: 2448
Period size: 216 Copynumber: 11.7 Consensus size: 213
* *
1 ATGAATACTTTAAGGAA-AGAAAGTTATAGAAGAACTCGTAAAAGTAT-GTCAAGCTT-GGAAGT
1 ATGAATACTTTAAGGAACTG-AAGTT-TAAAAGAACTCGTAAAAGT-TCGTCAAG-TTCGGAAGT
* * * * * *
63 TCGTCTAAGAACCAAGAGAGAATC-ACTCTCACATAAATAGGTTTTTATTTCAAAGACCAACAGT
62 TCGTCCAAGAA-CAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGT
* * * *
127 TGTTTAGAAAATGACAAATTATTTAGACATAATGATGCGATTTCCCGTGCTTGGAATGTTCGAAA
126 TGTTTACAAAATGACAAACTATTTAGACA-AATGATGCGATTTCCCGAGCATGGAATGTTCGAAA
* *
192 AATTGCTTGAAGGAATGGATCGTC
190 AATTGCTCGAAGGAATGGATTGTC
* * *
216 ATGAATACTTTAAGGAACTGAAGTCTTAAAATG-ACTTGTAAAACTTCGTCAAGTTCGGTAGTTC
1 ATGAATACTTTAAGGAACTGAAGT-TTAAAA-GAACTCGTAAAAGTTCGTCAAGTTCGGAAGTTC
* * * *
280 GTCCAAGAACAGAGAGAGAAACAACTCTCACGTAAATAACTTTTAAATTTATAGACCAAAAGTTG
64 GTCCAAGAACA-AGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTG
* * * *
345 TTTACAAAGTGACAAACTATTTAGACTAAATTATGCTATTT-CC---CATGGAATGTTTGAAAAA
128 TTTACAAAATGACAAACTATTTAGAC-AAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAA
* *
406 TTACTTGAAGGAATGGATTGTC
192 TTGCTCGAAGGAATGGATTGTC
* ** * * * * * *
428 ATGAATACTTTAATGAACCAAAGTTATAGAACAACTGGTAAAAGTTTGTGAAGTTCGGAAGTTTG
1 ATGAATACTTTAAGGAACTGAAGTT-TAAAAGAACTCGTAAAAGTTCGTCAAGTTCGGAAGTTCG
* * * * * *
493 TCCATG---AAGATA-ATA-AATTCTCACGTAAATAAGTTTTTAATTCAATGACCAAAAGTTGTA
65 TCCAAGAACAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTT
* * * * *
553 TACCAAATGACAAACTATGTAGACAAAATGATGTGATTTCCCAAGCATGGAATGTTCAAAAAATT
130 TACAAAATGACAAACTATTTAGAC-AAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATT
*
618 GCTCGAAGGAATGGATCGTC
194 GCTCGAAGGAATGGATTGTC
* * * * * **
638 CTGAATACTTTAAAGAA-TAGAAGTTATAGAAGAACTCGTCAAAGTTTGTCAAGTTTAGAAGTTC
1 ATGAATACTTTAAGGAACT-GAAGTT-TAAAAGAACTCGTAAAAGTTCGTCAAGTTCGGAAGTTC
* *** * * *
702 ATCCAATTTCCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTG
64 GTCCAA-GAACAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTG
* * * * *
767 TTTACCAAATGACAAA-TAGTATAGAAAAAATGATGCGATTTCCCAAGCATGAAATGTTCGAAAA
128 TTTACAAAATGACAAACTA-TTTAG-ACAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAA
* *
831 ATTGCTCAAAGGAATGGATCGTC
191 ATTGCTCGAAGGAATGGATTGTC
* * * * * * *
854 ATGAATAGTTTAAGGAACTGAAGTTTTAAAAGAACTTGTGAAACTTCATCAAGTTCGAAAGTTTG
1 ATGAATACTTTAAGGAACTGAAG-TTTAAAAGAACTCGTAAAAGTTCGTCAAGTTCGGAAGTTCG
* * * *
919 TCCAAGAACAAAGAGAGAAACAATTCTCATGTAAATAAGATTTTAATTTAAAGACCAAAAGTTGT
65 TCCAAGAAC-AAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
* * *
984 TTACAAAATGGCAAACTATTTAGACCAAATGATGCGATTTCCCGAGTATGGAATGTTCAAAAAAT
129 TTACAAAATGACAAACTATTTAGA-CAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
*
1049 TGCTCTAAGGAATGGATTGTC
193 TGCTCGAAGGAATGGATTGTC
* * * * * * *
1070 TTGAATACATTAA-GAAATCGAAGTTATAGAGGAACTCGTAAAAGTAT-GTCAAGTTTGGAACTT
1 ATGAATACTTTAAGGAACT-GAAGTT-TAAAAGAACTCGTAAAAGT-TCGTCAAGTTCGGAAGTT
* * *
1133 CGTCTAAGAACCAAGAGAGAAACAACTCTCACATAAAT-AGGTTTTAATTCAAAGACCAAAAGTT
63 CGTCCAAGAA-CAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* * * *
1197 GTTTAGAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGTGCTTGGATTGTTCGAAAA
127 GTTTACAAAATGACAAACTATTTAGAC-AAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAA
* **
1262 ATTGCTCGAAGGAATGAATCATC
191 ATTGCTCGAAGGAATGGATTGTC
* * *
1285 ATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAACTTCGTCAAGTTCGAAAGTTCA
1 ATGAATACTTTAAGGAACTGAAG-TTTAAAAGAACTCGTAAAAGTTCGTCAAGTTCGGAAGTTCG
* * * *
1350 TCCAAGAACAAAGAGAGAAACAACTCTCACGTAAATAAGATTTTAATTTATAGACCCAAAGTTGT
65 TCCAAGAAC-AAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
* * * *
1415 TTAGAAAATGACAAACTATTTAGATCAAACGATGCGTTTTCCTGAGCATGGAATGTTCGAAAAAT
129 TTACAAAATGACAAACTATTTAGA-CAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
* *
1480 TGTTTGAAGGAATGGATTGTC
193 TGCTCGAAGGAATGGATTGTC
* * * * * ** *
1501 ATAAATACTTTAAGGAAC-GAATGTTATAGATGAACTGGTAAAAGTT-TTCCAAGTTCAAAAGCT
1 ATGAATACTTTAAGGAACTGAA-GTT-TAAAAGAACTCGTAAAAGTTCGT-CAAGTTCGGAAGTT
* *
1564 CGTCCAAGAACCAAGAGAGAAACAACTCTTACGTAAATAAGTTTTTCATTCAAAGACCAAAAGTT
63 CGTCCAAGAA-CAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* * * *
1629 ATTTTA-AAAATGACAAAGTATTTAGACCAAATGATGCGATTTCCCGAGCACGAAATGTTC-AGA
127 -GTTTACAAAATGACAAACTATTTAGA-CAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-A
** *
1692 AAATTGCTTTAAGGAAAGGATTGTC
189 AAATTGCTCGAAGGAATGGATTGTC
* * * * *
1717 TTGACTACTTTAA-GAAATCGAAGTTCTAGAAGAACTCGTAAAAGTAT-GTCAAGTTTGGAAGTT
1 ATGAATACTTTAAGGAACT-GAAGTT-TAAAAGAACTCGTAAAAGT-TCGTCAAGTTCGGAAGTT
* * * * * * *
1780 CGTCTAAGAACCACGACAGAAACAACTCTCACATTAATAGGTTTTTAATTCAAAGACCAACAGTT
63 CGTCCAAGAA-CAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* * * * * *
1845 GTTTAGAAAATGACAAACTATTTAAACATAATGATGCGATTT-CCTATGCTTGAAATGTTCGGAA
127 GTTTACAAAATGACAAACTATTTAGACA-AATGATGCGATTTCCCGA-GCATGGAATGTTCGAAA
* * *
1909 AATTTCTCGAAAGAATGGATCGTC
190 AATTGCTCGAAGGAATGGATTGTC
* * * * *
1933 ATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAACTTCATCAAGTTCAGAAGCTCA
1 ATGAATACTTTAAGGAACTGAAG-TTTAAAAGAACTCGTAAAAGTTCGTCAAGTTCGGAAGTTCG
* ** * * *
1998 TCCAAGAACAAAGAGAGGAACAACTCTCACACAAATAACTTTTTAATTTATAGACCAAAAGTTGT
65 TCCAAGAAC-AAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
* * * *
2063 TTACAAAATGACAAACTATTTAGACTAAATTATGCGATTTCCTGAGAATAGAATGTTCGAAAAAT
129 TTACAAAATGACAAACTATTTAGAC-AAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
* * * *
2128 TACTCAAAGTAATTGATTGTC
193 TGCTCGAAGGAATGGATTGTC
* ** * * * * *
2149 ATGAATACTTTAATGAACCAAAGTTATAGAAA-AACTGGTAAAAGTTTGTGAAGTTCGAAAGTTT
1 ATGAATACTTTAAGGAACTGAAGTT-TA-AAAGAACTCGTAAAAGTTCGTCAAGTTCGGAAGTTC
* * * * * * *
2213 ATCCATGATCCAAGAGATAATA-AATTCTCATGTAAATAAGTTTTTAATTCAATGACCAAAAGTT
64 GTCCAAGA-ACAAGAGAGAA-ACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* * * *
2277 GTATACAAAATGACAAACTATGTAGACAAACTGATGTGATTTCCCAAGCATGGAATGTTC-AGAA
127 GTTTACAAAATGACAAACTATTTAGACAAA-TGATGCGATTTCCCGAGCATGGAATGTTCGA-AA
*
2341 AATTGCTCGAGGGAATGGATTGTC
190 AATTGCTCGAAGGAATGGATTGTC
* * * * * * * * * ** *
2365 CTAAATACTTCAAAGAACCGAAGTTATAGAAGAACTCATCAAAGTTTGTCAAGTTTAGAAGTTCA
1 ATGAATACTTTAAGGAACTGAAGTT-TAAAAGAACTCGTAAAAGTTCGTCAAGTTCGGAAGTTCG
*** * * * *
2430 TCCAATTTCCAAGCGAGAAACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGT
65 TCCAA-GAACAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
*
2495 TTACCAAATGACAAA
129 TTACAAAATGACAAA
2510 TTGGGAAGTT
Statistics
Matches: 1899, Mismatches: 328, Indels: 133
0.80 0.14 0.06
Matches are distributed among these distances:
206 70 0.04
207 4 0.00
208 4 0.00
209 1 0.00
210 91 0.05
211 1 0.00
212 92 0.05
214 13 0.01
215 285 0.15
216 1304 0.69
217 34 0.02
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (213 bp):
ATGAATACTTTAAGGAACTGAAGTTTAAAAGAACTCGTAAAAGTTCGTCAAGTTCGGAAGTTCGT
CCAAGAACAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTT
ACAAAATGACAAACTATTTAGACAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGC
TCGAAGGAATGGATTGTC
Found at i:1061 original size:432 final size:431
Alignment explanation
Indices: 1--4762 Score: 3448
Period size: 432 Copynumber: 10.8 Consensus size: 431
* * *
1 ATGAATACTTTAAGGAA-AGAAAGTTATAGAAGAACTCGTAAAAGTAT-GTCAAGCTT-GGAAGT
1 ATGAATACTTTAAGGAACTG-AAGTTATAAAAGAACTCGTAAAAGT-TCGTCAAG-TTCGAAAGT
* * * * * *
63 TCGTCTAAGAACCAAGAGAGAATC-ACTCTCACATAAATAGGTTTTTATTTCAAAGACCAACAGT
63 TCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGT
* * * * *
127 TGTTTAGAAAATGACAAATTATTTAGACATAATGATGCGATTTCCCGTGCTTGGAATGTTCGAAA
