Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014184.1 Kokia drynarioides strain JFW-HI SEQ_129217, 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: 345611
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 1 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:1485 original size:417 final size:429
Alignment explanation
Indices: 1001--2925 Score: 1297
Period size: 417 Copynumber: 4.6 Consensus size: 429
991 TAATTTTTTT
* * *
1001 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATATTCTAAACAAGTTTTGGTCTTTGAATTA
1 GGGAAATCGCATCATTTTGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* *
1066 AAAAAATATTTACATGAGAATTGTTTCTCTC-T-GTTCTTGGATGAACTAAAGAACTTGTCAAAT
66 AAAACATATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTAAAGAACTTGTCAAA-
* * * ** *
1129 GTTTTAC-ATGATCATTTATTACTTCGATT-CTTAAAAAGTATTCA-AGACGGTCCATTCCTTTG
130 CTTTTACGA-GATCAGTTATAACTTCGATTCCTT--AAAGTATTCAGA-ACAATCCATTCCTTCG
* ** * * * *
1191 AACAATTTTTCGAACATTCCATGCTCGGGAATTTGAATCATTTTGTCTAAATATTTTGTCA-TT-
191 AACAATTTTTCGAACATTCCATGCACAAGAAATCGAATCATTTGGTCTAAATAATTTGTCATTTG
* * *
1254 CTATAAGCATGTTTTCGTCTTTGAATTA-AAAATTCATTTACGTGAGAATTGTTTCTCTCTTGGT
256 CTA-AA-CAAGTTTTCGTCTTTGAATTAGAAAAGT-ATTTACGTGAGAATTGTTTCTCT-TGGGT
1318 T-ATTG-G-AC-G-A-AG-TTCT-AAACTTGT-CAA-A-C-TT-TTACTTCGGCACCTT-AAACT
317 TCATTGAGAACTGAAGAGCTTCTCAAACTTGTACAAGACCTTTATTACTTCGGCACCTTAAAACT
* * * * *
1369 ATTCAAAATGATCAATTCTTTCGAGCAATTTTAC-GAACATTCCATTCTC
382 ATTCAAAACGATCAA-TCCTTCAAACAATTTT-CTGAACATTCCATGCTC
* * * * *
1418 GTGAAATCGCATCATTTTCTCTAAATAGTTTGTAATTTTGTAAACAAATTTTTGTCTTTGAATTA
1 GGGAAATCGCATCATTTTGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* * * *** *
1483 AAAACTTATTTACGTGAGAATTGTTTCTTTCTTGGTTCTTGGACGAACTTCTGAACTTGTTAAAC
66 AAAACATATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTAAAGAACTTGTCAAAC
* * * * * *
1548 TTTTACGAGTTCCGTTATAACTTCGGTTCCTTAATGTATTCAGAACAATCTATTCCTTCGAGCAA
131 TTTTACGAGATCAGTTATAACTTCGATTCCTTAAAGTATTCAGAACAATCCATTCCTTCGAACAA
*
1613 TTTTTCGAACATTCCATGCACAAGAAATCGTATCATTTGGTCTAAATAATTTGTCATTTGCTAAA
196 TTTTTCGAACATTCCATGCACAAGAAATCGAATCATTTGGTCTAAATAATTTGTCATTTGCTAAA
* * * *
1678 CAAGTTTTGGTTTTTGAATTAGAAACGTATTTACGTGAGAATTGTTTCTCTTGGGTTCTTTGACG
261 CAAGTTTTCGTCTTTGAATTAGAAAAGTATTTACGTGAGAATTGTTTCTCTTGGGTTCATTGA-G
* * ** * *
1743 AACTGAAGAGCTTGTCAAACTTTTACAAGATCCTTTATTACTTCGGTTCCTTAAAAGTATTCAAG
325 AACTGAAGAGCTTCTCAAACTTGTACAAGA-CCTTTATTACTTCGGCACCTTAAAACTATTCAAA
*
1808 ACGATCCATCCTTCAAACAATTTTCTGAACATTCCATGCTC
389 ACGATCAATCCTTCAAACAATTTTCTGAACATTCCATGCTC
* * * * * *
1849 GGGAAATTGAATAATTTTGTCTAAATATTTTGTCATTCTGTAAACATGTTTTGGTCTTTGAATTA
1 GGGAAATCGCATCATTTTGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* * * * *
1914 AAATCGTATTTACATGAGAATTGTTTCTATCTTGGTT-TT-G--G-------G---TT-CCGAAC
66 AAAACATATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTAAAGAACTTGTCAAAC
* * * * * * **
1964 TTTT-C-A-A--AATT-TTACTTTGGTACCTTAAAGTATTCA-AGACTATAAATTCCTTC-AAGC
131 TTTTACGAGATCAGTTATAACTTCGATTCCTTAAAGTATTCAGA-ACAATCCATTCCTTCGAA-C
* * ** *
2021 AATTTTTCGAACATTCCATTCTCGTGAAATC-ACATCATTTGGTCTAAATAGTTTGTCATTTTG-
194 AATTTTTCGAACATTCCATGCACAAGAAATCGA-ATCATTTGGTCTAAATAATTTGTCA-TTTGC
* * * * *
2084 TAAAAAAGTTTGT-GTCTTTGAATTA-AAAACTTATTTACATAAGAATTGTTTCTCTCTTGGTTC
257 TAAACAAGTTT-TCGTCTTTGAATTAGAAAA-GTATTTACGTGAGAATTGTTTCTCT-TGGGTTC
* *** * * * * * * * ** *
2147 -TTAGACAAACTTCCGAACCTGTCAAACTTTTACGAGTTCCTTTATAACTTCGGTTCCTT-AAAG
319 ATT-GA-GAACTGAAGAGCTTCTCAAACTTGTACAAG-ACCTTTATTACTTCGGCACCTTAAAAC
* * * ** **
2210 TATTCAAGACTATCCATTCCTTCAAGTAATTTTCCAAACATTCCATGCTC
381 TATTCAAAACGAT-CAATCCTTCAAACAATTTTCTGAACATTCCATGCTC
* * * * * *
2260 GGGTAATCGAATCACTTGGTCTAAATAGTTTGTCATTTTGTAAACAGGTTTTGGTCTTTAAATTA
1 GGGAAATCGCATCATTTTGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* * * * * **
2325 AAAAC-TTTTTACGTGAGAATTGTTTCTCTATTCGTTCTGGGACGAACTTCTA-AACTTGTCAAA
66 AAAACATATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC-TAAAGAACTTGTCAAA
** * *** * * * * *
2388 CTTTTAATAGTTTTTTTATAACTTTGGTTCCTTAAAGTATTCA-AGATAATGCATTCCTTTGAGA
130 CTTTTACGAGATCAGTTATAACTTCGATTCCTTAAAGTATTCAGA-ACAATCCATTCCTTCGA-A
* *** * * *
2452 -AA-TTTT----C-TT---TG-----TAAATCTCTTCATTTGGTCTAAATAGTTTATCATTTTCT
193 CAATTTTTCGAACATTCCATGCACAAGAAATCGAATCATTTGGTCTAAATAATTTGTCATTTGCT
*
2502 AAACAAGTTTTGGTCTTTGAATTA-AAAACGTATTTACGTGAGAATTGTTTCTC-TGGTGTTC-T
258 AAACAAGTTTTCGTCTTTGAATTAGAAAA-GTATTTACGTGAGAATTGTTTCTCTTGG-GTTCAT
* * * ** ** * * ** * *
2564 TGGACAAACTTAAGAACTAGTCAAACTT-TGATGAGATCTTTTATTACTTTGGTTCTTTAAAAGT
321 T-GA-GAACTGAAGAGCTTCTCAAACTTGT-ACAAGA-CCTTTATTACTTCGGCACCTTAAAACT
*** * * * * * *
2628 ATTCAAGGTGATCCATTCCTTCGAA-AATTTTCTAAATATTCCTTGCTT
382 ATTCAAAACGAT-CAATCCTTCAAACAATTTTCTGAACATTCCATGCTC
* * * * * * * *
2676 GGGAAATTGAATTATTATGTCTAAATAGTTTGTCATTTTGTAAAGATGTTGTAGTCTTTGAATTA
1 GGGAAATCGCATCATTTTGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* * ***
2741 AAAAC-TCATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGATGAACTTTTGAACTTGTCAAA
66 AAAACAT-ATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTAAAGAACTTGTCAAA
* * * * * * * *
2805 CTTTTACAAGTTCTGTTATAACTT-TAGTTCCTTAATGTATTCA-AGACGATCCATTTCTTCGAG
130 CTTTTACGAGATCAGTTATAACTTCGA-TTCCTTAAAGTATTCAGA-ACAATCCATTCCTTCGAA
* * * * *
2868 CAATTTTTCGAACATTCCATACACAATAAATCGCATCATTTTGTCTAAATAGTTTGTC
193 CAATTTTTCGAACATTCCATGCACAAGAAATCGAATCATTTGGTCTAAATAATTTGTC
2926 TCTTGGTTCT
Statistics
Matches: 1212, Mismatches: 212, Indels: 154
0.77 0.13 0.10
Matches are distributed among these distances:
409 5 0.00
410 172 0.14
411 150 0.12
412 1 0.00
414 2 0.00
415 4 0.00
416 146 0.12
417 400 0.33
418 35 0.03
419 33 0.03
420 3 0.00
421 1 0.00
422 3 0.00
423 4 0.00
424 5 0.00
425 17 0.01
426 5 0.00
427 3 0.00
429 2 0.00
430 11 0.01
431 192 0.16
432 17 0.01
433 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (429 bp):
GGGAAATCGCATCATTTTGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
AAAACATATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTAAAGAACTTGTCAAAC
TTTTACGAGATCAGTTATAACTTCGATTCCTTAAAGTATTCAGAACAATCCATTCCTTCGAACAA
TTTTTCGAACATTCCATGCACAAGAAATCGAATCATTTGGTCTAAATAATTTGTCATTTGCTAAA
CAAGTTTTCGTCTTTGAATTAGAAAAGTATTTACGTGAGAATTGTTTCTCTTGGGTTCATTGAGA
ACTGAAGAGCTTCTCAAACTTGTACAAGACCTTTATTACTTCGGCACCTTAAAACTATTCAAAAC
GATCAATCCTTCAAACAATTTTCTGAACATTCCATGCTC
Found at i:1725 original size:216 final size:216
Alignment explanation
Indices: 1360--2925 Score: 1457
Period size: 215 Copynumber: 7.4 Consensus size: 216
1350 TACTTCGGCA
* * * * * * * *
1360 CCTTAAACTATTCAAAATGATCAATTCTTTCGAGCAATTTTACGAACATTCCATTCTCGTGAAAT
1 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAAT
* ** * * * *
1425 CGCATCATTTTCTCTAAATAGTTTGTAATTTTGTAAACAAATTTTTGTCTTTGAATTAAAAACTT
66 CGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACGT
* *
1490 ATTTACGTGAGAATTGTTTCTTTCTTGGTTCTTGGACGAACTTCTGAACTTGTTAAACTTTTACG
131 ATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACG
* *
1555 AGTTCCGTTATAACTTCGGTT
196 AGTTCCTTTATAACTTTGGTT
* * * * *
1576 CCTTAATGTATTC-AGAACAATCTATTCCTTCGAGCAATTTTTCGAACATTCCATGCACAAGAAA
1 CCTTAAAGTATTCAAG-ACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAA
* * * *
1640 TCGTATCATTTGGTCTAAATAATTTGTCA-TTTGCTAAACAAGTTTTGGTTTTTGAATTAGAAAC
65 TCGAATCATTTGGTCTAAATAGTTTGTCATTTTG-TAAACAAGTTTTGGTCTTTGAATTAAAAAC
* * *** *
1704 GTATTTACGTGAGAATTGTTTCTCT-TGGGTTCTTTGACGAACTGAAGAGCTTGTCAAACTTTTA
129 GTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTA
* * * *
1768 CAAGATCCTTTATTACTTCGGTT
194 CGAGTTCCTTTATAACTTTGGTT
* * *
1791 CCTTAAAAGTATTCAAGACGATCCA-TCCTTCAAACAA-TTTTCTGAACATTCCATGCTCGGGAA
1 CCTT-AAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGAGAA
* * * * * * *
1854 ATTGAATAATTTTGTCTAAATATTTTGTCATTCTGTAAACATGTTTTGGTCTTTGAATTAAAATC
64 ATCGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAAC
* * * *
1919 GTATTTACATGAGAATTGTTTCTATCTTGGTT-TTGG--G---TTCCGAACTTTTC-AA-----A
129 GTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTA
*
1972 --A-----TTT-T-ACTTTGGTA
194 CGAGTTCCTTTATAACTTTGGTT
* ** * * *
1986 CCTTAAAGTATTCAAGACTATAAATTCCTTCAAGCAATTTTTCGAACATTCCATTCTCGTGAAAT
1 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAAT
*
2051 C-ACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAG-TTTGTGTCTTTGAATTAAAAAC
66 CGA-ATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTG-GTCTTTGAATTAAAAAC
* * * * * * *
2114 TTATTTACATAAGAATTGTTTCTCTCTTGGTTCTTAGACAAACTTCCGAACCTGTCAAACTTTTA
129 GTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTA
*
2179 CGAGTTCCTTTATAACTTCGGTT
194 CGAGTTCCTTTATAACTTTGGTT
* * * * * * *
2202 CCTTAAAGTATTCAAGACTATCCATTCCTTCAAGTAATTTTCCAAACATTCCATGCTCGGGTAAT
1 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAAT
* * *
2267 CGAATCACTTGGTCTAAATAGTTTGTCATTTTGTAAACAGGTTTTGGTCTTTAAATTAAAAAC-T
66 CGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACGT
