Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014741.1 Corchorus olitorius cultivar O-4 contig14774, 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: 90907
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Found at i:305 original size:21 final size:20
Alignment explanation
Indices: 280--338 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 20
270 GCTGCTCTAA
280 TAATCTCATCTGTACAGTTCC
1 TAATCTCATCTGTACAGTT-C
* *
301 TAATCTAATCTGTACAG-TG
1 TAATCTCATCTGTACAGTTC
*
320 TAATTTCATCTGTACAGTT
1 TAATCTCATCTGTACAGTT
339 GTTAAACAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 15 0.45
20 2 0.06
21 16 0.48
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (20 bp):
TAATCTCATCTGTACAGTTC
Found at i:330 original size:19 final size:20
Alignment explanation
Indices: 280--337 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
270 GCTGCTCTAA
280 TAATCTCATCTGTACAGTTCC
1 TAATCTCATCTGTACAG-TCC
* *
301 TAATCTAATCTGTACAGT-G
1 TAATCTCATCTGTACAGTCC
*
320 TAATTTCATCTGTACAGT
1 TAATCTCATCTGTACAGT
338 TGTTAAACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 16 0.48
20 1 0.03
21 16 0.48
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.40
Consensus pattern (20 bp):
TAATCTCATCTGTACAGTCC
Found at i:1165 original size:41 final size:40
Alignment explanation
Indices: 1098--1189 Score: 150
Period size: 41 Copynumber: 2.3 Consensus size: 40
1088 TCATTATAAT
*
1098 ATATCCTTTAAAAAAAATCCTTTAAAA-ATTACATTCTTAA
1 ATATCCTTCAAAAAAAATCCTTTAAAATA-TACATTCTTAA
1138 ATATCCTTCAAAAATAAATCCTTTAAAATATACATTCTTAA
1 ATATCCTTCAAAAA-AAATCCTTTAAAATATACATTCTTAA
1179 ATATCCTTCAA
1 ATATCCTTCAA
1190 CAATGGAGGA
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
40 13 0.27
41 35 0.71
42 1 0.02
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (40 bp):
ATATCCTTCAAAAAAAATCCTTTAAAATATACATTCTTAA
Found at i:2993 original size:332 final size:328
Alignment explanation
Indices: 2171--4325 Score: 2063
Period size: 324 Copynumber: 6.6 Consensus size: 328
2161 CCCCAGCTGA
* * ** * *
2171 ATTTTGCATGATTTTTGACGCAAAGACTTTTTGAAATATCTATATTCATCGAACCAAATCTTAGC
1 ATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGC
* * *
2236 CACATTGGACATAAAGATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGAGAA-T
66 CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA-AATT
* * * * * *
2300 AATTCGAGAAACAAAAT-GAAAAACGATATTAAAAGGGTG-AAAATCCCATCAATCTTTTTGGTG
130 AATTCG-GGAA-AAAATGGAAAAACGATATTAGAAGCGTGAAAAAT-CCTTCAATTTTTTTGGCG
* * **
2363 TTGAATTATAT-TTTTTT-TTAGTATTGTGGCAAAAATTTCA-GAAAAA-TATTT-TTTCAG---
192 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTTGAGGAAAAACT-TTTCGGTCAGTTT
* **
2420 GTC-AGTTTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGGGCTAAAAACGCGTTCC-AG
256 TTCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTT--GCTAAAAACGCGTTCCGA-
*
2483 GGCCCCGGA-TC
318 AGCCCC-GACTC
* * * *
2494 AGTTTTGTATGATTTTTGGCAGAAAGAATCCTTGAAATATCTATATTCATCTAACAAAAT-TCCA
1 A-TTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT-CA
* * *
2558 GCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTA-AGAA
64 GCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA-AA
* * * * *
2622 TAAATTCGGAAAAAAATGGAAAAACGATATTAAAAGCGTGAAAAATCATTCAATTTTTTTTAGCG
128 TTAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAATCCTTCAA-TTTTTTTGGCG
* * * *
2687 TTGAGTTATTTATTTTTTCGGACTATTGTGGCAAAAATTTGAGGAAAAACTTTTCGAGTCAGTTT
192 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTTGAGGAAAAACTTTTCG-GTCAGTTT
** * *
2752 TTCCAAAATTTTAGTTGAAATCGTGTACTAACCATCACTGCTTTTTGCTAAAAAACGCGTTCCTA
256 TT-CAAAATTTTAGCCGAAATCGTGTACTAACCATCAC-GATTTTTGCT-AAAAACGCGTTCCGA
2817 AGCCCCGACTC
318 AGCCCCGACTC
* * *
2828 ATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATAACTATATTCATCGAACCAAATCTTAGC
1 ATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGC
* *
2893 CACATTGGATATAAAGATTT-TTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGAAATTA
66 CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
* * * * * *
2957 ATTCGGGAAAAATTTGAAAAACGATATTAGAAGCGTGAAAAGTCCGTCAATATTTTTGGTGTTGA
131 ATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAATCCTTCAATTTTTTTGGCGTTGA
* * * *
3022 ATTATATATTTTTTCTGATTATTGTGGCAAAAATTTCA-GAAAATTATATTTTTGAGTCAG----
196 ATTATATATTTTTTCTGAGTATTGTGGCAAAAATTTGAGGAAAA--A-CTTTTCG-GTCAGTTTT
* **
3082 T-----TTTTAGCCGAAATCGTGTAGTAACCATCACGATTTTTGGGCTAAAAACGCGTTCCGGGG
257 TCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTT--GCTAAAAACGCGTTCCGAAG
3142 CCCCGGA-TC
320 CCCC-GACTC
* * *
3151 AGTTTTGCATGATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTAATCTAACAAAATCTCAG
1 A-TTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAG
* * *
3216 CCACATTGAAGT-TAAGTATTTGTTTTGACGAGCATCTGAATCTTGTTTCGATTTAATTA-AGAA
65 CCACATTGGA-TATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA-AA
* * * * *
3279 TAAATTCGGGAAAAAATGGAAAAAACGATATTAAAAGTGTGAAAAATCCTTCAATTTTTTTTGCA
128 TTAATTCGGGAAAAAATGG-AAAAACGATATTAGAAGCGTGAAAAATCCTTCAATTTTTTTGGCG
* *
3344 TTGAATTATATATTTTTTCTGACTATTGTGGTAAAAATTTGAGGAAAAACTTTTCGGTTCAGTTT
192 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTTGAGGAAAAACTTTTCGG-TCAGTTT
* ** * *
3409 TTATAAAATTTTAGCTAAAATCGTGTACTAACCATCACTATTTGTTGCTAAAAACGCGTTCCGGA
256 TT-CAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTT-TTGCTAAAAACGCGTTCCGAA
* *
3474 GCCCCGGCTTA
319 GCCCCGAC-TC
* * * ** * **
3485 ATTTTGCATGA-TTTTGGCGCAAAAAATCCTTTTAATATCTATATTCATCGAACCAAATCTCAAT
1 ATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGC
* * * * ** * *
3549 GACATTGGATATTAGGATTTG-TTTTACAAGTATCCAAATCTTGTTTCGATTCAATTAGAAATTT
66 CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
* * *
3613 ATTC-GGAAACAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCGTCAATATTTTTGGCG-TG
131 ATTCGGGAAA-AAATGGAAAAACGATATTAGAAGCGTGAAAAATCCTTCAATTTTTTTGGCGTTG
* * *
3676 CAATTATATATTTTTTCTGAGTGTTGTGGCAAAAAATTGAGAAAAAACTTTTC-G--AG----T-
195 -AATTATATATTTTTTCTGAGTATTGTGGCAAAAATTTGAGGAAAAACTTTTCGGTCAGTTTTTC
** * * ** * ** *
3733 AAGTTTTTAGCCAAAAT--AGT--TAA-C-TCAC-AGTTTTCACTAAAAACGCGTTTCGGGGCCT
259 AAAATTTTAGCCGAAATCGTGTACTAACCATCACGA-TTTTTGCTAAAAACGCGTTCCGAAGCCC
3791 CGACTC
323 CGACTC
* * * *
3797 AGTTTTGCATGATATTTGGCATAAAGACTCCTTG--ATATCTATATTCATCTAACCAAATTTCAT
1 A-TTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAG
* * ** * *
3860 CCACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTCTATCTTGTTTCGCTTTCATTAGAAATT
65 CCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT
* * * * **
3925 AATT-AGGAAAATATGAAAAAACGATATTAGAAGCGTGAAAAACCCTT-AATTTTTTTTACGTTG
130 AATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAATCCTTCAATTTTTTTGGCGTTG
**
3988 AATTATATATTTTTTCTGAGTATTGTGGCAAAGAA-TTGAGGAAAAAAATTTCGGATCAGTTTTA
195 AATTATATATTTTTTCTGAGTATTGTGGCAAA-AATTTGAGGAAAAACTTTTCGG-TCAGTTTT-
* * * * * * * *
4052 GCAAATTTTTAGCCGAAATCGTTTACT---CATCACGGTTTATGGCTAAAAACGCATTCCGGAGT
257 TCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTT-TTGCTAAAAACGCGTTCCGAAGC
*
4114 CCCGACTTA
321 CCCGAC-TC
** * * * *
4123 ATTTTGCATGATTTTTGGCGTAAA-ATCTCCTTGAAATATCTTTATTCATCGAACCAAATCCCAA
1 ATTTTGCATGATTTTTGGCACAAAGA-CTCCTTGAAATATCTATATTCATCTAACCAAATCTCAG
* * * * ** *
4187 CCAAATTTGAT-TAACGATTTATTTCAACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATT
65 CCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT
* * * ** * * *
4251 AATTC-GAAAAAAATGGAAAAATGATATTAGAAGCGTTAAAACCCCTTCAATCTTTTCGGAGTTG
130 AATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAATCCTTCAATTTTTTTGGCGTTG
4315 AATTATATATT
195 AATTATATATT
4326 CTTTATTAGT
Statistics
Matches: 1515, Mismatches: 234, Indels: 162
0.79 0.12 0.08
Matches are distributed among these distances:
311 55 0.04
312 82 0.05
313 76 0.05
314 22 0.01
315 3 0.00
316 3 0.00
318 2 0.00
320 14 0.01
321 15 0.01
322 12 0.01
323 87 0.06
324 228 0.15
325 112 0.07
326 183 0.12
327 68 0.04
328 2 0.00
329 8 0.01
330 95 0.06
331 89 0.06
332 143 0.09
333 123 0.08
334 84 0.06
335 9 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (328 bp):
ATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGC
CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
ATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAATCCTTCAATTTTTTTGGCGTTGA
ATTATATATTTTTTCTGAGTATTGTGGCAAAAATTTGAGGAAAAACTTTTCGGTCAGTTTTTCAA
AATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGCTAAAAACGCGTTCCGAAGCCCCGA
CTC
Found at i:3432 original size:657 final size:650
Alignment explanation
Indices: 2171--5561 Score: 3606
Period size: 657 Copynumber: 5.2 Consensus size: 650
2161 CCCCAGCTGA
* * ** *
2171 ATTTTGCATGATTTTTGACGCAAAGACTTTTTGAAATATCTATATTCATCGAACCAAATCTTAGC
1 ATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGC
* * *
2236 CACATTGGACATAAAGATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGAGAA-T
66 CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA-AATT
* * * * *
2300 AATTCGAGAAACAAAAT-GAAAAACGATATTAAAAGGGTGAAAA-TCCCATCAATCTTTTTGGTG
130 AATTCG-G-AA-AAAATGGAAAAACGATATTAGAAGCGTGAAAAGT-CCGTCAATATTTTTGGCG
* * *
2363 TTGAATTATAT-TTTTTTTTAGTATTGTGGCAAAAATTTCAGAAAAATATTTTTTCAGGTCAGTT
191 TTGAATTATATATTTTTTTGAGTATTGTGGCAAAAATTTAAG-AAAATATTTTTTGA-GTCAGTT
*
2427 TTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGGGCTAAAAACGCGTTCCAGGGCCCCGGA
254 TTTAGCCGAAATCGTGTACTAACCATCACGATTTTT-GGCTAAAAACGCGTTCCGGGGCCCC-GA
* *
2492 -TCAGTTTTGTATGATTTTTGGCAGAAAGAATCCTTGAAATATCTATATTCATCTAACAAAAT-T
317 CTCAGTTTTGCATGATTTTTGGCA-AAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCT
*
2555 CCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTA-A
381 -CAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * *
2619 GAATAAATTCGGAAAAAAATGGAAAAACGATATTAAAAGCGTGAAAAATCATTCAATTTTTTTTA
445 -AATAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTT-
* * * * *
2684 GCGTTGAGTTATTTATTTTTTCGGACTATTGTGGCAAAAATTTGAGGAAAAACTTTTCGAG-TCA
508 GCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTTGAGGAAAAACTTTTCG-GTTCA
* * *
2748 GTTTTTCCAAAATTTTAGTTGAAATCGTGTACTAACCATCACTGCTTTTTGCTAAAAAACGCGTT
572 GTTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCATCACTGGTTTTTGCT-AAAAACGCGTT
*
2813 CCTAAGCCCCGACTC
636 CCGAAGCCCCGACTC
* *
2828 ATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATAACTATATTCATCGAACCAAATCTTAGC
1 ATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGC
* *
2893 CACATTGGATATAAAGATTT-TTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGAAATTA
66 CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
* * *
2957 ATTCGGGAAAAATTTGAAAAACGATATTAGAAGCGTGAAAAGTCCGTCAATATTTTTGGTGTTGA
131 ATTC-GGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCGTCAATATTTTTGGCGTTGA
* *
3022 ATTATATATTTTTTCTGATTATTGTGGCAAAAATTTCAGAAAATTATATTTTTGAGTCAGTTTTT
195 ATTATATATTTTTT-TGAGTATTGTGGCAAAAATTTAAGAAAA-TAT-TTTTTGAGTCAGTTTTT
*
3087 AGCCGAAATCGTGTAGTAACCATCACGATTTTTGGGCTAAAAACGCGTTCCGGGGCCCCGGA-TC
257 AGCCGAAATCGTGTACTAACCATCACGATTTTT-GGCTAAAAACGCGTTCCGGGGCCCC-GACTC
*
3151 AGTTTTGCATGATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTAATCTAACAAAATCTCAG
320 AGTTTTGCATGATTTTTGGC-AAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAG
* * *
3216 CCACATTGAAGTTAAGTATTTGTTTTGACGAGCATCTGAATCTTGTTTCGATTTAATTA-AGAAT
384 CCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA-AAT
* * *
3280 AAATTCGGGAAAAAATGGAAAAAACGATATTAAAAGTGTGAAAAATCCTTCAATTTTTTTTGCAT
448 AAATTCGGGAAAAAATGG-AAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTTGCAT
* *
3345 TGAATTATATATTTTTTCTGACTATTGTGGTAAAAATTTGAGGAAAAACTTTTCGGTTCAGTTTT
512 TGAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTTGAGGAAAAACTTTTCGGTTCAGTTTT
* * * *
3410 TATAAAATTTTAGCTAAAATCGTGTACTAACCATCACT-ATTTGTTGCTAAAAACGCGTTCCGGA
577 TACAAAATTTTAGCTGAAATCGTGTACTAACCATCACTGGTTT-TTGCTAAAAACGCGTTCCGAA
* *
3474 GCCCCGGCTTA
641 GCCCCGAC-TC
* * * ** **
3485 ATTTTGCATGA-TTTTGGCGCAAAAAATCCTTTTAATATCTATATTCATCGAACCAAATCTCAAT
1 ATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGC
* * * * ** * *
3549 GACATTGGATATTAGGATTTG-TTTTACAAGTATCCAAATCTTGTTTCGATTCAATTAGAAATTT
66 CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
3613 ATTCGGAAACAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCGTCAATATTTTTGGCG-TGC
131 ATTCGGAAA-AAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCGTCAATATTTTTGGCGTTG-
* * * * * * *
3677 AATTATATATTTTTTCTGAGTGTTGTGGCAAAAAATTGAGAAAAAACTTTTCGAGTAAGTTTTTA
194 AATTATATATTTTTT-TGAGTATTGTGGCAAAAATTTAAGAAAATATTTTTTGAGTCAGTTTTTA
* * * ** * *
3742 GCCAAAAT--AGT--TAA-C-TCAC-AGTTTTCACTAAAAACGCGTTTCGGGGCCTCGACTCAGT
258 GCCGAAATCGTGTACTAACCATCACGATTTTTGGCTAAAAACGCGTTCCGGGGCCCCGACTCAGT
* * * *
3800 TTTGCATGATATTTGGCATAAAGACTCCTTG--ATATCTATATTCATCTAACCAAATTTCATCCA
323 TTTGCATGATTTTTGGCA-AAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAGCCA
* * ** * * *
3863 CTTTGGATTTAAGGATTTGTTTTTACGAGCATCTCTATCTTGTTTCGCTTTCATTAGAAATTAAT
387 CATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAAT
* * * * *
3928 T-AGGAAAATATGAAAAAACGATATTAGAAGCGTGAAAAACCCTT-AATTTTTTTTACGTTGAAT
452 TCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTTGCATTGAAT
** *
3991 TATATATTTTTTCTGAGTATTGTGGCAAAGAA-TTGAGGAAAAAAATTTCGGATCAG-TTTTAGC
517 TATATATTTTTTCTGAGTATTGTGGCAAA-AATTTGAGGAAAAACTTTTCGGTTCAGTTTTTA-C
* * * * * * *
4054 AAATTTTTAGCCGAAATCGTTTACT---CATCAC-GGTTTATGGCTAAAAACGCATTCCGGAGTC
580 AAAATTTTAGCTGAAATCGTGTACTAACCATCACTGGTTT-TTGCTAAAAACGCGTTCCGAAGCC
*
4115 CCGACTTA
644 CCGAC-TC
** * * *
4123 ATTTTGCATGATTTTTGGCGTAAA-ATCTCCTTGAAATATCTTTATTCATCGAACCAAATCCCAA
1 ATTTTGCATGATTTTTGGCACAAAGA-CTCCTTGAAATATCTATATTCATCGAACCAAATCTCAG
* * * * ** *
4187 CCAAATTTGAT-TAACGATTTATTTCAACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATT
65 CCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT
* * * ** * * * *
4251 AATTCGAAAAAAATGGAAAAATGATATTAGAAGCGTTAAAACCCCTTCAATCTTTTCGGAGTTGA
130 AATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCGTCAATATTTTTGGCGTTGA
* * * * * * *
4316 ATTATATA-TTCTTT-ATTAGTGTGGTAAAAAATTAAGAAAA-ATCTTTTGGGTCAGTTTTTAG-
195 ATTATATATTTTTTTGAGTATTGTGGCAAAAATTTAAGAAAATATTTTTTGAGTCAGTTTTTAGC
** * * * *
4377 C-----C--G----AA--ATCACGATTTTTGGCTAAAGGCGCGTTTCAGGGCCTCAACTCAGTTT
260 CGAAATCGTGTACTAACCATCACGATTTTTGGCTAAAAACGCGTTCCGGGGCCCCGACTCAGTTT
* ** *
4429 TGCATGATTTTTGGCGCAAAGACTCCTTGAAATAAGTATATTCATCTAACCAAATCTCAGCCACA
325 TGCATGATTTTTGGC-AAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAGCCACA
* * * * * * *