128 TGTTTACAAAATGACAAACTATTTAGACA-AATGATGCGATTTCCCGAGCATGGAATGTTCAAAA
* * * *
192 AATTGCTTGAAGGAATGGATCGTCATGAATACTTTAAGGAA-CTGAAGTCT-TAAAATG-ACTTG
192 AATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAAGAATC-GAAGT-TATAGAA-GAACTCG
* * * * *
254 TAAAACTTCGTCAAGTTCGGTAGTTCGTCCAAGAA-CAGAGAGAGAAACAACTCTCACGTAAATA
254 TAAAAGTTTGTCAAGTTCAGAAGTTCATCCAAGAACCA-AGAGAGAAACAACTCTCACGTAAATA
* * * * * * * *
318 ACTTTTAAATTTATAGACCAAAAGTTGTTTACAAAGTGACAAACTATTTAGACTAAATTATGCTA
318 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGA
* * * **
383 TTT-CC---CATGGAATGTTTGAAAAATTACTTGAAGGAATGGATTGTC
383 TTTCCCGAGCATGAAATGTTCGAAAAATTGCTCAAAGGAATGGATTGTC
* ** * * * * * * *
428 ATGAATACTTTAATGAACCAAAGTTATAGAACAACTGGTAAAAGTTTGTGAAGTTCGGAAGTTTG
1 ATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTCGTCAAGTTCGAAAGTTCG
* * * * *
493 TCCATG----AAGATA-ATA-AATTCTCACGTAAATAAGTTTTTAATTCAATGACCAAAAGTTGT
66 TCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
* * * * *
552 ATACCAAATGACAAACTATGTAGACAAAATGATGTGATTTCCCAAGCATGGAATGTTCAAAAAAT
131 TTACAAAATGACAAACTATTTAGAC-AAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAAT
* * *
617 TGCTCGAAGGAATGGATCGTCCTGAATACTTTAAAGAATAGAAGTTATAGAAGAACTCGTCAAAG
195 TGCTCGAAGGAATGGATCGTCATGAATACTTTAAAGAATCGAAGTTATAGAAGAACTCGTAAAAG
* *** * *
682 TTTGTCAAGTTTAGAAGTTCATCCAATTTCCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTT
260 TTTGTCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTT
* * * *
747 CATTCAAAGACCAAAAGTTGTTTACCAAATGACAAA-TAGTATAGAAAAAATGATGCGATTTCCC
325 AATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TTTAGACAAAATGATGCGATTTCCC
* *
811 AAGCATGAAATGTTCGAAAAATTGCTCAAAGGAATGGATCGTC
389 GAGCATGAAATGTTCGAAAAATTGCTCAAAGGAATGGATTGTC
* * * * * * *
854 ATGAATAGTTTAAGGAACTGAAGTTTTAAAAGAACTTGTGAAACTTCATCAAGTTCGAAAGTTTG
1 ATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTCGTCAAGTTCGAAAGTTCG
* * * * *
919 TCCAAGAACAAAGAGAGAAACAATTCTCATGTAAATAAGATTTTAATTTAAAGACCAAAAGTTGT
66 TCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
* *
984 TTACAAAATGGCAAACTATTTAGACCAAATGATGCGATTTCCCGAGTATGGAATGTTCAAAAAAT
131 TTACAAAATGACAAACTATTTAGA-CAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAAT
* * * * *
1049 TGCTCTAAGGAATGGATTGTCTTGAATACATT-AAGAAATCGAAGTTATAGAGGAACTCGTAAAA
195 TGCTCGAAGGAATGGATCGTCATGAATACTTTAAAG-AATCGAAGTTATAGAAGAACTCGTAAAA
* ** * * * * *
1113 GTATGTCAAGTTTGGAACTTCGTCTAAGAACCAAGAGAGAAACAACTCTCACATAAAT-AGGTTT
259 GTTTGTCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTT
*
1177 TAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCC
324 TAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCC
* * * * * * **
1242 GTGCTTGGATTGTTCGAAAAATTGCTCGAAGGAATGAATCATC
389 GAGCATGAAATGTTCGAAAAATTGCTCAAAGGAATGGATTGTC
* * *
1285 ATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAACTTCGTCAAGTTCGAAAGTTCA
1 ATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTCGTCAAGTTCGAAAGTTCG
* * * * *
1350 TCCAAGAACAAAGAGAGAAACAACTCTCACGTAAATAAGATTTTAATTTATAGACCCAAAGTTGT
66 TCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
* * * * *
1415 TTAGAAAATGACAAACTATTTAGATCAAACGATGCGTTTTCCTGAGCATGGAATGTTCGAAAAAT
131 TTACAAAATGACAAACTATTTAGA-CAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAAT
* * * * * * *
1480 TGTTTGAAGGAATGGATTGTCATAAATACTTTAAGGAA-CGAATGTTATAGATGAACTGGTAAAA
195 TGCTCGAAGGAATGGATCGTCATGAATACTTTAAAGAATCGAA-GTTATAGAAGAACTCGTAAAA
* * * *
1544 GTTT-TCCAAGTTCAAAAGCTCGTCCAAGAACCAAGAGAGAAACAACTCTTACGTAAATAAGTTT
259 GTTTGT-CAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTT
* * * *
1608 TTCATTCAAAGACCAAAAGTTATTTTA-AAAATGACAAAGTATTTAGACCAAATGATGCGATTTC
323 TTAATTCAAAGACCAAAAGTT-GTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTC
* ** *
1672 CCGAGCACGAAATGTTC-AGAAAATTGCTTTAAGGAAAGGATTGTC
387 CCGAGCATGAAATGTTCGA-AAAATTGCTCAAAGGAATGGATTGTC
* * * * * * *
1717 TTGACTACTTTAA-GAAATCGAAGTTCTAGAAGAACTCGTAAAAGTAT-GTCAAGTTTGGAAGTT
1 ATGAATACTTTAAGGAACT-GAAGTTATAAAAGAACTCGTAAAAGT-TCGTCAAGTTCGAAAGTT
* * * * * * *
1780 CGTCTAAGAACCACGACAGAAACAACTCTCACATTAATAGGTTTTTAATTCAAAGACCAACAGTT
64 CGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* * * * * **
1845 GTTTAGAAAATGACAAACTATTTAAACATAATGATGCGATTT-CCTATGCTTGAAATGTTCGGAA
129 GTTTACAAAATGACAAACTATTTAGACA-AATGATGCGATTTCCCGA-GCATGGAATGTTCAAAA
* * * * *
1909 AATTTCTCGAAAGAATGGATCGTCATGAATACTTTAAGGAA-CTGAAGTTTTAAAAGAACTCGTA
192 AATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAAGAATC-GAAGTTATAGAAGAACTCGTA
* ** * * * ** *
1973 AAACTTCATCAAGTTCAGAAGCTCATCCAAGAACAAAGAGAGGAACAACTCTCACACAAATAACT
256 AAAGTTTGTCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGT
* * * *
2038 TTTTAATTTATAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACTAAATTATGCGATTT
321 TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTT
* * * * *
2103 CCTGAGAAT-AGAATGTTCGAAAAATTACTCAAAGTAATTGATTGTC
386 CCCGAGCATGA-AATGTTCGAAAAATTGCTCAAAGGAATGGATTGTC
* ** * * * *
2149 ATGAATACTTTAATGAACCAAAGTTATAGAAA-AACTGGTAAAAGTTTGTGAAGTTCGAAAGTTT
1 ATGAATACTTTAAGGAACTGAAGTTATA-AAAGAACTCGTAAAAGTTCGTCAAGTTCGAAAGTTC
* * * * * * *
2213 ATCCATGATCCAAGAGATAATA-AATTCTCATGTAAATAAGTTTTTAATTCAATGACCAAAAGTT
65 GTCCAAGAACCAAGAGAGAA-ACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* * * * *
2277 GTATACAAAATGACAAACTATGTAGACAAACTGATGTGATTTCCCAAGCATGGAATGTTCAGAAA
129 GTTTACAAAATGACAAACTATTTAGACAAA-TGATGCGATTTCCCGAGCATGGAATGTTCAAAAA
* * * * * * * *
2342 ATTGCTCGAGGGAATGGATTGTCCTAAATACTTCAAAGAACCGAAGTTATAGAAGAACTCATCAA
193 ATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAAGAATCGAAGTTATAGAAGAACTCGTAAA
* *** * * *
2407 AGTTTGTCAAGTTTAGAAGTTCATCCAATTTCCAAGCGAGAAACAATTCTCATGTAAATAAGTTT
258 AGTTTGTCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTT
* * *
2472 TTCATTCAAAGACCAAAAGTTGTTTACCAAATGACAAATTGGGAAGTTCGTCCAAGAACCAAGAA
323 TTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACT----A-TT--T---AG-A-CAA-AA
** ** * * * * * * * * *
2537 AAAAAC-ATCTCTCACGTA-AAT-AAGTTTTTC-ATTCAAA--GAC-CAAA--AGTAGTTTAGAA
375 TGATGCGAT-T-TCCCG-AGCATGAA-ATGTTCGA--AAAATTG-CTCAAAGGAATGGATT-G-T
*
2593 A
431 C
** * * ** * * *
2594 ATGACAAAGTA-TTTAGACCAAATGATGAGATTTCCTGAGCATGGAATATTC-AAAAAATT-GCT
1 ATG---AA-TACTTTA-AGGAACTGA--AG--TT-AT-A--AAAG-A-ACTCGTAAAAGTTCG-T
** * ** * *** * * *
2656 CGAAGGACTG-GA-TT-GT-CTTGAATACTTTA-AGAAACCGAAGTTATTGAAGAACTTGTAAAA
50 C-AAGTTC-GAAAGTTCGTCCAAGAA-CCAAGAGAGAAA-C-AA-CT-CT----CAC--GT-AAA
** * **** * *
2716 GTTTGTCATGTTTGGAAGTTCATCTAAGAACCAAGAG--AAAAACAACTCTCATGTA-AATAGGT
101 -TAAGT--T-TTT--AA-TTCA---AAG-ACCAAAAGTTGTTTACAA----AATG-ACAA-A-CT
* * * *** ** * *
2778 TTTTA-ATTCAAA-GA-CCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACAAAATGATGTGA
148 ATTTAGA--CAAATGATGC--GA-TT-TCCCGAGCATG--GAA-T-GTT---CAAAA--A----A
** *
2840 TTTCGCATGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTTAAGG
194 -TT-GC-T-C---GAA-G---G---AA----T----GGATC-----GTCATGAATAC-TTTAAAG
* * * * *** * * *
2905 AA-CTGAAGTTTTA-AAGAACTTGCAAAACTACATCAAGTTCGGAAGTTCGTCCAAGAACAAAGA
231 AATC-GAAGTTATAGAAGAACTCGTAAAAGTTTGTCAAGTTCAGAAGTTCATCCAAGAACCAAGA
* * * * *
2968 GAGAAACAATTCTGACGTAAATAAGATTTTAATTTAAAGACCAAAATTTGTTTACAAAATGGA-A
295 GAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAAT-GACA
* * * **
3032 AACTATTTAGATC-AAATGATGCGATTTCCCAAGCATGGAATGTTC-AGAATATTGCTTGAAGGA
359 AACTATTTAGA-CAAAATGATGCGATTTCCCGAGCATGAAATGTTCGA-AAAATTGCTCAAAGGA
3095 ATGGATTGTC
422 ATGGATTGTC
* * * * * *
3105 ATGAATACTTTAAGGAACTAAAGTTATAGATGAACTGGTAAAAGTT-TTCCGAGTTC-AGAAGTT