* * * * * **
2331 TTTTACGTGAGAATTGTTTCTCTATTCGTTCTGGGACGAACTTCTAAACTTGTCAAACTTTTAAT
131 ATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACG
**
2396 AGTTTTTTTATAACTTTGGTT
196 AGTTCCTTTATAACTTTGGTT
** * * *
2417 CCTTAAAGTATTCAAGATAATGCATTCCTTTGAG-AAATTTT----C-TT---TG-T----AAAT
1 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAAT
*** * *
2468 CTCTTCATTTGGTCTAAATAGTTTATCATTTTCTAAACAAGTTTTGGTCTTTGAATTAAAAACGT
66 CGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACGT
** * ** * * *
2533 ATTTACGTGAGAATTGTTTCTCTGGT-GTTCTTGGACAAACTTAAGAACTAGTCAAACTTTGATG
131 ATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACG
* * *
2597 AGATCTTTTATTACTTTGGTT
196 AGTTCCTTTATAACTTTGGTT
* ** * * * * * *
2618 CTTTAAAAGTATTCAAGGTGATCCATTCCTTCGA--AAATTTTCTAAATATTCCTTGCTTGGGAA
1 CCTT-AAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGAGAA
* * * * * *
2681 ATTGAATTATTAT-GTCTAAATAGTTTGTCATTTTGTAAAGATGTTGTAGTCTTTGAATTAAAAA
64 ATCGAATCATT-TGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAA
* * * *
2745 C-TCATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGATGAACTTTTGAACTTGTCAAACTTT
128 CGT-ATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTT
* *
2809 TACAAGTT-CTGTTATAACTTTAGTT
192 TACGAGTTCCT-TTATAACTTTGGTT
* * * * * *
2834 CCTTAATGTATTCAAGACGATCCATTTCTTCGAGCAATTTTTCGAACATTCCATACACAATAAAT
1 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAAT
* *
2899 CGCATCATTTTGTCTAAATAGTTTGTC
66 CGAATCATTTGGTCTAAATAGTTTGTC
2926 TCTTGGTTCT
Statistics
Matches: 1097, Mismatches: 196, Indels: 114
0.78 0.14 0.08
Matches are distributed among these distances:
194 22 0.02
195 119 0.11
196 9 0.01
197 3 0.00
201 126 0.11
202 52 0.05
204 1 0.00
205 1 0.00
206 2 0.00
207 3 0.00
209 5 0.00
210 11 0.01
211 1 0.00
213 1 0.00
214 14 0.01
215 368 0.34
216 345 0.31
217 14 0.01
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (216 bp):
CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAAT
CGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACGT
ATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACG
AGTTCCTTTATAACTTTGGTT
Found at i:1873 original size:215 final size:214
Alignment explanation
Indices: 1001--2925 Score: 1540
Period size: 216 Copynumber: 9.2 Consensus size: 214
991 TAATTTTTTT
* *
1001 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATATTCTAAACAAGTTTTGGTCTTTGAATTA
1 GGGAAATCGAATCATTTGGTCTAAATAGTTTGTCAT-TTGTAAACAAGTTTTGGTCTTTGAATTA
** * * * *
1066 AAAAAATATTTACATGAGAATTGTTTCTCTCT-GTTCTTGGATGAACTAAAGAACTTGTCAAATG
65 AAAACTTATTTACGTGAGAATTGTTTCTCTCTGGTTCTTGGACGAACTGAAGAACTTGTCAAA-C
* * * * *
1130 TTTTACATGATCATTTATTACTTCGATT-CTTAAAAAGTATTCAAGACGGTCCATTCCTTTGAA-
129 TTTTACAAGATCCTTTATTACTTCGGTTCCTT--AAAGTATTCAAGACGATCCATTCC-TTCAAG
1193 CAATTTTTCGAACATTCCATGCTC
191 CAATTTTTCGAACATTCCATGCTC
* * * * * * * *
1217 GGGAATTTGAATCATTTTGTCTAAATATTTTGTCATTCTATAAGCATGTTTTCGTCTTTGAATTA
1 GGGAAATCGAATCATTTGGTCTAAATAGTTTGTCATT-TGTAAACAAGTTTTGGTCTTTGAATTA
* *
1282 AAAA-TTCATTTACGTGAGAATTGTTTCTCTCTTGGTTATT-G--G-AC-GAAG---TTCT-AAA
65 AAAACTT-ATTTACGTGAGAATTGTTTCTCTC-TGGTTCTTGGACGAACTGAAGAACTTGTCAAA
* ** * * * * * *
1337 CTTGT-CAA-A--C-TT-TTACTTCGGCACCTTAAACTATTCAAAATGATCAATTCTTTCGAGCA
128 CTTTTACAAGATCCTTTATTACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCAAGCA
* *
1396 ATTTTACGAACATTCCATTCTC
193 ATTTTTCGAACATTCCATGCTC
* * ** * * *
1418 GTGAAATCGCATCATTTTCTCTAAATAGTTTGTAATTTTGTAAACAAATTTTTGTCTTTGAATTA
1 GGGAAATCGAATCATTTGGTCTAAATAGTTTGTCA-TTTGTAAACAAGTTTTGGTCTTTGAATTA
* *** *
1483 AAAACTTATTTACGTGAGAATTGTTTCTTTCTTGGTTCTTGGACGAACTTCTGAACTTGTTAAAC
65 AAAACTTATTTACGTGAGAATTGTTTCTCTC-TGGTTCTTGGACGAACTGAAGAACTTGTCAAAC
* * * * * * * *
1548 TTTTACGAGTTCCGTTATAACTTCGGTTCCTTAATGTATTC-AGAACAATCTATTCCTTCGAGCA
129 TTTTACAAGATCCTTTATTACTTCGGTTCCTTAAAGTATTCAAG-ACGATCCATTCCTTCAAGCA
*
1612 ATTTTTCGAACATTCCATGCAC
193 ATTTTTCGAACATTCCATGCTC
** * * *
1634 AAGAAATCGTATCATTTGGTCTAAATAATTTGTCATTTGCTAAACAAGTTTTGGTTTTTGAATTA
1 GGGAAATCGAATCATTTGGTCTAAATAGTTTGTCATTTG-TAAACAAGTTTTGGTCTTTGAATTA
* * * *
1699 GAAACGTATTTACGTGAGAATTGTTTCTCT-TGGGTTCTTTGACGAACTGAAGAGCTTGTCAAAC
65 AAAACTTATTTACGTGAGAATTGTTTCTCTCT-GGTTCTTGGACGAACTGAAGAACTTGTCAAAC
*
1763 TTTTACAAGATCCTTTATTACTTCGGTTCCTTAAAAGTATTCAAGACGATCCA-TCCTTCAAACA
129 TTTTACAAGATCCTTTATTACTTCGGTTCCTT-AAAGTATTCAAGACGATCCATTCCTTCAAGCA
1827 A-TTTTCTGAACATTCCATGCTC
193 ATTTTTC-GAACATTCCATGCTC
* * * * *
1849 GGGAAATTGAATAATTTTGTCTAAATATTTTGTCATTCTGTAAACATGTTTTGGTCTTTGAATTA
1 GGGAAATCGAATCATTTGGTCTAAATAGTTTGTCATT-TGTAAACAAGTTTTGGTCTTTGAATTA
* * * * * *
1914 AAATCGTATTTACATGAGAATTGTTTCTATCTTGGTT-TT----G----G--G---TT-CCGAAC
65 AAAACTTATTTACGTGAGAATTGTTTCTCTC-TGGTTCTTGGACGAACTGAAGAACTTGTCAAAC
* * * * **
1964 TTTT-CAA-A-A--TT-TTACTTTGGTACCTTAAAGTATTCAAGACTATAAATTCCTTCAAGCAA
129 TTTTACAAGATCCTTTATTACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCAAGCAA
*
2023 TTTTTCGAACATTCCATTCTC
194 TTTTTCGAACATTCCATGCTC
* *
2044 GTGAAATC-ACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAG-TTTGTGTCTTTGAAT
1 GGGAAATCGA-ATCATTTGGTCTAAATAGTTTGTCA-TTTGTAAACAAGTTTTG-GTCTTTGAAT
* * * * *** *
2107 TAAAAACTTATTTACATAAGAATTGTTTCTCTCTTGGTTCTTAGACAAACTTCCGAACCTGTCAA
63 TAAAAACTTATTTACGTGAGAATTGTTTCTCTC-TGGTTCTTGGACGAACTGAAGAACTTGTCAA
* * * * *
2172 ACTTTTACGAGTTCCTTTATAACTTCGGTTCCTTAAAGTATTCAAGACTATCCATTCCTTCAAGT
127 ACTTTTACAAGATCCTTTATTACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCAAGC
* *
2237 AATTTTCCAAACATTCCATGCTC
192 AATTTTTCGAACATTCCATGCTC
* * * *
2260 GGGTAATCGAATCACTTGGTCTAAATAGTTTGTCATTTTGTAAACAGGTTTTGGTCTTTAAATTA
1 GGGAAATCGAATCATTTGGTCTAAATAGTTTGTCA-TTTGTAAACAAGTTTTGGTCTTTGAATTA
* * * **
2325 AAAACTT-TTTACGTGAGAATTGTTTCTCTATTCGTTCTGGGACGAACTTCTA-AACTTGTCAAA
65 AAAACTTATTTACGTGAGAATTGTTTCTCT-CTGGTTCTTGGACGAAC-TGAAGAACTTGTCAAA
* ** * * ** * **
2388 CTTTTA-ATAGTTTTTTTATAACTTTGGTTCCTTAAAGTATTCAAGATAATGCATTCCTTTGAG-
128 CTTTTACA-AGATCCTTTATTACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCAAGC
*
2451 AAATTTT----C-TT---TG-T-
192 AATTTTTCGAACATTCCATGCTC
*** * *
2464 ---AAATCTCTTCATTTGGTCTAAATAGTTTATCATTTTCTAAACAAGTTTTGGTCTTTGAATTA
1 GGGAAATCGAATCATTTGGTCTAAATAGTTTGTCA-TTTGTAAACAAGTTTTGGTCTTTGAATTA
* * * * *
2526 AAAACGTATTTACGTGAGAATTGTTTCTCT-GGTGTTCTTGGACAAACTTAAGAACTAGTCAAAC
65 AAAACTTATTTACGTGAGAATTGTTTCTCTCTG-GTTCTTGGACGAACTGAAGAACTTGTCAAAC
* ** * * * **
2590 TTTGATGAGATCTTTTATTACTTTGGTTCTTTAAAAGTATTCAAGGTGATCCATTCCTTCGAA--
129 TTTTACAAGATCCTTTATTACTTCGGTTCCTT-AAAGTATTCAAGACGATCCATTCCTTC-AAGC
* * * *
2653 AA-TTTTCTAAATATTCCTTGCTT
192 AATTTTTC-GAACATTCCATGCTC
* * * * * *
2676 GGGAAATTGAATTATTAT-GTCTAAATAGTTTGTCATTTTGTAAAGATGTTGTAGTCTTTGAATT
1 GGGAAATCGAATCATT-TGGTCTAAATAGTTTGTCA-TTTGTAAACAAGTTTTGGTCTTTGAATT
* * * * ***
2740 AAAAACTCATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGATGAACTTTTGAACTTGTCAAA
64 AAAAACTTATTTACGTGAGAATTGTTTCTCTC-TGGTTCTTGGACGAACTGAAGAACTTGTCAAA
* * ** * * *
2805 CTTTTACAAG-TTCTGTTATAACTTTAGTTCCTTAATGTATTCAAGACGATCCATTTCTTCGAGC
128 CTTTTACAAGATCCT-TTATTACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCAAGC
* *
2869 AATTTTTCGAACATTCCATACAC
192 AATTTTTCGAACATTCCATGCTC
*** * *
2892 AATAAATCGCATCATTTTGTCTAAATAGTTTGTC
1 GGGAAATCGAATCATTTGGTCTAAATAGTTTGTC
2926 TCTTGGTTCT
Statistics
Matches: 1370, Mismatches: 248, Indels: 182
0.76 0.14 0.10
Matches are distributed among these distances:
194 22 0.02
195 119 0.09
196 11 0.01
199 1 0.00
200 8 0.01
201 244 0.18
202 62 0.05
203 6 0.00
204 1 0.00
205 4 0.00
206 5 0.00
207 5 0.00
208 3 0.00
209 9 0.01
210 21 0.02
211 6 0.00
213 3 0.00
214 15 0.01
215 367 0.27
216 437 0.32
217 16 0.01
218 5 0.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (214 bp):
GGGAAATCGAATCATTTGGTCTAAATAGTTTGTCATTTGTAAACAAGTTTTGGTCTTTGAATTAA
AAACTTATTTACGTGAGAATTGTTTCTCTCTGGTTCTTGGACGAACTGAAGAACTTGTCAAACTT
TTACAAGATCCTTTATTACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCAAGCAATT
TTTCGAACATTCCATGCTC
Found at i:2064 original size:410 final size:413
Alignment explanation
Indices: 1404--2925 Score: 1327
Period size: 417 Copynumber: 3.6 Consensus size: 413
1394 CAATTTTACG
* * * * * * * **
1404 AACATTCCATTCTCGTGAAATCGCATCATTTTCTCTAAATAGTTTGTAATTTTGTAAACAAATTT
1 AACATTCCATGCTCGGGAAATTGAATAATTTTGTCTAAATAGTTTGTCATTTTGTAAACATGTTT
* * *
1469 TTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTTTCTTGGTTCTTGGACGAACTTC
66 TGGTCTTTGAATTAAAAAC-TATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGA-G-A-TTC
** * * * *
1534 TGAACTTGTTAAACTTTTACGAGT-TCCGTTATAACTTCGGTTCCTTAATGTATTCAGAACAATC
127 ---AC-TG--AAACTTTTA--A-TAT-ATTTATAACTTTGGTACCTTAAAGTATTC--AA-GAT-
* * * * ** *
1598 TATTCCTTCGAGCAATTTTTCGAACATTCCATGCACAAGAAATCGTATCATTTGGTCTAAATAAT
178 AATTCCTTC-AGCAATTTTTCGAACATTCCATTCTCATGAAATCACATCATTTGGTCTAAATAGT
* *
1663 TTGTCATTTGCTAAACAAGTTTTGGTTTTTGAATTAGAAACGTATTTACGTGAGAATTGTTTCTC