4494 TTGGATTTAAGGATTTGTTTTTACTAGTATTTGTATCTTGGTTCAATTTAATTAGAAATAAATTC
389 TTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTC
* * * *
4559 GGAAAAAAATGGAAAAACGATATTGGACGCGT-AAAAACCCTTCAATTTTTTTTGGCATTCAATT
454 GGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTT-GCATTGAATT
* * * *
4623 ATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAATAACTTTTCGGGTCAGTTTTTGCAAA
518 ATATATTTTTTCTGAGTATTGTGGCAAAAATTTGAGGAAAAACTTTTCGGTTCAGTTTTTACAAA
* *
4688 ATTTTAGCCGAAATCGTGTACTAACCATCA-TGGTCTTTTGCTAAAAACGCGTTCCGGAA-CCGC
583 ATTTTAGCTGAAATCGTGTACTAACCATCACTGGT-TTTTGCTAAAAACGCGTTCC-GAAGCCCC
4751 GACTC
646 GACTC
* * * *
4756 AATTTTGCATGCTTTTTGGCACAAAGACTCCTTGAAATATCTATATTTATCTAATCAAATCTCAG
1 -ATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAG
* * * * * *
4821 TCACATTAGATTTAAGGATTTGTTTTTACGAGTATCTGAATCCTGTTTCGATTTAATTAGAAATA
65 CCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT
* * ** * *
4886 AATTCAGAAAAAATGGAAAAATGATATTAGAAGCGTGAAAAACCCTTCAATA-TTTTGGCATTGA
130 AATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCGTCAATATTTTTGGCGTTGA
* *
4950 AATATATATTTTTTTTAGTATTGTGGCAAAAAATTGTGAA-AAAA-ATTTTGGGTT-AGTTTTTG
195 ATTATATATTTTTTTGAGTATTGTGGC-AAAAATT-T-AAGAAAATATTTT---TTGAG----T-
** * * * * *
5012 CAAAATTTTAGCCGAAATCGTATACTAACCATCATGGTCTTTT-GCTAAAAACGTGTTCCGGAGC
249 C-AGTTTTTAGCCGAAATCGTGTACTAACCATCACGAT-TTTTGGCTAAAAACGCGTTCCGGGGC
* * *
5076 CCCGACTCAATTTTGCATGATTTTTGCGC-AAAGACTCCTTGAAATAGCTATATTCATCGAACAA
312 CCCGACTCAGTTTTGCATGATTTTTG-GCAAAAGACTCCTTGAAATATCTATATTCATCTAACAA
* ** * * *
5140 AATCTTAGCCACATTGGAA-AGAAGGATTTATTTTTACGAGCATCTGAATCGTGTTTCGATTTGA
376 AATCTCAGCCACATT-GAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAA
* *
5204 TTAGAAATAAATTCGGGGAAAAAA-GGAAAAACGATATTAGAAGCGTGAAAAACTCGTCAATTTT
440 TTAGAAATAAATTC-GGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTT
* * * * * * *
5268 TTTGGCATTGAATTATATATCTTCTCTGAGTATTGTGCCAAAAAATTT-AGAAAAAATATTTTTG
504 TTTTGCATTGAATTATATATTTTTTCTGAGTATTGTGGC-AAAAATTTGAG-GAAAA-ACTTTTC
* *
5332 GGTT-AG----T------TTTTAGCTGAAATCGTGTACTAAACATCAC-AGTTTTTAGGCTAAAA
566 GGTTCAGTTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCATCACTGGTTTTT--GCTAAAA
* * *
5385 ACGCGTTTCGAGGCCCCGGCTC
629 ACGCGTTCCGAAGCCCCGACTC
* * * * * * *
5407 ACTTTTGCATGATTATTAGAAGAAAGATTCCTTGAAATATGTA-ATTCATCTAACCAAATCTCAG
1 A-TTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAG
* * * *
5471 CCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCCTGTTTCCATTTAATTAG-AATT
65 CCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT
*
5535 AAATTCGGAAAAAAAAGGAAAAACGAT
130 -AATTCGG-AAAAAATGGAAAAACGAT
5562 TATTCTAAGT
Statistics
Matches: 2335, Mismatches: 309, Indels: 186
0.83 0.11 0.07
Matches are distributed among these distances:
626 6 0.00
627 60 0.03
628 1 0.00
629 94 0.04
630 38 0.02
631 79 0.03
632 4 0.00
633 2 0.00
634 122 0.05
635 123 0.05
636 9 0.00
637 10 0.00
638 117 0.05
639 97 0.04
640 6 0.00
641 88 0.04
642 30 0.01
643 9 0.00
644 83 0.04
645 5 0.00
646 61 0.03
647 6 0.00
648 4 0.00
649 8 0.00
650 117 0.05
651 72 0.03
652 3 0.00
654 27 0.01
655 63 0.03
656 272 0.12
657 425 0.18
658 50 0.02
659 146 0.06
660 84 0.04
661 14 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (650 bp):
ATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGC
CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
ATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCGTCAATATTTTTGGCGTTGAA
TTATATATTTTTTTGAGTATTGTGGCAAAAATTTAAGAAAATATTTTTTGAGTCAGTTTTTAGCC
GAAATCGTGTACTAACCATCACGATTTTTGGCTAAAAACGCGTTCCGGGGCCCCGACTCAGTTTT
GCATGATTTTTGGCAAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAGCCACATT
GAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGG
GAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTTGCATTGAATTATA
TATTTTTTCTGAGTATTGTGGCAAAAATTTGAGGAAAAACTTTTCGGTTCAGTTTTTACAAAATT
TTAGCTGAAATCGTGTACTAACCATCACTGGTTTTTGCTAAAAACGCGTTCCGAAGCCCCGACTC
Found at i:6472 original size:932 final size:920
Alignment explanation
Indices: 4632--7470 Score: 2307
Period size: 975 Copynumber: 3.0 Consensus size: 920
4622 TATATATTTT
* * *
4632 TTCTGAGTATTGTGGCAAAAAATTGAGGAATAACTTTTCGGGTCAGTTTTTGCAAAATTTTAGCC
1 TTCTAAGTATTGTGGCAAAAAATTGAGAAATAACTTTCCGGGTCAGTTTTTGCAAAATTTTAGCC
* * * *
4697 GAAATCGTGTACTAACCATCATGGTCTTTTGCTAAAAACGCGTTCCGGAACCGCGACTCAATTTT
66 GAAAACGTGTACT----ATCACGGTCTTTTGCTAAAAACGCATTCCGGAACCCCGACTCAATTTT
* * * *
4762 GCATGCTTTTTGGCACAAAGACTCCTTGAAATATCTATATTTATCTAATCAAATCTCAGTCACAT
127 GCATGATTTTTGGCACAAAAACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCACAT
** * * * *
4827 TAGATTTAAGGATTTGTTTTTACGAGTATCTGAATCCTGTTTCGATTTAATTAGAAATAAATTCA
192 TAGATAAAAGGATATGTTTCTACGAGAATCTGAATCCTGTTTCGATTCAATTAGAAATAAATTCA
* *
4892 GAAAAAATGGAAAAATGATATTAGAAGCGTGAAAAACCCTTCAATATTTTGGCATTGAAATATAT
257 GAAAAAACGGAAAAATGATATTAGAAGCGTGAAAAACCCATCAATATTTTGGCATTGAAATATAT
* * *
4957 ATTTTTTTTAGTATTGTGGCAAAAAATTGTGAAAAAAATTTTGGGTTAGTTTTTGCAAAATTTTA
322 ATTTTTTTTAGTATTGTGGCAAAAAATTATGAAAAAAATTTTGAGCTAG---TT-----ATTTTA
* * * *
5022 GCCGAAATCGTATACTAACCATCATGGTCTTTTGCTAAAAACGTGTTCCGGAGCCCCGACTCAAT
379 GCCGAAATCGTATACTAACCATCACGATCTTTTGCTAAAAACGCGTTCCGGAGCCCAGACTCAAT
* *
5087 TTTGCATGATTTTTGCGCAAAGACTCCTTGAAATAGCTATATTCATCGAACAAAATCTTAGCCAC
444 TTTGCATAATTTTTACGCAAAGACTCCTTGAAATAGCTATATTCATCGAACAAAATCTTAGCCAC
* *
5152 ATTGGAAAGAAGGATTTATTTTTACGAGCATCTGAATCGTGTTTCGATTTGATTAGAAATAAATT
509 ATTGGAAAGAAGGATTTATTTTTACGAGCATCTGAATCGTGTTTCGATTTAATCAGAAATAAATT
* * *
5217 CGGGGAAAAAAGGAAAAACGATATTAGAAGCGTGAAAAACTCGTCAATTTTTTTGGCATTGAATT
574 CGGGAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAAACCCGTCAATTTTTTTGGCATTCAATT
* * * *
5282 ATATATCTTCTCTGAGTATTGTGCCAAAAAATTTAGAAAAAATATTTTTGGGTTAGTTTTTAGCT
639 ATATATCTTCTCTGAGTATTGTGCCAAAAAATTGAGAAAAAATATTTTCGGGTAAGTTTTTAGCC
* * * * *
5347 GAAATCGTGTACTAAACATCACAGTTTTTAGGCTAAAAACGCGTTTCGAGGCCCCGGCTCACTTT
704 GAAATCATATACTAAACATCACAGTTTTTAGGCTAAAAACGCGTTCCGAGACCCCGACTCACTTT
*
5412 TGCATGATTATTAGAAGAAAGATTCCTTGAAATATGTAATTCATCTAACCAAATCTCAGCCACAT
769 TGCATGATTATTAGAAGAAAGATTCCTTGAAATATCTAATTCATCTAACCAAATCTCAGCCACAT
* * *
5477 TAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCCTGTTTCCATTTAATTAGAATTAAATTCG
834 TAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCCATTAAATTAGAAATAAATTCG
5542 GAAAAAAAAGGAAAAACGATTA
899 GAAAAAAAAGGAAAAACGATTA
* *
5564 TTCTAAGTATTGTGGCAAAAAATTGAGAAATAACTTTCCGGGTCAGTTTTTTCAAAATTTTTGCC
1 TTCTAAGTATTGTGGCAAAAAATTGAGAAATAACTTTCCGGGTCAGTTTTTGCAAAATTTTAGCC
* *
5629 GAAAACTTGTAGGT-TCACGGT-TTTTGGCTAAAAACGCATTCC-GAAGCCCCGACTCAATTTTG
66 GAAAACGTGTA-CTATCACGGTCTTTT-GCTAAAAACGCATTCCGGAA-CCCCGACTCAATTTTG
* * * *
5691 CATGATTTTTGGCGCAAAAACTCCTTGAAATATCTATATTCAT-TGAACCAAATTTTAG-CTATA
128 CATGATTTTTGGCACAAAAACTCCTTGAAATATCTATATTCATCT-AACCAAATCTCAGTC-ACA
* * * * *
5754 TTGGATAAAAGTATATGTTTCTACGAGAATCTGAATCTTGTTTCGATTCAATTAGAATTTAATTC
191 TTAGATAAAAGGATATGTTTCTACGAGAATCTGAATCCTGTTTCGATTCAATTAGAAATAAATTC
* ** * ** *
5819 GGACAAAAACGGAAAAATGATATTAGAAGCGTGAAAAGTCCATCAATTTTCTTGGTGTTGAATTA
256 AGA-AAAAACGGAAAAATGATATTAGAAGCGTGAAAAACCCATCAATATT-TTGGCATTGAAATA
* * *
5884 TATTTTTTTTTCTGAGTATTTTGGCTAAAAATTCATGGAAAAAAATTTTGAGCTAG-T-TTTTAG
319 TATATTTTTTT-T-AGTATTGTGGCAAAAAATT-AT-GAAAAAAATTTTGAGCTAGTTATTTTAG
* * * * * ** *
5947 CTGAAATCGTGTATTAACCATCACGAT-TTTTGGCTGAAAACGCGTTTC-GATGTTCAGGCTCAA
380 CCGAAATCGTATACTAACCATCACGATCTTTT-GCTAAAAACGCGTTCCGGA-GCCCAGACTCAA
* ** *
6010 TTTTGCATAATTTTTTACAG-AAAGACTCCTTGAAATATCTATATTCATCTTACCAAATCTTAGC
443 TTTTGCATAA-TTTTTAC-GCAAAGACTCCTTGAAATAGCTATATTCATCGAACAAAATCTTAGC
* * * * *
6074 CACATTGGATATAAGGATTTGTTTTTACGAGTATCTGAATCTTGTTTCGATTTAATCAGAAATAA
506 CACATTGGAAAGAAGGATTTATTTTTACGAGCATCTGAATCGTGTTTCGATTTAATCAGAAATAA
* * *
6139 ATTC-GGAAAAAAATGGAAAAACGATATTAGATGCGT-AAAAACCCTTCAATTTTTTTTGCATTC
571 ATTCGGGAAAAAAA-GGAAAAACGATATTAGAAGCGTGAAAAACCCGTCAATTTTTTTGGCATTC
* * * * * *
6202 AATTATATAT-TTTTTTGAGTATTTTGCC-AAAAATTGAGGAATAA-CTTTTCGGGTAAGTTTTT
635 AATTATATATCTTCTCTGAGTATTGTGCCAAAAAATTGAGAAAAAATATTTTCGGGTAAG----T
*
6264 GCAAAATTTTAGCCGAAATCATATACT-AACTATCACGGTTTTT-GGCTAAAAACGCGTTCCG-G
696 ------TTTTAGCCGAAATCATATACTAAAC-ATCACAGTTTTTAGGCTAAAAACGCGTTCCGAG
* * * * * ** * *
6326 AACCGCGACTCAGTTTTGCATTATT-TTTGCCATG-AAGGCTCTTTTGAAATATCTATATTTATC
754 -ACCCCGACTCACTTTTGCATGATTATTAG--AAGAAAGATTC-CTTGAAATATCTA-ATTCATC
* * * * * *
6389 TAATCAAATCTTAGCCACATTAGATTTAAGTATTTGTTTTTACGAGTATCTGAATTATGTTTCGA
814 TAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCCA
* *
6454 TTAAATTAGAAATAAATTCGGAAAAAAATGGAAAAATGA-TA
879 TTAAATTAGAAATAAATTCGGAAAAAAAAGGAAAAACGATTA
* *
6495 TTAGAAGCGTGAAAAACCCTTCAATATTTTGGCATTGAAATATATTTTTTTTAGTATTGTGGCAA
1 TT-----C-T-----A------AGTATTGTGGCA---AAA-A-A------TT-G-A-----G---
* ** * *
6560 AAATTGTGGAAAAATTTTTGGGTCAGTTTTTGCAAAATTTTAGCCGAAATCGTGTCTTAACCATC
28 AAA---T----AACTTTCCGGGTCAGTTTTTGCAAAATTTTAGCCGAAAACGTG---T-ACTATC
* * * * * * *
6625 ATGGTCTTTTGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTTT-GCGCATAG
82 ACGGTCTTTTGCTAAAAACGCATTCCGGAACCCCGACTCAATTTTGCATGATTTTTGGCACAAAA
* ** * * * *
6689 ACTCCTTGAAATATCTATATTCATC-GACCAAAATCTTTGCCACATTGGA-AATAAGGATTTATT
147 ACTCCTTGAAATATCTATATTCATCTAACC-AAATCTCAGTCACATTAGATAA-AAGGATATGTT
* * ** * * *
6752 T-TACGAGCATCTGAATCTTGTTTCGATTTGATTAGAAATAAATTCGGAAAAAAAGGAAAAACGA
210 TCTACGAGAATCTGAATCCTGTTTCGATTCAATTAGAAATAAATTCAGAAAAAACGGAAAAATGA
* * * * * * *
6816 TATTAGAAGCGTGAAAAACTCGTCAATCTTTTTGGCATTGAATTATATATCTTCTCTGAGTATTG
275 TATTAGAAGCGTGAAAAACCCATCAAT-ATTTTGGCATTGAAATATATAT-TTTTTTTAGTATTG
* * * * * *
6881 TGGCAAAAAATTAAGGAAAAAAATTTCGGGTTAG-T-TTTTAGCTGAAATCGTGTACTAACCATC
338 TGGCAAAAAATT-ATGAAAAAAATTTTGAGCTAGTTATTTTAGCCGAAATCGTATACTAACCATC
* * * * * * * * *
6944 ATGGT-TTTTAGGCTAAAAACGTGTTTC-GAGGCCCCGACTCATTTTTGCATGATTATTA-GAAG
402 ACGATCTTTT--GCTAAAAACGCGTTCCGGA-GCCCAGACTCAATTTTGCATAATTTTTACG--C
* * * * * ***
7006 AAAGATTTCTTGAAATA--TATAATTCATCTAACTAAATCTCAGCCACATTGGATTTAAGGATTT
462 AAAGACTCCTTGAAATAGCTAT-ATTCATCGAACAAAATCTTAGCCACATTGGAAAGAAGGATTT
** * * * * * * *
7069 GGTTTTACGAGAATCTGAATCCTGTTTCCATTTAATTAGAATTAAATCCGGAAAAAAAAATGGAA
526 ATTTTTACGAGCATCTGAATCGTGTTTCGATTTAATCAGAAATAAATTCGG-GAAAAAAA-GGAA
* * * ** * * * * *
7134 AAACGATATTAGAAGCATGAAAAACCCTTCAATTTATTTGGTGTTGAAGTACATATTTTTTCTGA
589 AAACGATATTAGAAGCGTGAAAAACCCGTCAATTTTTTTGGCATTCAATTATATATCTTCTCTGA
* * * * * * * ** ** *
7199 GTATTGTGGCAAAAAATTGAGAAATAA-CTTTCCGGGTCAGTTTTT--TCAAAATTTTAGCCGAA
654 GTATTGTGCCAAAAAATTGAGAAAAAATATTTTCGGGTAAGTTTTTAGCCGAAATCATATAC-TA
* * * * *
7261 AACGTGTAGGTTTACGGTTTTT-GGCTAAAAACGCGTTTCGA-AGCCTCGACTCAATTTTGCATG
718 AAC----A---TCACAGTTTTTAGGCTAAAAACGCGTTCCGAGA-CCCCGACTCACTTTTGCATG
* ** * * * * * *
7324 ATT-TTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATTTTAGCCATATTGGA
775 ATTATTAGAAG-AAAGATTCCTTGAAATATCTA-ATTCATCTAACCAAATCTCAGCCACATTAGA
* * * * * * * * *
7388 TATAAGAATTTGTTTTTACGAGCAACTGAATCTTGTTTCGATTCAATTAGAATTTAATTTGGAAA
838 TTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCCATTAAATTAGAAATAAATTCGG-AA
*
7453 AAAGAAAAGAAAAACGAT
902 AAA-AAAGGAAAAACGAT
7471 ATTAGAAGCG
Statistics
Matches: 1554, Mismatches: 238, Indels: 184
0.79 0.12 0.09
Matches are distributed among these distances:
921 10 0.01
922 13 0.01
923 21 0.01
924 99 0.06
925 130 0.08
926 1 0.00
927 9 0.01
928 143 0.09
929 45 0.03
930 66 0.04
931 47 0.03
932 185 0.12
933 2 0.00
934 17 0.01
936 1 0.00
937 1 0.00
942 1 0.00
948 10 0.01
951 3 0.00
952 1 0.00
953 1 0.00
959 2 0.00
960 1 0.00
961 1 0.00
966 1 0.00
968 8 0.01
969 3 0.00
970 7 0.00
972 1 0.00
973 3 0.00
974 4 0.00
975 227 0.15
976 166 0.11
977 91 0.06
978 84 0.05
979 69 0.04
980 74 0.05
981 6 0.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (920 bp):
TTCTAAGTATTGTGGCAAAAAATTGAGAAATAACTTTCCGGGTCAGTTTTTGCAAAATTTTAGCC
GAAAACGTGTACTATCACGGTCTTTTGCTAAAAACGCATTCCGGAACCCCGACTCAATTTTGCAT
GATTTTTGGCACAAAAACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCACATTAGA
TAAAAGGATATGTTTCTACGAGAATCTGAATCCTGTTTCGATTCAATTAGAAATAAATTCAGAAA
AAACGGAAAAATGATATTAGAAGCGTGAAAAACCCATCAATATTTTGGCATTGAAATATATATTT
TTTTTAGTATTGTGGCAAAAAATTATGAAAAAAATTTTGAGCTAGTTATTTTAGCCGAAATCGTA
TACTAACCATCACGATCTTTTGCTAAAAACGCGTTCCGGAGCCCAGACTCAATTTTGCATAATTT
TTACGCAAAGACTCCTTGAAATAGCTATATTCATCGAACAAAATCTTAGCCACATTGGAAAGAAG
GATTTATTTTTACGAGCATCTGAATCGTGTTTCGATTTAATCAGAAATAAATTCGGGAAAAAAAG
GAAAAACGATATTAGAAGCGTGAAAAACCCGTCAATTTTTTTGGCATTCAATTATATATCTTCTC
TGAGTATTGTGCCAAAAAATTGAGAAAAAATATTTTCGGGTAAGTTTTTAGCCGAAATCATATAC
TAAACATCACAGTTTTTAGGCTAAAAACGCGTTCCGAGACCCCGACTCACTTTTGCATGATTATT
AGAAGAAAGATTCCTTGAAATATCTAATTCATCTAACCAAATCTCAGCCACATTAGATTTAAGGA
TTTGTTTTTACGAGCATCTGAATCATGTTTCCATTAAATTAGAAATAAATTCGGAAAAAAAAGGA
AAAACGATTA
Found at i:6855 original size:324 final size:325
Alignment explanation
Indices: 5569--9105 Score: 3092
Period size: 324 Copynumber: 10.8 Consensus size: 325
5559 GATTATTCTA
* * *
5569 AGTATTGTGGCAAAAAATTGA-GAAATAACTTTCCGGGTCAGTTTTTTCAAAATTTTTGCCGAAA
1 AGTATTGTGGCAAAAAATTGAGGAAA-AA-TTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAA
* * *** * * * *
5633 AC-T-TGT-AGGTTCACGGTTTTTGGCTAAAAACGCATTCCGAAGCCCCGACTCAATTTTGCATG
64 TCGTGTCTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATG
* * * * *
5695 ATTTTTGGCGCAAAAACTCCTTGAAATATCTATATTCATTGAACCAAATTTTAGCTATATTGGAT
129 ATTTTT-GCGCAAAGACTCCTTGAAATATCTATATTCATCG-ACCAAATCTTAGCCACATTGGAT
* * * * * * * * *
5760 AAAAGTATATGTTTCTACGAGAATCTGAATCTTGTTTCGATTCAATTAGAATTTAATTCGGACAA
192 ATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAA
* * ** * * *
5825 AAACGGAAAAATGATATTAGAAGCGTGAAAAGTCCATCAATTTTCTTGGTGTTGAATTATATTTT
257 AAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTT-TTGGCGTTGAA-TATA-TAT
5890 TTTTTCTG
319 TTTTT-TG
* * * * *
5898 AGTATTTTGGCTAAAAATTCATGGAAAAAAATTTT-GAG-CTAG----T------TTTTAGCTGA
1 AGTATTGTGGCAAAAAATTGA-GG--AAAAATTTTCGGGTC-AGTTTTTGCAAAATTTTAGCCGA
* * * ** *
5951 AATCGTGTATTAACCATCACGATTTTTGGCTGAAAACGCGTTTC-GATGTTCAGGCTCAATTTTG
62 AATCGTGT-CTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGA-GCCCCGGCTCAATTTTG
* * *
6015 CATAATTTTTTACAG-AAAGACTCCTTGAAATATCTATATTCATCTTACCAAATCTTAGCCACAT
125 CATGA-TTTTTGC-GCAAAGACTCCTTGAAATATCTATATTCATC-GACCAAATCTTAGCCACAT
* *
6079 TGGATATAAGGATTTGTTTTTACGAGTATCTGAATCTTGTTTCGATTTAATCAGAAATAAATTCG
187 TGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCG
* * * *
6144 GAAAAAAATGGAAAAACGATATTAGATGCGT-AAAAACCCTTCAATTTTTTTTGCATTCAATTAT