1 ATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTCGT-CAAGTTCGA-AAGTT
* *
3168 CGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTCATTGAAAGACCAAAAGTT
64 CGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* * * * *
3233 GCTTAGAAAATGACAAAGTATGTAGACCAAATGATGCGATTTCCCGAGTATGGAATGTTCAAAAA
129 GTTTACAAAATGACAAACTATTTAGA-CAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAA
* * * * *
3298 ATTGCTCTAAGGAATGGATTGTCTTGAATACTCT-AAGAAATCGAAGTTATAGAAGAACTCATAA
193 ATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAAG-AATCGAAGTTATAGAAGAACTCGTAA
* ** * * * * *
3362 AA-TGATGTCAAGTTTGGAAGTTCGTCTAAGAACCAAGAGAGAAACAATTCTCACATAAAT-AGG
257 AAGT-TTGTCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGT
* * *
3425 TTTTAATTCAAAGACCAAATGTTGTTTAGAAAATGACAAACTATTTAGACATAATGATGCGATTT
321 TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTT
* * * * * * * * **
3490 GCCGTG-ATTGGATTGTTCGAAAAACTGCTCGATGGAATGTATCATC
386 CCCGAGCA-TGAAATGTTCGAAAAATTGCTCAAAGGAATGGATTGTC
* * * *
3536 ATGAACACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAACTTCGTCAAGTTCGGAAGTTCG
1 ATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTCGTCAAGTTCGAAAGTTCG
* * * * * *
3601 TCCAAG-ACCAAAGAGAGAAACAATTCTCTCGTAAAAAAATATTTTAATTTAAATACCAAAAGTT
66 TCCAAGAACC-AAGAGAGAAACAACTCTCACGTAAATAAGT-TTTTAATTCAAAGACCAAAAGTT
* * * * * *
3665 GTTTACAAAATGAAAAACAATTTAGACCAAATGATGCAATTTCTCGAGCATGGAATGTTCGAAAT
129 GTTTACAAAATGACAAACTATTTAGA-CAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAA
* * * *
3730 ATTGCTTGAAGGAATGGATTGTCATGAATACTTTAAGGAA-CGAAAGTTATAGATGAACTCGTAA
193 ATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAAGAATCG-AAGTTATAGAAGAACTCGTAA
** *
3794 AAGTTT-TCCAAGTTCAGAAGTTTGTCCAAGAACCAAGAGAGAAACAACTCTTACGTAAATAAGT
257 AAGTTTGT-CAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAG-
* * * * *
3858 TTTTTCATTCAAAGACCAAAAGTTATTTTCAAAATGACAAAGTATTTAGACCAAATGATGCGATT
320 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATT
* * * * *
3923 TCCCGAGCACGGAATGTTCAAAAAATTGCTCTAAGGAAAGGATTGTC
385 TCCCGAGCATGAAATGTTCGAAAAATTGCTCAAAGGAATGGATTGTC
* * * * * * *
3970 TTGACTACTTTAA-GAAATAGAAGTTCTAGAAGAACTCGTAAAAGTGT-GTCAAGTTTGGAAGTT
1 ATGAATACTTTAAGGAACT-GAAGTTATAAAAGAACTCGTAAAAGT-TCGTCAAGTTCGAAAGTT
* * * *
4033 CGTCTAAGAACCAAGAGAGAAACAACTCTCACATAAATAGGTTTTTAATTCAAAGACCAACAGTT
64 CGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* * * * *
4098 GTTTAGAAAATGACAAACTATTTAAACATAATGATGCGATTT-CCTATGCTTGGAATGTTCGAAA
129 GTTTACAAAATGACAAACTATTTAGACA-AATGATGCGATTTCCCGA-GCATGGAATGTTCAAAA
* * *
4162 AATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAA-CTGAAGTTTTAAAAGAACTCGTA
192 AATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAAGAATC-GAAGTTATAGAAGAACTCGTA
* ** * * ** * * *
4226 AAACTTCATCAAGTTCGGAAGCTCATCCAAGAATAAAGAGAGGAACAACTCTCACGCAAATAACT
256 AAAGTTTGTCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGT
* * * *
4291 TTTTAATTTATAA-ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACTAAATAATGCTATT
321 TTTTAATTCA-AAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATT
* * * * *
4355 TCCCGAGAAT-AGAATGTTCGGAAAATTACTCAAAGTAATTGATTGTC
385 TCCCGAGCATGA-AATGTTCGAAAAATTGCTCAAAGGAATGGATTGTC
* ** * * * * * * **
4402 ATGAATACTTTAATGAACCAAAGTTATAGAACAACTGGTAAAATTTTGTGAAGTTCGAAAGTTTA
1 ATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTCGTCAAGTTCGAAAGTTCG
* * * * * * *
4467 TCCATGATCCAAGCGATAATA-AATTCTCATGTAAATAAGTTTTTAATTCAATGACCAAAAGTTG
66 TCCAAGAACCAAGAGAGAA-ACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTG
* * * * * *
4531 TATACAAAATGACAAATTATGTAGACAAAATGATGTGATTTCCCAAGCATGGAATGTTCAGAAAA
130 TTTACAAAATGACAAACTATTTAGAC-AAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAA
* * * * * * *
4596 TTGCTCGAGGGAATGGATTGTCCTAAATACTTTAAAGAACCGAAGTTATAGAAGAACTCATCAAA
194 TTGCTCGAAGGAATGGATCGTCATGAATACTTTAAAGAATCGAAGTTATAGAAGAACTCGTAAAA
* *** * ** *
4661 GTTTGTCAAGTTTAGAAGTTCATCCAATTTCCAAGCGAGAAACAGTTCTCATGTAAATAAGTTTT
259 GTTTGTCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTT
* *
4726 TCATTCAAAGACCAAAAGTTGTTTACCAAATGACAAA
324 TAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
4763 TTGGGAAGTT
Statistics
Matches: 3411, Mismatches: 701, Indels: 441
0.75 0.15 0.10
Matches are distributed among these distances:
421 4 0.00
422 241 0.07
423 10 0.00
426 93 0.03
427 56 0.02
430 19 0.01
431 581 0.17
432 1522 0.45
433 217 0.06
434 170 0.05
435 5 0.00
436 1 0.00
437 6 0.00
439 1 0.00
441 1 0.00
442 2 0.00
443 6 0.00
444 5 0.00
445 16 0.00
446 12 0.00
447 4 0.00
448 7 0.00
449 6 0.00
451 3 0.00
452 2 0.00
453 2 0.00
454 1 0.00
455 3 0.00
456 9 0.00
457 6 0.00
458 14 0.00
459 10 0.00
460 2 0.00
463 1 0.00
464 1 0.00
465 5 0.00
466 2 0.00
467 3 0.00
468 5 0.00
469 1 0.00
470 3 0.00
471 3 0.00
472 6 0.00
473 4 0.00
474 14 0.00
475 5 0.00
476 11 0.00
477 2 0.00
478 14 0.00
479 3 0.00
480 8 0.00
481 5 0.00
482 8 0.00
483 7 0.00
484 5 0.00
485 3 0.00
486 3 0.00
487 1 0.00
488 5 0.00
489 3 0.00
490 2 0.00
491 4 0.00
492 2 0.00
493 1 0.00
496 1 0.00
497 9 0.00
498 14 0.00
499 8 0.00
500 10 0.00
501 2 0.00
502 1 0.00
503 2 0.00
504 2 0.00
505 3 0.00
507 7 0.00
508 7 0.00
509 3 0.00
510 11 0.00
511 14 0.00
512 4 0.00
513 7 0.00
514 2 0.00
515 1 0.00
517 1 0.00
519 6 0.00
520 1 0.00
524 101 0.03
525 17 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (431 bp):
ATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTCGTCAAGTTCGAAAGTTCG
TCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
TTACAAAATGACAAACTATTTAGACAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATT
GCTCGAAGGAATGGATCGTCATGAATACTTTAAAGAATCGAAGTTATAGAAGAACTCGTAAAAGT
TTGTCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTA
ATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGA
GCATGAAATGTTCGAAAAATTGCTCAAAGGAATGGATTGTC
Found at i:2148 original size:648 final size:648
Alignment explanation
Indices: 1--4762 Score: 2946
Period size: 648 Copynumber: 7.2 Consensus size: 648
* * * *
1 ATGAATACTTTAAGGAAAGAAAGTTATAGAAGAACTCGTAAAAGTAT-GTCAAGCTT-GGAAGTT
1 ATGAATACTTTAAGGAATG-AAGTTATAAAAGAACTCGTAAAACT-TCGTCAAG-TTCAGAAGTT
* * * * * *
64 CGTCTAAGAACCAAGAGAGAATC-ACTCTCACATAAATAGGTTTTT-ATTTCAAAGACCAACAGT
63 CATCCAAGAACAAAGAGAGAAACAACTCTCACATAAATAAGTTTTTAATTT-AAAGACCAAAAGT
* * * *
127 TGTTTAGAAAATGACAAATTATTTAGAC-ATAATGATGCGATTTCCCGTGCTTGGAATGTTCGAA
127 TGTTTACAAAATGACAAACTATTTAGACTA-AATGATGCGATTTCCCGAGCATGGAATGTTCGAA
** *
191 AAATTGCTTGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA-GTCT-TAAAATG-ACTT
191 AAATTGCTCAAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAATGT-TATAAAA-GAACTG
* **
253 GTAAAACTTCGTCAAGTTCGGTAGTTCGTCCAAGAA-CAGAGAGAGAAACAACTCTCACGTAAAT
254 GTAAAACTTCTTCAAGTTCGAAAGTTCGTCCAAGAACCA-AGAGAGAAACAACTCTCACGTAAAT
* * * * * * * *
317 AACTTTTAAATTTATAGACCAAAAGTTGTTTACAAAGTGACAAACTATTTAGACTAAATTATGCT
318 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCG
* * * *
382 ATTT-CC---CATGGAATGTT-TGAAAAATTACTTGAAGGAATGGATTGTCATGAATACTTTAAT
383 ATTTCCCGAGCATGGAATGTTCAG-AAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAA-
* * * * * * * *
442 G-AACCAAAGTTATAGAACAACTGGTAAAAGTTTGTGAAGTTCGGAAGTTTGTCCATG----AAG
446 GAAACCGAAGTTATAGAAGAACTCGTAAAAGTATGTCAAGTTTGGAAGTTCGTCCAAGAACCAAG
* * * * * * *
502 ATA-ATA-AATTCTCACGTAAATAAGTTTTTAATTCAATGACCAAAAGTTGTATACCAAATGACA
511 ACAGAAACAACTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * * * *
565 AACTATGTAGACAAAATGATGTGATTTCCCAAGCATGGAATGTTCAAAAAATTGCTCGAAGGAAT