242 TTGTCATTTGCTAAACAAGTTTTGGTCTTTGAATTAAAAACGTATTTACGTGAGAATTGTTTCTC
* * * * *
1728 TTGGGTTCTTTGACGAACTGAAGAGCTTGTCAAACTTTTACAAGATCCTTTATTACTTCGGTTCC
307 TTGGGTTCTTAGACAAACTTAAGAACTTGTCAAACTTTTACGAGATCCTTTATTACTTCGGTTCC
*
1793 TTAAAAGTATTCAAGACGATCCA-TCCTTCAAACAATTTTCTG
372 TTAAAAGTATTCAAGACGATCCATTCCTTCAAA-AATTTTCTA
* *
1835 AACATTCCATGCTCGGGAAATTGAATAATTTTGTCTAAATATTTTGTCATTCTGTAAACATGTTT
1 AACATTCCATGCTCGGGAAATTGAATAATTTTGTCTAAATAGTTTGTCATTTTGTAAACATGTTT
* *
1900 TGGTCTTTGAATTAAAATCGTATTTACATGAGAATTGTTTCTATCTTGGTT-TTGG-G-TTC-C-
66 TGGTCTTTGAATTAAAAAC-TATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGAGATTCACT
1960 G-AACTTTTCAA-A-ATTT-T-ACTTTGGTACCTTAAAGTATTCAAGACTATAAATTCCTTCAAG
130 GAAACTTTT-AATATATTTATAACTTTGGTACCTTAAAGTATTCAAG---AT-AATTCCTTC-AG
*
2020 CAATTTTTCGAACATTCCATTCTCGTGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTG-
189 CAATTTTTCGAACATTCCATTCTCATGAAATCACATCATTTGGTCTAAATAGTTTGTCA-TTTGC
* * * * *
2084 TAAAAAAG-TTTGTGTCTTTGAATTAAAAACTTATTTACATAAGAATTGTTTCTCTCTTGGTTCT
253 TAAACAAGTTTTG-GTCTTTGAATTAAAAACGTATTTACGTGAGAATTGTTTCTCT-TGGGTTCT
** * * *
2148 TAGACAAACTTCCGAACCTGTCAAACTTTTACGAGTTCCTTTATAACTTCGGTTCCTT-AAAGTA
316 TAGACAAACTTAAGAACTTGTCAAACTTTTACGAGATCCTTTATTACTTCGGTTCCTTAAAAGTA
* * *
2212 TTCAAGACTATCCATTCCTTCAAGTAATTTTCCA
381 TTCAAGACGATCCATTCCTTCAA-AAATTTTCTA
* * * * * *
2246 AACATTCCATGCTCGGGTAATCGAATCACTTGGTCTAAATAGTTTGTCATTTTGTAAACAGGTTT
1 AACATTCCATGCTCGGGAAATTGAATAATTTTGTCTAAATAGTTTGTCATTTTGTAAACATGTTT
* * * * * *
2311 TGGTCTTTAAATTAAAAACTTTTTACGTGAGAATTGTTTCTCTATTCGTTCTGGGACGAACTTCT
66 TGGTCTTTGAATTAAAAACTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGA-G-A-TTC-
* * * *
2376 AAACTTGTCAAACTTTTAATAGTTTTTTTATAACTTTGGTTCCTTAAAGTATTCAAGATAATGCA
127 --AC-TG--AAACTTTTAATA---TATTTATAACTTTGGTACCTTAAAGTATTCAAGATAATTCC
** * * * *
2441 TTC--C---TTTGAGAA-ATT---TTCT-TTGTAAATCTCTTCATTTGGTCTAAATAGTTTATCA
184 TTCAGCAATTTTTCGAACATTCCATTCTCATG-AAATCACATCATTTGGTCTAAATAGTTTGTCA
*
2496 TTTTCTAAACAAGTTTTGGTCTTTGAATTAAAAACGTATTTACGTGAGAATTGTTTCTC-TGGTG
248 TTTGCTAAACAAGTTTTGGTCTTTGAATTAAAAACGTATTTACGTGAGAATTGTTTCTCTTGG-G
* * * * * * *
2560 TTCTTGGACAAACTTAAGAACTAGTCAAACTTTGATGAGATCTTTTATTACTTTGGTTCTTTAAA
312 TTCTTAGACAAACTTAAGAACTTGTCAAACTTTTACGAGATCCTTTATTACTTCGGTTCCTTAAA
** *
2625 AGTATTCAAGGTGATCCATTCCTTCGAAAATTTTCTA
377 AGTATTCAAGACGATCCATTCCTTCAAAAATTTTCTA
* * * * * * *
2662 AATATTCCTTGCTTGGGAAATTGAATTATTATGTCTAAATAGTTTGTCATTTTGTAAAGATGTTG
1 AACATTCCATGCTCGGGAAATTGAATAATTTTGTCTAAATAGTTTGTCATTTTGTAAACATGTTT
* *
2727 TAGTCTTTGAATTAAAAACTCATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGATGAACTTT
66 TGGTCTTTGAATTAAAAACT-ATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGA-G-A---T
* * * * *
2792 TGAACTTGTCAAACTTTTACA-AGTTCTGTTATAACTTTAGTTCCTTAATGTATTCAAGACGATC
125 T-CAC-TG--AAACTTTTA-ATA--TAT-TTATAACTTTGGTACCTTAAAGTATTC-A-A-GAT-
* * * * * *
2856 CATTTCTTCGAGCAATTTTTCGAACATTCCATACACAAT-AAATCGCATCATTTTGTCTAAATAG
178 AATTCCTTC-AGCAATTTTTCGAACATTCCATTCTC-ATGAAATCACATCATTTGGTCTAAATAG
2920 TTTGTC
241 TTTGTC
2926 TCTTGGTTCT
Statistics
Matches: 889, Mismatches: 143, Indels: 118
0.77 0.12 0.10
Matches are distributed among these distances:
408 2 0.00
409 4 0.00
410 172 0.19
411 152 0.17
412 2 0.00
413 1 0.00
415 3 0.00
416 148 0.17
417 179 0.20
418 6 0.01
419 4 0.00
420 7 0.01
421 12 0.01
422 1 0.00
424 4 0.00
425 11 0.01
427 13 0.01
428 6 0.01
429 3 0.00
430 5 0.01
431 153 0.17
433 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (413 bp):
AACATTCCATGCTCGGGAAATTGAATAATTTTGTCTAAATAGTTTGTCATTTTGTAAACATGTTT
TGGTCTTTGAATTAAAAACTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGAGATTCACTG
AAACTTTTAATATATTTATAACTTTGGTACCTTAAAGTATTCAAGATAATTCCTTCAGCAATTTT
TCGAACATTCCATTCTCATGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTGCTAAACAAG
TTTTGGTCTTTGAATTAAAAACGTATTTACGTGAGAATTGTTTCTCTTGGGTTCTTAGACAAACT
TAAGAACTTGTCAAACTTTTACGAGATCCTTTATTACTTCGGTTCCTTAAAAGTATTCAAGACGA
TCCATTCCTTCAAAAATTTTCTA
Found at i:2658 original size:201 final size:201
Alignment explanation
Indices: 2275--2660 Score: 528
Period size: 201 Copynumber: 1.9 Consensus size: 201
2265 ATCGAATCAC
* * * *
2275 TTGGTCTAAATAGTTTGTCATTTTGTAAACAGGTTTTGGTCTTTAAATTAAAAACTTTTTACGTG
1 TTGGTCTAAATAGTTTATCATTTTCTAAACAAGTTTTGGTCTTTAAATTAAAAACTATTTACGTG
* * * * * *
2340 AGAATTGTTTCTCTATTCGTTCTGGGACGAACTTCTAAACTTGTCAAACTTTTAATAGTTTTTTT
66 AGAATTGTTTCTCTAGTCGTTCTGGGACAAACTTCAAAACTAGTCAAACTTTTAATAGATCTTTT
* *
2405 ATAACTTTGGTTCCTTAAAGTATTCAAGATAATGCATTCCTTTGAGAAATTTTCTTTGTAAATCT
131 ATAACTTTGGTTCCTTAAAGTATTCAAGATAATCCATTCCTTCGAGAAATTTTCTTTGTAAATCT
2470 CTTCAT
196 CTTCAT
*
2476 TTGGTCTAAATAGTTTATCATTTTCTAAACAAGTTTTGGTCTTTGAATTAAAAACGTATTTACGT
1 TTGGTCTAAATAGTTTATCATTTTCTAAACAAGTTTTGGTCTTTAAATTAAAAAC-TATTTACGT
* * *
2541 GAGAATTGTTTCTCTGGT-GTTCTTGGACAAACTT-AAGAACTAGTCAAAC-TTTGATGAGATCT
65 GAGAATTGTTTCTCTAGTCGTTCTGGGACAAACTTCAA-AACTAGTCAAACTTTTAAT-AGATCT
* * * *
2603 TTTATTACTTTGGTTCTTTAAAAGTATTCAAGGTGATCCATTCCTTCGA-AAATTTTCT
128 TTTATAACTTTGGTTCCTT-AAAGTATTCAAGATAATCCATTCCTTCGAGAAATTTTCT
2661 AAATATTCCT
Statistics
Matches: 161, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
200 6 0.04
201 106 0.66
202 49 0.30
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (201 bp):
TTGGTCTAAATAGTTTATCATTTTCTAAACAAGTTTTGGTCTTTAAATTAAAAACTATTTACGTG
AGAATTGTTTCTCTAGTCGTTCTGGGACAAACTTCAAAACTAGTCAAACTTTTAATAGATCTTTT
ATAACTTTGGTTCCTTAAAGTATTCAAGATAATCCATTCCTTCGAGAAATTTTCTTTGTAAATCT
CTTCAT
Found at i:3263 original size:355 final size:356
Alignment explanation
Indices: 2623--3280 Score: 975
Period size: 355 Copynumber: 1.9 Consensus size: 356
2613 TGGTTCTTTA
*** ** *
2623 AAAGTATTCAAGGTGATCCATTCCTTCGAAAATTTTCTAAATATTCCTTGCTTGGGAAATTGAAT
1 AAAGTATTCAAGACAATCCATTCCTTCGAAAATTTTCTAAATATTCCACGCTTGGGAAATCGAAT
* * *
2688 TATTATGTCTAAATAGTTTGTCATTTTGTAAAGATGTTGTAGTCTTTGAATTAAAAACTCATTTA
66 CATTATGTCTAAATAGTTTGTCATTTTGTAAAAAAGTTGTAGTCTTTGAATTAAAAACTCATTTA
* * *
2753 CATGAGAATTATTTCTCTCTTGGTTCTTGGATGAACTTTTGAACTTGTCAAACTTTTACAAGTTC
131 CATGAGAATTATTTCTCTCTCGATTCTTGGACGAACTTTTGAACTTGTCAAACTTTTACAAGTTC
* * * * * *
2818 TGTTATAACTTTAGTTCCTTAATGTATTCAAGACGATCCATTTCTTCGAGCAATTTTTCGAACAT
196 TGTTATAACTTCAATTCCTTAACGTATTCAAGACGATCCATTTATTCGAACAATTTTACGAACAT
* *
2883 TCCATACACAATAAATCGCATCATTTTGTCTAAATAGTTTGTCTCTTGGTTCTGGGATGAACTTC
261 TCCATACACAATAAATCGCATCATTTCGTCTAAATAGCTTGTCTCTTGGTTCTGGGATGAACTTC
2948 CGAACTTGTCAAACTTTTACTTTATTACCTT
326 CGAACTTGTCAAACTTTTACTTTATTACCTT
* * *
2979 AAAGTATTCAAGACAATCCATTCCTTCGAGCAATTTTCTGAATATTCCACGCTCT-GGAAATCGC
1 AAAGTATTCAAGACAATCCATTCCTTCGA-AAATTTTCTAAATATTCCACGCT-TGGGAAATCGA
*
3043 ATCATT-TGGTCTAAATAGTTTGTCATTTTGTAAAAAAGTT-T-GTCTTTGAATTAAAAACTTAT
64 ATCATTAT-GTCTAAATAGTTTGTCATTTTGTAAAAAAGTTGTAGTCTTTGAATTAAAAACTCAT
* * *
3105 TTACGTGAGAATTGTTTCTCTCTCGATTCTTGGACGAACTTTTGAACTTGTCAAACTTTTACGAG
128 TTACATGAGAATTATTTCTCTCTCGATTCTTGGACGAACTTTTGAACTTGTCAAACTTTTACAAG
3170 TT-TCGTTATAACTTCAATTCCTTAACGTATTCAAGACGATCCATTTATTCGAACAATTTTACGA
193 TTCT-GTTATAACTTCAATTCCTTAACGTATTCAAGACGATCCATTTATTCGAACAATTTTACGA
* * *
3234 TCATTCCATGCACAATAAATCGTATCATTTCGTCTAAATAGCTTGTC
257 ACATTCCATACACAATAAATCGCATCATTTCGTCTAAATAGCTTGTC
3281 ATTTTGTGAA
Statistics
Matches: 268, Mismatches: 30, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
354 1 0.00
355 177 0.66
356 28 0.10
357 61 0.23
358 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (356 bp):
AAAGTATTCAAGACAATCCATTCCTTCGAAAATTTTCTAAATATTCCACGCTTGGGAAATCGAAT
CATTATGTCTAAATAGTTTGTCATTTTGTAAAAAAGTTGTAGTCTTTGAATTAAAAACTCATTTA
CATGAGAATTATTTCTCTCTCGATTCTTGGACGAACTTTTGAACTTGTCAAACTTTTACAAGTTC
TGTTATAACTTCAATTCCTTAACGTATTCAAGACGATCCATTTATTCGAACAATTTTACGAACAT
TCCATACACAATAAATCGCATCATTTCGTCTAAATAGCTTGTCTCTTGGTTCTGGGATGAACTTC
CGAACTTGTCAAACTTTTACTTTATTACCTT
Found at i:3370 original size:216 final size:214
Alignment explanation
Indices: 2975--4204 Score: 1279
Period size: 216 Copynumber: 5.7 Consensus size: 214
2965 TACTTTATTA
* * * * **
2975 CCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAATTTT-CTGAATATTCCACGCTCTGGAAA
1 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTAC-GAACATTCCATGCACAAGAAA
* *
3039 TCGCATCATTTGGTCTAAATAGTTTGTCATTTTG-TAAAAAAGTTTGTCTTTGAATTAAAAACTT
65 TCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTTAACAAATTTTGTCTTTGAATTAAAAACTT
* * *
3103 ATTTACGTGAGAATTGTTTCTCTCTCGATTCTTGGACGAACTTTTGAACTTGTCAAACTTTTACG
130 ATTTACGTGAGAATTGTTTCTCTCTTGGTT-TTGGACGAACTTTCGAACTTGTCAAACTTTTACG
* *
3168 AGTTTCGTTATAACTTCAATT
194 AGTTTCTTTATAACTTCGATT
* ** * * *
3189 CCTTAACGTATTCAAGACGATCCATTTATTCGAACAATTTTACGATCATTCCATGCACAATAAAT
1 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTACGAACATTCCATGCACAAGAAAT
* * * *
3254 CGTATCATTTCGTCTAAATAGCTTGTCATTTTGTGAACAAATTTTCGTCTTTGAATTAAAAACTT
66 CGCATCATTTGGTCTAAATAGTTTGTCATTTTGTTAACAAATTTT-GTCTTTGAATTAAAAACTT