252 GAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAA-TTTTTTGGCGTTGAA-TAT
6208 ATATTTTTTTG
315 ATATTTTTTTG
* * * *
6219 AGTATT-TTGCCAAAAATTGAGGAATAACTTTTCGGGTAAGTTTTTGCAAAATTTTAGCCGAAAT
1 AGTATTGTGGCAAAAAATTGAGGAA-AAATTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAAT
* * * * * * * * *
6283 CATATACTAACTATCACGGTTTTTGGCTAAAAACGCGTTCCGGAACCGCGACTCAGTTTTGCATT
65 CGTGT-CTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATG
* * * * * *
6348 ATTTTTGC-CATGAAGGCTCTTTTGAAATATCTATATTTATCTAATCAAATCTTAGCCACATTAG
129 ATTTTTGCGCA--AAGACTC-CTTGAAATATCTATATTCATC-GACCAAATCTTAGCCACATTGG
* * * *
6412 ATTTAAGTATTTGTTTTTACGAGTATCTGAAT-TATGTTTCGATTAAATTAGAAATAAATTCGGA
190 ATATAAGGATTTGTTTTTACGAGCATCTGAATCT-TGTTTCGATTTAATTAGAAATAAATTCGGA
* * *
6476 AAAAAATGGAAAAATGATATTAGAAGCGTGAAAAACCCTTCAATATTTTGGCATTGAA-ATATAT
254 AAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTGGCGTTGAATATATAT
*
6540 TTTTTTT
319 TTTTTTG
* *
6547 AGTATTGTGGC-AAAAATTGTGGAAAAATTTTTGGGTCAGTTTTTGCAAAATTTTAGCCGAAATC
1 AGTATTGTGGCAAAAAATTGAGGAAAAATTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAATC
* *
6611 GTGTCTTAACCATCATGGTCTTTT-GCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATG
66 GTGTC-TAACCATCACGGT-TTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATG
* * *
6675 ATTTTTGCGCATAGACTCCTTGAAATATCTATATTCATCGACCAAAATCTTTGCCACATTGGAAA
129 ATTTTTGCGCAAAGACTCCTTGAAATATCTATATTCATCGACC-AAATCTTAGCCACATTGGATA
* *
6740 TAAGGATTT-ATTTTACGAGCATCTGAATCTTGTTTCGATTTGATTAGAAATAAATTCGGAAAAA
193 TAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAA
* * *
6804 AA-GGAAAAACGATATTAGAAGCGTGAAAAACTCGTCAATCTTTTTGGCATTGAATTATATATCT
258 AATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAAT-TTTTTGGCGTTGAA-TATATAT-T
* *
6868 TCTCTG
320 TTTTTG
* * * *
6874 AGTATTGTGGCAAAAAATTAAGGAAAAAAATTTCGGGTTAG----T------TTTTAGCTGAAAT
1 AGTATTGTGGCAAAAAATTGAGG-AAAAATTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAAT
* * * *
6929 CGTGTACTAACCATCATGGTTTTTAGGCTAAAAACGTGTTTC-GAGGCCCCGACTCATTTTTGCA
65 CGTGT-CTAACCATCACGGTTTTT-GGCTAAAAACGCGTTTCGGA-GCCCCGGCTCAATTTTGCA
* * * * * * * *
6993 TGATTATTAGAAG-AAAGATTTCTTGAAATATATA-ATTCATCTAACTAAATCTCAGCCACATTG
127 TGATT-TTTG-CGCAAAGACTCCTTGAAATATCTATATTCATC-GACCAAATCTTAGCCACATTG
* * * * * * *
7056 GATTTAAGGATTTGGTTTTACGAGAATCTGAATCCTGTTTCCATTTAATTAGAATTAAATCCGGA
189 GATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGG-
* * *
7121 AAAAAAAATGGAAAAACGATATTAGAAGCATGAAAAACCCTTCAATTTATTTGGTGTTGAAGTAC
253 -AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTT-TTTGGCGTTGAA-TAT
7186 ATATTTTTTCTG
315 ATATTTTTT-TG
* *
7198 AGTATTGTGGCAAAAAATTGA-GAAATAACTTTCCGGGTCAGTTTTTTCAAAATTTTAGCCGAAA
1 AGTATTGTGGCAAAAAATTGAGGAAA-AA-TTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAA
* *** * * * *
7262 ACGTG--T-AGGTTTACGGTTTTTGGCTAAAAACGCGTTTCGAAGCCTCGACTCAATTTTGCATG
64 TCGTGTCTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATG
* *
7324 ATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATTTTAGCCATATTGGAT
129 ATTTTT-GCGCAAAGACTCCTTGAAATATCTATATTCATCG-ACCAAATCTTAGCCACATTGGAT
* * * * * *
7389 ATAAGAATTTGTTTTTACGAGCAACTGAATCTTGTTTCGATTCAATTAGAATTTAATTTGGAAAA
192 ATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGG-AAA
** ** * * *
7454 AAGAAAAGAAAAACGATATTAGAAGCGT-AAAATGTCCATCAATATTCTTGGTGTTGAAT-TGAA
256 AA-AATGGAAAAACGATATTAGAAGCGTGAAAA-ACCCTTCAAT-TTTTTGGCGTTGAATAT--A
7517 TATTTTTTCTG
316 TATTTTTT-TG
* ** * * * *
7528 AGTATTG-GGACAAAAAATTCATGG-AATTTTTTTGAGTAAGTTTTT-----A---T--CTGAAA
1 AGTATTGTGG-CAAAAAATTGA-GGAAAAATTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAA
* * * * * * *
7581 TCGTGTACTAACCATCACGATTTTTTTGCTGAAAACGCGTTTTGGTGTCCCGGCTCAGTTTTGCA
64 TCGTGT-CTAACCATCACG-GTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCA
* * * * * * *
7646 TAATTTTTG-GAAGAAAGACTCCTTGATATATCTATATTCAACTAACCAAATATCAGCCACATTG
127 TGATTTTTGCG--CAAAGACTCCTTGAAATATCTATATTCATC-GACCAAATCTTAGCCACATTG
* * *
7710 GATTTAAGGATTTGATTTTACGAGCATCTGAATCTTGTGTCGATTTAATTAGAAATAAATTCGGA
189 GATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGG-
* *
7775 AAAAAAAATGGAAAAACGATATTAGAAGCAG-GAAAAACCCTTCAATTTATTTGGTGTGGAATTA
253 -AAAAAAATGGAAAAACGATATTAGAAGC-GTGAAAAACCCTTCAATTT-TTTGGCGTTGAA-TA
*
7839 CATATTTTTTCTG
314 TATATTTTTT-TG
* * * *
7852 AGTATTGTGGCAAAAAATTGA-GAAAAA-TCT-GGGTCAGTTTTGGCAAAATGTTAGCCGAAAAC
1 AGTATTGTGGCAAAAAATTGAGGAAAAATTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAATC
*** * **
7914 GTG--T-AGGTTCACGGTTTTTGGCTAAAGACGCGTTTCAAAGCCCCGGCTCAATTTTGCATGAT
66 GTGTCTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATGA-
* * *
7976 TTTTTGGCGCAAGGACTCCTTGAAATAGCTATATTCATCGAACCAAATCTCAGCCACATTGGATA
130 TTTTT-GCGCAAAGACTCCTTGAAATATCTATATTCATCG-ACCAAATCTTAGCCACATTGGATA
*
8041 TAA-GATTT-TTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAGAA
193 TAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAA
* ** *
8104 AATGGAAAAACAATATTAGAAGCGTGAAAAACTGTTCAATTTATTTGGCGTTGAATTAAATATTT
258 AATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTT-TTTGGCGTTGAA-TATATATTT
**
8169 TCCTG
321 TTTTG
* * * ** * * *
8174 AGTATTGTGGTAAAAAAATGAGGAAAACTTTTCGAATAAGTTTTTGCAATATTTTAGCCGAAAAC
1 AGTATTGTGGCAAAAAATTGAGGAAAAATTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAATC
*** * * * *** *
8239 GTG--T-AGGTTCACGGTATTTGGCTAAAAACGCGTTCCGAAATGCCGACTCAATTTTGCATGAT
66 GTGTCTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATGAT
** * * * * * *
8301 TTAAGACACAAAGACTCCTTGAAATATCTATGTTCATCGAACCAAATGTTAGTCATACTGGATAT
131 TTTTG-CGCAAAGACTCCTTGAAATATCTATATTCATCG-ACCAAATCTTAGCCACATTGGATAT
* * * * *
8366 AAGGATTTGTGTTTACGAGAATCTGAATCTTGTTTCGATTCAATTAGAAATTAATTCGGTAAAAA
194 AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAA
* * *
8431 ATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTCTTGGCGTTGAATTATATATTTT
259 ATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAAT-TTTTTGGCGTTGAA-TATATATTTT
8496 TTCTG
322 TT-TG
* * ** * * * * **
8501 AGT-GT-TGGCAAATAATTCCTGGAAAAATATT----T---TTCTAGTAAGTTTTTAGCCGAAAT
1 AGTATTGTGGCAAAAAATT-GAGGAAAAATTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAAT
* * * * * * *
8557 CATGTACTAACCATCATGATTTTTGGC-AAAAACGTGCTTCGGTATCCCGGTGTCCCGGCTCAGT
65 CGTGT-CTAACCATCACGGTTTTTGGCTAAAAAC--G---C-GT-T-TCGGAGCCCCGGCTCAAT
* * *
8621 TTTGCATAATTTTTG-GCAAAAAAAGACTCCTTGAAATATCTA-ATTCATCTAACCAAATCTCAG
121 TTTGCATGATTTTTGCGC----AAAGACTCCTTGAAATATCTATATTCATC-GACCAAATCTTAG
* *
8684 CCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATA
181 CCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATA
* * * * *
8749 AATTCAGAAAAAAATGGAAAAACGATATTAGATGCGT-AAAAACCCTTCAATTTTTTTTGCATTC
246 AATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAA-TTTTTTGGCGTTG
8813 AATTATATATTTTTTCTG
310 AA-TATATATTTTTT-TG
* * * *
8831 AGTATTGTTGCAAAAAATTGAGGAAAAACTTTTCGGGTTAGTTTTTGCAAAGTTTTAGCCGAAAA
1 AGTATTGTGGCAAAAAATTGAGGAAAAA-TTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAAT
* *** * * * *
8896 CATG--T-AGGTTCACGGTTTTTGTCTAAAAACGCGTTTCGAAAG-CCTGGCTCAATTTTGTATG
65 CGTGTCTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCG-GAGCCCCGGCTCAATTTTGCATG
* **
8957 ATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTTAGCCGTATTGGAT
129 ATTTTT-GCGCAAAGACTCCTTGAAATATCTATATTCATC-GACCAAATCTTAGCCACATTGGAT
* * * * *
9022 ATAAGGATTTGTTTCTACGAGCATCTGAATCTTGTATCGATTCAATTAGAAATTAATTCGAAAAA
192 ATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCG-GAAA
9087 AAAATGGAAAAACGATATT
256 AAAATGGAAAAACGATATT
9106 TATGTAGAAT
Statistics
Matches: 2619, Mismatches: 431, Indels: 317
0.78 0.13 0.09
Matches are distributed among these distances:
317 2 0.00
318 10 0.00
319 68 0.03
320 92 0.04
321 84 0.03
322 47 0.02
323 164 0.06
324 586 0.22
325 207 0.08
326 192 0.07
327 259 0.10
328 105 0.04
329 192 0.07
330 366 0.14
331 147 0.06
332 37 0.01
333 3 0.00
334 16 0.01
335 12 0.00
336 8 0.00
339 22 0.01
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (325 bp):
AGTATTGTGGCAAAAAATTGAGGAAAAATTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAATC
GTGTCTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATGAT
TTTTGCGCAAAGACTCCTTGAAATATCTATATTCATCGACCAAATCTTAGCCACATTGGATATAA
GGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAT
GGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTGGCGTTGAATATATATTTTTTTG
Found at i:7730 original size:975 final size:964
Alignment explanation
Indices: 5676--10159 Score: 3810
Period size: 975 Copynumber: 4.6 Consensus size: 964
5666 ATTCCGAAGC
* * * * *
5676 CCCGACTCAATTTTGCATGATTTTTGGCGCAAAAACTCCTTGAAATATCTATATTC-ATTGAACC
1 CCCGGCTCAATTTTGCATAATTTTTGGAG-AAAGACTCCTTGAAATATCTATATTCAACT-AACC
* * * * * * * * *
5740 AAATTTTAGCTATATTGGATAAAAGTATATG-TTTCTACGAGAATCTGAATCTTGTTTCGATTCA
64 AAATATCAGCCACATTGGATATAAGGATTTGATTT-TACGAGCATCTGAATCTTGTTTCGATTTA
* * * * * ** *
5804 ATTAGAATTTAATTCGGACAAAAACGGAAAAATGATATTAGAAGCGTGAAAAGTCCATCAATTTT
128 ATTAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTT
** * * * * *
5869 CTTGGTGTTGAATTATATTTTTTTTTCTGAGTATTTTGGCTAAAAATTCATGGAAAAAAATTTTG
193 -TTGGCATTGAATTATA-TATTTTTTCTGAGTATTGTGGCAAAAAATT-AAGGAAAAAAATTTCG
* * * * * *
5934 AGCTAGTTTTTAGCTGAAATCGTGTATTAACCATCACGATTTTTGGCTGAAAACGCGTTTCGATG
255 GGTTAGTTTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGAAG
** * * * * *
5999 TTCAGGCTCAATTTTGCATAATTTTTTA-CAGAAAGACTCCTTGAAATATCTATATTCATCTTAC
320 CCCCGGCTCAATTTTGCATGA-TTTTTAGAAGAAAGACTCCTTGAAATATATA-ATTCATCTAAC
* *
6063 CAAATCTTAGCCACATTGGATATAAGGATTTGTTTTTACGAGTATCTGAATCTTGTTTCGATTTA
383 CAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGAATCTGAATCTTGTTTCGATTTA
* * *
6128 ATCAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGATGCGT-AAAAACCCTTCAATTTT
448 ATTAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTA
* * * * * *
6192 TTTTGCATTCAATTATATATTTTTT-TGAGTATT-TTGCCAAAAATTGAGGAATAACTTTTCGGG
513 TTTGGCGTTGAATTAAATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAATAACTTTTCGGG
* * * *
6255 TAAGTTTTTGCAAAATTTTAGCCGAAATCATATA-CTAACTATCACGGTTTTTGGCTAAAAACGC
578 TAAGTTTTTGCAAAATTTTAGCCGAAAACGTGTAGGT---T-T-ACGGTTTTTGGCTAAAAACGC
* * * *
6319 GTTCCGGAA-CCGCGACTCAGTTTTGCATTATTTTT-GCCATGAAGGCTCTTTTGAAATATCTAT
638 GTTCC-GAAGCC-CGACTCAATTTTGCATGATTTTTGGCCA--AAGACTC-CTTGAAATATCTAT
* * * * * * * *
6382 ATTTATCTAATCAAATCTTAGCCACATTAGATTTAAGTATTTGTTTTTACGAGTATCTGAAT-TA
698 ATTCATCGAACCAAATCTTAGCCATATTGGATATAAGAATTTGTTTTTACGAG-AACTGAATCT-
* * * *
6446 TGTTTCGATTAAATTAGAAATAAATTCGGAAAAAAATGGAAAAATGATATTAGAAGCGTGAAAAA
761 TGTTTCGATTCAATTAGAAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAG
* * * * *
6511 CCCTTCAATATT-TTGGCATTGAAAT-ATATTTTTT-TTAGTATTGTGGC-AAAAATT-GTGGAA
826 CCCATCAATATTCTTGGCGTTGAATTAATATTTTTTCTGAGTATTG-GGCAAAAAATTCATGGAA
** * * * *
6571 AAATTTTTGGGTCAGTTTTTGCAAAATTTTAGCCGAAATCGTGT-CTTAACCATCATGGTCTTTT
890 ATTTTTTTGAGTAAGTTTTT-----A---T--CCGAAATCGTGTAC-TAACCATCATGATTTTTT
** * *
6635 GCTAAAAACGCGTTCCGGAGC
944 GCTAAAAACGCGTTTTGGTGT
* * * * *
6656 CCCGGCTCAATTTTGCATGATTTTTGCG-CATAGACTCCTTGAAATATCTATATTCATC-GACCA
1 CCCGGCTCAATTTTGCATAATTTTTG-GAGAAAGACTCCTTGAAATATCTATATTCAACTAACCA
* * *
6719 AA-ATCTTTGCCACATTGGAAATAAGGATTT-ATTTTACGAGCATCTGAATCTTGTTTCGATTTG
65 AATATC--AGCCACATTGGATATAAGGATTTGATTTTACGAGCATCTGAATCTTGTTTCGATTTA
* *
6782 ATTAGAAATAAATTCGGAAAAAAA-GGAAAAACGATATTAGAAGCGTGAAAAACTCGTCAATCTT
128 ATTAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAAT-TT
* *
6846 TTTGGCATTGAATTATATATCTTCTCTGAGTATTGTGGCAAAAAATTAAGGAAAAAAATTTCGGG
192 TTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGGAAAAAAATTTCGGG
* * *
6911 TTAGTTTTTAGCTGAAATCGTGTACTAACCATCATGGTTTTTAGGCTAAAAACGTGTTTCGAGGC
257 TTAGTTTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTT-GGCTAAAAACGCGTTTCGAAGC
* * * * * *
6976 CCCGACTCATTTTTGCATGATTATTAGAAGAAAGATTTCTTGAAATATATAATTCATCTAACTAA
321 CCCGGCTCAATTTTGCATGATTTTTAGAAGAAAGACTCCTTGAAATATATAATTCATCTAACCAA
* * * *
7041 ATCTCAGCCACATTGGATTTAAGGATTTGGTTTTACGAGAATCTGAATCCTGTTTCCATTTAATT
386 ATCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGAATCTGAATCTTGTTTCGATTTAATT
* * *
7106 AGAATTAAATCCGGAAAAAAAAATGGAAAAACGATATTAGAAGCATGAAAAACCCTTCAATTTAT
451 AGAAATAAATTCGG--AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTAT
* * * * *
7171 TTGGTGTTGAAGTACATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAATAACTTTCCGGGT
514 TTGGCGTTGAATTAAATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAATAACTTTTCGGGT
* * *
7236 CAGTTTTTTCAAAATTTTAGCCGAAAACGTGTAGGTTTACGGTTTTTGGCTAAAAACGCGTTTCG
579 AAGTTTTTGCAAAATTTTAGCCGAAAACGTGTAGGTTTACGGTTTTTGGCTAAAAACGCGTTCCG
7301 AAGCCTCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGA
644 AAGCC-CGACTCAATTTTGCATGATTTTTGGC-CAAAGACTCCTTGAAATATCTATATTCATCGA
*
7366 ACCAAATTTTAGCCATATTGGATATAAGAATTTGTTTTTACGAGCAACTGAATCTTGTTTCGATT
707 ACCAAATCTTAGCCATATTGGATATAAGAATTTGTTTTTACGAG-AACTGAATCTTGTTTCGATT
* * ** *
7431 CAATTAGAATTTAATTTGGAAAAAAGAAAAGAAAAACGATATTAGAAGCGT-AAAATGTCCATCA
771 CAATTAGAAATTAATTCGG-AAAAA-AATGGAAAAACGATATTAGAAGCGTGAAAA-GCCCATCA
*
7495 ATATTCTTGGTGTTGAATTGAATATTTTTTCTGAGTATTGGGACAAAAAATTCATGG-AATTTTT
833 ATATTCTTGGCGTTGAATT-AATATTTTTTCTGAGTATTGGG-CAAAAAATTCATGGAAATTTTT
* * *
7559 TTGAGTAAGTTTTTATCTGAAATCGTGTACTAACCATCACGATTTTTTTGCTGAAAACGCGTTTT
896 TTGAGTAAGTTTTTATCCGAAATCGTGTACTAACCATCATGA-TTTTTTGCTAAAAACGCGTTTT
7624 GGTGT
960 GGTGT
* *
7629 CCCGGCTCAGTTTTGCATAATTTTTGGAAGAAAGACTCCTTGATATATCTATATTCAACTAACCA
1 CCCGGCTCAATTTTGCATAATTTTTGG-AGAAAGACTCCTTGAAATATCTATATTCAACTAACCA
* *
7694 AATATCAGCCACATTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTTGTGTCGATTTAAT
65 AATATCAGCCACATTGGATATAAGGATTTGATTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
7759 TAGAAATAAATTCGGAAAAAAAAATGGAAAAACGATATTAGAAGCAG-GAAAAACCCTTCAATTT
130 TAGAAATAAATTCGG--AAAAAAATGGAAAAACGATATTAGAAGC-GTGAAAAACCCTTCAATTT
** * * * *
7823 ATTTGGTGTGGAATTACATATTTTTTCTGAGTATTGTGGCAAAAAATT---GAGAAAAATCT-GG
192 -TTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGGAAAAAAATTTCGG
* * * * * *
7884 GTCAG-TTTTGGC-AAAAT-GT-TAGCCGAAAACGTGTAGGTTCACGGTTTTTGGCTAAAGACGC
256 GTTAGTTTTTAGCTGAAATCGTGTA--C--TAAC---CA---TCACGGTTTTTGGCTAAAAACGC
* * ** *
7945 GTTTCAAAGCCCCGGCTCAATTTTGCATGATTTTTTGGCGCAAGGACTCCTTGAAATAGCTAT-A
311 GTTTCGAAGCCCCGGCTCAATTTTGCATGATTTTTAGAAG-AAAGACTCCTTGAAATA--TATAA
* *
8009 TTCATCGAACCAAATCTCAGCCACATTGGATATAA-GATTT-TTTTTACGAGCATCTGAATCTTG
373 TTCATCTAACCAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGAATCTGAATCTTG
* * *
8072 TTTCGATTTAATTAGAAATAAATTCGGAAGAAAATGGAAAAACAATATTAGAAGCGTGAAAAACT
438 TTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACC
* * * *
8137 GTTCAATTTATTTGGCGTTGAATTAAATA-TTTTCCTGAGTATTGTGGTAAAAAAATGAGGAA-A
503 CTTCAATTTATTTGGCGTTGAATTAAATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAATA
** * * *
8200 ACTTTTCGAATAAGTTTTTGCAATATTTTAGCCGAAAACGTGTAGGTTCACGGTATTTGGCTAAA
568 ACTTTTCGGGTAAGTTTTTGCAAAATTTTAGCCGAAAACGTGTAGGTTTACGGTTTTTGGCTAAA
** *
8265 AACGCGTTCCGAAATG-CCGACTCAATTTTGCATGATTTAAGACACAAAGACTCCTTGAAATATC
633 AACGCGTTCCG-AA-GCCCGACTCAATTTTGCATGATTTTTGGC-CAAAGACTCCTTGAAATATC
* * * * * *
8329 TATGTTCATCGAACCAAATGTTAGTCATACTGGATATAAGGATTTGTGTTTACGAGAATCTGAAT
695 TATATTCATCGAACCAAATCTTAGCCATATTGGATATAAGAATTTGTTTTTACGAGAA-CTGAAT
*
8394 CTTGTTTCGATTCAATTAGAAATTAATTCGGTAAAAAATGGAAAAACGATATTAGAAGCGTGAAA
759 CTTGTTTCGATTCAATTAGAAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAA
* * * * *
8459 AGCCCGTCAATCTTCTTGGCGTTGAATTATATATTTTTTCTGAGTGTT-GGCAAATAATTCCTGG
824 AGCCCATCAATATTCTTGGCGTTGAATTA-ATATTTTTTCTGAGTATTGGGCAAAAAATTCATGG
* * *
8523 AAAAATATTTTTCT-AGTAAGTTTTTAGCCGAAATCATGTACTAACCATCATGATTTTTGGC-AA
888 --AAAT-TTTTT-TGAGTAAGTTTTTATCCGAAATCGTGTACTAACCATCATGATTTTTTGCTAA
*
8586 AAACGTGCTTCGGTATCCCGGTGT
949 AAACGCG-TT---T-T---GGTGT
* * *
8610 CCCGGCTCAGTTTTGCATAATTTTTGGCAAAAAAAGACTCCTTGAAATATCTA-ATTCATCTAAC
1 CCCGGCTCAATTTTGCATAATTTTTGG---AGAAAGACTCCTTGAAATATCTATATTCAACTAAC
* * * *
8674 CAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTA
63 CAAATATCAGCCACATTGGATATAAGGATTTGATTTTACGAGCATCTGAATCTTGTTTCGATTTA
* *
8739 ATTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAGATGCGT-AAAAACCCTTCAATTTT
128 ATTAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAA-TTT
* * * * **
8803 TTTTGCATTCAATTATATATTTTTTCTGAGTATTGTTGCAAAAAATTGAGGAAAAACTTTTCGGG
192 TTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGGAAAAAAATTTCGGG
* * * *
8868 TTAGTTTTT-GC--AAA--GTTTTAGCCGAAAACATGTAGGTTCACGGTTTTTGTCTAAAAACGC
257 TTAGTTTTTAGCTGAAATCG-TGTA--C--TAAC---CA---TCACGGTTTTTGGCTAAAAACGC
* * ** *
8928 GTTTCGAAAG-CCTGGCTCAATTTTGTATGATTTTT-GGCGCAAAGACTCCTTGAAATATCTATA
311 GTTTCG-AAGCCCCGGCTCAATTTTGCATGATTTTTAGAAG-AAAGACTCCTTGAAATATATA-A
* * ** * *
8991 TTCATCAAACCAAATCTTAGCCGTATTGGATATAAGGATTTGTTTCTACGAGCATCTGAATCTTG
373 TTCATCTAACCAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGAATCTGAATCTTG
* * *
9056 TATCGATTCAATTAGAAATTAATTC-G-----AA---AAAAA--A-A-T------G-GAAAAA-C
438 TTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACC
** * * * * *
9100 GAT--ATTTA--T---GTAGAATTATATGTTTTTTCTGACTATTGTGGCAAAAAATTCATGGAA-
503 CTTCAATTTATTTGGCGTTGAATTAAATATTTTTTCTGAGTATTGTGGCAAAAAATTGA-GGAAT
** * * * * * * *** * *
9157 AA-AATT-GAGTCAGTTTTTAGCCGAAA---TA---GTATAC-T-AACCATCACGATTTTTGGCT
567 AACTTTTCGGGTAAGTTTTT-G-CAAAATTTTAGCCGAAAACGTGTAGGTTTACGGTTTTTGGCT
* ** * * * * *
9212 GAAAACGCGTTTCC-TTGTCCCGACTCAGTTTTGTATAATTTTTGGCAGAAAGAATCCTTGAAAT
630 AAAAACGCG-TTCCGAAG-CCCGACTCAATTTTGCATGATTTTTGGC-CAAAGACTCCTTGAAAT
* * * * * ** * * *
9276 ATCTATATTCAACTAACCAAATCTTAGCCACATTGGATTTAAGGATTTAATTTTATGAGCATCTA
692 ATCTATATTCATCGAACCAAATCTTAGCCATATTGGATATAAGAATTTGTTTTTACGAG-AACTG
* ** * * * *
9341 AATCTTG-TTCGATTTAATTAGAAAGAAATTCGGAAAAAAA-GGAAAAGCGATTTTAAAAGCATG
756 AATCTTGTTTCGATTCAATTAGAAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTG
* * * ** * * * *
9404 AAAAACCCTTCAAT-TTTTTGTTGTTGAATTATATATTTTTTCTGACTATTGTAGAAAAAAATTG
821 AAAAGCCCATCAATATTCTTGGCGTTGAATTA-ATATTTTTTCTGAGTATTG-GGCAAAAAATTC
** * * * * * *
9468 A-GGAAAATCATTTCGAATCAGTTTTTTCGAAAATTTTAGCTGAAATCGTATACTAACCATCACG
884 ATGG-AAATTTTTTTGAGTAAG-TTTTT-----A---T--CCGAAATCGTGTACTAACCATCATG
* * * * ** *
9532 GTTTTTGGCTAAAAATGTGTTCCGGAGCT
937 ATTTTTTGCTAAAAACGCGTTTTGGTG-T
** * * * * * *
9561 CCAAG-TCAATTTTCCATGATTTTTGGCGCAAAAACTCCTTGAAATATCTATATTCATCGAACCA
1 CCCGGCTCAATTTTGCATAATTTTTGGAG-AAAGACTCCTTGAAATATCTATATTCAACTAACCA
* * * * * *
9625 AATCTCAGCCACGTTGGATATAAGGATTTAATTTTATGAGTATCTGAATCTAGTTTCGATTTAAT
65 AATATCAGCCACATTGGATATAAGGATTTGATTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
* * **
9690 TAGAAATAAATTCGGAAAAAAATGG-AAAACAATATTAGATGC-AAAAAAACCCTTCAATTTTTT
130 TAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAA---TTT
* * * * ** *
9753 TTTTGCATTCAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAATAACTTTTTGTG
192 TTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGGAAAAAAATTTCG-G
** * * * *
9818 TCAGTTTTTACAAAATTTTAGCCGAAATCATATACTAACCATCACGATTTTTGGCTAAAAACGCG
256 ---G---TT---AGTTTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCG
* * * * * * *
9883 TTCCGGAA-CCGCGACTCAATTTGGCATGCA-CTTTGGCATA-AAAGACTCCTTGAAATATCTAT
312 TTTC-GAAGCCCCGGCTCAATTTTGCATG-ATTTTTAG-A-AGAAAGACTCCTTGAAATATATA-
* * * * * *
9945 ATTTATCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGGTTTTACGAGTATCTGAATCCT
372 ATTCATCTAACCAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGAATCTGAATCTT
* * * * **
10010 ATTTCGATTCAATTAGAAATTAATTC-TAAAAAAATGG-AAAACGATATTAGAAGCGTGAAAAGT
437 GTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAAC
* * * *
10073 CCGTCAA-TCATATTGGCGTTGAATTATATATTTTTTTCTGAGTATTGTGGCAAAAAATTCATGG
502 CCTTCAATTTAT-TTGGCGTTGAATTAAATA-TTTTTTCTGAGTATTGTGGCAAAAAATTGA-GG
* * * *
10137 AAAAAATTTTTGGGTCAGTTTTT
564 AATAACTTTTCGGGTAAGTTTTT
10160 AGCCGAAATC
Statistics
Matches: 2921, Mismatches: 414, Indels: 333
0.80 0.11 0.09
Matches are distributed among these distances:
946 7 0.00
947 41 0.01
948 83 0.03
949 130 0.04
950 200 0.07
951 11 0.00
952 5 0.00
954 45 0.02
955 105 0.04
956 20 0.01
957 61 0.02
958 17 0.01
959 1 0.00
960 10 0.00
961 7 0.00
962 5 0.00
963 5 0.00
964 10 0.00
965 2 0.00
966 1 0.00
970 2 0.00
971 15 0.01
972 32 0.01
973 128 0.04
974 80 0.03
975 539 0.18
976 179 0.06
977 182 0.06
978 182 0.06
979 192 0.07
980 152 0.05
981 88 0.03
982 212 0.07
983 108 0.04
984 53 0.02
985 11 0.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (964 bp):
CCCGGCTCAATTTTGCATAATTTTTGGAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAA
ATATCAGCCACATTGGATATAAGGATTTGATTTTACGAGCATCTGAATCTTGTTTCGATTTAATT
AGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTG
GCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGGAAAAAAATTTCGGGTTAG
TTTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGAAGCCCCGG
CTCAATTTTGCATGATTTTTAGAAGAAAGACTCCTTGAAATATATAATTCATCTAACCAAATCTC
AGCCACATTGGATATAAGGATTTGTTTTTACGAGAATCTGAATCTTGTTTCGATTTAATTAGAAA
TAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTATTTGGCGT
TGAATTAAATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAATAACTTTTCGGGTAAGTTTT
TGCAAAATTTTAGCCGAAAACGTGTAGGTTTACGGTTTTTGGCTAAAAACGCGTTCCGAAGCCCG
ACTCAATTTTGCATGATTTTTGGCCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
TAGCCATATTGGATATAAGAATTTGTTTTTACGAGAACTGAATCTTGTTTCGATTCAATTAGAAA
TTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATATTCTTGGCGT
TGAATTAATATTTTTTCTGAGTATTGGGCAAAAAATTCATGGAAATTTTTTTGAGTAAGTTTTTA
TCCGAAATCGTGTACTAACCATCATGATTTTTTGCTAAAAACGCGTTTTGGTGT
Found at i:10545 original size:229 final size:231
Alignment explanation
Indices: 10139--10602 Score: 614
Period size: 229 Copynumber: 2.0 Consensus size: 231
10129 ATTCATGGAA
* *
10139 AAAATTTTTGGGTCAGTTTTTAGCCGAAATCGTATACTAACCATCACGATTTTTGGCTAAAAACG
1 AAAATTTTTGGGTCAGTTTTTAACCGAAATCGTATACTAACCATAACGATTTTTGGCTAAAAACG
* ** * *
10204 CGTTTCGGTATCCCAGCTTTGTTTTGCATAATTTTTTGCAGAAAGAATCCTTGAAATATCGATAT
66 CGTTTCCGTATCCCAGCTCAGTTTTACATAATTTTTGGCAGAAAGAATCCTTGAAATATCGATAT
* * * * *
10269 TCAACTAACCAAATATCAGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATGTTAT
131 TCAACTAACCAAATATCAGCCACATTAGATTTAAGGATTTAATTTTACGAGCATCTAAATCTTAT
* * *
10334 TTC-TTTTACTTAGAAATAAATTCGGAAAAAAAGGG
196 TTCGATTTAATTAGAAAGAAATTCGGAAAAAAAGGG
** * *
10369 AAAA-TTTTGGGTCAGTTTTTAATTGAAATCGTGTACTAACCATAACGATTTTTGGCTGAAAACG
1 AAAATTTTTGGGTCAGTTTTTAACCGAAATCGTATACTAACCATAACGATTTTTGGCTAAAAACG
* * * * *
10433 CGTTTCCTTGT-CCTGACTCAGTTTTACATAATTTTTGGTAGAAAGACA-CCTTGAAATATCTAT
66 CGTTTCCGTATCCCAG-CTCAGTTTTACATAATTTTTGGCAGAAAGA-ATCCTTGAAATATCGAT
**
10496 ATTCAACTAACCAAATCAT-AGCCACATTATTTTTAAGGATTTAATTTTACGAGCATCTAAATCT
129 ATTCAACTAACCAAAT-ATCAGCCACATTAGATTTAAGGATTTAATTTTACGAGCATCTAAATCT
* *
10560 TGTTTCGATTTAATTAGAAAGAAATTCGGAAAAAAATGG
193 TATTTCGATTTAATTAGAAAGAAATTCGGAAAAAAAGGG
10599 AAAA
1 AAAA
10603 ACGATTTTAA
Statistics
Matches: 202, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
228 3 0.01
229 160 0.79
230 39 0.19
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (231 bp):
AAAATTTTTGGGTCAGTTTTTAACCGAAATCGTATACTAACCATAACGATTTTTGGCTAAAAACG
CGTTTCCGTATCCCAGCTCAGTTTTACATAATTTTTGGCAGAAAGAATCCTTGAAATATCGATAT
TCAACTAACCAAATATCAGCCACATTAGATTTAAGGATTTAATTTTACGAGCATCTAAATCTTAT
TTCGATTTAATTAGAAAGAAATTCGGAAAAAAAGGG
Found at i:11164 original size:336 final size:329
Alignment explanation
Indices: 10393--11587 Score: 1192
Period size: 336 Copynumber: 3.6 Consensus size: 329
10383 GTTTTTAATT
* * * * * * * *
10393 GAAATCGTGTACTAACCATAACGATTTTTGGCTGAAAACGCGTTTCCTTG-TCCTGACTCAGTTT
1 GAAATCGTATACTAACCATCACGGTTTTTGGCTAAAAACGCG-TTCC-GGAACCCGACTCAATTT
* * * *
10457 TACATAATTTTTGGTAGAAAGACACCTTGAAATATCTATATTCAACTAACCAAATCAT-AGCCAC
64 TGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATC-TCAGCCAC
** * * *
10521 ATTATTTTTAAGGATTTAATTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAAGAAATT
128 ATTAGATTTAAGGATTTAATTTTACGAGCATCTGAATCTAGTTTCGATTTAATTAGAAATAAATT
* * *
10586 CGGAAAAAAATGGAAAAACGATTTTAAAAGCATGAAAAACCCTTCAA-T-TTTTTGTTG--TTGA
193 CGGAAAAAAATGGAAAAACGATATTAGAAGCA-GAAAAACCCTTCAATTATTTTTTTTGCATTGA
* * * * *
10647 ATTATATATTTTTTCTAACTATTGTGGAAAAAAATTGAGGAAAATCATTTCGGATCAGTTTTTTC
257 ATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAA-CTTTTTGG-TCAG-TTTTTC
**
10712 GAAAATTTTAGTT
319 --AAATTTTAGCC
* * * * * *
10725 GAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAATGTGTTCCGGAGCTCCAAGTCAATTTT
1 GAAATCGTATACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAAC-CCGACTCAATTTT
* * * *
10790 GCATGATTTTTGGC-GCAAAAACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACG
65 GCATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCAACTAACCAAATCTCAGCCACA
* *
10854 TTGGATATAAGGATTTAATTTTACGAGCATCTGAATCTAGTTTCGATTTAATTAGAAATAAATTC
129 TTAGATTTAAGGATTTAATTTTACGAGCATCTGAATCTAGTTTCGATTTAATTAGAAATAAATTC
* * *
10919 GGAAAAAAATGG-AAAACGATATTAGATGCAAAAAAACCCTTCAAATTTTATTTTTTTTGCATTC
194 GGAAAAAAATGGAAAAACGATATTAGAAGCAGAAAAACCCTTC-AA--TTATTTTTTTTGCATTG
*
10983 AATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGGAATAACTTTTTGTGTCAGTTTTTG
256 AATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAA-AACTTTTTG-GTCAGTTTTT-
11048 CAAAGTTTTAGCC
318 CAAA-TTTTAGCC
* * *
11061 GAAATCATATACTAACCATCACGGTTTTTAGCTAAAAACGCGTTCCGGAACCGCGACTCAATTTG
1 GAAATCGTATACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAACC-CGACTCAATTTT
* * * *
11126 GCATGCTTTTTGGCATAAAGACTCCTTGAAATATCTATATTTATCTAACCAAATCTCAGCCACAT
65 GCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATCTCAGCCACAT
** * * *
11191 TAGATTTAAGGATTTGGTTTTACGAGTATCTGAATCCT-GTTTCGATTCAATTAGAAATTAATTC
130 TAGATTTAAGGATTTAATTTTACGAGCATCTGAAT-CTAGTTTCGATTTAATTAGAAATAAATTC
** * * ** * * * *
11255 TAAAAAAAATGGAAAAAACGATATTAGAAACGTGAAAAGTCCGTCAATCA---TCTTGGCATTGA
194 GGAAAAAAATGG-AAAAACGATATTAGAAGC-AGAAAAACCCTTCAATTATTTTTTTTGCATTGA
* * *
11317 ATTATATATTTTTTTCTGAGTATTGTGGCATAAAATTCATGGAAAAAATTTTTGGGTCAG----T
257 ATTATATA-TTTTTTCTGAGTATTGTGGCAAAAAATTGA-GG-AAAACTTTTT-GGTCAGTTTTT
11378 ----TTTTAGCC
318 CAAATTTTAGCC
* * ** ** * ***
11386 GAAATCGTATACTAACCATCACGATTTTTGGCTAAAAACGCTTTTTGGTGTCCCGGCTTTGTTTT
1 GAAATCGTATACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGG-AACCCGACTCAATTTT
* * * * * * *
11451 GCATAATTTTTGACAGAAAGACTCCTTGAGATATCGATAATCAACTAACCAAATATCAGCCACGT
65 GCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATCTCAGCCACAT
* * *
11516 TGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTTA-TTTC-TTTTAATTAGAAATAAATTC
130 TAGATTTAAGGATTTAATTTTACGAGCATCTGAATC-TAGTTTCGATTTAATTAGAAATAAATTC
11579 GGAAAAAAA
194 GGAAAAAAA
11588 AAGAAAAATT
Statistics
Matches: 724, Mismatches: 111, Indels: 64
0.81 0.12 0.07
Matches are distributed among these distances:
324 25 0.03
325 148 0.20
326 2 0.00
330 12 0.02
331 25 0.03
332 168 0.23
333 17 0.02
334 28 0.04
335 26 0.04
336 192 0.27
337 53 0.07
338 20 0.03
339 8 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (329 bp):
GAAATCGTATACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAACCCGACTCAATTTTG
CATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATCTCAGCCACATT
AGATTTAAGGATTTAATTTTACGAGCATCTGAATCTAGTTTCGATTTAATTAGAAATAAATTCGG
AAAAAAATGGAAAAACGATATTAGAAGCAGAAAAACCCTTCAATTATTTTTTTTGCATTGAATTA
TATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAACTTTTTGGTCAGTTTTTCAAATTTT
AGCC
Found at i:11770 original size:232 final size:232
Alignment explanation
Indices: 11360--11820 Score: 665
Period size: 232 Copynumber: 2.0 Consensus size: 232
11350 AATTCATGGA
*
11360 AAAAATTTTTGGGTCAGTTTTTAGCCGAAATCGTATACTAACCATCACGATTTTTGGCTAAAAAC
1 AAAAATTTTTGGGTCAGTTTTTAACCGAAATCGTATACTAACCATCACGATTTTTGGCTAAAAAC
* ** * ** * * *
11425 GCTTTTTGGTGTCCCGGCTTTGTTTTGCATAATTTTTGACAGAAAGACTCCTTGAGATATCGATA
66 GCATTTCCGTGTCCCGACTCAGTTTTACATAATTTTTGACAGAAAGACACCTTGAAATATCGATA
* **
11490 ATCAACTAACCAAATATCAGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTTA
131 ATCAACTAACCAAATATCAGCCACATTGGATTTAAGGATTAAATTTTACGAGCATCTGAATCTTA
* *
11555 TTTC-TTTTAATTAGAAATAAATTCGGAAAAAAAAAG
196 TTTCGATTTAATTAGAAAGAAATTCGGAAAAAAAAAG
* *
11591 AAAAA-TTTTGGGTCAGTTTTTAACTGAAATCGTGTACTTAACCATCACGATTTTTGGCTGAAAA
1 AAAAATTTTTGGGTCAGTTTTTAACCGAAATCGTATAC-TAACCATCACGATTTTTGGCT-AAAA
* ** *
11655 ACGCATTTCCTTGTCCCGACTCAGTTTTACATAATTTTTGGTAGAAAGACACCTTGAAATATCTA
64 ACGCATTTCCGTGTCCCGACTCAGTTTTACATAATTTTTGACAGAAAGACACCTTGAAATATCGA
* * *
11720 TATTCAACTAACCAAATCTTAGCCACATTGGATTTAAGGATTAAATTTTACGAGCATCTGAATCT
129 TAATCAACTAACCAAATATCAGCCACATTGGATTTAAGGATTAAATTTTACGAGCATCTGAATCT
*
11785 TGTTTCGATTTAATTAGAAAGAAATTCGGAAAAAAA
194 TATTTCGATTTAATTAGAAAGAAATTCGGAAAAAAA
11821 TGGAAAAACG
Statistics
Matches: 202, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
230 29 0.14
231 26 0.13
232 120 0.59
233 27 0.13
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Consensus pattern (232 bp):
AAAAATTTTTGGGTCAGTTTTTAACCGAAATCGTATACTAACCATCACGATTTTTGGCTAAAAAC