576 AACTATTTAGACAAAATGATGCGATTTCCCATGCTTGGAATGTTCGAAAAATTGCTCGAAGGAAT
630 GGATCGTC
641 GGATCGTC
* * * * * * *
638 CTGAATACTTTAAAGAATAGAAGTTATAGAAGAACTCGTCAAAGTTTGTCAAGTTTAGAAGTTCA
1 ATGAATACTTTAAGGAAT-GAAGTTATAAAAGAACTCGTAAAACTTCGTCAAGTTCAGAAGTTCA
*** * * ** * *
703 TCCAATTTCCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGT
65 TCCAAGAACAAAGAGAGAAACAACTCTCACATAAATAAGTTTTTAATTTAAAGACCAAAAGTTGT
* * ** * *
768 TTACCAAATGACAAA-TAGTATAGAAAAAATGATGCGATTTCCCAAGCATGAAATGTTCGAAAAA
130 TTACAAAATGACAAACTA-TTTAGACTAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAA
* * * *
832 TTGCTCAAAGGAATGGATCGTCATGAATAGTTTAAGGAACTGAA-GTTTTAAAAGAACTTGTGAA
194 TTGCTCAAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAATGTTATAAAAGAACTGGTAAA
* * * * * *
896 ACTTCATCAAGTTCGAAAGTTTGTCCAAGAACAAAGAGAGAAACAATTCTCATGTAAATAAGATT
259 ACTTCTTCAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTT
* *
961 TTAATTTAAAGACCAAAAGTTGTTTACAAAATGGCAAACTATTTAGACCAAATGATGCGATTTCC
324 TTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCC
* * * * *
1026 CGAGTATGGAATGTTCAAAAAATTGCTCTAAGGAATGGATTGTCTTGAATACATTAAGAAATCGA
389 CGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGAAACCGA
* * * *
1091 AGTTATAGAGGAACTCGTAAAAGTATGTCAAGTTTGGAACTTCGTCTAAGAACCAAGAGAGAAAC
454 AGTTATAGAAGAACTCGTAAAAGTATGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGACAGAAAC
* *
1156 AACTCTCACATAAAT-AGGTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTT
519 AACTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
* * * *
1220 AGACAAAATGATGCGATTTCCCGTGCTTGGATTGTTCGAAAAATTGCTCGAAGGAATGAATCATC
584 AGACAAAATGATGCGATTTCCCATGCTTGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTC
*
1285 ATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAACTTCGTCAAGTTC-GAAAGTTC
1 ATGAATACTTTAAGGAA-TGAAGTTATAAAAGAACTCGTAAAACTTCGTCAAGTTCAG-AAGTTC
* * * *
1349 ATCCAAGAACAAAGAGAGAAACAACTCTCACGTAAATAAGATTTTAATTTATAGACCCAAAGTTG
64 ATCCAAGAACAAAGAGAGAAACAACTCTCACATAAATAAGTTTTTAATTTAAAGACCAAAAGTTG
* * * *
1414 TTTAGAAAATGACAAACTATTTAGA-TCAAACGATGCGTTTTCCTGAGCATGGAATGTTCGAAAA
129 TTTACAAAATGACAAACTATTTAGACT-AAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAA
* ** * * * *
1478 ATTGTTTGAAGGAATGGATTGTCATAAATACTTTAAGGAAC-GAATGTTATAGATGAACTGGTAA
193 ATTGCTCAAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAATGTTATAAAAGAACTGGTAA
* * * *
1542 AAGTT-TTCCAAGTTCAAAAGCTCGTCCAAGAACCAAGAGAGAAACAACTCTTACGTAAATAAGT
258 AACTTCTT-CAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGT
* * *
1606 TTTTCATTCAAAGACCAAAAGTTATTTTA-AAAATGACAAAGTATTTAGACCAAATGATGCGATT
322 TTTTAATTCAAAGACCAAAAGTT-GTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATT
* * ** * * *
1670 TCCCGAGCACGAAATGTTCAGAAAATTGCTTTAAGGAAAGGATTGTCTTGACTACTTTAAGAAAT
386 TCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGAAAC
* * *
1735 CGAAGTTCTAGAAGAACTCGTAAAAGTATGTCAAGTTTGGAAGTTCGTCTAAGAACCACGACAGA
451 CGAAGTTATAGAAGAACTCGTAAAAGTATGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGACAGA
* * * *
1800 AACAACTCTCACATTAATAGGTTTTTAATTCAAAGACCAACAGTTGTTTAGAAAATGACAAACTA
516 AACAACTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA
* * * * * * *
1865 TTTAAACATAATGATGCGATTTCCTATGCTTGAAATGTTCGGAAAATTTCTCGAAAGAATGGATC
581 TTTAGACAAAATGATGCGATTTCCCATGCTTGGAATGTTCGAAAAATTGCTCGAAGGAATGGATC
1930 GTC
646 GTC
* * *
1933 ATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAACTTCATCAAGTTCAGAAGCTCA
1 ATGAATACTTTAAGGAA-TGAAGTTATAAAAGAACTCGTAAAACTTCGTCAAGTTCAGAAGTTCA
* * * *
1998 TCCAAGAACAAAGAGAGGAACAACTCTCACACAAATAACTTTTTAATTTATAGACCAAAAGTTGT
65 TCCAAGAACAAAGAGAGAAACAACTCTCACATAAATAAGTTTTTAATTTAAAGACCAAAAGTTGT
* * * *
2063 TTACAAAATGACAAACTATTTAGACTAAATTATGCGATTTCCTGAGAATAGAATGTTCGAAAAAT
130 TTACAAAATGACAAACTATTTAGACTAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
* * * * * * *
2128 TACTCAAAGTAATTGATTGTCATGAATACTTTAATGAAC-CAAAGTTATAGAAA-AACTGGTAAA
195 TGCTCAAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAATGTTATA-AAAGAACTGGTAAA
* * ** * * * * *
2191 AGTT-TGTGAAGTTCGAAAGTTTATCCATGATCCAAGAGATAATA-AATTCTCATGTAAATAAGT
259 ACTTCT-TCAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAA-ACAACTCTCACGTAAATAAGT
* * * *
2254 TTTTAATTCAATGACCAAAAGTTGTATACAAAATGACAAACTATGTAGA-CAAACTGATGTGATT
322 TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAA-TGATGCGATT
* * * * *
2318 TCCCAAGCATGGAATGTTCAGAAAATTGCTCGAGGGAATGGATTGTCCTAAATACTTCAA-AGAA
386 TCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGA-AA
* * * * * ***
2382 CCGAAGTTATAGAAGAACTCATCAAAGTTTGTCAAGTTTAGAAGTTCATCCAATTTCCAAG-CGA
450 CCGAAGTTATAGAAGAACTCGTAAAAGTATGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAC-A
* ** * * *
2446 GAAACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGTTTACCAAATGACAAAT
514 GAAACAACTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAAC
** ** * * ***
2511 TGGGAAGTTCGTCCAAGAACCAAGAAAAAAAC-ATCTCTCACGTAAATAAGTTTTTCA--TTCAA
579 T----A-TT--T---AG-A-CAA-AATGATGCGAT-T-TC-C---CAT--GCTTGGAATGTTC--
* * * * **
2573 AGACCAAAAGTAGTTTAGAA--AATGACAAAGT-
621 -GA--AAAA-TTG-CTCGAAGGAATG-GATCGTC
** * ** * * * ** * * * ** *
2604 ATTTAGAC-CAAATG-ATGAGATTTCCTGAGCATGGAATATTC-AAAAAATT-GCTCGAAGGACT
1 ATGAATACTTTAAGGAATGA-AGTT-AT-A--AAAG-A-ACTCGTAAAACTTCG-TC-AAGTTCA
* * ** * ** * * * * * * ** *
2665 GGATTGTC-TTGAA-TACTTTA-AGA-AACCGAAGT-T-A-TTGAAGAACTTGTAAAAGTTTGTC
57 GAAGT-TCATCCAAGAAC-AAAGAGAGAAAC-AACTCTCACATAAATAAGTT-TTTAA--TT-TA
* ***** * * * * * * * * *** *
2723 ATGTTTGGAAGTTCATCTAAGAACCAAGAGAAAAACAACTCTCATG--TAAATAGGTTTTTAATT
115 AAGACCAAAAGTT-GT-TTACAA--AA-TGACAAACTA-T-TTA-GACTAAAT--GATGCGATTT
** * * * * *
2786 CAAAGACCAAAAGTTGTTTAGAAAATG-AC-AAACTATTTAGAC-AAAATG-ATGTGATTTCGCA
170 C-CCGAGC---A--TG----G--AATGTTCGAAA--AATT-G-CTCAAAGGAATG-GA--TCG--
* * * * * **
2847 TGCATGGAATGTTCGAAAAATTGCTCGAAGGAA-TGGATCGTCAT-GAA-TACTTTTAAGGAA--
214 T-CAT-GAA---T-----ACTT--T--AAGGAACTGAAT-GTTATAAAAGAACTGGTAA--AACT
* ** ** * * * *** * *** * *
2907 -C-TGAAGTTTTAAAGAACTTGCAAAACTACATCAAGTTCGGAAGTTCGTC-CAAG-AACAAAGA
262 TCTTCAAGTTCGAAAGTTCGTCCAAGA--AC--CAAGAGAGAAACAAC-TCTCACGTAA-ATA-A
***** * * *
2968 GAGAAACAATTC--TGACGTAAATAAGATTTTAATTTAAAGACCAAAATTTGTTTACAAA--ATG
320 G-TTTTTAATTCAAAGAC--CAA-AAG---TT-GTTT----A-CAAAA--TG---ACAAACTAT-
** * * * ** * * *
3029 GAAAACTATTTAGATCAAATGATGCGATTTCCCAAGCATGGAATGTTCAGAATATTGCTTGAAGG
366 TTAGACCA---A-AT-GATG----CGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGG
* * ** * * * *
3094 AATGGATTGTCATGAATACTTTAAGGAACTAAAGTTATAGATGAACTGGTAAAAGT-TTTCCGAG
422 AATGGATTGTCTTGAATACTTTAAGAAACCGAAGTTATAGAAGAACTCGTAAAAGTATGT-CAAG
** * * * *
3158 TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTCATTGAAAG
486 TTTGGAAGTTCGTCCAAGAACCAAGACAGAAACAACTCTCACATAAATAAGTTTTTAATTCAAAG
* * * * *
3223 ACCAAAAGTTGCTTAGAAAATGACAAAGTATGTAGACCAAATGATGCGATTTCCCGA-G-TATGG
551 ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCC-ATGCT-TGG
* * *
3286 AATGTTCAAAAAATTGCTCTAAGGAATGGATTGTC
614 AATGTTCGAAAAATTGCTCGAAGGAATGGATCGTC
* * * * * **
3321 TTGAATACTCTAAGAAATCGAAGTTATAGAAGAACTCATAAAA-TGAT-GTCAAGTTTGGAAGTT
1 ATGAATACTTTAAGGAAT-GAAGTTATAAAAGAACTCGTAAAACT--TCGTCAAGTTCAGAAGTT
* * * * * * *
3384 CGTCTAAGAACCAAGAGAGAAACAATTCTCACATAAAT-AGGTTTTAATTCAAAGACCAAATGTT
63 CATCCAAGAACAAAGAGAGAAACAACTCTCACATAAATAAGTTTTTAATTTAAAGACCAAAAGTT
* * * *
3448 GTTTAGAAAATGACAAACTATTTAGAC-ATAATGATGCGATTTGCCGTG-ATTGGATTGTTCGAA
128 GTTTACAAAATGACAAACTATTTAGACTA-AATGATGCGATTTCCCGAGCA-TGGAATGTTCGAA