* * * *
3319 ATTTACGTGAGAATTGTTTCTTTGTTGGTTTTGAGACGAACTTCCGAACTTGTCAAACTTTTACA
130 ATTTACGTGAGAATTGTTTCTCTCTTGGTTTTG-GACGAACTTTCGAACTTGTCAAACTTTTACG
* *
3384 AG-TCCTTTTATAACTTCGGTT
194 AGTTTC-TTTATAACTTCGATT
* * * * * * * * **
3405 GCTTAAAATATTGAAGAGGATCCATTTCTTCAAGCAA-TTTGCTGAACATTCCATGCTCGGGAAA
1 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTAC-GAACATTCCATGCACAAGAAA
* * * * * * *
3469 TCGTATCATTTGGTCTAAATAGTTTTTTATTTTGTTATCAACTTTTGTCTTAGAATAAAAAACTT
65 TCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTTAACAAATTTTGTCTTTGAATTAAAAACTT
* * * *
3534 ATTTGCATTAGAATTGTTTCTCTCTTGGTTTTTGGATGAACTTTCGAACTTGTCAAACTTTTACG
130 ATTTACGTGAGAATTGTTTCTCTCTTGG-TTTTGGACGAACTTTCGAACTTGTCAAACTTTTACG
* *
3599 -GATTCCTTTATAACTTCAATT
194 AG-TTTCTTTATAACTTCGATT
* * * * * * *
3620 CATTAATGTATTCAAGACGATCCATTGCTTCGAGCAATTTTTCAAACTTTCCAAGCACAAGAAAT
1 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTACGAACATTCCATGCACAAGAAAT
* * * *
3685 CGCAACATTTGGTCTATATAGTTTGTCATTTTGTAAACAAATTTTTGTGTTTGAATTAAAAACTT
66 CGCATCATTTGGTCTAAATAGTTTGTCATTTTGTTAACAAA-TTTTGTCTTTGAATTAAAAACTT
* * * * * *
3750 ATTTACGTGAGAATTGTTTCTCTATTGGTTCTGAGACAAAC-TCCTGAACTTGTTAAACCTTTAC
130 ATTTACGTGAGAATTGTTTCTCTCTTGGTTTTG-GACGAACTTTC-GAACTTGTCAAACTTTTAC
*
3814 GAG-TTCTTTTATAACATT-GGTT
193 GAGTTTC-TTTATAAC-TTCGATT
* * *
3836 CCTTAAAGAATCCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATG-ATCGAA-AA
1 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTACGAACATTCCATGCA-C-AAGAA
* * * * *
3899 ATCGCAT-AGTTTTGTCTAAATACTTTTTCATTTTGTTATCAACTTTTGATC-TTGAATTAAAAA
64 ATCGCATCA-TTTGGTCTAAATAGTTTGTCATTTTGTTAACAAATTTTG-TCTTTGAATTAAAAA
* * * * *
3962 CTTATTTATGTAAGAATTGTTTTTCTCTTGGTTCTTGGACAAACTTTCGAGCTTGTCAAACTTTT
127 CTTATTTACGTGAGAATTGTTTCTCTCTTGGTT-TTGGACGAACTTTCGAACTTGTCAAACTTTT
* *
4027 ATGA-CTTCTTTTATAACTTCGATT
191 ACGAGTTTC-TTTATAACTTCGATT
* *
4051 CCTTAAA-TAATTCAAGACTATCCATTCCTTCGAGCAATTTTACGAACATTCCATGCTCGAA-AA
1 CCTTAAAGT-ATTCAAGACGATCCATTCCTTCGAGCAATTTTACGAACATTCCATGCAC-AAGAA
* * * * ** *
4114 ATCACAT-AGTTTAGTCTAAATAGTTTGTCATTTCGTTATCAGCTATTGGTCTTT-AATTTAAAA
64 ATCGCATCA-TTTGGTCTAAATAGTTTGTCATTTTGTTAACAAAT-TTTGTCTTTGAA-TTAAAA
4177 ACTTATTTACGTGAGAATTGTTTCTCTC
126 ACTTATTTACGTGAGAATTGTTTCTCTC
4205 AAGGTGATGT
Statistics
Matches: 843, Mismatches: 144, Indels: 56
0.81 0.14 0.05
Matches are distributed among these distances:
214 84 0.10
215 370 0.44
216 384 0.46
217 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (214 bp):
CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTACGAACATTCCATGCACAAGAAAT
CGCATCATTTGGTCTAAATAGTTTGTCATTTTGTTAACAAATTTTGTCTTTGAATTAAAAACTTA
TTTACGTGAGAATTGTTTCTCTCTTGGTTTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAG
TTTCTTTATAACTTCGATT
Found at i:3708 original size:786 final size:773
Alignment explanation
Indices: 2202--3711 Score: 1853
Period size: 786 Copynumber: 1.9 Consensus size: 773
2192 AACTTCGGTT
* * * *
2202 CCTTAAAGTATTCAAGACTATCCATTCCTTCAAGTAATTTTCCAAACATTCCATGCTCGGGTAAT
1 CCTTAAAGTATTCAAGACAATCCATTCCTTCAAGCAATTTTCCAAACATTCCACGCTCGGGAAAT
* *
2267 CGAATCACTTGGTCTAAATAGTTTGTCATTTTGTAAACAGGTTTTGGTCTTTAAATTAAAAACTT
66 CGAATCACTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAGTTTTGGTCTTTAAATTAAAAACTT
* *
2332 TTTACGTGAGAATTGTTTCTCTATTCGTTCTGGGACGAACTTCTAAACTTGTCAAACTTTTAATA
131 TTTACGTGAGAATTGTTTCTCTACTCGTTCTGGGACGAACTTCTAAACTTGTCAAACTTTTAAGA
** *** * * * *
2397 GTTTTTTTATAACTTTGGTTCCTTAAAGTATTCAAGATAATGCATTCCTTTGAGAAATTTTCTTT
196 GTTTCGTTATAACTTCAATTCCTTAAAGTATTCAAGACAATCCATTCATTCGAGAAATTTTCTTT
* * * * * *
2462 GTAAATCTCTTCATTTGGTCTAAATAGTTTATCATTTTCTAAACAAGTTTTGGTCTTTGAATTAA
261 GCAAATATCTTCATTTCGTCTAAATAGCTTATCATTTTCTAAACAAATTTTCGTCTTTGAATTAA
2527 AAACGTATTTACGTGAGAATTGTTTCTCTGGTGTTCTTGGACAAACTTAAGAACTAGTCAAACTT
326 AAACGTATTTACGTGAGAATTGTTTCTCTGGTGTTCTTGGACAAACTTAAGAACTAGTCAAACTT
** * *
2592 TGATGAGATCTTTTATTACTTTGGTTCTTTAAAAGTATTCAAGGTGATCCATTCCTTCGAAAATT
391 TGACAAGATCTTTTATAACTTCGGTTCTTTAAAAGTATTCAAGGTGATCCATTCCTTCGAAAATT
* * * * * * *
2657 TTCTAAATATTCCTTGCTTGGGAAATTGAATTATTATGTCTAAATAGTTTGTCATTTTGTAAAGA
456 TGCTAAACATTCCATGCTCGGGAAATCGAATCATTATGTCTAAATAGTTTGTCATTTTGTAAACA
** * *
2722 TGTTGTAGTCTTTGAATTAAAAACTCATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGATGA
521 ACTTGTAGTCTTAGAATAAAAAACTCATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGATGA
* * * *
2787 ACTTTTGAACTTGTCAAACTTTTACAAGTTCTGTTATAACTTTAGTTCCTTAATGTATTCAAGAC
586 ACTTTCGAACTTGTCAAACTTTTACAAGTTCTGTTATAACTTCAATTCATTAATGTATTCAAGAC
* * * * *
2852 GATCCATTTCTTCGAGCAATTTTTCGAACATTCCATACACAATAAATCGCATCATTTTGTCTAAA
651 GATCCATTGCTTCGAGCAATTTTTCAAACATTCCATACACAAGAAATCGCAACATTTGGTCTAAA
2917 TAGTTTGTCTCTTGGTTCTGGGATGAACTTCCGAACTTGTCAAACTTTTACTTTATTA
716 TAGTTTGTCTCTTGGTTCTGGGATGAACTTCCGAACTTGTCAAACTTTTACTTTATTA
* ** * *
2975 CCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAATTTTCTGAATATTCCACGCTCTGGAAAT
1 CCTTAAAGTATTCAAGACAATCCATTCCTTCAAGCAATTTTCCAAACATTCCACGCTCGGGAAAT
* * *
3040 CGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAG-TTT-GTCTTTGAATTAAAAACTT
66 CGAATCACTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAGTTTTGGTCTTTAAATTAAAAACTT
* * * *
3103 ATTTACGTGAGAATTGTTTCTCT-CTCGATTCTTGGACGAACTTTTGAACTTGTCAAACTTTTAC
131 -TTTACGTGAGAATTGTTTCTCTACTCG-TTCTGGGACGAACTTCTAAACTTGTCAAACTTTTAA
* * *
3167 GAGTTTCGTTATAACTTCAATTCCTTAACGTATTCAAGACGATCCATTTATTCGA-ACAATTTTA
194 GAGTTTCGTTATAACTTCAATTCCTTAAAGTATTCAAGACAATCCATTCATTCGAGA-AA-TTT-
* * *
3231 CGATCATTCCATGCACAATAAATCGTATCATTTCGTCTAAATAGCTTGTCATTTTGTGAACAAAT
256 ---TC-TT---TGCA-AAT--ATC-T-TCATTTCGTCTAAATAGCTTATCATTTTCTAAACAAAT
* * * *
3296 TTTCGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTTTGTTGGTT-TTGAGACGAAC
309 TTTCGTCTTTGAATTAAAAACGTATTTACGTGAGAATTGTTTCTCTGGT-GTTCTTG-GACAAAC
** * * *
3360 TTCCGAACTTGTCAAACTTTTACAAG-TCCTTTTATAACTTCGGTTGC-TTAAAA-TATTGAAGA
372 TTAAGAACTAGTCAAACTTTGACAAGAT-CTTTTATAACTTCGGTT-CTTTAAAAGTATTCAAG-
* * *
3422 G-GATCCATTTCTTC-AAGCAATTTGCTGAACATTCCATGCTCGGGAAATCGTATCATT-TGGTC
434 GTGATCCATTCCTTCGAA--AATTTGCTAAACATTCCATGCTCGGGAAATCGAATCATTAT-GTC
* * * * * * * *
3484 TAAATAGTTTTTTATTTTGTTATCAACTT-TTGTCTTAGAATAAAAAACTTATTTGCATTAGAAT
496 TAAATAGTTTGTCATTTTGTAAACAACTTGTAGTCTTAGAATAAAAAACTCATTTACATGAGAAT
* * *
3548 TGTTTCTCTCTTGGTTTTTGGATGAACTTTCGAACTTGTCAAACTTTTAC-GGATTCCT-TTATA
561 TATTTCTCTCTTGGTTCTTGGATGAACTTTCGAACTTGTCAAACTTTTACAAG-TT-CTGTTATA
*
3611 ACTTCAATTCATTAATGTATTCAAGACGATCCATTGCTTCGAGCAATTTTTCAAACTTTCCA-AG
624 ACTTCAATTCATTAATGTATTCAAGACGATCCATTGCTTCGAGCAATTTTTCAAACATTCCATA-
*
3675 CACAAGAAATCGCAACATTTGGTCTATATAGTTTGTC
688 CACAAGAAATCGCAACATTTGGTCTAAATAGTTTGTC
3712 ATTTTGTAAA
Statistics
Matches: 619, Mismatches: 90, Indels: 43
0.82 0.12 0.06
Matches are distributed among these distances:
771 22 0.04
772 101 0.16
773 96 0.16
777 2 0.00
778 2 0.00
781 3 0.00
782 3 0.00
784 2 0.00
785 5 0.01
786 273 0.44
787 109 0.18
788 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (773 bp):
CCTTAAAGTATTCAAGACAATCCATTCCTTCAAGCAATTTTCCAAACATTCCACGCTCGGGAAAT
CGAATCACTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAGTTTTGGTCTTTAAATTAAAAACTT
TTTACGTGAGAATTGTTTCTCTACTCGTTCTGGGACGAACTTCTAAACTTGTCAAACTTTTAAGA
GTTTCGTTATAACTTCAATTCCTTAAAGTATTCAAGACAATCCATTCATTCGAGAAATTTTCTTT
GCAAATATCTTCATTTCGTCTAAATAGCTTATCATTTTCTAAACAAATTTTCGTCTTTGAATTAA
AAACGTATTTACGTGAGAATTGTTTCTCTGGTGTTCTTGGACAAACTTAAGAACTAGTCAAACTT
TGACAAGATCTTTTATAACTTCGGTTCTTTAAAAGTATTCAAGGTGATCCATTCCTTCGAAAATT
TGCTAAACATTCCATGCTCGGGAAATCGAATCATTATGTCTAAATAGTTTGTCATTTTGTAAACA
ACTTGTAGTCTTAGAATAAAAAACTCATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGATGA
ACTTTCGAACTTGTCAAACTTTTACAAGTTCTGTTATAACTTCAATTCATTAATGTATTCAAGAC
GATCCATTGCTTCGAGCAATTTTTCAAACATTCCATACACAAGAAATCGCAACATTTGGTCTAAA
TAGTTTGTCTCTTGGTTCTGGGATGAACTTCCGAACTTGTCAAACTTTTACTTTATTA
Found at i:3885 original size:431 final size:428
Alignment explanation
Indices: 2975--4203 Score: 1481
Period size: 431 Copynumber: 2.9 Consensus size: 428
2965 TACTTTATTA
* * * * *
2975 CCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAATTTTCTGAATATTCCACGCTCTGGAAAT
1 CCTTAAAGAATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAAT
* ** **
3040 CGCATCATTTGGTCTAAATAGTTTGTCATTTTG-TAAAAAAGTTTGTCTTTGAATTAAAAACTTA
66 CGCATCATTTGGTCTAAATAGTTTTTCATTTTGTTATCAACTTTTGTC-TTGAATTAAAAACTTA
* * * * *
3104 TTTACGTGAGAATTGTTTCTCTCTCGATTCTTGGACGAACTTTTGAACTTGTCAAACTTTTACGA
130 TTT-CATTAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGA
* * * * ** *
3169 GTTTCGTTATAACTTCAATTCCTTAACGTATTCAAGACGATCCATTTATTCGAACAATTTTACGA
194 CTTCCTTTATAACTTCAATTCCTTAATGTATTCAAGACGATCCATTCCTTCGAGCAATTTTACGA
* * * * * *
3234 TCATTCCATGCACAATAAATCGTATCATTTCGTCTAAATAGCTTGTCATTTTGTGAACAAATTTT
259 ACATTCCATGCACAA-AAATCGCAACATTTAGTCTAAATAGTTTGTCATTTTGTAAACAAATTTT
* * * *
3299 CGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTTTGTTGGTTTTGAGACGAACTTCC