GCATTTCCGTGTCCCGACTCAGTTTTACATAATTTTTGACAGAAAGACACCTTGAAATATCGATA
ATCAACTAACCAAATATCAGCCACATTGGATTTAAGGATTAAATTTTACGAGCATCTGAATCTTA
TTTCGATTTAATTAGAAAGAAATTCGGAAAAAAAAAG
Found at i:13420 original size:327 final size:330
Alignment explanation
Indices: 12687--13485 Score: 907
Period size: 327 Copynumber: 2.4 Consensus size: 330
12677 ACCATCATGA
* ** * * * * *
12687 TTTTTGGCTGAAAACGCGTTTCC-TTGTCCCGGCTCAGTTTTGCATAATTTTTGGCAG-AAATAC
1 TTTTTGGCTAAAAACGCG-TTCCGAAGGCCCGACTCAATTTTGCATGATTTTTGGC-GCAAAAAC
* ** *
12750 TCCTTGAAATTTCTATATTCATCTTACCAAATCTCAGCCAC----AT-T--TGATTTAATTTTAC
64 TCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCCACTTGGATATAAGGATTTAATTTTAC
*
12808 GAGCATCTAAATCTTGTTTCGATTTAATTAGAAAGAAATTCAGATTAAAAAAGGAAAAACGATTT
129 GAGCATCTAAATCTTGTTTCGATTTAATTAGAAAGAAATTCAGA-TAAAAAAGGAAAAACGATAT
* ** *
12873 TAAAAGCATGAAAAACCCTTCAATTTTTTGTTGTTGAATTATATATTTTTTCTGACTATTGTGGA
193 TAAAAGCATGAAAAACCATTCAATTTTTTGGCGTTGAATTATATATTTTTTCTGACTATTGAGGA
* * * *
12938 AAAAAATTGAGGAAAATCATTTCGGATCAGTTTTTTCGAAAATTTTAACTGAAATCGTGTACTAA
258 AAAAAATTGAGGAAAAACATTTCGGATCAGTTTTTGCGAAAATTTTAACCGAAAACGTG-A-TAA
13003 CTATCACGGT
321 CTATCACGGT
* * * * * * * *
13013 TTTTTAGCTAAAAATGTGTTCCGGA-GCTCCAAGTCAATTTTACATGATTTTTGTCGCAAAAACT
1 TTTTTGGCTAAAAACGCGTTCCGAAGGC-CCGACTCAATTTTGCATGATTTTTGGCGCAAAAACT
*
13077 CCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACGTTGGATATAAGGATTTAATTTTAC
65 CCTTGAAATATCTATATTCATCAAACCAAATCTCAGCCAC-TTGGATATAAGGATTTAATTTTAC
* *
13142 GAGCATCTAAATCTAT-TTTCGATTTAATTAGAAATAAATTC-GA-AAGAAATGGAAAAACGATA
129 GAGCATCTAAATCT-TGTTTCGATTTAATTAGAAAGAAATTCAGATAA-AAAAGGAAAAACGATA
* * *
13204 TTAGAAGCGTGAAAAACCATTCAATTTATTTGGCGTTGAATTATATATTTTTTCTGAGTATTGAG
192 TTAAAAGCATGAAAAACCATTCAATTT-TTTGGCGTTGAATTATATATTTTTTCTGACTATTGAG
* * * * * * *
13269 GCAAAAAATTGAGGAAAAACTTTTCGGGTTAGTTTTTGC-AAACTTTTAGCCGAAAACGTG-TAG
256 GAAAAAAATTGAGGAAAAACATTTCGGATCAGTTTTTGCGAAAATTTTAACCGAAAACGTGATAA
*
13332 GT-TCACGG-
321 CTATCACGGT
* *
13340 TTTTTGGCTAAAAACGCGTTCCGAAGGCCCGACTCAATTTTGTATGATTTTTGGCGCAAAGACTC
1 TTTTTGGCTAAAAACGCGTTCCGAAGGCCCGACTCAATTTTGCATGATTTTTGGCGCAAAAACTC
* * **
13405 CTTGAAATATCTATATTCATCAAACCAAATCTTAGCCGTA-TTGGATA-AATGGAATTGTTTTTA
66 CTTGAAATATCTATATTCATCAAACCAAATCTCAGCC--ACTTGGATATAA-GGATTTAATTTTA
13468 CGAGCATCTAAATCTTGT
128 CGAGCATCTAAATCTTGT
13486 ATACTAACCA
Statistics
Matches: 398, Mismatches: 56, Indels: 37
0.81 0.11 0.08
Matches are distributed among these distances:
325 6 0.02
326 80 0.20
327 120 0.30
328 8 0.02
329 4 0.01
331 4 0.01
332 56 0.14
333 68 0.17
334 51 0.13
335 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (330 bp):
TTTTTGGCTAAAAACGCGTTCCGAAGGCCCGACTCAATTTTGCATGATTTTTGGCGCAAAAACTC
CTTGAAATATCTATATTCATCAAACCAAATCTCAGCCACTTGGATATAAGGATTTAATTTTACGA
GCATCTAAATCTTGTTTCGATTTAATTAGAAAGAAATTCAGATAAAAAAGGAAAAACGATATTAA
AAGCATGAAAAACCATTCAATTTTTTGGCGTTGAATTATATATTTTTTCTGACTATTGAGGAAAA
AAATTGAGGAAAAACATTTCGGATCAGTTTTTGCGAAAATTTTAACCGAAAACGTGATAACTATC
ACGGT
Found at i:14677 original size:544 final size:529
Alignment explanation
Indices: 13484--15428 Score: 1404
Period size: 544 Copynumber: 3.6 Consensus size: 529
13474 TCTAAATCTT
* * **
13484 GTATACTAACCATCACGATTTTTGGCTAAAAACGCTTTTCGGTGT-CTCGGCTTTGTTTTGCATA
1 GTATACTAACCATCACGATTTTTGGCTAAAAACACGTTTCGGTGTAC-CGGCTCAGTTTTGCATA
* * * *
13548 ATTTTTGGCAGAAAGACTCCTTGAAATATCGATATTCAACTAACCAAATATCAGACTCGTTGGAT
65 ATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATCTCAGCCACGTTGGAT
* *
13613 TTAAGGATTTGATTTTACGAGCATCTGAATCTTATTTC-TTTTAATTAGAAATAAATTCGGAAAA
130 TTAAGGATTTGATTTTACGAGCATCTAAATCTTATTTCGATTTAATTAGAAATAAATTCGGAAAA
** * * ** *
13677 AA---AAAATTTGGGTTAGTTTTTAATTGAAATCGTGTACTAACCA-TC-ATGATTTTTGAC--T
195 AATGGAAAA---ACG--A--TATT-A--GAAGT-GTG-AAAAACCATTCAAT--TTTTTGGCGTT
* **** * * * *** * * ** * *
13735 GAA-AACGCGTTTCCTTGTCCCGGCTCAGTT-TTGCATAATTTTTG-GCAGAAA-TACTC-CTTG
246 GAATTATATATTT--TT-T-CTGACT-A-TTGTGGCA-AAAAATTGAGGAAAAACTTTTCGGTTC
** * * * **
13795 A-AATTTCTATATTCATCTTACCAAATCTCAGCCACATTTGATTTAATTTTACGAGCATCTAAAT
304 AGTTTTTCAATATTCATCTAACCAAATCTCAGCCACATTGGATTTGTTTTTACGAGCATCTAAAT
* * ** * * *
13859 CTTGTTTCGATTTAATTAGAAAGAAATTC-AGAAA-AAAA-GGAAAAACGATTTTAAAAGCATGA
369 CCTGTTTCGATTAAATTAGAAATTAATTCGA-AAATAAAATGGAAAAACGATATTAGAAGCGTGA
* * * * * * * * *
13921 AAAACCCTTCAAT-TTTTTG-TTGTTGAATTATATATTTTTTCTGACTATTGTGGAAAAAAATTG
433 AAAGCCCGTCAATAATCTTGATT-AT-AATTATACATTTTTTCTGAGTATTGTGGCAAAAAATTC
* *
13984 A-GGAAAATAATTTCG-GATCAGTTTTTTCGAAAATTTTAGCTGAAATC
496 ATGGAAAA-AA-TT-GAG-TCAG-----T------TTTTAGCCGAAATA
* * * *** * * * * *
14031 GTGTACTAACCATCACGGTTTTTTAGCTAAAAATGTGTTCCGGAGCT-CCAAG-TCAATTTTACA
1 GTATACTAACCATCAC-GATTTTTGGCTAAAAACACGTTTCGGTG-TACC-GGCTCAGTTTTGCA
* * *
14094 TGATTTTTGTCGCA-AAA-ACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACGTT
63 TAATTTTTG--GCAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATCTCAGCCACGTT
* *
14157 GGATATAAGGATTTAATTTTACGAGCATCTAAATC-TATTTTCGATTTAATTAGAAATAAATTC-
126 GGATTTAAGGATTTGATTTTACGAGCATCTAAATCTTA-TTTCGATTTAATTAGAAATAAATTCG
14220 GAAAGAAATGGAAAAACGATATTAGAAGTGTGAAAAACCATTCAATTTATTTGGCGTTGAATTAT
190 GAAA-AAATGGAAAAACGATATTAGAAGTGTGAAAAACCATTCAATTT-TTTGGCGTTGAATTAT
* * *
14285 ATATTTTTTCTGAGTATTGAGGCAAAAAATTGAGGAAAAACTTTTCGGTTTAGTTTTTGCAA-AG
253 ATATTTTTTCTGACTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGTTCAGTTTTT-CAATA-
* * *
14349 TTTTATCTAACCAAATCTCAGCCACATTAGATTTTTGGATTTGTTTTTACGAGTATTTAAATCCT
316 -TTCATCTAACCAAATCTCAGCCAC-----A---TTGGATTTGTTTTTACGAGCATCTAAATCCT
* *
14414 GTTTCGATTCAATTAGAAATTAATTC-TAAA-AAAATGGAAAAACGATATTAGAAGCGTGAAAAG
372 GTTTCGATTAAATTAGAAATTAATTCGAAAATAAAATGGAAAAACGATATTAGAAGCGTGAAAAG
**
14477 CCCGTCAATAATCTTGGCATTA-AATTATATTTTTTTTATCTGAGTATTGTGGCAAAAAATTCAT
437 CCCGTCAATAATCTT-G-ATTATAATTATA-CATTTTT-TCTGAGTATTGTGGCAAAAAATTCAT
*
14541 GGAAAAAAATTTTGAGTCAGTTTTTAGCCGAAATC
498 GG-AAAAAA--TTGAGTCAGTTTTTAGCCGAAATA
* * **
14576 GTATACTAACCATCACGATTTTTGGCTAAAAACGCGTTTCGGTGTCCCGGCTTTGTTTTGCATAA
1 GTATACTAACCATCACGATTTTTGGCTAAAAACACGTTTCGGTGTACCGGCTCAGTTTTGCATAA
* *
14641 TTTTTGGCAGAAAGACTCCTTGAAATATCGATATTCAACTAACCAAATATCAGCCACGTTGGATT
66 TTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATCTCAGCCACGTTGGATT
* *
14706 TAAGGATTTGATTTTACGAGCATCTGAATCTTATTTC-TTTTAATTAGAAATAAATTCGGAAAAA
131 TAAGGATTTGATTTTACGAGCATCTAAATCTTATTTCGATTTAATTAGAAATAAATTCGG-AAAA
* * * * **
14770 AAAGAGAAAAATTTTGGGTCAGTTCTTAACTGAAATCGTGTACTAACCA-TC-ATGATTTTTGGC
195 AATG-GAAAAA--------C-GATATT-A--GAAGT-GTG-AAAAACCATTCAAT--TTTTTGGC
* *** * * *** * * ** *
14833 --TGAA-AACGCATTTCCTTGTCCCGACTCAGTT-TTGCATAATTTTTG-GCAGAAA-TACTC-C
243 GTTGAATTATATATTT--TT-T-CTGACT-A-TTGTGGCA-AAAAATTGAGGAAAAACTTTTCGG
* ** * * * *
14891 TTGA-AATTTCTATATTCATCTTACCAAATCTCAGCCACATTGGATTTGTTTTTATGAGCATCTG
301 TTCAGTTTTTCAATATTCATCTAACCAAATCTCAGCCACATTGGATTTGTTTTTACGAGCATCTA
*
14955 AATCTTGTTTCGATTAAATTAGAAATTAATTCGAAAATAAAATGGAAAAACGATATTAGAAGCGT
366 AATCCTGTTTCGATTAAATTAGAAATTAATTCGAAAATAAAATGGAAAAACGATATTAGAAGCGT
** **
15020 GAAAATTCCGTCAATCTTCTTGATTATTAATTATACATTTTTTCTGAGTATTGTGGCAAAAAATT
431 GAAAAGCCCGTCAATAATCTTGATTA-TAATTATACATTTTTTCTGAGTATTGTGGCAAAAAATT
15085 CATGGAAAAAATTGAGTCAGTTTTTAGCCGAAATA
495 CATGGAAAAAATTGAGTCAGTTTTTAGCCGAAATA
* * * *
15120 GTATACTAACCATTACGATTTTTGGCTAAAGACACGTTTCGGTTTACCGGCTCAGTTTTGTATAA
1 GTATACTAACCATCACGATTTTTGGCTAAAAACACGTTTCGGTGTACCGGCTCAGTTTTGCATAA
* * * *
15185 TTTTTGGCAGAAAGTCTCTTTGAAATATCTATATTCAACTAACCAAATCTTAGCCACATTGGATT
66 TTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATCTCAGCCACGTTGGATT
* * * *
15250 TAAGGATTTGATTTTACGAGCACCTAAATCTTGTTTCGATTTAATTAGAAACAAATTCTGAAAAA
131 TAAGGATTTGATTTTACGAGCATCTAAATCTTATTTCGATTTAATTAGAAATAAATTCGGAAAAA
* * * ** * **
15315 ATGGAAAAACAATTTTACAAGCATGAAAAACCCTTCAATTTTTT-TTGTTGAATTATATATTTTT
196 ATGGAAAAACGATATTAGAAGTGTGAAAAACCATTCAATTTTTTGGCGTTGAATTATATATTTTT
* * * *
15379 TCTGACTATTGTGGAAAAAAATTGAGGAAAATCATTTCGGATCAGTTTTT
261 TCTGACTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGTTCAGTTTTT
15429 TCGAAAATTT
Statistics
Matches: 1112, Mismatches: 195, Indels: 200
0.74 0.13 0.13
Matches are distributed among these distances:
525 7 0.01
526 8 0.01
527 7 0.01
528 3 0.00
529 15 0.01
530 8 0.01
531 9 0.01
533 1 0.00
534 3 0.00
535 1 0.00
538 7 0.01
539 9 0.01
540 14 0.01
541 14 0.01
542 15 0.01
543 36 0.03
544 329 0.30
545 61 0.05
546 6 0.01
547 101 0.09
548 126 0.11
549 81 0.07
550 4 0.00
551 8 0.01
552 84 0.08
553 11 0.01
554 11 0.01
555 50 0.04
556 17 0.02
557 20 0.02
558 15 0.01
559 15 0.01
560 9 0.01
561 7 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (529 bp):
GTATACTAACCATCACGATTTTTGGCTAAAAACACGTTTCGGTGTACCGGCTCAGTTTTGCATAA
TTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATCTCAGCCACGTTGGATT
TAAGGATTTGATTTTACGAGCATCTAAATCTTATTTCGATTTAATTAGAAATAAATTCGGAAAAA
ATGGAAAAACGATATTAGAAGTGTGAAAAACCATTCAATTTTTTGGCGTTGAATTATATATTTTT
TCTGACTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGTTCAGTTTTTCAATATTCATCTAAC
CAAATCTCAGCCACATTGGATTTGTTTTTACGAGCATCTAAATCCTGTTTCGATTAAATTAGAAA
TTAATTCGAAAATAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATAATCTTGATT
ATAATTATACATTTTTTCTGAGTATTGTGGCAAAAAATTCATGGAAAAAATTGAGTCAGTTTTTA
GCCGAAATA
Found at i:15887 original size:327 final size:327
Alignment explanation
Indices: 14852--16640 Score: 1511
Period size: 327 Copynumber: 5.5 Consensus size: 327
14842 ATTTCCTTGT
* * * * * *
14852 CCCGACTCAGTTTTGCATAATTTTTGGCAGAAATACTCCTTGAAATTTCTATATTCATCTTACCA
1 CCCGACTCAATTTTGTATGATTTTTGGC-GAAAGACTCCTTGAAATATCTATATTCATCTAACCA
* * ** *
14917 AATCTCAGCCAC-----A-TT--GGATTTGTTTTTATGAGCATCTGAATCTTGTTTCGATTAAAT
65 AATCTCAGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTAATTTCGATTTAAT
* * ** *
14974 TAGAAATTAATTCGAAAATAAAATGGAAAAACGATATTAGAAGCGTGAAAA-TTCCGTCAATCTT
130 TAGAAATAAATTCG-GAA-AAAATGGAAAAACGATATTAGAAGCGTGAAAAGACCCTTCAAT-TT
* ** * * * *
15038 -CTT-GATTATTAATTATACATTTTTTCTGAGTATTGTGGCAAAAAATTCATGGAAAA--AATT-
192 ATTTGGCGT-TGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGA-GGAAAATCATTTC
* * * * * * * * *
15098 GAGTCAGTTTTTAGCCG-AAA---TA---GTATAC-T-AACCATTACGATTTTTGGCTAAAGACA
255 GGGTCAGTTTTT-G-CGAAAATTTTAGCCGAAAACGTGTACTATCACGGTTTTTGGCTAAAAACG
* ***
15154 CGTTTCGGTTT
318 CG-TTCCGAAG
* * * * * * *
15165 ACCGGCTCAGTTTTGTATAATTTTTGGCAGAAAGTCTCTTTGAAATATCTATATTCAACTAACCA
1 CCCGACTCAATTTTGTATGATTTTTGGC-GAAAGACTCCTTGAAATATCTATATTCATCTAACCA
* * * * **
15230 AATCTTAGCCACATTGGATTTAAGGATTTGATTTTACGAGCACCTAAATCTTGTTTCGATTTAAT
65 AATCTCAGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTAATTTCGATTTAAT
* * * * * *
15295 TAGAAACAAATTCTGAAAAAATGGAAAAACAATTTTACAAGCATGAAAA-ACCCTTCAATTT-TT
130 TAGAAATAAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGACCCTTCAATTTATT
** * * *
15358 T-TTGTTGAATTATATATTTTTTCTGACTATTGTGGAAAAAAATTGAGGAAAATCATTTCGGATC
195 TGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAATCATTTCGGGTC
* * * * * *
15422 AGTTTTTTCGAAAATTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAAAATGTGT
260 AGTTTTTGCGAAAATTTTAGCCGAAAACGTGTACT----ATCACGGTTTTTGGCTAAAAACGCGT
*
15487 TCCGGAG
321 TCCGAAG
* * * * *
15494 CTCCAAGTCAATTTTGCATGATTTTTGGCGCAAAAACTCCTTGAAATATCTATATTCATCGAACC
1 C-CCGACTCAATTTTGTATGATTTTTGGCG-AAAGACTCCTTGAAATATCTATATTCATCTAACC
* * *
15559 AAATCTCAGCCACGTTAGATATAAGGATTTAATTTTACGAGCATCTGAATCTAATTTCGATTTAA
64 AAATCTCAGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTAATTTCGATTTAA
* *
15624 TTAGAAATAAATTCGGAAGAAATGGAAAAACGATATTAGAAGCGTGAAAA-ACCATTCAATTTAT
129 TTAGAAATAAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGACCCTTCAATTTAT
* **
15688 TTGGCGTTGAATTATATATTTTTTCTGAGTATTGAGGCAAAAAATTGAGGAAAATTTTTTCGGGT
194 TTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAATCATTTCGGGT
* * *
15753 TAGTTTTTGC-AAAGTTTTAGCCGAAAACGTGTAGGT-TCACGGTTTTTGGCTAAAAACGCGTTC
259 CAGTTTTTGCGAAAATTTTAGCCGAAAACGTGTA-CTATCACGGTTTTTGGCTAAAAACGCGTTC
15816 CGAAGG
323 CGAA-G
* *
15822 CCCGACTCAATTTTGTATGATTTTTGGCGCAAAAACTCCTTGAAATATCTATATTCATCGAACCA
1 CCCGACTCAATTTTGTATGATTTTTGGCG-AAAGACTCCTTGAAATATCTATATTCATCTAACCA
* *
15887 AATCTCAGCCACGTTGGATATAAGGATTTAATTTTACGAGCATCTGAATCTAATTTCGATTTAAT
65 AATCTCAGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTAATTTCGATTTAAT
* *
15952 TAGAAATAAATTCGAAAAAAAATGG-AAAACGATATTAGATGC---AAAAGACCCCTTCAATTTA
130 TAGAAATAAATTCG-GAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGA-CCCTTC-A---A
* * *
16013 TTATATTTTTTTTGCATTCAATTATATATTTTTTCTGAGTATTG-GGACAAAAAATTGAGGAATA
189 TT-TA----TTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGG-CAAAAAATTGAGGAA-A
* * * *
16077 A-CATTTCAGGTCAGTTTTTGC-AAAATTTTAGCCGAAATCATATACAAATCATCACGGTTTTTG
247 ATCATTTCGGGTCAGTTTTTGCGAAAATTTTAGCCGAAAACGTGTAC---T-ATCACGGTTTTTG
16140 GCTAAAAACGCGTTCCGGAA-
308 GCTAAAAACGCGTTCC-GAAG
* * * *
16160 CCGCGACTCAATTTTGCATGCTTTTTGGCATAAAGACTCCTTGAAATATCTATATTTATCTAACC
1 CC-CGACTCAATTTTGTATGATTTTTGGC-GAAAGACTCCTTGAAATATCTATATTCATCTAACC
* * * * * * * * *
16225 AAATCTCAGCCACATTAGATTTATGAATTTGTTTTTACGAGTATCTAAATCCT-GTTTCGATTCA
64 AAATCTCAGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAAT-CTAATTTCGATTTA
* ** * * *
16289 ATTAGAAATTAATTCTAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAG-TCCGTCAA-TAA
128 ATTAGAAATAAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGACCCTTCAATTTA
* * * * ** *
16352 TCTTGGCGTTAAATTATTTTTTTTTTCTGAGTATTGTGGCAAAAAATTCATGGAAAAAAATTTTG
193 T-TTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGA-GGAAAATCATTTCG
* * * * **
16417 GGTCAGTTTTTAGCCG-AAA---T---CGTATAC-T-AACCATCACAATTTTTGGCTAAAAACGC
256 GGTCAGTTTTT-G-CGAAAATTTTAGCCGAAAACGTGTACTATCACGGTTTTTGGCTAAAAACGC
* **
16473 GTTTCGGTG
319 GTTCCGAAG
** *** * * *
16482 TCCCGGTTTTGTTTT-TCATAATTTTTGGCAGAAAGACTCCTTGAAATATCGATATTCAACTAAC
1 -CCCGACTCAATTTTGT-ATGATTTTTGGC-GAAAGACTCCTTGAAATATCTATATTCATCTAAC
* * *
16546 CAAATATCAGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTTATTTC-TTTTA
63 CAAATCTCAGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTAATTTCGATTTA
*
16610 ATTAGAAATAAATTCGGAAAAAAAGGAAAAA
128 ATTAGAAATAAATTCGGAAAAAATGGAAAAA
16641 TTTTGGGTCA
Statistics
Matches: 1217, Mismatches: 191, Indels: 128
0.79 0.12 0.08
Matches are distributed among these distances:
313 67 0.06
316 6 0.00
317 38 0.03
318 12 0.01
319 47 0.04
320 2 0.00
321 83 0.07
322 121 0.10
323 2 0.00
324 7 0.01
325 2 0.00
326 9 0.01
327 184 0.15
328 14 0.01
329 5 0.00
330 182 0.15