* * * * * * * *
3511 AAACTGCTCGATGGAATGTATCATCATGAACACTTTAAGGAACTGAA-GTTTTAAAAGAACTCGT
191 AAATTGCTCAAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAATGTTATAAAAGAACTGGT
* * * * *
3575 AAAACTTCGTCAAGTTCGGAAGTTCGTCCAAG-ACCAAAGAGAGAAACAATTCTCTCGTAAAAAA
256 AAAACTTCTTCAAGTTCGAAAGTTCGTCCAAGAACC-AAGAGAGAAACAACTCTCACGTAAATAA
* * * * * *
3639 ATATTTTAATTTAAATACCAAAAGTTGTTTACAAAATGAAAAACAATTTAGACCAAATGATGCAA
320 GT-TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
* * * *
3704 TTTCTCGAGCATGGAATGTTC-GAAATATTGCTTGAAGGAATGGATTGTCATGAATACTTTAAGG
384 TTTCCCGAGCATGGAATGTTCAGAAA-ATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGA
* * ** *
3768 AA-CGAAAGTTATAGATGAACTCGTAAAAGT-TTTCCAAGTTCAGAAGTTTGTCCAAGAACCAAG
448 AACCG-AAGTTATAGAAGAACTCGTAAAAGTATGT-CAAGTTTGGAAGTTCGTCCAAGAACCAAG
* * * * * *
3831 AGAGAAACAACTCTTACGTAAATAAGTTTTTTCATTCAAAGACCAAAAGTTATTTTCAAAATGAC
511 ACAGAAACAACTCTCACATAAATAAG-TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAC
* * ** * *
3896 AAAGTATTTAGACCAAATGATGCGATTTCCCGA-GCACGGAATGTTCAAAAAATTGCTCTAAGGA
575 AAACTATTTAGACAAAATGATGCGATTTCCC-ATGCTTGGAATGTTCGAAAAATTGCTCGAAGGA
* *
3960 AAGGATTGTC
639 ATGGATCGTC
* * * * * * **
3970 TTGACTACTTTAAGAAATAGAAGTTCTAGAAGAACTCGTAAAAGTGT-GTCAAGTTTGGAAGTTC
1 ATGAATACTTTAAGGAAT-GAAGTTATAAAAGAACTCGTAAAACT-TCGTCAAGTTCAGAAGTTC
* * * * * *
4034 GTCTAAGAACCAAGAGAGAAACAACTCTCACATAAATAGGTTTTTAATTCAAAGACCAACAGTTG
64 ATCCAAGAACAAAGAGAGAAACAACTCTCACATAAATAAGTTTTTAATTTAAAGACCAAAAGTTG
* * * *
4099 TTTAGAAAATGACAAACTATTTAAAC-ATAATGATGCGATTT-CCTATGCTTGGAATGTTCGAAA
129 TTTACAAAATGACAAACTATTTAGACTA-AATGATGCGATTTCCCGA-GCATGGAATGTTCGAAA
* * *
4162 AATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA-GTTTTAAAAGAACTCGTA
192 AATTGCTCAAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAATGTTATAAAAGAACTGGTA
* * * * ** * * *
4226 AAACTTCATCAAGTTCGGAAGCTCATCCAAGAATAAAGAGAGGAACAACTCTCACGCAAATAACT
257 AAACTTCTTCAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGT
* * * *
4291 TTTTAATTTATAA-ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACTAAATAATGCTATT
322 TTTTAATTCA-AAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATT
* * * * * * * *
4355 TCCCGAGAATAGAATGTTCGGAAAATTACTCAAAGTAATTGATTGTCATGAATACTTTAATG-AA
386 TCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAA-GAAA
* * * * * * * * ** * *
4419 CCAAAGTTATAGAACAACTGGTAAAATTTTGTGAAGTTCGAAAGTTTATCCATGATCCAAG-C-G
450 CCGAAGTTATAGAAGAACTCGTAAAAGTATGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGACAG
* * ** * *
4482 ATAATAAATTCTCATGTAAATAAGTTTTTAATTCAATGACCAAAAGTTGTATACAAAATGACAAA
515 A-AA-CAACTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
* * * * * *
4547 TTATGTAGACAAAATGATGTGATTTCCCAAGCATGGAATGTTC-AGAAAATTGCTCGAGGGAATG
578 CTATTTAGACAAAATGATGCGATTTCCCATGCTTGGAATGTTCGA-AAAATTGCTCGAAGGAATG
*
4611 GATTGTC
642 GATCGTC
* * * * * * * * * *
4618 CTAAATACTTTAAAGAACCGAAGTTATAGAAGAACTCATCAAAGTTTGTCAAGTTTAGAAGTTCA
1 ATGAATACTTTAAGGAA-TGAAGTTATAAAAGAACTCGTAAAACTTCGTCAAGTTCAGAAGTTCA
*** * * ** ** * *
4683 TCCAATTTCCAAGCGAGAAACAGTTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGT
65 TCCAAGAACAAAGAGAGAAACAACTCTCACATAAATAAGTTTTTAATTTAAAGACCAAAAGTTGT
*
4748 TTACCAAATGACAAA
130 TTACAAAATGACAAA
4763 TTGGGAAGTT
Statistics
Matches: 3233, Mismatches: 655, Indels: 463
0.74 0.15 0.11
Matches are distributed among these distances:
636 3 0.00
637 72 0.02
638 251 0.08
639 7 0.00
641 1 0.00
642 88 0.03
646 10 0.00
647 565 0.17
648 954 0.30
649 365 0.11
650 199 0.06
651 1 0.00
652 2 0.00
653 4 0.00
654 1 0.00
655 1 0.00
656 4 0.00
657 4 0.00
658 3 0.00
659 3 0.00
660 4 0.00
661 10 0.00
662 3 0.00
663 1 0.00
666 8 0.00
667 2 0.00
668 7 0.00
669 5 0.00
670 7 0.00
671 31 0.01
672 24 0.01
673 23 0.01
674 28 0.01
675 22 0.01
676 17 0.01
677 7 0.00
679 2 0.00
680 7 0.00
681 6 0.00
682 2 0.00
683 6 0.00
684 2 0.00
685 3 0.00
686 3 0.00
687 2 0.00
689 3 0.00
690 1 0.00
691 4 0.00
692 8 0.00
693 5 0.00
694 5 0.00
695 9 0.00
696 5 0.00
697 1 0.00
698 5 0.00
699 1 0.00
700 1 0.00
701 3 0.00
702 3 0.00
703 1 0.00
704 6 0.00
705 4 0.00
706 4 0.00
707 7 0.00
708 2 0.00
710 8 0.00
711 16 0.00
712 9 0.00
713 25 0.01
714 24 0.01
715 33 0.01
716 12 0.00
717 23 0.01
718 7 0.00
719 7 0.00
720 5 0.00
721 2 0.00
722 5 0.00
723 1 0.00
725 1 0.00
726 3 0.00
727 10 0.00
728 4 0.00
729 3 0.00
730 4 0.00
731 3 0.00
732 6 0.00
733 1 0.00
735 3 0.00
736 3 0.00
739 2 0.00
740 165 0.05
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (648 bp):
ATGAATACTTTAAGGAATGAAGTTATAAAAGAACTCGTAAAACTTCGTCAAGTTCAGAAGTTCAT
CCAAGAACAAAGAGAGAAACAACTCTCACATAAATAAGTTTTTAATTTAAAGACCAAAAGTTGTT
TACAAAATGACAAACTATTTAGACTAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATT
GCTCAAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAATGTTATAAAAGAACTGGTAAAAC
TTCTTCAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTT
AATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCG
AGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGAAACCGAAG
TTATAGAAGAACTCGTAAAAGTATGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGACAGAAACAA
CTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAG
ACAAAATGATGCGATTTCCCATGCTTGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTC
Found at i:2896 original size:216 final size:216
Alignment explanation
Indices: 2513--4762 Score: 2471
Period size: 216 Copynumber: 10.4 Consensus size: 216
2503 TGACAAATTG
* * * *
2513 GGAAGTTCGTCCAAGAACCAAGAAAAAAACATCTCTCACGTAAATAAGTTTTTCATTCAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* * * * * * *
2578 AAAAGTAGTTTAGAAAATGACAAAGTATTTAGACCAAATGATGAGATTTCCTGAGCATGGAATAT
66 AAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGAGCATGGAATGT
* * * * *
2643 TCAAAAAATTGCTCGAAGGACTGGATTGTCTTGAATACTTTAAGAAACCGAAGTTATTGAAGAAC
131 TCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAGAAC
* * *
2708 TTGTAAAAGTTTGTCATGTTT
196 TCGTAAAAGTTTGTCAAGTTC
* * * * *
2729 GGAAGTTCATCTAAGAACCAAGAGAAAAACAACTCTCATGTAAATAGGTTTTTAATTCAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* * *
2794 AAAAGTTGTTTAGAAAATGACAAACTATTTAGACAAAATGATGTGATTTCGC-ATGCATGGAATG
66 AAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGA-GCATGGAATG
* * *
2858 TTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTTAAGGAACTGAAGTTTTA-AAGA
130 TTCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATAC-TTTAAGGAACCGAAGTTATAGAAGA
* * * ***
2922 ACTTGCAAAACTACATCAAGTTC
194 ACTCGTAAAAGTTTGTCAAGTTC
* * * * *
2945 GGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTGACGTAAATAAGATTTTAATTTAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* *
3010 AAAATTTGTTTACAAAATGGA-AAACTATTTAGATC-AAATGATGCGATTTCCCAAGCATGGAAT
66 AAAAGTTGTTTACAAAAT-GACAAACTATTTAGA-CAAAATGATGCGATTTCCCGAGCATGGAAT
* * ** *
3073 GTTC-AGAATATTGCTTGAAGGAATGGATTGTCATGAATACTTTAAGGAACTAAAGTTATAGATG
129 GTTCGA-AAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAG
* *
3137 AACTGGTAAAAGTTT-TCCGAGTTC
193 AACTCGTAAAAGTTTGT-CAAGTTC
* * *
3161 AGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTCATTGAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* * * * * *
3226 AAAAGTTGCTTAGAAAATGACAAAGTATGTAGACCAAATGATGCGATTTCCCGAGTATGGAATGT
66 AAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGAGCATGGAATGT
* * * * * *
3291 TCAAAAAATTGCTCTAAGGAATGGATTGTCTTGAATACTCTAAGAAATCGAAGTTATAGAAGAAC
131 TCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAGAAC
* * *
3356 TCATAAAA-TGATGTCAAGTTT
196 TCGTAAAAGT-TTGTCAAGTTC