323 CGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTATTGGTTCTGAGACAAACTTCC
*
3364 GAACTTGTCAAACTTTTACAAGTCCTTTTATAACTTCGGTT
388 GAACTTGTCAAACCTTTACAAGTCCTTTTATAACTTCGGTT
* * * * * *
3405 GCTTAAA-ATATTGAAGAGGATCCATTTCTTCAAGCAATTTGCTGAACATTCCATGCTCGGGAAA
1 CCTTAAAGA-ATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAA
* * *
3469 TCGTATCATTTGGTCTAAATAGTTTTTTATTTTGTTATCAACTTTTGTCTTAGAATAAAAAACTT
65 TCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTTATCAACTTTTGTCTT-GAATTAAAAACTT
* *
3534 ATTTGCATTAGAATTGTTTCTCTCTTGGTTTTTGGATGAACTTTCGAACTTGTCAAACTTTTACG
129 ATTT-CATTAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTAC-
* * *
3599 GA-TTCCTTTATAACTTCAATTCATTAATGTATTCAAGACGATCCATTGCTTCGAGCAATTTTTC
192 GACTTCCTTTATAACTTCAATTCCTTAATGTATTCAAGACGATCCATTCCTTCGAGCAATTTTAC
* * * * *
3663 AAACTTTCCAAGCACAAGAAATCGCAACATTTGGTCTATATAGTTTGTCATTTTGTAAACAAATT
257 GAACATTCCATGCACAA-AAATCGCAACATTTAGTCTAAATAGTTTGTCATTTTGTAAACAAATT
* *
3728 TTTGTGTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTATTGGTTCTGAGACAAAC-T
321 TTCGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTATTGGTTCTGAGACAAACTT
* * *
3792 CCTGAACTTGTTAAACCTTTACGAGTTCTTTTATAACATT-GGTT
386 CC-GAACTTGTCAAACCTTTACAAGTCCTTTTATAAC-TTCGGTT
* * **
3836 CCTTAAAGAATCCAAGACGATCCATTCCTTCGAGCAATTTT-TCGAACATTCCATGATCGAAAAA
1 CCTTAAAGAATTCAAGACGATCCATTCCTTCGAGCAATTTTCT-GAACATTCCATGCTCGGGAAA
* *
3900 TCGCAT-AGTTTTGTCTAAATACTTTTTCATTTTGTTATCAACTTTTGATCTTGAATTAAAAACT
65 TCGCATCA-TTTGGTCTAAATAGTTTTTCATTTTGTTATCAACTTTTG-TCTTGAATTAAAAACT
* * *
3964 TATTT-ATGTAAGAATTGTTTTTCTCTTGGTTCTTGGACAAACTTTCGAGCTTGTCAAACTTTTA
128 TATTTCAT-T-AGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
* * * * *
4028 TGACTTCTTTTATAACTTCGATTCCTTAAAT-AATTCAAGACTATCCATTCCTTCGAGCAATTTT
191 CGACTTCCTTTATAACTTCAATTCCTT-AATGTATTCAAGACGATCCATTCCTTCGAGCAATTTT
* * * * * * *
4092 ACGAACATTCCATGCTCGAAAAATCACATA-GTTTAGTCTAAATAGTTTGTCATTTCGTTATCAG
255 ACGAACATTCCATGCAC-AAAAATCGCA-ACATTTAGTCTAAATAGTTTGTCATTTTGTAAACAA
* * *
4156 CTATTGGTCTTT-AATTTAAAAACTTATTTACGTGAGAATTGTTTCTCT
318 ATTTTCGTCTTTGAA-TTAAAAACTTATTTACGTGAGAATTGTTTCTCT
4204 CAAGGTGATG
Statistics
Matches: 682, Mismatches: 100, Indels: 33
0.84 0.12 0.04
Matches are distributed among these distances:
429 2 0.00
430 95 0.14
431 570 0.84
432 15 0.02
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (428 bp):
CCTTAAAGAATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAAT
CGCATCATTTGGTCTAAATAGTTTTTCATTTTGTTATCAACTTTTGTCTTGAATTAAAAACTTAT
TTCATTAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGACT
TCCTTTATAACTTCAATTCCTTAATGTATTCAAGACGATCCATTCCTTCGAGCAATTTTACGAAC
ATTCCATGCACAAAAATCGCAACATTTAGTCTAAATAGTTTGTCATTTTGTAAACAAATTTTCGT
CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTATTGGTTCTGAGACAAACTTCCGAA
CTTGTCAAACCTTTACAAGTCCTTTTATAACTTCGGTT
Found at i:5456 original size:50 final size:51
Alignment explanation
Indices: 5331--5472 Score: 139
Period size: 50 Copynumber: 2.8 Consensus size: 51
5321 AACTAATGGA
* * * *
5331 TTACTAAATGCATGAC-TTGATTTAATGATGCAAACTTTAACTAACATGGGAG
1 TTACTTAATGCATGTCATT-ATTT-ATGACGCAAACTTTAACTAACATGGAAG
* ** * *
5383 TTACATAATGCATGAT-AGGATTTATGACGCATA-TTTAACTAACATGTAAG
1 TTACTTAATGCATG-TCATTATTTATGACGCAAACTTTAACTAACATGGAAG
*
5433 TTACTTAATGCATGTCATTATTTATGATGCAAAC-TTAACT
1 TTACTTAATGCATGTCATTATTTATGACGCAAACTTTAACT
5473 GATCATGAGA
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
49 1 0.01
50 47 0.65
51 8 0.11
52 16 0.22
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (51 bp):
TTACTTAATGCATGTCATTATTTATGACGCAAACTTTAACTAACATGGAAG
Found at i:7657 original size:215 final size:214
Alignment explanation
Indices: 6783--11176 Score: 3714
Period size: 215 Copynumber: 20.9 Consensus size: 214
6773 AATTTTCTCG
* * * *
6783 GGAAATCGCTTCATTGGGTCTAAATAGTTTGTCATTTTATAAACAAGTTTTGGTCTTTAAATTAA
1 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAA
* * **
6848 AAACGTATTTACGTGAGAATTGTTTCTCT-TGGGTTCTTGGACGAACTTAAGAACTTGTCAAACT
66 AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACT
** * * * * * * *
6912 TTCGCAAGATCCTTTATTACTT-TGGTTCCTTAAAAGTATTTAAGACGATCCATTCCTTCGA-AA
131 TTTACTAGTTCTTTTATAACTTCT-GTTCCTT-AAAGTATTCAAGATGATCCATTCCTTCGAGCA
* *
6975 ATTTTTTGAACACTCCATGCTT
194 ATTTTTCGAACATTCCATGC-T
* * ** * * **
6997 GGGAAATTGAATCATTTTTTCTAAATAGTTTGTCATTTTGTAAAGATGTTTTACTCTTTGAATTA
1 -GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
*
7062 AAAACTCATTTACGTGAGAATTGTTTCTCTCTTGGTT-TTGGGACGAACTT-TCGAACTTGTCAA
65 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTT-GGACGAACTTCT-GAACTTGTCAA
** * * * * *
7125 AC-TTT--TA---CTTTGGT-AC--CTG------AAACTATTCAAGACGATCAATTCCTTCTAGA
128 ACTTTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGC
* *
7175 AATTTTTCAAACATTCCATTCT
193 AATTTTTCGAACATTCCATGCT
* * *
7197 CGTGAAATCACATCATTTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAG-TTTGTGCCTTTGAA
1 -G-GAAATCGCATCA-TTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTG-GTCTTTGAA
* * * *
7261 TTAAAAACTTATTTATGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTGGTCA
62 TTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCA
* * *
7326 AATTTTTA-TGAGTT-TCTTTATAACTT-TGGCTCCTTAAAGTATTCAAGATGATCCATTCATTC
127 AACTTTTACT-AGTTCT-TTTATAACTTCT-GTTCCTTAAAGTATTCAAGATGATCCATTCCTTC
*
7388 GAGCAATTTTT-TAACATTCCATGCT
189 GAGCAATTTTTCGAACATTCCATGCT
* * * * *
7413 CGGGTAATCGAATCATTTGTTCTAAATAGTTTGTCATTTTGTAAACAGGTTTTGGTCTTTAAATT
1 --GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATT
* * * * * *
7478 AAACACTT-TTTACGTGAGAATTGATTCTCTATTGGTTCTGGGACGAACTTCTGAACTTATTAAA
64 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAA
* *
7542 CTTTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGAATTCAAGATGATGCATTCCTTCGAGCA
129 CTTTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCA
7607 ATTTTTCGAACATTCCATGCT
194 ATTTTTCGAACATTCCATGCT
* * * *
7628 GGAAAAATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTTATCAACTTTTGGTCTTTGAA-T
1 GG--AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATT
* * *
7692 ---AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCTGAATTTGGCAAA
64 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAA
** *
7754 CTTTTA-TGAGTTCCATTATAACTTCGGTTCCTTAATA-TATTCAAGATGATCCATTCCTTCGAG
129 CTTTTACT-AGTTCTTTTATAACTTCTGTTCCTTAA-AGTATTCAAGATGATCCATTCCTTCGAG
* *
7817 CAATTTTCCGAACATTCCATGCACA
192 CAATTTTTCGAACATTCCATG--CT
* * *
7842 AGAAATAGCATCATTTGGTCTAAATAGTTTGCCATTTTGTAAA-AAGTTTTGGTCTTTGAATTAA
1 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAA
* * **
7906 AAACATATTTACGTGAGAATTGTTTCTCT-TGGGTTCTTGGACGAACTTCCAAACTTGTCAAACT
66 AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACT
* * * * *
7970 TTTACTAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATGCATTCCTTCGTGCTA-
131 TTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAAT
8034 TTTT----C--T-CA----
196 TTTTCGAACATTCCATGCT
* * *
8042 GGAAATCGCTTCATTTGGTCTAAATAGTTTGTCATTTTCTAAACAA--ATTGGTCTTTGAATTAA
1 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAA
* * * * **
8105 AAACGTATTTACATTAGAATTGTTTCTCT-TGGGTTCTTGGACGAACTTAAGAACTTGTCAAACT
66 AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACT
* * * * * * *
8169 TTCA-TGGGATCCTTTATTACTT-TGGTTCCTTAAAGCATTCAAGACGATCCATTCCTTCGAG-A
131 TTTACT-AGTTCTTTTATAACTTCT-GTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCA
* *
8231 ATTTTTCCTAACATTCCATGTT
194 ATTTTT-CGAACATTCCATGCT
*** * * * ** *
8253 CGCGAAATTTAATCATTTTGTCTAAATAGTTTGTC---TTGTAAAGATGTTTTACTATTTGAATT
1 -G-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATT
* * * * *
8315 AAAAACTCATTTACACT-AGAATTGTTTCTCTCTTGGTTCTGGGACAAACTTCCGAACTTGTCAA
64 AAAAACTTATTTAC-GTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAA
* *
8379 ACTTTTAC----T-TTGT-T-A--------CCTTAAAGTATTCAAGATGATCTATTCCTTCGAGC
128 ACTTTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGC
* *
8429 AATTTTCCGAACATTCCACGCT
193 AATTTTTCGAACATTCCATGCT
* * * *
8451 CAGGAAAGCGCAACATTTGGTCTAAATAGTTTGTCATTTTCTAAAAAAGTTTAT-GTCTTTGAAT
1 --GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTT-TGGTCTTTGAAT
* * * *
8515 TAAAAACTTATTTGCGTGAGAATTATTTCTCTCTTGGTTCTTGGATGAACTTCTGAATTTGTCAA
63 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAA
* ** * * * *
8580 ACTTTTA-TGAATTCCATTATAACTTCGGTTCCTTAATGTATTCAAGACGATCCATTCCTTCGAT
128 ACTTTTACT-AGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAG
* *
8644 TAATTTTTCGAACATTCCATGCACA
192 CAATTTTTCGAACATTCCATG--CT
* * * *
8669 AGAAATCGCATCA-TTGGTCTAAATAGTTTGTCATTTTGTAAATAATTTTTTGTCTTTGAATTAA
1 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAA
* * *
8733 AAACTTATTTACGTGAGAATTGTTTCTCTGTTGGTTC-TGAGACGAACTTCCGAACTTGTCAAAA
66 AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTG-GACGAACTTCTGAACTTGTCAAAC
* * * * * * * *
8797 TTTTACGAGTTCTTTTATAACTTCGGTTGCTTAAAATATTGAAGACGATCCATTTCTTCAAGCAA