331 67 0.06
332 84 0.07
333 1 0.00
334 7 0.01
335 83 0.07
336 3 0.00
337 1 0.00
338 12 0.01
339 164 0.13
340 9 0.01
342 5 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (327 bp):
CCCGACTCAATTTTGTATGATTTTTGGCGAAAGACTCCTTGAAATATCTATATTCATCTAACCAA
ATCTCAGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTAATTTCGATTTAATT
AGAAATAAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGACCCTTCAATTTATTT
GGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAATCATTTCGGGTCA
GTTTTTGCGAAAATTTTAGCCGAAAACGTGTACTATCACGGTTTTTGGCTAAAAACGCGTTCCGA
AG
Found at i:16227 original size:666 final size:650
Alignment explanation
Indices: 14856--16639 Score: 1886
Period size: 666 Copynumber: 2.7 Consensus size: 650
14846 CCTTGTCCCG
* * * * * **
14856 ACTCAGTTTTGCATAATTTTTGGCAGAAATACTCCTTGAAATTTCTATATTCATCTTACCAAATC
1 ACTCAATTTTGCATGATTTTTGGCACAAAAACTCCTTGAAATATCTATATTCATCGAACCAAATC
** * * * * *
14921 TCAGCCACATT-G------G-ATTTGTTTTTATGAGCATCTGAATCTTGTTTCGATTAAATTAGA
66 TCAGCCACATTAGATATAAGAATTTAATTTTACGAGCATCTAAATCCTATTTCGATTCAATTAGA
* ** **
14978 AATTAATTCGAAAATAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCCGTCAATCTTCTT-G
131 AATAAATTCG-AAA-AAAATGGAAAAACGATATTAGAAGCGTGAAAAGACCGTCAATAATCTTGG
* * * *
15042 -ATTATTAATTATACATTTTTTCTGAGTATTGTGGCAAAAAATTCATGG-AAAAAA--TTGAGTC
194 CGTTA--AATTATATATTTTTTCTGAGTATTGAGGCAAAAAATTCATGGAAAAAAATTTTGGGTC
* * * * * * * * *****
15103 AGTTTTTAGCCGAAATAGTATACTAACCATTACGATTTTTGGCTAAAGACACGTTTCGGTTTACC
257 AGTTTTTAGCCGAAATCGAAAACTAACCATCACAATTTTTGGCTAAAAACGCGTTCCGAAGGCCC
* * *
15168 GGCTCAGTTTTGTATAATTTTTGGCAGAAAGTCTCTTTGAAATATCTATATTCAACTAACCAAAT
322 GACTCAGTTTTGTATAATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAAT
* * * * *
15233 CTTAGCCACATTGGATTTAAGGATTTGATTTTACGAGCACCTAAATCTTGTTTCGATTTAATTAG
387 CTCAGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTTATTTCGATTTAATTAG
* *
15298 AAACAAATTCTG-AAAAAATGGAAAAACAATTTTACAAGCATGAAAAACCCTTCAATTTTTTTTG
452 AAATAAATTC-GAAAAAAATGG-AAAACAATATTACAAGCA-GAAAAACCCTTCAATTTTTTTTG
*
15362 TTGAATTATATATTTTTTCTGACTATTGTGGAAAAAAATTGAGGAAAATCATTTCGGATCAGTTT
514 TTCAATTATATATTTTTTCTGACTATTGTGGAAAAAAATTGAGGAAAATCATTTCGGATCAGTTT
* * * * * * *
15427 TTTCGAAAATTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAAAATGTGTTCCGG
579 TTGCGAAAATTTTAGCCGAAATCATATACAAACCATCACGGTTTTCGGCTAAAAACGCGTTCCGG
*
15492 AGCTCCA
644 AACTCCA
* *
15499 AGTCAATTTTGCATGATTTTTGGCGCAAAAACTCCTTGAAATATCTATATTCATCGAACCAAATC
1 ACTCAATTTTGCATGATTTTTGGCACAAAAACTCCTTGAAATATCTATATTCATCGAACCAAATC
* * * *
15564 TCAGCCACGTTAGATATAAGGATTTAATTTTACGAGCATCTGAAT-CTAATTTCGATTTAATTAG
66 TCAGCCACATTAGATATAAGAATTTAATTTTACGAGCATCTAAATCCT-ATTTCGATTCAATTAG
* * * *
15628 AAATAAATTCGGAAGAAATGGAAAAACGATATTAGAAGCGTGAAAA-ACCATTCAATTTAT-TTG
130 AAATAAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGACC-GTCAA-TAATCTTG
* * ** *
15691 GCGTTGAATTATATATTTTTTCTGAGTATTGAGGCAAAAAATTGA-GG-AAAATTTTTTCGGGTT
193 GCGTTAAATTATATATTTTTTCTGAGTATTGAGGCAAAAAATTCATGGAAAAAAATTTT-GGGTC
* *** **
15754 AGTTTTT-G-C-AAAGTTTTAGCCGAAAACGTGTAGGTTCACGGTTTTTGGCTAAAAACGCGTTC
257 AGTTTTTAGCCGAAA----T---CGAAAAC-T-AACCATCACAATTTTTGGCTAAAAACGCGTTC
* * * *
15816 CGAAGGCCCGACTCAATTTTGTATGATTTTTGGC-GCAAAAACTCCTTGAAATATCTATATTCAT
313 CGAAGGCCCGACTCAGTTTTGTATAATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCAA
* * * *
15880 CGAACCAAATCTCAGCCACGTTGGATATAAGGATTTAATTTTACGAGCATCTGAATCTAATTTCG
377 CTAACCAAATCTCAGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTTATTTCG
* * * *
15945 ATTTAATTAGAAATAAATTCGAAAAAAAATGGAAAACGATATTAGATGCA-AAAGACCCCTTCAA
442 ATTTAATTAGAAATAAATTCG-AAAAAAATGGAAAACAATATTACAAGCAGAAA-AACCCTTC--
*
16009 TTTATTATATTTTTTTTGCATTCAATTATATATTTTTTCTGAGTATTG-GGACAAAAAATTGAGG
503 ------A-ATTTTTTTTG--TTCAATTATATATTTTTTCTGACTATTGTGGA-AAAAAATTGAGG
*
16073 AATAA-CATTTCAGG-TCAGTTTTTGC-AAAATTTTAGCCGAAATCATATACAAATCATCACGGT
558 AA-AATCATTTC-GGATCAGTTTTTGCGAAAATTTTAGCCGAAATCATATACAAACCATCACGGT
* *
16135 TTTTGGCTAAAAACGCGTTCCGGAAC-CGCG
621 TTTCGGCTAAAAACGCGTTCCGGAACTC-CA
* * * * *
16165 ACTCAATTTTGCATGCTTTTTGGCATAAAGACTCCTTGAAATATCTATATTTATCTAACCAAATC
1 ACTCAATTTTGCATGATTTTTGGCACAAAAACTCCTTGAAATATCTATATTCATCGAACCAAATC
* * ** * *
16230 TCAGCCACATTAGATTTATGAATTTGTTTTTACGAGTATCTAAATCCTGTTTCGATTCAATTAGA
66 TCAGCCACATTAGATATAAGAATTTAATTTTACGAGCATCTAAATCCTATTTCGATTCAATTAGA
* * *
16295 AATTAATTCTAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCGTCAATAATCTTGGCG
131 AATAAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGACCGTCAATAATCTTGGCG
* * *
16360 TTAAATTATTTTTTTTTTCTGAGTATTGTGGCAAAAAATTCATGGAAAAAAATTTTGGGTCAGTT
196 TTAAATTATATATTTTTTCTGAGTATTGAGGCAAAAAATTCATGGAAAAAAATTTTGGGTCAGTT
* * * ** * **
16425 TTTAGCCGAAATCGTATACTAACCATCACAATTTTTGGCTAAAAACGCGTTTCGGTGTCCCGGTT
261 TTTAGCCGAAATCGAAAACTAACCATCACAATTTTTGGCTAAAAACGCGTTCCGAAGGCCCGACT
** * *
16490 TTGTTTT-TCATAATTTTTGGCAGAAAGACTCCTTGAAATATCGATATTCAACTAACCAAATATC
326 CAGTTTTGT-ATAATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATCTC
*
16554 AGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTTATTTC-TTTTAATTAGAAA
390 AGCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAA
16618 TAAATTCGGAAAAAAA-GGAAAA
455 TAAATTC-GAAAAAAATGGAAAA
16640 ATTTTGGGTC
Statistics
Matches: 943, Mismatches: 143, Indels: 94
0.80 0.12 0.08
Matches are distributed among these distances:
643 66 0.07
644 1 0.00
648 11 0.01
649 74 0.08
650 10 0.01
651 57 0.06
652 1 0.00
655 7 0.01
656 10 0.01
657 162 0.17
658 9 0.01
659 6 0.01
660 27 0.03
661 133 0.14
662 2 0.00
663 5 0.01
664 1 0.00
665 14 0.01
666 257 0.27
667 73 0.08
668 13 0.01
669 1 0.00
670 3 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (650 bp):
ACTCAATTTTGCATGATTTTTGGCACAAAAACTCCTTGAAATATCTATATTCATCGAACCAAATC
TCAGCCACATTAGATATAAGAATTTAATTTTACGAGCATCTAAATCCTATTTCGATTCAATTAGA
AATAAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGACCGTCAATAATCTTGGCG
TTAAATTATATATTTTTTCTGAGTATTGAGGCAAAAAATTCATGGAAAAAAATTTTGGGTCAGTT
TTTAGCCGAAATCGAAAACTAACCATCACAATTTTTGGCTAAAAACGCGTTCCGAAGGCCCGACT
CAGTTTTGTATAATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATCTCA
GCCACGTTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAAT
AAATTCGAAAAAAATGGAAAACAATATTACAAGCAGAAAAACCCTTCAATTTTTTTTGTTCAATT
ATATATTTTTTCTGACTATTGTGGAAAAAAATTGAGGAAAATCATTTCGGATCAGTTTTTGCGAA
AATTTTAGCCGAAATCATATACAAACCATCACGGTTTTCGGCTAAAAACGCGTTCCGGAACTCCA
Found at i:18694 original size:327 final size:323
Alignment explanation
Indices: 16675--20188 Score: 2753
Period size: 328 Copynumber: 10.9 Consensus size: 323
16665 TCGTGTACTA
* *** * * * *
16675 ACCATCACGATTTTTGGCTGAAAACGCGTTTCCTTGTCCCGACTCAGTTTTGCATAATTTTTGGC
1 ACCATCACGATTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATGATTTTTGGC
* * * ** *
16740 AGAAATACTCCTTGAAATTTCTATATTCATCTTACCAAATCTCAG-C-CA---CAT-T--GGATT
66 ACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGGATT
* * * *
16797 TGTTTTTACGAGCATCTGAATCTTGTATCGATTCAATTAGAAATTAATTCGAAAAAAAAAAATTG
131 TATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCG----AAAAAAA-TG
* * * * *
16862 GAAAAACGATATTAGAAGCCT-AAAAAGTC-TGTCAATCTTCTTGGTGTTTAATTATATATTTTT
191 GAAAAACGATATTAGAAGCATGAAAAA-CCGT-TCAAT-TTTTTGGCGTTGAATTATATATTTTT
* * * * * *
16925 TCTGAGTATTGTGGAAAAAAATTCATGGAAAAAA--TTGAGTCATTTTTTAGCCGAAA---TAGT
253 TCTGAGTATTGTGGCAAAAAATTGA-GGAAAAAATTTTGAGTCAGTTTTT-G-CAAAATTTTCGA
* *
16985 ATAC--T-A
315 AAACTGTCT
* * * **** ** * *
16991 ACCATTACGATTTTTGGCTAAAAATGTGTTTCGGTTTACCGGCTCTGTTTTGTATAATTTTTGGC
1 ACCATCACGATTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATGATTTTTGGC
* * * * * * *
17056 AGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATCTTAGCCACCTTGGATTTAAGGATT
66 ACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGGATT
* *
17121 TGA-TTTTACGAGCATCTAAATCTTGTTTCGATTGAATTAGAAATAAATTCGGAAAAAAATGGAA
131 T-ATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTC-GAAAAAAATGGAA
** * *** * *
17185 AAATAATATTAGAAGCATG-AAAATCGCTTCAATTTTTTTTAGCTGAATTAAATATTTTTTCTGA
194 AAACGATATTAGAAGCATGAAAAACCG-TTCAATTTTTTGGCGTTGAATTATATATTTTTTCTGA
* ** * *
17249 CTATTGTGGCAAAAAATTGAGGAAATACTTTTTG-GATCAGTTTTT-CGAAATTTTTAATTGAAA
258 GTATTGTGGCAAAAAATTGAGGAAA-AAATTTTGAG-TCAGTTTTTGC-AAA-ATTT--TCGAAA
*
17312 TCATGTACT
317 AC-TGT-CT
* * * **
17321 AACCATCAC-AGTTTTTAGCTAAAAACGTGTTCCGGAGCTCTAGG-TCAATTTTGCATGATTTTT
1 -ACCATCACGA-TTTTTGGCTAAAAACGCGTTTCGGAGC-CCCGGCTCAATTTTGCATGATTTTT
* * * * *
17384 GGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAAAATCTCAGTCACGTTTGATATAAGT
63 GGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGG
* *
17449 ATTTATTTTTACGAGCATCTGTATCTTG-TTCGATTTAATTAGAAATAAATTCGGAAAAAATGGA
128 ATTTATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGAAAAAAATGGA
* * ** * *
17513 AAAACGTTATTAGAAGCGTGAAAAATTGTTCAGTTTATTTGGCATTGAATTATATATTTTTTCTG
193 AAAACGATATTAGAAGCATGAAAAACCGTTCAATTT-TTTGGCGTTGAATTATATATTTTTTCTG
* *
17578 AGTATTGTGGCAAAAAATTAAGGAAAAACTTTTCGAGTCAGTTTTTGCAAAATTTTCGCCGAAAA
257 AGTATTGTGGCAAAAAATTGAGGAAAAAATTTT-GAGTCAGTTTTTGCAAAATTTT---CGAAAA
*
17643 CGTGTGT
318 C-TGTCT
*** * * * * * *
17650 AGGTTCACGGTATTTGGCTAAAAACGCGTTCCGAAGCCCCGACTCAATTTTGCAAGATTTTT-GC
1 ACCATCACGATTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATGATTTTTGGC
* * * *
17714 ACAAAGACTCCCTGAAATATATATATTCATCGAACCAAATCTTAGTCATATTGGATATAAGGATT
66 ACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGGATT
* * * * *
17779 TGTTTTTCCGAGCATCTGAATCTTGTTTCGATTCAATTAGAAATTAATTCTAAAAAAATGGAAAA
131 TATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGAAAAAAATGGAAAA
* * *
17844 ACGATATTAGAAGCATGAAAAGTCCG-TCAATCTTCTTAGCGTTGAATTATATATTTTTTCTGAG
196 ACGATATTAGAAGCATGAAAA-ACCGTTCAAT-TTTTTGGCGTTGAATTATATATTTTTTCTGAG
* * * * *
17908 TATTGTGGCAAAAAATTCATGGAAAAAA--TTGAGTCAGTTTTTAGCCGAAA---TAGTATAC--
259 TATTGTGGCAAAAAATTGA-GGAAAAAATTTTGAGTCAGTTTTT-G-CAAAATTTTCGAAAACTG
*
17966 T-A
321 TCT
* **** ** *
17968 ACCATCACGATTTTTGGCTAAAAACGCGTTTCAGTTTACCGGCTCAATTTTATATAATTTTTGGC
1 ACCATCACGATTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATGATTTTTGGC
* * * * *
18033 AGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATATCAG-CAACATTGGATTTAAGGAT
66 ACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTC-ACATTGGATATAAGGAT
* *
18097 TTGA-TTTTACGAGCATCTGAATCTTGTTT--TTTTAATTAGAAATAAATTCGGAAAAAAAAGAA
130 TT-ATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTC-GAAAAAAATG--
* ***
18159 AGAAAATAACGATATTAGAAGCATGAAAAACCCTTCAATTTTTTCTTTGTTGAATTATATATTTT
191 -G-AAA-AACGATATTAGAAGCATGAAAAACCGTTCAATTTTTT-GGCGTTGAATTATATATTTT
* * * *
18224 TTCTGACTATTGTGGCAAAAAATTGAGGAAATACTTTTCG-G--A-----T-C-AATTTTTCG-A
252 TTCTGAGTATTGTGGCAAAAAATTGAGGAAAAAATTTT-GAGTCAGTTTTTGCAAAATTTTCGAA
18278 AA-T-T-T
316 AACTGTCT
** * * **
18283 -TTAGCACGGTTTTTGGCTAAAAACGTC-TTTCGGAGCTCCATG-TCAATTTTGCATGATTTTTG
1 ACCATCACGATTTTTGGCTAAAAACG-CGTTTCGGAGC-CCCGGCTCAATTTTGCATGATTTTTG
* * ** * *
18345 GCGCAAATACTCCTTGAAATATCTATATTCATCGAAAAAAATCTCAGTCACGTTTGATATAAGGA
64 GCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGGA
* *
18410 TTTATTTTTACGAGCATCTGAATCTTG-TTCGATTTAATTAAAAATAAATTC-AGAAAAATGGAA
129 TTTATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGAAAAAAATGGAA
* *
18473 AAACGATATTAGAAGCGTGAAAAACAGTTCAATTTATTTGGCGTTGAATTATATATTTTTTCTGA
194 AAACGATATTAGAAGCATGAAAAACCGTTCAATTT-TTTGGCGTTGAATTATATATTTTTTCTGA
*
18538 GTATTGTGGCAAAAAATTGAGGAAAAAATTTTAAAGTCAGTTTTTGCAAAATTTTCACCGAAAAC
258 GTATTGTGGCAAAAAATTGAGGAAAAAATTTT-GAGTCAGTTTTTGCAAAATTTT---CGAAAAC
*
18603 GTGTGT
319 -TGTCT
*** * * *
18609 AGGTTCACGATATTTGGCTAAAAACGCGTTCCGAAGCCCCGGCTCAATTTTGCATGATTTTTGGC
1 ACCATCACGATTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATGATTTTTGGC
* * *
18674 ACAAAGACTCCTTTAAATATCTATATTCATCGAACCAAATCTTAGTCATATTGGATATAAGGATT
66 ACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGGATT
* * * *
18739 TGTTTTTACGAGAATCTGAATCTTGTTTCGATTGAATTAGAAATTAATTCGAAAAAAAAATGGAA
131 TATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCG--AAAAAAATGGAA
* * * *
18804 AAACGATATTAGAAGCGTGAAAAGTCCG-GCAATCTTCTTGGCGTTGAATTATATATTTTTTTCT
194 AAACGATATTAGAAGCATGAAAA-ACCGTTCAAT-TTTTTGGCGTTGAATTATATA-TTTTTTCT
* * * * * *
18868 GAGTATTGTTGCAAAAAATTCGTGGAAAAAAATTTTGAGTCAATTTTTAGCCGAAA---TCGTAT
256 GAGTATTGTGGCAAAAAATT-GAGG-AAAAAATTTTGAGTCAGTTTTT-G-CAAAATTTTCGAAA
*
18930 AC--T-A
317 ACTGTCT
* * ** * *
18934 ACCATTACGATTTTTGGCTAAAAACGCGTTTCGGTGTACCGGCTCAGTTTTGCATAATTTTTGGC
1 ACCATCACGATTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATGATTTTTGGC
* * * * * * *
18999 AGAAAGACTCCTTGAAATATCTATATCCAACTAACCAAATCTTAGTCACATTAGATTTAAGGATT
66 ACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGGATT
* * * *
19064 TGA-TTTTACGAGTATCTAAATCTTGTTTCGATTTTTAATTAGAAACT-AATTCAAAAAAAAAAG
131 T-ATTTTTACGAGCATCTGAATCTTGTTTCGA--TTTAATTAGAAA-TAAATTC-GAAAAAAATG
* * *
19127 G-AAAACGATATTAGAAGCATGAAAAACCTTTCAATTTTTTTGGCGTCGAATTACAT-TTTTTTC
191 GAAAAACGATATTAGAAGCATGAAAAACCGTTCAA-TTTTTTGGCGTTGAATTATATATTTTTTC
** ** * *
19190 TGAGCGTTGTGGCAAAGTATTGAGGAAAAACTTTTCG-GATCAGTTTTT-CAAAACCTTT-GAAA
255 TGAGTATTGTGGCAAAAAATTGAGGAAAAAATTTT-GAG-TCAGTTTTTGCAAAA-TTTTCGAAA
* *
19252 TCGTATACT
317 AC-TGT-CT
* *
19261 AACCATCAC-AGTTTTTGGCTAAAAACGTGTTTCGGA-CCTCCAGCTCAATTTTGCATGATTTTT
1 -ACCATCACGA-TTTTTGGCTAAAAACGCGTTTCGGAGCC-CCGGCTCAATTTTGCATGATTTTT
* * *
19324 TGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGG
63 GGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGG
* * *
19389 ATTTATTTTTACGAGCATCTGAATTTTGCTTCAATTTAATTAGAAATAAATTC---------GG-
128 ATTTATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGAAAAAAATGGA
* * * * * *
19444 -AAA--A-A--A-AAG--TGAAAAACCCTTCTATTTTTTTAGCGTTGAATTAAATTTTTTTCCTG
193 AAAACGATATTAGAAGCATGAAAAACCGTTC-AATTTTTTGGCGTTGAATTATATATTTTTTCTG
* * * * * **
19500 ACTATTGTGGCAAAAAATTGA-GAAAAATACTTTACGGGTAAGTTTTTAGTCGAAA---TCGTGA
257 AGTATTGTGGCAAAAAATTGAGGAAAAA-A-TTT-TGAGTCAGTTTTT-G-CAAAATTTTCGAAA
*
19561 AC--T-A
317 ACTGTCT
* * * * * * *
19565 ACCATCACGGTTTTTTTCGCTAAAAACGCGTTTCGGGGCCTCAGCTCAGTTTTGCATGATATTTG
1 ACCATCAC-G-ATTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATGATTTTTG
* * * * * * *
19630 TCATAAAGACTCCTTGAAATATCTATATTCATCTAACTAAATCTCATTCACATTGGATTTAAGGG
64 GCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGGA
* * * *
19695 TTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTGGAAATTAAATTGGAAAAAAAAAGG
129 TTTATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAA-TAAATTCG-AAAAAAATGG
* * ** * *