* * * *
3377 GGAAGTTCGTCTAAGAACCAAGAGAGAAACAATTCTCACATAAAT-AGGTTTTAATTCAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* * * * * *
3441 AAATGTTGTTTAGAAAATGACAAACTATTTAGACATAATGATGCGATTTGCCGTG-ATTGGATTG
66 AAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGAGCA-TGGAATG
* * * ** * * * *
3505 TTCGAAAAACTGCTCGATGGAATGTATCATCATGAACACTTTAAGGAACTGAAGTTTTAAAAGAA
130 TTCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAGAA
* *
3570 CTCGTAAAACTTCGTCAAGTTC
195 CTCGTAAAAGTTTGTCAAGTTC
* * * * * *
3592 GGAAGTTCGTCCAAG-ACCAAAGAGAGAAACAATTCTCTCGTAAAAAAATATTTTAATTTAAATA
1 GGAAGTTCGTCCAAGAACC-AAGAGAGAAACAACTCTCACGTAAATAAGT-TTTTAATTCAAAGA
* * * * *
3656 CCAAAAGTTGTTTACAAAATGAAAAACAATTTAGACCAAATGATGCAATTTCTCGAGCATGGAAT
64 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGAGCATGGAAT
* * *
3721 GTTCGAAATATTGCTTGAAGGAATGGATTGTCATGAATACTTTAAGGAA-CGAAAGTTATAGATG
129 GTTCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCG-AAGTTATAGAAG
3785 AACTCGTAAAAGTTT-TCCAAGTTC
193 AACTCGTAAAAGTTTGT-CAAGTTC
* * * *
3809 AGAAGTTTGTCCAAGAACCAAGAGAGAAACAACTCTTACGTAAATAAGTTTTTTCATTCAAAGAC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAG-TTTTTAATTCAAAGAC
* * * * *
3874 CAAAAGTTATTTTCAAAATGACAAAGTATTTAGACCAAATGATGCGATTTCCCGAGCACGGAATG
65 CAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGAGCATGGAATG
* * * * * * ** *
3939 TTCAAAAAATTGCTCTAAGGAAAGGATTGTCTTGACTACTTTAAGAAATAGAAGTTCTAGAAGAA
130 TTCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAGAA
* *
4004 CTCGTAAAAGTGTGTCAAGTTT
195 CTCGTAAAAGTTTGTCAAGTTC
* * *
4026 GGAAGTTCGTCTAAGAACCAAGAGAGAAACAACTCTCACATAAATAGGTTTTTAATTCAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* * * * * *
4091 AACAGTTGTTTAGAAAATGACAAACTATTTAAACATAATGATGCGATTT-CCTATGCTTGGAATG
66 AAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGA-GCATGGAATG
* * * *
4155 TTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAA
130 TTCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAGAA
* **
4220 CTCGTAAAACTTCATCAAGTTC
195 CTCGTAAAAGTTTGTCAAGTTC
* * ** * * * *
4242 GGAAGCTCATCCAAGAATAAAGAGAGGAACAACTCTCACGCAAATAACTTTTTAATTTATAA-AC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCA-AAGAC
* * * * *
4306 CAAAAGTTGTTTACAAAATGACAAACTATTTAGACTAAATAATGCTATTTCCCGAGAATAGAATG
65 CAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGAGCATGGAATG
* * * * * * * *
4371 TTCGGAAAATTACTCAAAGTAATTGATTGTCATGAATACTTTAATGAACCAAAGTTATAGAACAA
130 TTCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAGAA
* * *
4436 CTGGTAAAATTTTGTGAAGTTC
195 CTCGTAAAAGTTTGTCAAGTTC
* ** * * * * * * *
4458 GAAAGTTTATCCATGATCCAAGCGATAATA-AATTCTCATGTAAATAAGTTTTTAATTCAATGAC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAA-ACAACTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * * *
4522 CAAAAGTTGTATACAAAATGACAAATTATGTAGACAAAATGATGTGATTTCCCAAGCATGGAATG
65 CAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGAGCATGGAATG
* * * *
4587 TTC-AGAAAATTGCTCGAGGGAATGGATTGTCCTAAATACTTTAAAGAACCGAAGTTATAGAAGA
130 TTCGA-AAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAGA
* * *
4651 ACTCATCAAAGTTTGTCAAGTTT
194 ACTCGTAAAAGTTTGTCAAGTTC
* * *** * ** * *
4674 AGAAGTTCATCCAATTTCCAAGCGAGAAACAGTTCTCATGTAAATAAGTTTTTCATTCAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
*
4739 AAAAGTTGTTTACCAAATGACAAA
66 AAAAGTTGTTTACAAAATGACAAA
4763 TTGGGAAGTT
Statistics
Matches: 1691, Mismatches: 311, Indels: 64
0.82 0.15 0.03
Matches are distributed among these distances:
214 4 0.00
215 202 0.12
216 1098 0.65
217 380 0.22
218 7 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (216 bp):
GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
AAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGAGCATGGAATGT
TCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAGAAC
TCGTAAAAGTTTGTCAAGTTC
Found at i:5067 original size:308 final size:308
Alignment explanation
Indices: 4491--5069 Score: 818
Period size: 308 Copynumber: 1.9 Consensus size: 308
4481 GATAATAAAT
* * * *
4491 TCTCATGTAAATAAGTTTTTAATTCAATGACCAAAAGTTGTATACAAAATGACAAATTATGTAGA
1 TCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTAGTATACAAAATGACAAAGTATGTAGA
** * * *
4556 CAAAATGATGTGATTTCCCAAGCATGGAATGTTCAGAAAATTGCTCGAGGGAATGGATTGTCCTA
66 CAAAATGATAAGATTTCCCAAGCATGGAATATTCAAAAAATTGCTCGAAGGAATGGATTGTCCTA
* *
4621 AATACTTTAAAGAACCGAAGTTATAGAAGAACTCATCAAAGTTTGTCAAGTTTAGAAGTTCATCC
131 AATACTTTAAAGAACCGAAGTTATAGAAGAACTCATAAAAATTTGTCAAGTTTAGAAGTTCATCC
*** * * ** * *
4686 AATTTCCAAGCGAGAAACAGTTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGTTTA
196 AAGAACCAAGAGAAAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
*
4751 CCAAATGACAAATTGGGAAGTTCGTCCAAGAACCAAGATAAAAACATC
261 CAAAATGACAAATTGGGAAGTTCGTCCAAGAACCAAGATAAAAACATC
* * * * *
4799 TCTCACGTAAATTAGTTTTTCATTCAAAGACCAAAAGTAGTTTAGAAAATGACAAAGTATTTAGA
1 TCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTAGTATACAAAATGACAAAGTATGTAGA
* * *
4864 CCAAATGATAAGATTTCCCGAGCATGGAATATTCAAAAAATTGCTCGAAGGAATGGATTGTCCTG
66 CAAAATGATAAGATTTCCCAAGCATGGAATATTCAAAAAATTGCTCGAAGGAATGGATTGTCCTA
* ** *
4929 AATACTTT-AAGAAACCGAAGTTATTGAAGAACTTGTAAAAATTTGTCAAGTTTGGAAGTTCATC
131 AATACTTTAAAG-AACCGAAGTTATAGAAGAACTCATAAAAATTTGTCAAGTTTAGAAGTTCATC
* *
4993 TAAGAACCAAGAGAAAAACAACTCTCACGTAAATAGGTTTTTAATTCAAAGACCAAAAGTTGTTT
195 CAAGAACCAAGAGAAAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTT
*
5058 AGAAAATGACAA
260 ACAAAATGACAA
5070 TCTATTTAGA
Statistics
Matches: 234, Mismatches: 36, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
307 3 0.01
308 231 0.99
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (308 bp):
TCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTAGTATACAAAATGACAAAGTATGTAGA
CAAAATGATAAGATTTCCCAAGCATGGAATATTCAAAAAATTGCTCGAAGGAATGGATTGTCCTA
AATACTTTAAAGAACCGAAGTTATAGAAGAACTCATAAAAATTTGTCAAGTTTAGAAGTTCATCC
AAGAACCAAGAGAAAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
CAAAATGACAAATTGGGAAGTTCGTCCAAGAACCAAGATAAAAACATC
Found at i:5149 original size:216 final size:215
Alignment explanation
Indices: 4766--6077 Score: 1492
Period size: 216 Copynumber: 6.1 Consensus size: 215
4756 TGACAAATTG
* * * * *
4766 GGAAGTTCGTCCAAGAACCAAGATAAAAACATCTCTCACGTAAATTAGTTTTTCATTCAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* * ** *
4831 AAAAGTAGTTTAGAAAATGACAAAGTATTTAGACCAAATGATAAGATTTCCCGAGCATGGAATAT
66 AAAAGTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCC-AGCATGGAATGT
* * * *
4896 TCAAAAAATTGCTCGAAGGAATGGATTGTCCTGAATACTTTAAGAAACCGAAGTTATTGAAGAAC
130 TCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAGAAC
* * *
4961 TTGTAAAAATTTGTCAAGTTT
195 TCGTAAAACTTTGTCAAGTTC
* * * *
4982 GGAAGTTCATCTAAGAACCAAGAGAAAAACAACTCTCACGTAAATAGGTTTTTAATTCAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* * *
5047 AAAAGTTGTTTAGAAAATGACAATCTATTTAGACAAAATGATGCGATTTCTCATGCATGGAATGT
66 AAAAGTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCA-GCATGGAATGT
* ** * *
5112 TCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTAAAGTTTTAAAAGAAC
130 TCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAGAAC
* ***
5177 TTGCT-AAACTACATCAAGTTC
195 TCG-TAAAACTTTGTCAAGTTC
* * * * * * *
5198 AGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTATGACGTAAATAAGATTTTAATTTAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* *
5263 AAAATTTGTTTACAAAAT-AGCAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATG
66 AAAAGTTGTTTAGAAAATGA-CAAACTATTTAGACCAAATGATGCGATTTCCC-AGCATGGAATG
* * *