130 TTTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAA
*
8862 -TTTTCTAAACATTCCATGCT
195 TTTTTC-GAACATTCCATGCT
* * * * * * *
8882 CGGGAAATCGTATCATTTGGTCTAAATAGTTTTTTATTTTGTTATCAACTTTT-GTCTTAGAATT
1 --GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATT
* * * * * *
8946 AAAAACTTATTTGCATTAGAATTGTTTCACTCTTGGTTTTTGGATGAACTT-TCGAACTTGTCAA
64 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCT-GAACTTGTCAA
* * * * * * *
9010 ACTTTTA-TGGGTTAC-GTTATAACTTCGGTTCCTTAATGTATTCAAGAAGATACATTCCTTTGA
128 ACTTTTACT-AGTT-CTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGA
* ** * *
9073 GCAATTTTCCGAACATTAAATACACA
191 GCAATTTTTCGAACATTCCAT--GCT
* * * * ** * *
9099 AGAAATCGCATCATTTAGTCTAAAGAGTTTGTCATTTTGTAAACAATTTTTTATGTTTGAATGAA
1 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAA
* * * *
9164 AAACTTATTTATGTGAGAATTGTTTCTCTGTTGGTT-TTAAGACTAACTT-TCGAACTTGTCAAA
66 AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTT-GGACGAACTTCT-GAACTTGTCAAA
* * * * * * * *
9227 CTTTTACGAATTCTTTTATAACTTCGGTTCGTTAATGAATTCAAGATGATCTATTCCTTCGAACA
129 CTTTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCA
9292 A-TTTTCTGAACATTCCATGCT
194 ATTTTTC-GAACATTCCATGCT
* * * * * * * *
9313 CAGGATATCGCAT-AGTTTTGTCTAAATAGTTTGTGATTTTGTTATCAACTTTCGATC-TTGAAT
1 --GGAAATCGCATCA-TTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAAT
* * * *
9376 TAAAAACTTATTTACTTGAGAATTGTTTCTCTCTTAGTTCTTGGACTAGCTT-TCGAACTTGTCA
63 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCT-GAACTTGTCA
* * ** * * * * * *
9440 AACTTTTACGATTTCTTTTATAACTTCAATTCATTAAAGAATTCAGGACGATCCACTACTTCGAG
127 AACTTTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAG
* *
9505 CAA-TTTTC---CA-TGC-T-CG
192 CAATTTTTCGAACATTCCATGCT
* * * * *
9521 GGTAATCGAATCATTTGGTCTAAATAGTTTGTCGTTTTGTAAATAGGTTTTGGTCTTT-ATATTA
1 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGA-ATTA
* * * * * * * *
9585 AACACAT-TTTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAAGTTCCGAACTTATTAAAC
65 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAAC
* * *
9649 TTTAACTAGTTCTTTTATATCTTCTGTTCCTTAAAGTATTCAAGATGATGCATTCCTTCGAGCAA
130 TTTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAA
9714 ---TT------TT-C-T--T
195 TTTTTCGAACATTCCATGCT
* * * *
9721 GGAAATCACTTCATTTGGTCTAAATAGTTTGTCATCTTCTAAACAAGTTTTGGTCTTTGAATTAA
1 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAA
* * ** * *
9786 AAA-TGTATTTAAGTGAGAATTGTTTCTCT-TGGGTTCTTGGACGAACTTAAGAAGTTGTTAAAC
66 AAACT-TATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAAC
* * * * * * **
9849 TTTCACGAGATCCTTTATTACTT-TGGTTCCTTAAAAGTATTCAAGATGATCCATTCCTTCAAAA
130 TTTTACTAGTTCTTTTATAACTTCT-GTTCCTT-AAAGTATTCAAGATGATCCATTCCTTCGAGC
** * * *
9913 AAAATTTCAAACACTCAATGCT
193 AATTTTTCGAACATTCCATGCT
* * * * * **
9935 CGAGAAATTGAATCATTTTGTCTAAATAGTTTGTCATTTTGTAAAGATGTTTTACTCTTTGAATT
1 -G-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATT
* * * * * * *
10000 AAAAGCTCATTTACGTGAGAATCGTTTCTCTTTTGGTTCTGGGACAAACTTCTAAACTTGTCAAA
64 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAA
* * * *
10065 CTTTTAC----T-TTGT-T-A--------CCTTAAAGTATTCAAGACGATTCATTCCTTCGAGAA
129 CTTTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAG-C
* * *
10115 AATTTTT-AAACATTCTACGCT
193 AATTTTTCGAACATTCCATGCT
* * *
10136 CAGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAG-TGT-GTCTTTGAATT
1 --GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATT
* * ** * * *
10199 AAAAACTTATTTATGTGAGAATTGTTTCTCTATTGGTTCTAAGACAAACTTTTGAACTTATCAAA
64 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAA
* * * *
10264 CTTTT-TTGAGTTCTTTTATAACTT-TGGTTCCTTAAAATATTGAACATGATCCATTCCTTCGAG
129 CTTTTACT-AGTTCTTTTATAACTTCT-GTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAG
10327 CAATTTTTCGAACATTCCATGCT
192 CAATTTTTCGAACATTCCATGCT
* * * * *
10350 CAGGAAATCACATCATTTGGTCTAAATAGTTTTTCATTTTGTTATCAACTTTTGGTCTTTGAATT
1 --GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATT
* * * * * *
10415 AAAAACTTATTTACGTGAGAATTGTTTCTCTCGTAGTTCTTGGATGAACCTCCGAGCTTGTCAAA
64 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAA
* ** * * * *
10480 CTTTTACGAGTTCCATTATAACTTCGGTTCCTTAATGTATTCAAGATGATCCATTCCTTTGATCA
129 CTTTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCA
* *
10545 ATTTTTCGAATATTCCATGCACA
194 ATTTTTCGAACATTCCATG--CT
** * * ***
10568 ATAAATCGCATCATTTGGTCTAAATATTTTGTCATTTTGTAAAAAAAAAAAATT--TCTTTGAAT
1 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT---AAACAAGTTTTGGTCTTTGAAT
* * * * * * *
10631 TAAAAACTTATTTATGTAAAAATAGTTTCTCTATTGGTAC-TGAGATGAACTTCTGAACTTGTCA
63 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTG-GACGAACTTCTGAACTTGTCA
* * * * * *
10695 ATCTAGTT--T--TTCATTTATAACTTCAGTTCCTTAAAATATTGAAGACT-ATCCATTCCTTCG
127 AACT-TTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGA-TGATCCATTCCTTCG
*
10755 AGCAATTTTTTGAACATTCCATGCTT
190 AGCAATTTTTCGAACATTCCATGC-T
* * *
10781 GGAAATCGCATCATTTGGTAC-AAATAGTTT-TCATTTTGTTATCAAGTTTTGGACTTTGAATTA
1 GGAAATCGCATCATTTGGT-CTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* * * *
10844 AAAGCTTATTTGCATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTAAACTTGTCAAAC
65 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAAC
* * * * * * ** *
10909 TTTTACGAGTT-TCGTTATAGCTTCAGTTCCTTAATGTTTTCAAGACCATCCATTCCTTTGAGCA
130 TTTTACTAGTTCT-TTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCA
* *
10973 GTTTTTCGAACA-TCCATGCACA
194 ATTTTTCGAACATTCCATG--CT
* * * *
10995 AGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAATTTTTGTCTTTGAATTAA
1 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAA
* * * * * *
11060 AAACTTATTTATGTGGGACTTGTTTCTCTATTGGTTC-TGAGAC-AATTTTTCGAACTTGTCAAA
66 AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTG-GACGAACTTCT-GAACTTGTCAAA
* * ** * * * *
11123 CTTTTACGAGTTATTTTATAACTTCAATTCCTTAAAATTTTGAAGACGATCCAT
129 CTTTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCAT
11177 GATGCGAGCA
Statistics
Matches: 3380, Mismatches: 606, Indels: 386
0.77 0.14 0.09
Matches are distributed among these distances:
198 71 0.02
199 205 0.06
200 176 0.05
201 242 0.07
202 108 0.03
203 6 0.00
204 9 0.00
205 3 0.00
206 145 0.04
207 19 0.01
208 8 0.00
209 12 0.00
210 18 0.01
211 86 0.03
212 212 0.06
213 110 0.03
214 437 0.13
215 815 0.24
216 561 0.17
217 128 0.04
218 4 0.00
219 5 0.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (214 bp):
GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAA
AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACT
TTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAAT
TTTTCGAACATTCCATGCT
Found at i:9234 original size:431 final size:429
Alignment explanation
Indices: 5868--11176 Score: 4428
Period size: 431 Copynumber: 12.7 Consensus size: 429
5858 GGACGAAAAT
* * * * *
5868 CGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCATAAATTATTCAAGATGATTC
1 CGAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTT-CTTAAAATATTCAAGATGATCC
* * *
5933 ATTCCTTCAAGCAA---T-T-----TT-C-T--T-GGGAAATCTCATCATTTGGT-TAGATAGTT
65 ATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTT
* * * * *
5983 TGTCATATTCTACACAAGTTTTGGTCTTCGAATTAAAAACGTATTTACGTGAGAATTG-TT-TCT
130 TGTCATTTTGTAAACAAGTTTT-GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT
* *** * * * *
6046 CTTGGTTCTTGAACGAA-TTGAAAAACTTGTTAAACTTTTA-CACGATCCTTTATTAA-TTCAGT
194 CTTGGTTCTTGGACGAACTT-TCGAACTTGTCAAACTTTTATGA-GTTCCTTTA-TAACTTCGGT
* * ** * * *
6108 T-CTATAAAAGTATTCAAGACGATCCATTCGTTTGAAAAAAATTT-C-AACCATTTCATGCTCGG
256 TCCT-T-AAAGTATTCAAGACGATCCATTCCTTCG-AGCAATTTTCCGAA-CATTCCATGCTCGA
* * * * *
6170 GAAATTGAATCATTTTGTCTTAAA-ATTTTGTCA-TTTGTAAACATGTTTTGGTCTTTGAATTAA
317 GAAATCGAATCATTTGGTC-TAAATAGTTTGTCATTTTGTAAAAAT-TTTTTGTCTTTGAATTAA
* *
6233 AAACTAATTTACGTGAGAATTGTTTCTCTCTTGGTTCTGGGACGAACTTC
380 AAACTTATTTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTC
* ** * ** *
6283 CGAACTTGTCAAAC-GTT--TA---CTTTGGT-A---C----CTTAAAGTATTCAAGACAATCAA
1 CGAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTTCTTAAAATATTCAAGATGATCCA
* * * **
6334 TTCCTTCGAGGAATTTT-TCGAACATTCCATTCTCGTGAAATAACATCATTTGGTCTAAATAGTT
66 TTCCTTCGAGCAATTTTCT-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTT
*
6398 TGTCATTTTATAAA-AAGTTTGTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT
130 TGTCATTTTGTAAACAAGTTT-TGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT
* * * *
6462 CTTGGTTCTTGGACGAAC-TTCTGAACTTGTCAAACTTTTACGAGTTCCTTTATAACTTAGTTTT
194 CTTGGTTCTTGGACGAACTTTC-GAACTTGTCAAACTTTTATGAGTTCCTTTATAACTTCGGTTC
* * * * * * * * * *
6526 CTTAAAGTAGTCAATACGATTCATTCCTTCGAGCAATTTTTCAAACATTCAATGCTTGGGTAATT
258 CTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGAGAAATC
* * ** * *
6591 GAATCATTCGGTCGAAATAGTTTGTCATTTTGTAAATAGGTTTTGGTCTTTAAATT-AAAACTT-
323 GAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA-AATTTTTTGTCTTTGAATTAAAAACTTA