19760 GAAAACGATATTAGAAGCATGAAAAACCTTTCAATTATTTTGGCGTCAAATAACATATTTTTTCT
192 AAAAACGATATTAGAAGCATGAAAAACCGTTCAATT-TTTTGGCGTTGAATTATATATTTTTTCT
* * * * * *
19825 AAGTATTGTGGCAAAGAATTAAGGAAAACATGTTTG-GAT-ATTTTTTCGTAAAATTTTAGCCGA
256 GAGTATTGTGGCAAAAAATTGAGGAAAAAAT-TTTGAG-TCAGTTTTT-GCAAAATTTT---CGA
*
19888 AATC-GT-T
315 AAACTGTCT
* * ** * * *
19895 AACTCATCACGGTTTATGGCTAAAAACGCG-TTCTGG-GTTTCCGACTCAGTTTTGCATGATGTT
1 -AC-CATCACGATTTTTGGCTAAAAACGCGTTTC-GGAG-CCCCGGCTCAATTTTGCATGATTTT
* * ** * * * * * *
19958 TGG-AGTAAATACTTTTTGAAATATCTATATTCATTGAACCAAATCCCAGCCAAATTTGATTTAA
62 TGGCA-CAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAA
* * * * *
20022 CGATTTGTTTTTACGAGCATGTGAATCTTGTTTCAATTTAATTAGAAATTAATTCAGAAAAAAAT
126 GGATTTATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTC-GAAAAAAAT
* * **
20087 GGAAAAACGATATTAGAAGCGTG-AAAACCACTTCAATATTTTTTACGTTGAATTATATATTTTT
190 GGAAAAACGATATTAGAAGCATGAAAAACC-GTTCAAT-TTTTTGGCGTTGAATTATATATTTTT
* * *
20151 TATGAATATTGTGGCAAAAAATTGAGAACAAAAATTTT
253 TCTGAGTATTGTGGCAAAAAATTGAGGA-AAAAATTTT
20189 CGGGTCAATT
Statistics
Matches: 2570, Mismatches: 444, Indels: 355
0.76 0.13 0.11
Matches are distributed among these distances:
303 8 0.00
305 139 0.05
306 9 0.00
307 36 0.01
308 109 0.04
309 25 0.01
310 3 0.00
311 1 0.00
312 5 0.00
313 13 0.01
314 121 0.05
315 28 0.01
316 101 0.04
317 20 0.01
318 70 0.03
319 132 0.05
320 31 0.01
321 35 0.01
322 39 0.02
323 96 0.04
324 66 0.03
325 196 0.08
326 100 0.04
327 236 0.09
328 315 0.12
329 150 0.06
330 236 0.09
331 182 0.07
332 40 0.02
333 13 0.01
334 11 0.00
335 4 0.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (323 bp):
ACCATCACGATTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTCAATTTTGCATGATTTTTGGC
ACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGGATT
TATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGAAAAAAATGGAAAA
ACGATATTAGAAGCATGAAAAACCGTTCAATTTTTTGGCGTTGAATTATATATTTTTTCTGAGTA
TTGTGGCAAAAAATTGAGGAAAAAATTTTGAGTCAGTTTTTGCAAAATTTTCGAAAACTGTCT
Found at i:18796 original size:960 final size:959
Alignment explanation
Indices: 16679--20200 Score: 3969
Period size: 963 Copynumber: 3.6 Consensus size: 959
16669 GTACTAACCA
* * ** * * * *
16679 TCACGATTTTTGGCTGAAAACGCGTTTCC-TTGTCCCGACTCAGTTTTGCATAATTTTTGGCAGA
1 TCACGATATTTGGCTAAAAACGCG-TTCCGAAGCCCCGACTCAATTTTGCATGATTTTTGGCACA
* * ** *
16743 AATACTCCTTGAAATTTCTATATTCATCTTACCAAATCTCAG-C-CA---CAT-T--GGATTTGT
65 AAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGGATTTGT
*
16800 TTTTACGAGCATCTGAATCTTGTATCGATTCAATTAGAAATTAATTCGAAAAAAAAAAATTGGAA
130 TTTTACGAGCATCTGAATCTTGTTTCGATTCAATTAGAAATTAATTCG---AAAAAAAA-TGGAA
* * * * *
16865 AAACGATATTAGAAGCCTAAAAAGTCTGTCAATCTTCTTGGTGTTTAATTATATATTTTTTCTGA
191 AAACGATATTAGAAGCATGAAAAGTCCGTCAATCTTCTTGGCGTTGAATTATATATTTTTTCTGA
* *
16930 GTATTGTGGAAAAAAATTCATGGAAAAAATTGAGTCATTTTTTAGCCGAAATAGTATACTAACCA
256 GTATTGTGGCAAAAAATTCATGGAAAAAATTGAGTCAGTTTTTAGCCGAAATAGTATACTAACCA
* * * * *
16995 TTACGATTTTTGGCTAAAAATGTGTTTCGGTTTACCGGCTCTGTTTTGTATAATTTTTGGCAGAA
321 TCACGATTTTTGGCTAAAAACGCGTTTCGGTTTACCGGCTCAGTTTTGCATAATTTTTGGCAGAA
* *
17060 AGACTCCTTGAAATATCTATATTCAACTAACCAAATCTTAGCC-ACCTTGGATTTAAGGATTTGA
386 AGACTCCTTGAAATATCTATATTCAACTAACCAAATCTCAGCCAACATTGGATTTAAGGATTTGA
* *
17124 TTTTACGAGCATCTAAATCTTGTTTCGATTGAATTAGAAATAAATTCGGAAAAAAATG--GAAAA
451 TTTTACGAGCATCTAAATCTTGTTTC-ATTTAATTAGAAATAAATTCGGAAAAAAAAGAAGAAAA
** * * * * *
17187 ATAATATTAGAAGCATGAAAATCGCTTCAATTTTTTTTAGCTGAATTAAATATTTTTTCTGACTA
515 ACGATATTAGAAGCATGAAAAACCCTTCAATTTTTTTTCGTTGAATTATATATTTTTTCTGACTA
* * *
17252 TTGTGGCAAAAAATTGAGGAAATACTTTTTGGATCAGTTTTTCGAAATTTTTAATTGAAATCATG
580 TTGTGGCAAAAAATTGAGGAAAAACTTTTCGGATCAATTTTTCGAAA---TT-ATT---AT-A-G
* * *
17317 TACTAACCATCACAGTTTTTAGCTAAAAACGTGTTCCGGAGCTCTAGGTCAATTTTGCATGATTT
636 ----------CACAGTTTTTGGCTAAAAACGTGTTTCGGAGCTCCA-GTCAATTTTGCATGATTT
17382 TTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAAAATCTCAGTCACGTTTGATATAA
690 TTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAAAATCTCAGTCACGTTTGATATAA
* *
17447 GTATTTATTTTTACGAGCATCTGTATCTTGTTCGATTTAATTAGAAATAAATTCGGAAAAAATGG
755 GGATTTATTTTTACGAGCATCTGAATCTTGTTCGATTTAATTAGAAATAAATTC-G-AAAAATGG
* ** * *
17512 AAAAACGTTATTAGAAGCGTGAAAAATTGTTCAGTTTATTTGGCATTGAATTATATATTTTTTCT
818 AAAAACGATATTAGAAGCGTGAAAAACAGTTCAATTTATTTGGCGTTGAATTATATATTTTTTCT
* * * *
17577 GAGTATTGTGGCAAAAAATTAAGGAAAAACTTTTCGAGTCAGTTTTTGCAAAATTTTCGCCGAAA
883 GAGTATTGTGGCAAAAAATTGAGGAAAAAATTTTAGAGTCAGTTTTTGCAAAATTTTCACCGAAA
17642 ACGTGTGTAGGT
948 ACGTGTGTAGGT
* *
17654 TCACGGTATTTGGCTAAAAACGCGTTCCGAAGCCCCGACTCAATTTTGCAAGATTTTT-GCACAA
1 TCACGATATTTGGCTAAAAACGCGTTCCGAAGCCCCGACTCAATTTTGCATGATTTTTGGCACAA
* * * *
17718 AGACTCCCTGAAATATATATATTCATCGAACCAAATCTTAGTCATATTGGATATAAGGATTTGTT
66 AGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGGATTTGTT
* *
17783 TTTCCGAGCATCTGAATCTTGTTTCGATTCAATTAGAAATTAATTC-TAAAAAAATGGAAAAACG
131 TTTACGAGCATCTGAATCTTGTTTCGATTCAATTAGAAATTAATTCGAAAAAAAATGGAAAAACG
*
17847 ATATTAGAAGCATGAAAAGTCCGTCAATCTTCTTAGCGTTGAATTATATATTTTTTCTGAGTATT
196 ATATTAGAAGCATGAAAAGTCCGTCAATCTTCTTGGCGTTGAATTATATATTTTTTCTGAGTATT
17912 GTGGCAAAAAATTCATGGAAAAAATTGAGTCAGTTTTTAGCCGAAATAGTATACTAACCATCACG
261 GTGGCAAAAAATTCATGGAAAAAATTGAGTCAGTTTTTAGCCGAAATAGTATACTAACCATCACG
* * **
17977 ATTTTTGGCTAAAAACGCGTTTCAGTTTACCGGCTCAATTTTATATAATTTTTGGCAGAAAGACT
326 ATTTTTGGCTAAAAACGCGTTTCGGTTTACCGGCTCAGTTTTGCATAATTTTTGGCAGAAAGACT
*
18042 CCTTGAAATATCTATATTCAACTAACCAAATATCAG-CAACATTGGATTTAAGGATTTGATTTTA
391 CCTTGAAATATCTATATTCAACTAACCAAATCTCAGCCAACATTGGATTTAAGGATTTGATTTTA
* *
18106 CGAGCATCTGAATCTTGTTT-TTTTAATTAGAAATAAATTCGGAAAAAAAAGAAAGAAAATAACG
456 CGAGCATCTAAATCTTGTTTCATTTAATTAGAAATAAATTCGGAAAAAAAAG-AAG-AAA-AACG
*
18170 ATATTAGAAGCATGAAAAACCCTTCAATTTTTTCTTTGTTGAATTATATATTTTTTCTGACTATT
518 ATATTAGAAGCATGAAAAACCCTTCAATTTTTT-TTCGTTGAATTATATATTTTTTCTGACTATT
* *
18235 GTGGCAAAAAATTGAGGAAATACTTTTCGGATCAATTTTTCGAAATT-TT-TAGCACGGTTTTTG
582 GTGGCAAAAAATTGAGGAAAAACTTTTCGGATCAATTTTTCGAAATTATTATAGCACAGTTTTTG
* *
18298 GCTAAAAACGTCTTTCGGAGCTCCATGTCAATTTTGCATGATTTTTGGCGCAAATACTCCTTGAA
647 GCTAAAAACGTGTTTCGGAGCTCCA-GTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAA
*
18363 ATATCTATATTCATCGAAAAAAATCTCAGTCACGTTTGATATAAGGATTTATTTTTACGAGCATC
711 ATATCTATATTCATCGAACAAAATCTCAGTCACGTTTGATATAAGGATTTATTTTTACGAGCATC
*
18428 TGAATCTTGTTCGATTTAATTAAAAATAAATTCAGAAAAATGGAAAAACGATATTAGAAGCGTGA
776 TGAATCTTGTTCGATTTAATTAGAAATAAATTC-GAAAAATGGAAAAACGATATTAGAAGCGTGA
18493 AAAACAGTTCAATTTATTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGA
840 AAAACAGTTCAATTTATTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGA
*
18558 GGAAAAAATTTTAAAGTCAGTTTTTGCAAAATTTTCACCGAAAACGTGTGTAGGT
905 GGAAAAAATTTTAGAGTCAGTTTTTGCAAAATTTTCACCGAAAACGTGTGTAGGT
*
18613 TCACGATATTTGGCTAAAAACGCGTTCCGAAGCCCCGGCTCAATTTTGCATGATTTTTGGCACAA
1 TCACGATATTTGGCTAAAAACGCGTTCCGAAGCCCCGACTCAATTTTGCATGATTTTTGGCACAA
* * *
18678 AGACTCCTTTAAATATCTATATTCATCGAACCAAATCTTAGTCATATTGGATATAAGGATTTGTT
66 AGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGGATTTGTT
* *
18743 TTTACGAGAATCTGAATCTTGTTTCGATTGAATTAGAAATTAATTCGAAAAAAAAATGGAAAAAC
131 TTTACGAGCATCTGAATCTTGTTTCGATTCAATTAGAAATTAATTCG-AAAAAAAATGGAAAAAC
* *
18808 GATATTAGAAGCGTGAAAAGTCCGGCAATCTTCTTGGCGTTGAATTATATATTTTTTTCTGAGTA
195 GATATTAGAAGCATGAAAAGTCCGTCAATCTTCTTGGCGTTGAATTATATA-TTTTTTCTGAGTA
* * * *
18873 TTGTTGCAAAAAATTCGTGGAAAAAAATTTTGAGTCAATTTTTAGCCGAAATCGTATACTAACCA
259 TTGTGGCAAAAAATTCATGG-AAAAAA--TTGAGTCAGTTTTTAGCCGAAATAGTATACTAACCA
* *
18938 TTACGATTTTTGGCTAAAAACGCGTTTCGGTGTACCGGCTCAGTTTTGCATAATTTTTGGCAGAA
321 TCACGATTTTTGGCTAAAAACGCGTTTCGGTTTACCGGCTCAGTTTTGCATAATTTTTGGCAGAA
* * * *
19003 AGACTCCTTGAAATATCTATATCCAACTAACCAAATCTTAGTC-ACATTAGATTTAAGGATTTGA
386 AGACTCCTTGAAATATCTATATTCAACTAACCAAATCTCAGCCAACATTGGATTTAAGGATTTGA
* *
19067 TTTTACGAGTATCTAAATCTTGTTTCGATTTTTAATTAGAAACT-AATTC--AAAAAAAA-AAGG
451 TTTTACGAGCATCTAAATCTTGTTTC-A--TTTAATTAGAAA-TAAATTCGGAAAAAAAAGAAGA
* * * *
19128 AAAACGATATTAGAAGCATGAAAAACCTTTCAATTTTTTTGGCGTCGAATTACAT-TTTTTTCTG
512 AAAACGATATTAGAAGCATGAAAAACCCTTCAATTTTTTT-TCGTTGAATTATATATTTTTTCTG
* ** *
19192 AGC-GTTGTGGCAAAGTATTGAGGAAAAACTTTTCGGATCAGTTTTTCAAAACCTTTGAAATCGT
576 A-CTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGATCAATTTTT------C---GAAAT--T
* * *
19256 ATACTAACCATCACAGTTTTTGGCTAAAAACGTGTTTCGGACCTCCAGCTCAATTTTGCATGATT
629 AT--T-A-TAGCACAGTTTTTGGCTAAAAACGTGTTTCGGAGCTCCAG-TCAATTTTGCATGATT
* * * * *
19321 TTTTGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATA
689 TTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAAAATCTCAGTCACGTTTGATATA
* *
19386 AGGATTTATTTTTACGAGCATCTGAATTTTGCTTCAATTTAATTAGAAATAAATTC-------GG
754 AGGATTTATTTTTACGAGCATCTGAATCTTG-TTCGATTTAATTAGAAATAAATTCGAAAAATGG
** * * * *
19444 --AAA--A-A--A-AA--GTGAAAAACCCTTCTATTTTTTTAGCGTTGAATTAAAT-TTTTTTCC
818 AAAAACGATATTAGAAGCGTGAAAAACAGTTCAATTTATTTGGCGTTGAATTATATATTTTTT-C
* * * * * ** * *
19498 TGACTATTGTGGCAAAAAATTGA-GAAAAATACTTTACGGGTAAGTTTTTAGTCGAAATCGTGAA
882 TGAGTATTGTGGCAAAAAATTGAGGAAAAA-ATTTTA-GAGTCAGTTTTT-G-CAAAATTTTCAC
* ** *
19562 C--TAAC-CAT-CACGGT
943 CGAAAACGTGTGTA-GGT
* * * ** * * * * *
19576 T-----TTTTTCGCTAAAAACGCGTTTCGGGGCCTC-AGCTCAGTTTTGCATGATATTTGTCATA
1 TCACGATATTTGGCTAAAAACGCGTTCCGAAGCCCCGA-CTCAATTTTGCATGATTTTTGGCACA
* * * * *
19635 AAGACTCCTTGAAATATCTATATTCATCTAACTAAATCTCATTCACATTGGATTTAAGGGTTTGT
65 AAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGGATTTGT
* * * * *
19700 TTTTACGAGCATCTGAATCTTGTTTCGATTTAATTGGAAATTAAATTGGAAAAAAAAAGGGAAAA
130 TTTTACGAGCATCTGAATCTTGTTTCGATTCAATTAGAAATT-AATTCGAAAAAAAATGGAAAAA
* * * ** * * *
19765 CGATATTAGAAGCATGAAAA-ACCTTTCAAT-TATTTTGGCGTCAAATAACATATTTTTTCTAAG
194 CGATATTAGAAGCATGAAAAGTCC-GTCAATCT-TCTTGGCGTTGAATTATATATTTTTTCTGAG
* * * *
19828 TATTGTGGCAAAGAATT-AAGGAAAACATGTTTGGATATTTTTTC-GTAAAATTTTAGCCGAAAT
257 TATTGTGGCAAAAAATTCATGGAAAA-A--ATT-G--A----GTCAGT----TTTTAGCCGAAAT
* * * * *
19891 CG--T--TAACTCATCACGGTTTATGGCTAAAAACGCGTTCTGGGTTT-CCGACTCAGTTTTGCA
308 AGTATACTAAC-CATCACGATTTTTGGCTAAAAACGCGTT-TCGGTTTACCGGCTCAGTTTTGCA
* * * ** * *
19951 TGATGTTTGG-AGTAAATACTTTTTGAAATATCTATATTC-ATTGAACCAAATCCCAGCCAA-AT
371 TAATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCAACT-AACCAAATCTCAGCCAACAT
* * * * * * *
20013 TTGATTTAACGATTTGTTTTTACGAGCATGTGAATCTTGTTTCAATTTAATTAGAAATTAATTCA
434 TGGATTTAAGGATTTGATTTTACGAGCATCTAAATCTTGTTTC-ATTTAATTAGAAATAAATTCG
* * *
20078 GAAAAAAATG--GAAAAACGATATTAGAAGCGTG-AAAACCACTTCAATATTTTTTACGTTGAAT
498 GAAAAAAAAGAAGAAAAACGATATTAGAAGCATGAAAAACC-CTTCAAT-TTTTTTTCGTTGAAT
* * * * *
20140 TATATATTTTTTATGAATATTGTGGCAAAAAATTGAGAACAAAAATTTTCGGGTCAATTTT
561 TATATATTTTTTCTGACTATTGTGGCAAAAAATTGAGGA-AAAACTTTTCGGATCAATTTT
20201 GAGCTGAAAA
Statistics
Matches: 2227, Mismatches: 232, Indels: 187
0.84 0.09 0.07
Matches are distributed among these distances:
955 4 0.00
956 5 0.00
957 29 0.01
958 194 0.09
959 201 0.09
960 276 0.12
961 23 0.01
962 123 0.06
963 308 0.14
964 90 0.04
965 5 0.00
966 201 0.09
967 1 0.00
968 9 0.00
969 2 0.00
970 18 0.01
971 5 0.00
972 6 0.00
973 2 0.00
974 44 0.02
975 74 0.03
976 4 0.00
977 269 0.12
978 10 0.00
979 6 0.00
980 172 0.08
981 93 0.04
982 53 0.02
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (959 bp):
TCACGATATTTGGCTAAAAACGCGTTCCGAAGCCCCGACTCAATTTTGCATGATTTTTGGCACAA
AGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATATAAGGATTTGTT
TTTACGAGCATCTGAATCTTGTTTCGATTCAATTAGAAATTAATTCGAAAAAAAATGGAAAAACG
ATATTAGAAGCATGAAAAGTCCGTCAATCTTCTTGGCGTTGAATTATATATTTTTTCTGAGTATT
GTGGCAAAAAATTCATGGAAAAAATTGAGTCAGTTTTTAGCCGAAATAGTATACTAACCATCACG
ATTTTTGGCTAAAAACGCGTTTCGGTTTACCGGCTCAGTTTTGCATAATTTTTGGCAGAAAGACT
CCTTGAAATATCTATATTCAACTAACCAAATCTCAGCCAACATTGGATTTAAGGATTTGATTTTA
CGAGCATCTAAATCTTGTTTCATTTAATTAGAAATAAATTCGGAAAAAAAAGAAGAAAAACGATA
TTAGAAGCATGAAAAACCCTTCAATTTTTTTTCGTTGAATTATATATTTTTTCTGACTATTGTGG
CAAAAAATTGAGGAAAAACTTTTCGGATCAATTTTTCGAAATTATTATAGCACAGTTTTTGGCTA
AAAACGTGTTTCGGAGCTCCAGTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATC
TATATTCATCGAACAAAATCTCAGTCACGTTTGATATAAGGATTTATTTTTACGAGCATCTGAAT
CTTGTTCGATTTAATTAGAAATAAATTCGAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACA
GTTCAATTTATTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAA
AATTTTAGAGTCAGTTTTTGCAAAATTTTCACCGAAAACGTGTGTAGGT
Found at i:19765 original size:633 final size:630
Alignment explanation
Indices: 16673--20094 Score: 2338
Period size: 633 Copynumber: 5.3 Consensus size: 630
16663 AATCGTGTAC
* * * * *
16673 TAACCATCACGATTTTTGGCTGAAAACGCGTTTCCTTG-TC-CCGACTCAGTTTTGCATAATTTT
1 TAACCATCACG-TTTTTGGCTAAAAACGCGTTT-C-GGACCTCCG-CTCAATTTTGCATGATTTT
* * ** *
16736 TGGCAG-AAATACTCCTTGAAATTTCTATATTCATCTTACCAAATCTCAGCC--A---CAT-T--
62 TGGC-GCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCAAATTGGATATAA
* * *
16792 GGATTTGTTTTTACGAGCATCTGAATCTTGTATCGATTCAATTAGAAATTAATTCGAAAAAAAAA
126 GGATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAGAAATTAATTCG---AAAAAA
* * * * * *
16857 AATTGGAAAAACGATATTAGAAGCCTAAAAAGTCTGTCAATCTTCTTGGTGTTTAATTATATA-T
188 AAGT-GAAAAAC-ACATT---A-CGT---AA----GTC--TCTTCTTAGCGTTGAATTATATATT
* * * * * *
16921 TTTTTCTGAGTATTGTGGAAAAAAATTCAT-GGAAAAAA-TT-GAGTCATTTTTTAGCCGAAATA
238 TTTTTCTGACTATTGTGGCAAAAAATTCGTAGAAAAAAATTTCGAGTCAATTTTTAGCCGAAATC
* * * * ** * * * *
16983 GTATACTAACCATTACGATTTTTGGCTAAAAATGTGTTTCGGTTTACCGGCTCTGTTTTGTATAA
303 GTATACTAACCATCACGATTTTTCGCTAAAAACGCGTTTCGGTGGACCAGCTCAGTTTTGCATGA
* * * * * * *
17048 TTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAACTAACCAAATCTTAGCCACCTTGGATT
368 TTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAGTCACATTAGATT
* * * *
17113 TAAGGATTTGATTTTACGAGCATCTAAATCTTGTTTCGATTGAATT-AGAAATAAATTCGGAAAA
433 TAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTGA-AAATAAATT--AAAAA
* * ** * * *
17177 AAATGGAAAAATAATATTAGAAGCATGAAAATCGC-TTCAATTTTTTTTAGC-T-GAATTAAATA
495 AAAAGGGAAAACGATATTAGAAGCATGAAAAAC-CTTTCAA-TTTTTTTGGCGTCGAATTACATA
* * * *
17239 TTTTTTCTGACTATTGTGGCAAAAAATTGAGGAAATACTTTTTGGATCAGTTTTTCGAAATTTTT
558 TTTTTTCTGAGTATTGTGGCAAAGAATTGAGGAAAAAC-TTTTGGATCAGTTTTTC-AAA-ATTT
* *
17304 AATTGAAATCATGTAC
620 --TCGAAATC--GT-T
* * * * * *
17320 TAACCATCACAGTTTTTAGCTAAAAACGTGTTCCGGAGCTCTAGGTCAATTTTGCATGATTTTTG
1 TAACCATCAC-GTTTTTGGCTAAAAACGCGTTTCGGACCTC-CGCTCAATTTTGCATGATTTTTG
* * ** * *