5327 TTC-AGAACATTGCTTGAAGGAATGGATTGTCATGAATACTTTAAGGAA-CGAAAGTTATAGATG
129 TTCGA-AAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCG-AAGTTATAGAAG
* *
5390 AACTGGTAAAAGTTT-TCCAAGTTC
192 AACTCGTAAAACTTTGT-CAAGTTC
* * *
5414 AGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTCATTGAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* * * *
5479 AAAAGTTGTTTAGAAAATGACAAAGTATGTAGATCAAATGATGCGATTTCCCAAGTATGGAATGT
66 AAAAGTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCC-AGCATGGAATGT
* * * * * * *
5544 TCAAAAAATTGCTCTAAGGAATGTATTGTCTTGAATACTCTAAGAAATCGAAGTTATAGAAGAAC
130 TCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAGAAC
* *** *
5609 TCATAAAAGGATGTCAAGTTT
195 TCGTAAAACTTTGTCAAGTTC
* * * *
5630 GGAAGTTCGTCTAAGAACCAAGAGAGAAACAATTCTCACATAAAT-AGATTTTAATTCAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* * * *
5694 AAATGTTGTTTAGAAAATGACAAACTATTTAGA-CATAATGATGCGATTTCCCGTGCTTGGATTG
66 AAAAGTTGTTTAGAAAATGACAAACTATTTAGACCA-AATGATGCGATTTCCC-AGCATGGAATG
* * ** * * * *
5758 TTCGAAAAACTGCTCGACGGAATGGATCATCATGAACACTTTAAGGAACTGAAGTTTTAAAAGAA
129 TTCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAGAA
*
5823 CTCGTAAAACTTCGTCAAGTTC
194 CTCGTAAAACTTTGTCAAGTTC
* ** * * * *
5845 GGAAGTTCGTCCCAGAATAAAGAGGGAAACAATTCTCACGTAAA-AAATATTTTAATTTAAAGAC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGT-TTTTAATTCAAAGAC
* * * * *
5909 CAAAAGTTGTTTACAAAATGAAAAACAATTTAGACCAAATGATGCAATTTCTCGAGCATGGAATG
65 CAAAAGTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATTTC-CCAGCATGGAATG
* * * *
5974 TTCGAAATATTGCTTGAAGAAATGGATTGTCATGAATACTTTAAGGAA-CGAAAGTTATAGATGA
129 TTCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCG-AAGTTATAGAAGA
*
6038 ACTCGTAAAAGTTT-TCCAAGTTC
193 ACTCGTAAAACTTTGT-CAAGTTC
** *
6061 AAAAGTTTGTCCAAGAA
1 GGAAGTTCGTCCAAGAA
Statistics
Matches: 922, Mismatches: 155, Indels: 38
0.83 0.14 0.03
Matches are distributed among these distances:
214 2 0.00
215 181 0.20
216 729 0.79
217 10 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (215 bp):
GGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACC
AAAAGTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAGCATGGAATGTT
CGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGAAGTTATAGAAGAACT
CGTAAAACTTTGTCAAGTTC
Found at i:5243 original size:524 final size:524
Alignment explanation
Indices: 4269--5280 Score: 1219
Period size: 524 Copynumber: 1.9 Consensus size: 524
4259 TAAAGAGAGG
* *
4269 AACAACTCTCACGCAAATAACTTTTTAATTTATAAACCAAAAGTTGTTTACAAAATGACAAACTA
1 AACAACTCTCACGCAAATAACTTTTTAATTCATAAACCAAAAGTAGTTTACAAAATGACAAACTA
* *** * ** * *
4334 TTTAGACTAAATAATGCTATTTCCCGAGAATAGAATGTTCGGAAAATTACTCAAAGTAATTGATT
66 TTTAGACCAAATAATAAGATTTCCCGAGAATAGAATATTCAAAAAATTACTCAAAGGAATGGATT
* *
4399 GTCATGAATACTTTAATGAACCAAAGTTATAGAACAACTGGTAAAATTTTGTGAAGTTCGAAAGT
131 GTCATGAATACTTTAATGAACCAAAGTTATAGAACAACTGGTAAAAATTTGTCAAGTTCGAAAGT
* * * * * * * *
4464 TTATCCATGATCCAAGCGATAATAAATTCTCATGTAAATAAGTTTTTAATTCAATGACCAAAAGT
196 TCATCCAAGAACCAAGAGATAAAAAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGT
*
4529 TGTATACAAAATGACAAATTATGTAGACAAAATGATGTGATTTCCCAAGCATGGAATGTTCAGAA
261 TGTATACAAAATGACAAATTATGTAGACAAAATGATGCGATTTCCCAAGCATGGAATGTTCAGAA
* * * * *
4594 AATTGCTCGAGGGAATGGATTGTCCTAAATACTTTAAAGAACCGAAGTTATAGAAGAACTCATCA
326 AATTGCTCGAAGGAATGGATCGTCATAAATACTTTAAAGAACCAAAGTTATAAAAGAACTCATCA
* *** * *** * * * * * *
4659 AAGTTTGTCAAGTTTAGAAGTTCATCCAATTTCCAAGCGAGAAACAGTTCTCATGTAAATAAGTT
391 AACTACATCAAGTTCAGAAGTTCATCCAAGAACAAAGAGAGAAACAATTATCACGTAAATAAGAT
* *
4724 TTTCATTCAAAGACCAAAAGTTGTTTACCAAATGACAAATTGGGAAGTTCGTCCAAGAACCAAGA
456 TTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAATTGGGAAGTTCGTCCAAGAACCAAGA
4789 TAAA
521 TAAA
* * * * * * *
4793 AACATCTCTCACGTAAATTAGTTTTTCATTCA-AAGACCAAAAGTAGTTTAGAAAATGACAAAGT
1 AACAACTCTCACGCAAATAACTTTTTAATTCATAA-ACCAAAAGTAGTTTACAAAATGACAAACT
* * * * *
4857 ATTTAGACCAAATGATAAGATTTCCCGAGCATGGAATATTCAAAAAATTGCTCGAAGGAATGGAT
65 ATTTAGACCAAATAATAAGATTTCCCGAGAATAGAATATTCAAAAAATTACTCAAAGGAATGGAT
* * * * * * *
4922 TGTCCTGAATACTTTAA-GAAACCGAAGTTATTGAAGAACTTGTAAAAATTTGTCAAGTTTGGAA
130 TGTCATGAATACTTTAATG-AACCAAAGTTATAGAACAACTGGTAAAAATTTGTCAAGTTCGAAA
* *
4986 GTTCATCTAAGAACCAAGAGA-AAAACAACTCTCACGTAAATAGGTTTTTAATTCAAAGACCAAA
194 GTTCATCCAAGAACCAAGAGATAAAA-AACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * * *
5050 AGTTGTTTAGAAAATGAC-AATCTATTTAGACAAAATGATGCGATTTCTCATGCATGGAATGTTC
258 AGTTGTATACAAAATGACAAAT-TATGTAGACAAAATGATGCGATTTCCCAAGCATGGAATGTTC
* * * *
5114 -GAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTAAAGTTTTAAAAGAACT
322 AG-AAAATTGCTCGAAGGAATGGATCGTCATAAATACTTTAAAGAACCAAAGTTATAAAAGAACT
* *
5178 --TGCTAAACTACATCAAGTTCAGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTATGACGTAA
386 CAT-C-AAACTACATCAAGTTCAGAAGTTCATCCAAGAACAAAGAGAGAAACAATTATCACGTAA
* *
5241 ATAAGATTTTAATTTAAAGACCAAAATTTGTTTACAAAAT
449 ATAAGATTTTAATTCAAAGACCAAAAGTTGTTTACAAAAT
5281 AGCAAACTAT
Statistics
Matches: 404, Mismatches: 77, Indels: 14
0.82 0.16 0.03
Matches are distributed among these distances:
522 1 0.00
523 11 0.03
524 392 0.97
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (524 bp):
AACAACTCTCACGCAAATAACTTTTTAATTCATAAACCAAAAGTAGTTTACAAAATGACAAACTA
TTTAGACCAAATAATAAGATTTCCCGAGAATAGAATATTCAAAAAATTACTCAAAGGAATGGATT
GTCATGAATACTTTAATGAACCAAAGTTATAGAACAACTGGTAAAAATTTGTCAAGTTCGAAAGT
TCATCCAAGAACCAAGAGATAAAAAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGT
TGTATACAAAATGACAAATTATGTAGACAAAATGATGCGATTTCCCAAGCATGGAATGTTCAGAA
AATTGCTCGAAGGAATGGATCGTCATAAATACTTTAAAGAACCAAAGTTATAAAAGAACTCATCA
AACTACATCAAGTTCAGAAGTTCATCCAAGAACAAAGAGAGAAACAATTATCACGTAAATAAGAT
TTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAATTGGGAAGTTCGTCCAAGAACCAAGA
TAAA
Found at i:5459 original size:740 final size:740
Alignment explanation
Indices: 4026--5502 Score: 1844
Period size: 740 Copynumber: 2.0 Consensus size: 740
4016 TGTCAAGTTT
* *
4026 GGAAGTTCGTCTAAGAACCAAGAGAGAAACAACTCTCACATAAATAGGTTTTTAATTCAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAAAAACAACTCTCACATAAATAGGTTTTTAATTCAAAGACC
* * ** * * *
4091 AACAGTTGTTTAGAAAATGACAAACTATTTAAACATAATGATGCGATTTCCTATGCTTGGAATGT
66 AAAAGTAGTTTAGAAAATGACAAACTATTTAAACATAATGATAAGATTTCCGATGCATGGAATAT
* * *
4156 TCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAAC
131 TCAAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGAAACCGAAGTTTTAAAAGAAC
* * **
4221 TCGTAAAACTTCATCAAGTTCGGAAGCTCATCCAAGAATAAAGAGAGGAACAACTCTCACGCAAA
196 TCGTAAAAATTCATCAAGTTCGGAAGCTCATCCAAGAACAAAGAGAAAAACAACTCTCACGCAAA
* *
4286 TAACTTTTTAATTTATAAACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACTAAATAATGC
261 TAACTTTTTAATTCATAAACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATAATGC
* * * * * *
4351 TATTTCCCGAGAATAGAATGTTCGGAAAATTACTCAAAGTAATTGATTGTCATGAATACTTTAAT
326 GATTTCCCGAGAATAGAATGTTCGAAAAATTACTCAAAGGAATGGATCGTCATGAATACTTTAAG
* * * *** * * * * * *
4416 GAACCAAAGTTATAGAACAACTGGTAAAATTTTGTGAAGTTCGAAAGTTTATCCATGATCCAAGC
391 GAACCAAAGTTATAAAACAACTGCTAAAACTACATCAAGTTCGAAAGTTCATCCAAGAACAAAGA
* * * * *
4481 GATAATAAATTCTCATGTAAATAAGTTTTTAATTCAATGACCAAAAGTTGTATACAAAATGACAA
456 GAGAATAAATTATCACGTAAATAAGATTTTAATTCAAAGACCAAAAGTTGTATACAAAATGACAA
* * *
4546 ATTATGTAGACAAAATGATGTGATTTCCCAAGCATGGAATGTTCAGAAAATTGCTCGAGGGAATG
521 ACTATGTAGACAAAATGATGCGATTTCCCAAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATG
* * *
4611 GATTGTCCTAAATACTTTAAAGAACCGAAGTTATAGAAGAACTCATCAAAGTTTGTCAAGTTTAG