* ** * * *
6654 TTTATGCAAGAATTGTTTCTTTATTAGTTCTGGGACGAAGTTC
387 TTTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTC
* * * * *
6697 CGAACTTATCAAACTTTTACTATTTCTTTTATAACTTCTGTTCTTAAAATATTGAAGATGATGCA
1 CGAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTTCTTAAAATATTCAAGATGATCCA
* *
6762 TTCCTTCGAGCAA-----T-----TT---T-CTCGGGAAATCGCTTCATTGGGTCTAAATAGTTT
66 TTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
* * *
6813 GTCATTTTATAAACAAGTTTTGGTCTTTAAATTAAAAACGTATTTACGTGAGAATTGTTTCTCT-
131 GTCATTTTGTAAACAAGTTTT-GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC
* ** **** * * *
6877 TGGGTTCTTGGACGAACTTAAGAACTTGTCAAACTTTCGCAAGATCCTTTATTACTTTGGTTCCT
195 TTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTATGAGTTCCTTTATAACTTCGGTTCCT
* * ** * * * *
6942 TAAAAGTATTTAAGACGATCCATTCCTTCGA-AAATTTTTTGAACACTCCATGCTTGGGAAATTG
260 T-AAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGAGAAATCG
** * ** *
7006 AATCATTTTTTCTAAATAGTTTGTCATTTTGTAAAGATGTTTTACTCTTTGAATTAAAAACTCAT
324 AATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAT-TTTTTGTCTTTGAATTAAAAACTTAT
* * *
7071 TTACGTGAGAATTGTTTCTCTCTTGGTTTTGGGACGAACTTT
388 TTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTC
** * * * *
7113 CGAACTTGTCAAAC-TTT--TA---CTTTGGT-A---C----CTGAAACTATTCAAGACGATCAA
1 CGAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTTCTTAAAATATTCAAGATGATCCA
* * * * * *
7164 TTCCTTCTAGAAATTTT-TCAAACATTCCATTCTCGTGAAATCACATCATTTTGGTCTAAATAGT
66 TTCCTTCGAGCAATTTTCT-GAACATTCCATGCTCGGGAAATCGCATCA-TTTGGTCTAAATAGT
* * * *
7228 TTGTCATTTTGTAAAAAAGTTTGTGCCTTTGAATTAAAAACTTATTTATGTGAGAATTATTTCTC
129 TTGTCATTTTGTAAACAAGTTT-TGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTC
* * * * * *
7293 TCTTGGTTCTTGGACGAACTTCCGAACTGGTCAAATTTTTATGAGTTTCTTTATAACTTTGGCTC
193 TCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTATGAGTTCCTTTATAACTTCGGTTC
* * ** * *
7358 CTTAAAGTATTCAAGATGATCCATTCATTCGAGCAATTTT-TTAACATTCCATGCTCGGGTAATC
258 CTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGAGAAATC
* ** * * *
7422 GAATCATTTGTTCTAAATAGTTTGTCATTTTGTAAACAGGTTTTGGTCTTTAAATTAAACACTT-
323 GAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA-AATTTTTTGTCTTTGAATTAAAAACTTA
*
7486 TTTACGTGAGAATTGATTCTCTATTGGTTCTGGGACGAACTTC
387 TTTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTC
* * * * *
7529 TGAACTTATTAAACTTTTACTAGTTCTTTTATAACTTCTGTTCCTTAAAGA-ATTCAAGATGATG
1 CGAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTT-CTTAAA-ATATTCAAGATGATC
*
7593 CATTCCTTCGAGCAATTTT-TCGAACATTCCATGCT-GGAAAAATCGCATCATTTGGTCTAAATA
64 CATTCCTTCGAGCAATTTTCT-GAACATTCCATGCTCGG-GAAATCGCATCATTTGGTCTAAATA
* * * *
7656 GTTTTTCATTTTGTTATCAACTTTTGGTCTTTGAA-T---AACTTATTTACGTGAGAATTGTTTC
127 GTTTGTCATTTTGTAAACAAGTTTT-GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTC
* * * *
7717 TCTCTTGGTTCTTGGATGAAC-TTCTGAATTTGGCAAACTTTTATGAGTTCCATTATAACTTCGG
191 TCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCAAACTTTTATGAGTTCCTTTATAACTTCGG
* * *
7781 TTCCTTAATA-TATTCAAGATGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCACAAGA
255 TTCCTTAA-AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGAGA
* * * * *
7845 AATAGCATCATTTGGTCTAAATAGTTTGCCATTTTGTAAAAAGTTTTGGTCTTTGAATTAAAAAC
319 AATCGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAATTTTTTGTCTTTGAATTAAAAAC
* * *
7910 ATATTTACGTGAGAATTGTTTCTCT-TGGGTTCTTGGACGAACTTC
384 TTATTTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTC
* * * *
7955 CAAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATGC
1 CGAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTT-CTTAAAATATTCAAGATGATCC
* * *
8020 ATTCCTTCGTGCTA-TTT-T---C--T-CA------GGAAATCGCTTCATTTGGTCTAAATAGTT
65 ATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTT
* * * * * *
8071 TGTCATTTTCTAAACAA-ATTGGTCTTTGAATTAAAAACGTATTTACATTAGAATTGTTTCTCT-
130 TGTCATTTTGTAAACAAGTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC
* ** * * * * *
8134 TGGGTTCTTGGACGAACTTAAGAACTTGTCAAACTTTCATGGGATCCTTTATTACTTTGGTTCCT
195 TTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTATGAGTTCCTTTATAACTTCGGTTCCT
* * * * **
8199 TAAAGCATTCAAGACGATCCATTCCTTCGAG-AATTTTTCCTAACATTCCATGTTCGCGAAATTT
260 TAAAGTATTCAAGACGATCCATTCCTTCGAGCAA-TTTTCCGAACATTCCATGCTCGAGAAATCG
* * ** * *
8263 AATCATTTTGTCTAAATAGTTTGTC---TTGTAAAGATGTTTTACTATTTGAATTAAAAACTCAT
324 AATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAT-TTTTTGTCTTTGAATTAAAAACTTAT
* * *
8325 TTACACT-AGAATTGTTTCTCTCTTGGTTCTGGGACAAACTTC
388 TTAC-GTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTC
* * *
8367 CGAACTTGTCAAACTTTTAC----T-TTGT-T-A---C----CTTAAAGTATTCAAGATGATCTA
1 CGAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTTCTTAAAATATTCAAGATGATCCA
* * * * *
8418 TTCCTTCGAGCAATTTTCCGAACATTCCACGCTCAGGAAAGCGCAACATTTGGTCTAAATAGTTT
66 TTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
* * * *
8483 GTCATTTTCTAAAAAAGTTTATGTCTTTGAATTAAAAACTTATTTGCGTGAGAATTATTTCTCTC
131 GTCATTTTGTAAACAAGTTT-TGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC
* * * *
8548 TTGGTTCTTGGATGAAC-TTCTGAATTTGTCAAACTTTTATGAATTCCATTATAACTTCGGTTCC
195 TTGGTTCTTGGACGAACTTTC-GAACTTGTCAAACTTTTATGAGTTCCTTTATAACTTCGGTTCC
* ** * * *
8612 TTAATGTATTCAAGACGATCCATTCCTTCGATTAATTTTTCGAACATTCCATGCACAAGAAATCG
259 TTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGAGAAATCG
*
8677 CATCA-TTGGTCTAAATAGTTTGTCATTTTGTAAATAATTTTTTGTCTTTGAATTAAAAACTTAT
324 AATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA-AATTTTTTGTCTTTGAATTAAAAACTTAT
* *
8741 TTACGTGAGAATTGTTTCTCTGTTGGTTCTGAGACGAACTTC
388 TTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTC
* * * *
8783 CGAACTTGTCAAAATTTTACGAGTTCTTTTATAACTTCGGTTGCTTAAAATATTGAAGACGATCC
1 CGAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTT-CTTAAAATATTCAAGATGATCC
* * * *
8848 ATTTCTTCAAGCAATTTTCTAAACATTCCATGCTCGGGAAATCGTATCATTTGGTCTAAATAGTT
65 ATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTT
* * * * * * * * * *
8913 TTTTATTTTGTTATCAACTTTTGTCTTAGAATTAAAAACTTATTTGCATTAGAATTGTTTCACTC
130 TGTCATTTTGTAAACAAGTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC
* * * * *
8978 TTGGTTTTTGGATGAACTTTCGAACTTGTCAAACTTTTATGGGTTACGTTATAACTTCGGTTCCT
195 TTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTATGAGTTCCTTTATAACTTCGGTTCCT
* * * * ** * * * *
9043 TAATGTATTCAAGAAGATACATTCCTTTGAGCAATTTTCCGAACATTAAATACACAAGAAATCGC
260 TAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGAGAAATCGA
* * * * *
9108 ATCATTTAGTCTAAAGAGTTTGTCATTTTGTAAACAATTTTTTATGTTTGAATGAAAAACTTATT
325 ATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA-AATTTTTTGTCTTTGAATTAAAAACTTATT
* * * ** * *
9173 TATGTGAGAATTGTTTCTCTGTTGGTTTTAAGACTAACTTT
389 TACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTC
* * *
9214 CGAACTTGTCAAACTTTTACGAATTCTTTTATAACTTCGGTTCGTTAATGA-ATTCAAGATGATC
1 CGAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTTC-TTAA-AATATTCAAGATGATC
* * * * *
9278 TATTCCTTCGAACAATTTTCTGAACATTCCATGCTCAGGATATCGCAT-AGTTTTGTCTAAATAG
64 CATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCATCA-TTTGGTCTAAATAG
* * * * * *
9342 TTTGTGATTTTGTTATCAACTTTCGATC-TTGAATTAAAAACTTATTTACTTGAGAATTGTTTCT
128 TTTGTCATTTTGTAAACAAGTTTTG-TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * * * * **
9406 CTCTTAGTTCTTGGACTAGCTTTCGAACTTGTCAAACTTTTACGATTTCTTTTATAACTTCAATT
192 CTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTATGAGTTCCTTTATAACTTCGGTT
* * * * * * *
9471 CATTAAAGAATTCAGGACGATCCACTACTTCGAGCAA--TT-------TTCCATGCTCGGGTAAT
257 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGAGAAAT
* ** * * *
9527 CGAATCATTTGGTCTAAATAGTTTGTCGTTTTGTAAATAGGTTTTGGTCTTT-ATATTAAACACA
322 CGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA-AATTTTTTGTCTTTGA-ATTAAAAACT
*
9591 T-TTTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAAGTTC
385 TATTTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTC
* * * * * * *
9635 CGAACTTATTAAACTTTAACTAGTTCTTTTATATCTTCTGTTCCTTAAAGTATTCAAGATGATGC
1 CGAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTT-CTTAAAATATTCAAGATGATCC
* *
9700 ATTCCTTCGAGCAA---T-T-----TT-C-T--T--GGAAATCACTTCATTTGGTCTAAATAGTT
65 ATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTT
* * *
9750 TGTCATCTTCTAAACAAGTTTTGGTCTTTGAATTAAAAA-TGTATTTAAGTGAGAATTGTTTCTC
130 TGTCATTTTGTAAACAAGTTTT-GTCTTTGAATTAAAAACT-TATTTACGTGAGAATTGTTTCTC
* ** * * * * * * *
9814 T-TGGGTTCTTGGACGAACTTAAGAAGTTGTTAAACTTTCACGAGATCCTTTATTACTTTGGTTC
193 TCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTATGAGTTCCTTTATAACTTCGGTTC
* * ** * * * *
9878 CTTAAAAGTATTCAAGATGATCCATTCCTTCAAAAAAAATTT-CAAACACTCAATGCTCGAGAAA
258 CTT-AAAGTATTCAAGACGATCCATTCCTTC-GAGCAATTTTCCGAACATTCCATGCTCGAGAAA
* * * ** *
9942 TTGAATCATTTTGTCTAAATAGTTTGTCATTTTGTAAAGATGTTTTACTCTTTGAATTAAAAGCT