17385 GCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAAAATCTCAGTCACGTTTGATATAAGTA
64 GCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCAAATTGGATATAAGGA
* * * * * *
17450 TTTATTTTTACGAGCATCTGTATCTTG-TTCGATTTAATTAGAAATAAATTCGGAAAAAATG-GA
129 TTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAGAAATTAATTCGAAAAAAAAGTGA
** * * *
17513 AAAACGTTATTAGAAGCGTGAAAAATTGT-TCAGTTTATTTGGCATTGAATTATATA-TTTTTTC
194 AAAAC-ACATT---A-CGT----AA--GTCTC---TT-CTTAGCGTTGAATTATATATTTTTTTC
* * ** *
17576 TGAGTATTGTGGCAAAAAATT--AAGGAAAAACTTTTCGAGTCAGTTTTTGCAAAATTTTCGCCG
244 TGACTATTGTGGCAAAAAATTCGTA-GAAAAAAATTTCGAGTCAATTTTT-----A-----GCCG
* * * *** * * * * ** * * *
17639 AAAACGTGT-GT-AGGTTCACGGTATTTGGCTAAAAACGCG-TTCCGAAGCCCCGACTCAATTTT
298 AAATCGTATACTAACCATCACGATTTTTCGCTAAAAACGCGTTTCGGTGGACCAG-CTCAGTTTT
* * * * * * *
17701 GCAAGATTTTT-GCACAAAGACTCCCTGAAATATATATATTCATCGAACCAAATCTTAGTCATAT
362 GCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAGTCACAT
* * * * *
17765 TGGATATAAGGATTTGTTTTTCCGAGCATCTGAATCTTGTTTCGATTCAATT-AGAAATTAATTC
427 TAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTGA-AAATAAATT-
* * * * * * * * *
17829 TAAAAAAATGGAAAAACGATATTAGAAGCATGAAAAGTCC-GTCAATCTTCTTAGCGTTGAATTA
490 AAAAAAAAAGGGAAAACGATATTAGAAGCATGAAAA-ACCTTTCAATTTTTTTGGCGTCGAATTA
* * * *
17893 TATATTTTTTCTGAGTATTGTGGCAAAAAATTCATGGAAAAA--ATT-GAGTCAGTTTTT----A
554 CATATTTTTTCTGAGTATTGTGGCAAAGAATTGA-GGAAAAACTTTTGGA-TCAGTTTTTCAAAA
** *
17951 --GCCGAAATAGTAT
617 TTTTCGAAATCGT-T
* ** ** *
17964 ACTAACCATCACGATTTTTGGCTAAAAACGCGTTTCAG-TTTACCGGCTCAATTTTATATAATTT
1 --TAACCATCACG-TTTTTGGCTAAAAACGCGTTTCGGACCT-CC-GCTCAATTTTGCATGATTT
* * * *
18028 TTGGCAG-AAAGACTCCTTGAAATATCTATATTCAACTAACCAAATATCAG-CAACATTGGATTT
61 TTGGC-GCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCAA-ATTGGATAT
* * *
18091 AAGGATTTGATTTTACGAGCATCTGAATCTTGTTT--TTTTAATTAGAAATAAATTCGGAAAAAA
124 AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAGAAATTAATTC-GAAAAAA
* * * ** * **
18154 AAGAAAGAAAATAACGATATTAGAAGCATGAAAAACCCTTCAATTTTTTCTTTGTTGAATTATAT
188 AAG--TG-AAA-AAC-ACATT---A-C--GTAAGTCTCTTC----TTAGC---GTTGAATTATAT
* **
18219 A-TTTTTTCTGACTATTGTGGCAAAAAATT-G-AGGAAATACTTTTCG-GATCAATTTTT---CG
235 ATTTTTTTCTGACTATTGTGGCAAAAAATTCGTA-GAAAAAAATTTCGAG-TCAATTTTTAGCCG
* * * * * ** *
18277 AAAT--T-T--T---TAGCACGGTTTTTGGCTAAAAACGTC-TTTCGGAGCTCCATG-TCAATTT
298 AAATCGTATACTAACCATCACGATTTTTCGCTAAAAACG-CGTTTCGGTGGACCA-GCTCAGTTT
* * * * *
18332 TGCATGATTTTTGGCGCAAATACTCCTTGAAATATCTATATTCATCGAAAAAAATCTCAGTCACG
361 TGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAGTCACA
* * * * *
18397 TTTGATATAAGGATTTATTTTTACGAGCATCTGAATCTTG-TTCGATTTAATTAAAAATAAATTC
426 TTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTGAAAATAAATTA
* * * * ** * * *
18461 AGAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACAGTTCAATTTATTTGGCGTTGAATTATA
491 AAAAAAAAGGGAAAACGATATTAGAAGCATGAAAAACCTTTCAATTTTTTTGGCGTCGAATTACA
* * **
18526 TATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAAATTTTAAAGTCAGTTTTTGCAAAATT
556 TATTTTTTCTGAGTATTGTGGCAAAGAATTGAGGAAAAACTTTTGGA-TCAGTTTTT-CAAAATT
*
18591 TTCACCGAAAACGTGT
619 TT---CGAAATCGT-T
*** * * *
18607 GT-AGGTTCACGATATTTGGCTAAAAACGCGTTCCGAAGCC-CCGGCTCAATTTTGCATGATTTT
1 -TAACCATCACG-TTTTTGGCTAAAAACGCGTTTCGGA-CCTCC-GCTCAATTTTGCATGATTTT
* * * * *
18670 TGGCACAAAGACTCCTTTAAATATCTATATTCATCGAACCAAATCTTAGTCATATTGGATATAAG
62 TGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCAAATTGGATATAAG
* * * *
18735 GATTTGTTTTTACGAGAATCTGAATCTTGTTTCGATTGAATTAGAAATTAATTCGAAAAAAAAAT
127 GATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAGAAATTAATTCGAAAAAAAAGT
* *
18800 GGAAAAACGATATTAGAAGCGTGAAAAGTCCGGCAATCTTCTTGGCGTTGAATTATATATTTTTT
192 -GAAAAAC-ACATT---A-CGT---AAGT----C--TCTTCTTAGCGTTGAATTATATATTTTTT
* * * *
18865 TCTGAGTATTGTTGCAAAAAATTCGTGGAAAAAAATTTTGAGTCAATTTTTAGCCGAAATCGTAT
242 TCTGACTATTGTGGCAAAAAATTCGTAGAAAAAAATTTCGAGTCAATTTTTAGCCGAAATCGTAT
* * * * *
18930 ACTAACCATTACGATTTTTGGCTAAAAACGCGTTTCGGTGTACCGGCTCAGTTTTGCATAATTTT
307 ACTAACCATCACGATTTTTCGCTAAAAACGCGTTTCGGTGGACCAGCTCAGTTTTGCATGATTTT
* * * * *
18995 TGGCAGAAAGACTCCTTGAAATATCTATATCCAACTAACCAAATCTTAGTCACATTAGATTTAAG
372 TGGCACAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAGTCACATTAGATTTAAG
* * * *
19060 GATTTGATTTTACGAGTATCTAAATCTTGTTTCGATTTTTAATTAGAAACT-AATTCAAAAAAAA
437 GATTTGTTTTTACGAGCATCTGAATCTTGTTTCGA--TTTAATT-GAAAATAAATT-AAAAAAAA
*
19124 AAGGAAAACGATATTAGAAGCATGAAAAACCTTTCAATTTTTTTGGCGTCGAATTACAT-TTTTT
498 AGGGAAAACGATATTAGAAGCATGAAAAACCTTTCAATTTTTTTGGCGTCGAATTACATATTTTT
** * *
19188 TCTGAGCGTTGTGGCAAAGTATTGAGGAAAAACTTTTCGGATCAGTTTTTCAAAACCTTT-GAAA
563 TCTGAGTATTGTGGCAAAGAATTGAGGAAAAACTTTT-GGATCAGTTTTTCAAAA-TTTTCGAAA
19252 TCGTAT
626 TCGT-T
*
19258 ACTAACCATCACAGTTTTTGGCTAAAAACGTGTTTCGGACCTCCAGCTCAATTTTGCATGATTTT
1 --TAACCATCAC-GTTTTTGGCTAAAAACGCGTTTCGGACCTCC-GCTCAATTTTGCATGATTTT
* *
19323 TTGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAG
62 TGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCAAATTGGATATAAG
* * * *
19388 GATTTATTTTTACGAGCATCTGAATTTTGCTTCAATTTAATTAGAAATAAATTCGGAAAAAAAAG
127 GATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAGAAATTAATTC-GAAAAAAAAG
* *
19453 TGAAAAAC-CCTT-C-T-A-T-T-TTTTTAGCGTTGAATTA-A-ATTTTTTTCCTGACTATTGTG
191 TGAAAAACACATTACGTAAGTCTCTTCTTAGCGTTGAATTATATATTTTTTT-CTGACTATTGTG
* * *
19509 GCAAAAAATT-G-AGAAAAATACTTTACGGGT-AAGTTTTTAGTCGAAATCGTGA-ACTAACCAT
255 GCAAAAAATTCGTAGAAAAA-AATTT-CGAGTCAA-TTTTTAGCCGAAATCGT-ATACTAACCAT
* * * * *
19570 CACGGTTTTTTTCGCTAAAAACGCGTTTCGG-GGCCTCAGCTCAGTTTTGCATGATATTTGTCAT
316 CAC-G-ATTTTTCGCTAAAAACGCGTTTCGGTGGAC-CAGCTCAGTTTTGCATGATTTTTGGCAC
* * * *
19634 AAAGACTCCTTGAAATATCTATATTCATCTAACTAAATCTCATTCACATTGGATTTAAGGGTTTG
378 AAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAGTCACATTAGATTTAAGGATTTG
*
19699 TTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTGGAAATTAAATTGGAAAAAAAAAGGGAAA
443 TTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT-GAAAATAAATT--AAAAAAAAAGGGAAA
* * * *
19764 ACGATATTAGAAGCATGAAAAACCTTTCAATTATTTTGGCGTCAAATAACATATTTTTTCTAAGT
505 ACGATATTAGAAGCATGAAAAACCTTTCAATTTTTTTGGCGTCGAATTACATATTTTTTCTGAGT
* *
19829 ATTGTGGCAAAGAATTAAGG-AAAACATGTTTGGAT-ATTTTTTCGTAAAATTTTAGCCGAAATC
570 ATTGTGGCAAAGAATTGAGGAAAAAC-T-TTTGGATCAGTTTTTC--AAAATTTT---CGAAATC
19892 G-T
628 GTT
* *** * *
19894 TAACTCATCACGGTTTATGGCTAAAAACGCG-TTCTGGGTTTCCGACTCAGTTTTGCATGATGTT
1 TAAC-CATCAC-GTTTTTGGCTAAAAACGCGTTTC-GGACCTCCG-CTCAATTTTGCATGATTTT
* * * ** * * * * *
19958 TGGAGTAAATACTTTTTGAAATATCTATATTCATTGAACCAAATCCCAGCCAAATTTGATTTAAC
62 TGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCAAATTGGATATAAG
* *
20023 GATTTGTTTTTACGAGCATGTGAATCTTGTTTCAATTTAATTAGAAATTAATTCAGAAAAAAATG
127 GATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAGAAATTAATTC-GAAAAAAAAG
20088 -GAAAAAC
191 TGAAAAAC
20095 GATATTAGAA
Statistics
Matches: 2264, Mismatches: 361, Indels: 313
0.77 0.12 0.11
Matches are distributed among these distances:
629 6 0.00
630 23 0.01
631 148 0.07
632 82 0.04
633 306 0.14
634 52 0.02
635 164 0.07
636 2 0.00
637 1 0.00
638 13 0.01
639 28 0.01
640 32 0.01
641 151 0.07
642 16 0.01
643 25 0.01
644 10 0.00
645 29 0.01
646 146 0.06
647 91 0.04
648 11 0.00
649 70 0.03
650 11 0.00
651 104 0.05
652 128 0.06
653 168 0.07
654 38 0.02
655 89 0.04
656 81 0.04
657 39 0.02
658 148 0.07
659 41 0.02
660 1 0.00
661 10 0.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (630 bp):
TAACCATCACGTTTTTGGCTAAAAACGCGTTTCGGACCTCCGCTCAATTTTGCATGATTTTTGGC
GCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCAAATTGGATATAAGGATT
TGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAGAAATTAATTCGAAAAAAAAGTGAAA
AACACATTACGTAAGTCTCTTCTTAGCGTTGAATTATATATTTTTTTCTGACTATTGTGGCAAAA
AATTCGTAGAAAAAAATTTCGAGTCAATTTTTAGCCGAAATCGTATACTAACCATCACGATTTTT
CGCTAAAAACGCGTTTCGGTGGACCAGCTCAGTTTTGCATGATTTTTGGCACAAAGACTCCTTGA
AATATCTATATTCATCTAACAAAATCTCAGTCACATTAGATTTAAGGATTTGTTTTTACGAGCAT
CTGAATCTTGTTTCGATTTAATTGAAAATAAATTAAAAAAAAAGGGAAAACGATATTAGAAGCAT
GAAAAACCTTTCAATTTTTTTGGCGTCGAATTACATATTTTTTCTGAGTATTGTGGCAAAGAATT
GAGGAAAAACTTTTGGATCAGTTTTTCAAAATTTTCGAAATCGTT
Found at i:21060 original size:81 final size:81
Alignment explanation
Indices: 20972--21135 Score: 301
Period size: 81 Copynumber: 2.0 Consensus size: 81
20962 TGAAAAGTCC
*
20972 TCCAATCTTTTTGGCGTTGAATTATATTTTGAGTATTTTTGTCAAAATTTGAGGAAAAAATCTTT
1 TCCAATCTTTTTGGCGTTGAATTATATTTTGAGTATTTTTGCCAAAATTTGAGGAAAAAATCTTT
**
21037 CAGGTCATTTTTACCA
66 CAGACCATTTTTACCA
21053 TCCAATCTTTTTGGCGTTGAATTATATTTTGAGTATTTTTGCCAAAATTTGAGGAAAAAATCTTT
1 TCCAATCTTTTTGGCGTTGAATTATATTTTGAGTATTTTTGCCAAAATTTGAGGAAAAAATCTTT
21118 CAGACCATTTTTACCA
66 CAGACCATTTTTACCA
21134 TC
1 TC
21136 ATGGTTTTTG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (81 bp):
TCCAATCTTTTTGGCGTTGAATTATATTTTGAGTATTTTTGCCAAAATTTGAGGAAAAAATCTTT
CAGACCATTTTTACCA
Found at i:21610 original size:7 final size:7
Alignment explanation
Indices: 21598--21638 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
21588 GATCCATGTA
21598 TGCAAAT
1 TGCAAAT
21605 TGCAAAT
1 TGCAAAT
21612 TGCAAAT
1 TGCAAAT
*
21619 TGCAAAA
1 TGCAAAT
*
21626 TGCAAAA
1 TGCAAAT
21633 TGCAAA
1 TGCAAA
21639 AACAAGTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.22
Consensus pattern (7 bp):
TGCAAAT
Found at i:31072 original size:2 final size:2
Alignment explanation
Indices: 31065--31095 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
31055 ATTTAATATC
*
31065 TG TG TG TG TG TG TG TG TG TG TG TG TG AG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
31096 CATGTTGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:32715 original size:2 final size:2
Alignment explanation
Indices: 32708--32738 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32698 CAGAATAAAT
*
32708 GA GA GA GA AA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
32739 GTCAAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:36668 original size:1 final size:1
Alignment explanation
Indices: 36664--36689 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
36654 TTTTAAATTT
36664 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
36690 GAGCCAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:55042 original size:7 final size:7
Alignment explanation
Indices: 55030--55055 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
55020 ATGAAATTAT
55030 AAAAATA
1 AAAAATA
55037 AAAAATA
1 AAAAATA
55044 AAAAATA
1 AAAAATA
55051 AAAAA
1 AAAAA
55056 CAAGTAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:56964 original size:46 final size:46
Alignment explanation
Indices: 56897--56991 Score: 140
Period size: 46 Copynumber: 2.1 Consensus size: 46
56887 AAACCACGTT
* *
56897 ATACCTCAGAATGAAAAGGCTCTTCCTG-TGTCCATTTTTCCC-ATTC
1 ATACCTCAAAAGGAAAAGGCTCTTCC-GATGTCCA-TTTTCCCTATTC
56943 ATACCTCAAAAGGAAAAGGCTCTTCCGATGTCCATTTTCCCTATTC
1 ATACCTCAAAAGGAAAAGGCTCTTCCGATGTCCATTTTCCCTATTC
56989 ATA
1 ATA
56992 ATACTTGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
45 8 0.18
46 37 0.82
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (46 bp):
ATACCTCAAAAGGAAAAGGCTCTTCCGATGTCCATTTTCCCTATTC
Found at i:58529 original size:44 final size:44
Alignment explanation
Indices: 58466--58551 Score: 172
Period size: 44 Copynumber: 2.0 Consensus size: 44
58456 CGAGATCCAC
58466 CTCTAAGAACAATCCGGCCCTCCAAAATACTCCTCCAAACATAT
1 CTCTAAGAACAATCCGGCCCTCCAAAATACTCCTCCAAACATAT
58510 CTCTAAGAACAATCCGGCCCTCCAAAATACTCCTCCAAACAT
1 CTCTAAGAACAATCCGGCCCTCCAAAATACTCCTCCAAACAT
58552 GGAATCCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.36, C:0.37, G:0.07, T:0.20
Consensus pattern (44 bp):
CTCTAAGAACAATCCGGCCCTCCAAAATACTCCTCCAAACATAT
Found at i:67752 original size:45 final size:42
Alignment explanation
Indices: 67688--67781 Score: 118
Period size: 45 Copynumber: 2.2 Consensus size: 42
67678 AGTAACAATT
* *
67688 AATATTAGCTTTATATTGATTAATTATCTAGAGATGGAGGAGTAG
1 AATATTAGCTTTATATTGATGAATTACCTAGAGAT--A-GAGTAG
* *
67733 AATATTAGTTTTATTTTGATGAATTACCTAGAGATAGAGTAG
1 AATATTAGCTTTATATTGATGAATTACCTAGAGATAGAGTAG
67775 AAT-TTAG
1 AATATTAG
67782 GTAATGCACT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 4 0.09
42 9 0.20
43 1 0.02
45 31 0.69
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.39
Consensus pattern (42 bp):
AATATTAGCTTTATATTGATGAATTACCTAGAGATAGAGTAG
Found at i:70539 original size:6 final size:6
Alignment explanation
Indices: 70528--70554 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
70518 CATTTCCTAT
70528 TGGAAA TGGAAA TGGAAA TGGAAA TGG
1 TGGAAA TGGAAA TGGAAA TGGAAA TGG
70555 TGATGAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.37, T:0.19
Consensus pattern (6 bp):
TGGAAA
Found at i:73387 original size:18 final size:18
Alignment explanation
Indices: 73361--73398 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
73351 GAATTTCACT
73361 CCCACAGAACCAATCTCA
1 CCCACAGAACCAATCTCA
*
73379 CCCATAGAACCAATCTCA
1 CCCACAGAACCAATCTCA
73397 CC
1 CC
73399 GCTCTATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.45, G:0.05, T:0.13
Consensus pattern (18 bp):
CCCACAGAACCAATCTCA
Found at i:77217 original size:20 final size:20
Alignment explanation
Indices: 77189--77228 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
77179 AAAAGATCTC
*
77189 GTATGCATTTCTCATATATG
1 GTATACATTTCTCATATATG
*
77209 GTATACATTTGTCATATATG
1 GTATACATTTCTCATATATG
77229 TTGTACGCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (20 bp):
GTATACATTTCTCATATATG
Found at i:87493 original size:20 final size:20
Alignment explanation
Indices: 87455--87510 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
87445 GCAAAAAACA
*
87455 AGAAGGTTTTTAGAATTTTT
1 AGAAGATTTTTAGAATTTTT
**
87475 -TTAGATTTTTAGAATTTTT
1 AGAAGATTTTTAGAATTTTT
87494 AGAAGATTTTTAGAATT
1 AGAAGATTTTTAGAATT
87511 GATATATCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (20 bp):
AGAAGATTTTTAGAATTTTT
Found at i:87497 original size:9 final size:9
Alignment explanation
Indices: 87461--87510 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 9
87451 AACAAGAAGG
87461 TTTTTAGAA
1 TTTTTAGAA
87470 TTTTTTTAG-A
1 --TTTTTAGAA
87480 TTTTTAGAA
1 TTTTTAGAA
87489 TTTTTAGAAGA
1 TTTTTAG-A-A
87500 TTTTTAGAA
1 TTTTTAGAA
87509 TT
1 TT
87511 GATATATCTG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
8 7 0.19
9 11 0.31
10 3 0.08
11 15 0.42
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (9 bp):
TTTTTAGAA
Done.