586 GATTGTCATAAATACTTTAAAGAACCGAAGTTATAGAAGAACTCATAAAAGTTTGTCAAGTTCAG
*** * ** *
4676 AAGTTCATCCAATTTCCAAGCGAGAAACAGTTCTCATGTAAATAAGTTTTTCATTCAAAGACCAA
651 AAGTTCATCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTCATTCAAAGACCAA
*
4741 AAGTTGTTTACCAAATGACAAATTG
716 AAGTTGTTTACAAAATGACAAATTG
* * * *
4766 GGAAGTTCGTCCAAGAACCAAGATAAAAACATCTCTCACGTAAATTA-GTTTTTCATTCAAAGAC
1 GGAAGTTCGTCCAAGAACCAAGAGAAAAACAACTCTCACATAAA-TAGGTTTTTAATTCAAAGAC
* *
4830 CAAAAGTAGTTTAGAAAATGACAAAGTATTTAGACCA-AATGATAAGATTTCCCGA-GCATGGAA
65 CAAAAGTAGTTTAGAAAATGACAAACTATTTA-AACATAATGATAAGATTT-CCGATGCATGGAA
* * *
4893 TATTCAAAAAATTGCTCGAAGGAATGGATTGTCCTGAATACTTTAAGAAACCGAAGTTATT-GAA
128 TATTCAAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGAAACCGAAGTT-TTAAAA
* ** * * * *
4957 GAACTTGTAAAAATTTGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAAACAACTCTCACG
192 GAACTCGTAAAAATTCATCAAGTTCGGAAGCTCATCCAAGAACAAAGAGAAAAACAACTCTCACG
* ** * *
5022 TAAATAGGTTTTTAATTCA-AAGACCAAAAGTTGTTTAGAAAATGACAATCTATTTAGACAAAAT
257 CAAATAACTTTTTAATTCATAA-ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAAT
* * * * * *
5086 GATGCGATTTCTC-ATGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATAC
321 AATGCGATTTCCCGA-GAATAGAATGTTCGAAAAATTACTCAAAGGAATGGATCGTCATGAATAC
* * * *
5150 TTTAAGGAACTAAAGTTTTAAAAGAACTTGCT-AAACTACATCAAGTTC-AGAAGTTCGTCCAAG
385 TTTAAGGAACCAAAGTTATAAAACAAC-TGCTAAAACTACATCAAGTTCGA-AAGTTCATCCAAG
* * * *
5213 AACAAAGAGAGAA-ACAATTATGACGTAAATAAGATTTTAATTTAAAGACCAAAATTTGTTTACA
448 AACAAAGAGAGAATA-AATTATCACGTAAATAAGATTTTAATTCAAAGACCAAAAGTTGTATACA
* * *
5277 AAAT-AGCAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATGTTCAGAACATTGCT
512 AAATGA-CAAACTATGTAGACAAAATGATGCGATTTCCCAAGCATGGAATGTTCAGAAAATTGCT
* * * * **
5341 TGAAGGAATGGATTGTCATGAATACTTTAAGGAA-CGAAAGTTATAGATGAACTGGTAAAAGTTT
576 CGAAGGAATGGATTGTCATAAATACTTTAAAGAACCG-AAGTTATAGAAGAACTCATAAAAGTTT
*
5405 -TCCAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTCA
640 GT-CAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTCA
* *
5469 TTGAAAGACCAAAAGTTGTTTAGAAAATGACAAA
704 TTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
5503 GTATGTAGAT
Statistics
Matches: 623, Mismatches: 102, Indels: 24
0.83 0.14 0.03
Matches are distributed among these distances:
739 9 0.01
740 601 0.96
741 13 0.02
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (740 bp):
GGAAGTTCGTCCAAGAACCAAGAGAAAAACAACTCTCACATAAATAGGTTTTTAATTCAAAGACC
AAAAGTAGTTTAGAAAATGACAAACTATTTAAACATAATGATAAGATTTCCGATGCATGGAATAT
TCAAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGAAACCGAAGTTTTAAAAGAAC
TCGTAAAAATTCATCAAGTTCGGAAGCTCATCCAAGAACAAAGAGAAAAACAACTCTCACGCAAA
TAACTTTTTAATTCATAAACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAATAATGC
GATTTCCCGAGAATAGAATGTTCGAAAAATTACTCAAAGGAATGGATCGTCATGAATACTTTAAG
GAACCAAAGTTATAAAACAACTGCTAAAACTACATCAAGTTCGAAAGTTCATCCAAGAACAAAGA
GAGAATAAATTATCACGTAAATAAGATTTTAATTCAAAGACCAAAAGTTGTATACAAAATGACAA
ACTATGTAGACAAAATGATGCGATTTCCCAAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATG
GATTGTCATAAATACTTTAAAGAACCGAAGTTATAGAAGAACTCATAAAAGTTTGTCAAGTTCAG
AAGTTCATCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTCATTCAAAGACCAA
AAGTTGTTTACAAAATGACAAATTG
Found at i:6002 original size:647 final size:648
Alignment explanation
Indices: 4767--6077 Score: 2000
Period size: 647 Copynumber: 2.0 Consensus size: 648
4757 GACAAATTGG
* * *
4767 GAAGTTCGTCCAAGAACCAAGATAAAAACATCTCTCACGTAAATTAGTTTTTCATTCAAAGACCA
1 GAAGTTCGTCCAAGAACCAAGAGAAAAACAACTCTCACGTAAATAAGTTTTTCATTCAAAGACCA
* *
4832 AAAGTAGTTTAGAAAATGACAAAGTATTTAGACCAAATGATAAGATTTCCCGAGCATGGAATATT
66 AAAGTAGTTTAGAAAATGACAAAGTATGTAGACCAAATGATAAGATTTCCCAAGCATGGAATATT
* *
4897 CAAAAAATTGCTCGAAGGAATGGATTGTCCTGAATACTTTAAGAAACCGAAGTTATTGAAGAACT
131 CAAAAAATTGCTCGAAGGAATGGATTGTCCTGAATACTCTAAGAAACCGAAGTTATAGAAGAACT
** ** *
4962 TGTAAAAATTTGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAAACAACTCTCACGTAAAT
196 CATAAAAAGATGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAAACAACTCTCACATAAAT
* *
5027 AGGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAATCTATTTAGACAAAATGATGCG
261 AGGATTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACAAAATGATGCG
* * * *
5092 ATTTCTCATGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGG
326 ATTTCCCATGCATGGAATGTTCGAAAAACTGCTCGAAGGAATGGATCATCATGAACACTTTAAGG
*
5157 AACTAAAGTTTTAAAAGAACTTGCTAAACTACATCAAGTTCAGAAGTTCGTCCAAGAACAAAGAG
391 AACTAAAGTTTTAAAAGAACTCGCTAAACTACATCAAGTTCAGAAGTTCGTCCAAGAACAAAGAG
* * * *
5222 AGAAACAATTATGACGTAAATAAGATTTTAATTTAAAGACCAAAATTTGTTTACAAAATAGCAAA
456 AGAAACAATTATCACGTAAAAAAGATTTTAATTTAAAGACCAAAAGTTGTTTACAAAATAGAAAA
* * *
5287 CTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATGTTCAGAACATTGCTTGAAGGAATGG
521 CAATTTAGACCAAATGATGCAATTTCCCAAGCATGGAATGTTCAGAACATTGCTTGAAGAAATGG
*
5352 ATTGTCATGAATACTTTAAGGAACGAAAGTTATAGATGAACTGGTAAAAGTTTTCCAAGTTCA
586 ATTGTCATGAATACTTTAAGGAACGAAAGTTATAGATGAACTCGTAAAAGTTTTCCAAGTTCA
* *
5415 GAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTCATTGAAAGACCA
1 GAAGTTCGTCCAAGAACCAAGAGAAAAACAACTCTCACGTAAATAAGTTTTTCATTCAAAGACCA
* * ** * *
5480 AAAGTTGTTTAGAAAATGACAAAGTATGTAGATCAAATGATGCGATTTCCCAAGTATGGAATGTT
66 AAAGTAGTTTAGAAAATGACAAAGTATGTAGACCAAATGATAAGATTTCCCAAGCATGGAATATT
* * * *
5545 CAAAAAATTGCTCTAAGGAATGTATTGTCTTGAATACTCTAAGAAATCGAAGTTATAGAAGAACT
131 CAAAAAATTGCTCGAAGGAATGGATTGTCCTGAATACTCTAAGAAACCGAAGTTATAGAAGAACT
* * * *
5610 CATAAAAGGATGTCAAGTTTGGAAGTTCGTCTAAGAACCAAGAGAGAAACAATTCTCACATAAAT
196 CATAAAAAGATGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAAACAACTCTCACATAAAT
* *
5675 A-GATTTTAATTCAAAGACCAAATGTTGTTTAGAAAATGACAAACTATTTAGACATAATGATGCG
261 AGGATTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACAAAATGATGCG
* * * *
5739 ATTTCCCGTGCTTGGATTGTTCGAAAAACTGCTCGACGGAATGGATCATCATGAACACTTTAAGG
326 ATTTCCCATGCATGGAATGTTCGAAAAACTGCTCGAAGGAATGGATCATCATGAACACTTTAAGG
* * * * * *
5804 AACTGAAGTTTTAAAAGAACTCG-TAAAACTTCGTCAAGTTCGGAAGTTCGTCCCAGAATAAAGA
391 AACTAAAGTTTTAAAAGAACTCGCT-AAACTACATCAAGTTCAGAAGTTCGTCCAAGAACAAAGA
* * *
5868 GGGAAACAATTCTCACGTAAAAAATATTTTAATTTAAAGACCAAAAGTTGTTTACAAAAT-GAAA
455 GAGAAACAATTATCACGTAAAAAAGATTTTAATTTAAAGACCAAAAGTTGTTTACAAAATAG-AA
* * *
5932 AACAATTTAGACCAAATGATGCAATTTCTCGAGCATGGAATGTTC-GAAATATTGCTTGAAGAAA
519 AACAATTTAGACCAAATGATGCAATTTCCCAAGCATGGAATGTTCAG-AACATTGCTTGAAGAAA
5996 TGGATTGTCATGAATACTTTAAGGAACGAAAGTTATAGATGAACTCGTAAAAGTTTTCCAAGTTC
583 TGGATTGTCATGAATACTTTAAGGAACGAAAGTTATAGATGAACTCGTAAAAGTTTTCCAAGTTC
6061 A
648 A
* *
6062 AAAGTTTGTCCAAGAA
1 GAAGTTCGTCCAAGAA
Statistics
Matches: 597, Mismatches: 63, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
646 3 0.01
647 361 0.60
648 233 0.39
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (648 bp):
GAAGTTCGTCCAAGAACCAAGAGAAAAACAACTCTCACGTAAATAAGTTTTTCATTCAAAGACCA
AAAGTAGTTTAGAAAATGACAAAGTATGTAGACCAAATGATAAGATTTCCCAAGCATGGAATATT
CAAAAAATTGCTCGAAGGAATGGATTGTCCTGAATACTCTAAGAAACCGAAGTTATAGAAGAACT
CATAAAAAGATGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAAACAACTCTCACATAAAT
AGGATTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACAAAATGATGCG
ATTTCCCATGCATGGAATGTTCGAAAAACTGCTCGAAGGAATGGATCATCATGAACACTTTAAGG
AACTAAAGTTTTAAAAGAACTCGCTAAACTACATCAAGTTCAGAAGTTCGTCCAAGAACAAAGAG
AGAAACAATTATCACGTAAAAAAGATTTTAATTTAAAGACCAAAAGTTGTTTACAAAATAGAAAA
CAATTTAGACCAAATGATGCAATTTCCCAAGCATGGAATGTTCAGAACATTGCTTGAAGAAATGG
ATTGTCATGAATACTTTAAGGAACGAAAGTTATAGATGAACTCGTAAAAGTTTTCCAAGTTCA
Done.