321 TCGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAT-TTTTTGTCTTTGAATTAAAAACT
* * * *
10007 CATTTACGTGAGAATCGTTTCTCTTTTGGTTCTGGGACAAACTTC
385 TATTTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTC
** * * * *
10052 TAAACTTGTCAAACTTTTAC----T-TTGT-T-A---C----CTTAAAGTATTCAAGACGATTCA
1 CGAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTTCTTAAAATATTCAAGATGATCCA
* * * * * *
10103 TTCCTTCGAGAAAATTTT-TAAACATTCTACGCTCAGGAAATCACATCATTTGGTCTAAATAGTT
66 TTCCTTCGAG-CAATTTTCTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTT
* * * *
10167 TGTCATTTTGTAAAAAAG-TGTGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTA
130 TGTCATTTTGTAAACAAGTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC
** * * * * * *
10231 TTGGTTCTAAGACAAACTTTTGAACTTATCAAACTTTTTTGAGTTCTTTTATAACTTTGGTTCCT
195 TTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTATGAGTTCCTTTATAACTTCGGTTCCT
* * * * *
10296 TAAAATATTGAACATGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTC-AGGAAATC-
260 TAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGA-GAAATCG
* ** * *
10359 ACATCATTTGGTCTAAATAGTTTTTCATTTTGTTATCAACTTTTGGTCTTTGAATTAAAAACTTA
324 A-ATCATTTGGTCTAAATAGTTTGTCATTTTG-TAAAAATTTTTTGTCTTTGAATTAAAAACTTA
** * * * *
10424 TTTACGTGAGAATTGTTTCTCTCGTAGTTCTTGGATGAACCTC
387 TTTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTC
* * ** **
10467 CGAGCTTGTCAAACTTTTACGAGTTCCATTATAACTTCGGTTCCTTAATGTATTCAAGATGATCC
1 CGAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTT-CTTAAAATATTCAAGATGATCC
* * * * *** *
10532 ATTCCTTTGATCAATTTT-TCGAATATTCCATGCACAATAAATCGCATCATTTGGTCTAAATATT
65 ATTCCTTCGAGCAATTTTCT-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGT
* *** * * * *
10596 TTGTCATTTTGTAAAAAAAAAAAATT-TCTTTGAATTAAAAACTTATTTATGTAAAAATAGTTTC
129 TTGTCATTTTGT---AAACAAGTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTC
* * * * * *
10660 TCTATTGGTAC-TGAGATGAAC-TTCTGAACTTGTCAATCTAGTT-T---TTCATTTATAACTTC
191 TCTCTTGGTTCTTG-GACGAACTTTC-GAACTTGTCAAACT-TTTATGAGTTCCTTTATAACTTC
* * * * ** *
10719 AGTTCCTTAAAATATTGAAGACTATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTTG-G
253 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGAG
* ** * * *
10783 AAATCGCATCATTTGGTAC-AAATAGTTT-TCATTTTGTTATCAAGTTTTGGACTTTGAATTAAA
318 AAATCGAATCATTTGGT-CTAAATAGTTTGTCATTTTG-TAAAAATTTTTTGTCTTTGAATTAAA
* * * * *
10846 AGCTTATTTGCATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTC
381 AACTTATTTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTC
** * * * * ** * **
10895 TAAACTTGTCAAACTTTTACGAGTT-TCGTTATAGCTTCAGTTCCTTAATGTTTTCAAGACCATC
1 CGAACTTGTCAAACTTTTACTAGTTCT-TTTATAACTTCGGTT-CTTAAAATATTCAAGATGATC
* * * ** *
10959 CATTCCTTTGAGCAGTTTT-TCGAACA-TCCATGCACAAGAAATTGCATCATTTGGTCTAAATAG
64 CATTCCTTCGAGCAATTTTCT-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAG
* * * *
11022 TTTGTCATTTTGTAAACAAATTTTTGTCTTTGAATTAAAAACTTATTTATGTGGGACTTGTTTCT
128 TTTGTCATTTTGTAAAC-AAGTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * ** **
11087 CTATTGGTTC-TGAGAC-AATTTTTCGAACTTGTCAAACTTTTACGAGTTATTTTATAACTTCAA
192 CTCTTGGTTCTTG-GACGAA-CTTTCGAACTTGTCAAACTTTTATGAGTTCCTTTATAACTTCGG
* * *
11150 TTCCTTAAAATTTTGAAGACGATCCAT
255 TTCCTTAAAGTATTCAAGACGATCCAT
11177 GATGCGAGCA
Statistics
Matches: 3988, Mismatches: 684, Indels: 430
0.78 0.13 0.08
Matches are distributed among these distances:
397 31 0.01
398 3 0.00
400 28 0.01
402 61 0.02
403 4 0.00
404 1 0.00
405 3 0.00
406 95 0.02
407 62 0.02
408 6 0.00
409 8 0.00
410 26 0.01
411 89 0.02
412 89 0.02
413 184 0.05
414 422 0.11
415 375 0.09
416 389 0.10
417 279 0.07
418 65 0.02
419 4 0.00
420 7 0.00
421 106 0.03
422 68 0.02
423 2 0.00
424 5 0.00
425 15 0.00
426 287 0.07
427 122 0.03
428 180 0.05
429 75 0.02
430 342 0.09
431 478 0.12
432 5 0.00
433 69 0.02
434 3 0.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (429 bp):
CGAACTTGTCAAACTTTTACTAGTTCTTTTATAACTTCGGTTCTTAAAATATTCAAGATGATCCA
TTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
GTCATTTTGTAAACAAGTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
TGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTATGAGTTCCTTTATAACTTCGGTTCCTT
AAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGAGAAATCGAA
TCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAATTTTTTGTCTTTGAATTAAAAACTTATTTA
CGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTC
Found at i:9664 original size:206 final size:201
Alignment explanation
Indices: 9370--9830 Score: 500
Period size: 206 Copynumber: 2.3 Consensus size: 201
9360 ACTTTCGATC
* * * * *
9370 TTGAATTAAAAACTTATTTACTTGAGAATTGTTTCTCTCTTAGTTCTTGGAC-TAGCTTTCGAAC
1 TTGAATTAAAAACATATTTACGTGAGAATTGTTTCTCT-TTGGTTCTTGGACGAAGCTTCCGAAC
* * * *
9434 TTGTCAAACTTTTACGATTTCTTTTATAACTTCAATTCATTAAAGAATTCAGGACGATCCACTAC
65 TTATCAAACTTTAACGAGTTCTTTTATAACTTCAATTCATTAAAGAATTCAAGACGATCCACTAC
* * * *
9499 TTCGAGCAATTTTCCATGCTCGGGTAATCGA-ATCATTTGGTCTAAATAGTTTGTCGTTTTGTAA
130 TTCGAGCAATTTT-C-T--T--GGAAATC-ACATCATTTGGTCTAAATAGTTTGTCATCTTCTAA
* *
9563 ATAGGTTTTGGTCT
188 ACAAGTTTTGGTCT
* *
9577 TT-ATATTAAACACAT-TTTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAAG-TTCCGAA
1 TTGA-ATTAAAAACATATTTACGTGAGAATTGTTTCTCT-TTGGTTCTTGGACGAAGCTTCCGAA
* * * ** * * * * * *
9639 CTTATTAAACTTTAACTAGTTCTTTTATATCTTCTGTTCCTTAAAGTATTCAAGATGATGCATTC
64 CTTATCAAACTTTAACGAGTTCTTTTATAACTTCAATTCATTAAAGAATTCAAGACGATCCACTA
*
9704 CTTCGAGCAATTTTCTTGGAAATCACTTCATTTGGTCTAAATAGTTTGTCATCTTCTAAACAAGT
129 CTTCGAGCAATTTTCTTGGAAATCACATCATTTGGTCTAAATAGTTTGTCATCTTCTAAACAAGT
9769 TTTGGTCT
194 TTTGGTCT
** * *
9777 TTGAATTAAAAATGTATTTAAGTGAGAATTGTTTCTCTTGGGTTCTTGGACGAA
1 TTGAATTAAAAACATATTTACGTGAGAATTGTTTCTCTTTGGTTCTTGGACGAA
9831 CTTAAGAAGT
Statistics
Matches: 213, Mismatches: 36, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
199 1 0.00
200 71 0.33
201 22 0.10
202 1 0.00
204 1 0.00
205 1 0.00
206 103 0.48
207 13 0.06
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (201 bp):
TTGAATTAAAAACATATTTACGTGAGAATTGTTTCTCTTTGGTTCTTGGACGAAGCTTCCGAACT
TATCAAACTTTAACGAGTTCTTTTATAACTTCAATTCATTAAAGAATTCAAGACGATCCACTACT
TCGAGCAATTTTCTTGGAAATCACATCATTTGGTCTAAATAGTTTGTCATCTTCTAAACAAGTTT
TGGTCT
Found at i:9908 original size:201 final size:200
Alignment explanation
Indices: 9531--9908 Score: 494
Period size: 200 Copynumber: 1.9 Consensus size: 200
9521 GGTAATCGAA
* * * * * *
9531 TCATTTGGTCTAAATAGTTTGTCGTTTTGTAAATAGGTTTTGGTCTTTATATTAAACACATTTTA
1 TCATTTGGTCTAAATAGTTTGTCATCTTCTAAACAAGTTTTGGTCTTTATATTAAAAACATTTTA
* * * ** * *
9596 CGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAAGTTCCGAACTTATTAAACTTTAACTAGTTC
66 AGTGAGAATTGTTTCTCTATGGGTTCTGGGACGAACTTAAGAACTTATTAAACTTTAACGAGATC
* *
9661 TTTTATATCTTCTGTTCCTTAAAGTATTCAAGATGATGCATTCCTTCGAGCAATTTTCTTGGAAA
131 CTTTATATCTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTCTTGGAAA
9726 TCACT
196 TCACT
**
9731 TCATTTGGTCTAAATAGTTTGTCATCTTCTAAACAAGTTTTGGTCTTTGA-ATTAAAAATGTATT
1 TCATTTGGTCTAAATAGTTTGTCATCTTCTAAACAAGTTTTGGTCTTT-ATATTAAAAACAT-TT
* * * *
9795 TAAGTGAGAATTGTTTCTCT-TGGGTTCTTGGACGAACTTAAGAAGTTGTTAAACTTTCACGAGA
64 TAAGTGAGAATTGTTTCTCTATGGGTTCTGGGACGAACTTAAGAACTTATTAAACTTTAACGAGA
9859 TCCTTTAT-TACTT-TGGTTCCTTAAAAGTATTCAAGATGATCCATTCCTTC
129 TCCTTTATAT-CTTCT-GTTCCTT-AAAGTATTCAAGATGATCCATTCCTTC
9909 AAAAAAAATT
Statistics
Matches: 152, Mismatches: 21, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
199 2 0.01
200 102 0.67
201 48 0.32
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (200 bp):
TCATTTGGTCTAAATAGTTTGTCATCTTCTAAACAAGTTTTGGTCTTTATATTAAAAACATTTTA
AGTGAGAATTGTTTCTCTATGGGTTCTGGGACGAACTTAAGAACTTATTAAACTTTAACGAGATC
CTTTATATCTTCTGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTCTTGGAAA
TCACT
Found at i:10562 original size:216 final size:215
Alignment explanation
Indices: 10079--11176 Score: 1094
Period size: 214 Copynumber: 5.1 Consensus size: 215
10069 TACTTTGTTA
* * * * * *
10079 CCTTAAAGTATTCAAGACGATTCATTCCTTCGAGAAAATTTTT-AAACATTCTACGCTCAGGAAA
1 CCTTAAAGTATTCAAGATGATCCATTCCTTCGAG-CAATTTTTCGAACATTCCATGCTCAGGAAA
* * * * *
10143 TCACATCATTTGGTCTAAATAGTTTGTCATTTTG-TAAAAAAGTGTGTCTTTGAATTAAAAACTT
65 TCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTTAACAAATTTTGTCTTTGAATTAAAAACTT
** * * * **
10207 ATTTATGTGAGAATTGTTTCTCTATTGGTTCTAAGACAAACTTTTGAACTTATCAAACTTTTTTG
130 ATTTATGTGAGAATTGTTTCTCTATTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACG
** **
10272 AGTTCTTTTATAACTTTGGTT
195 AGTTCCATTATAACTTCAGTT
* * *
10293 CCTTAAAATATTGAACATGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAAT
1 CCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAAT
* * *
10358 CACATCATTTGGTCTAAATAGTTTTTCATTTTGTTATCAACTTTTGGTCTTTGAATTAAAAACTT
66 CGCATCATTTGGTCTAAATAGTTTTTCATTTTGTTAACAAATTTT-GTCTTTGAATTAAAAACTT
* ** * * * * *
10423 ATTTACGTGAGAATTGTTTCTCTCGTAGTTCTTGGATGAACCTCCGAGCTTGTCAAACTTTTACG
130 ATTTATGTGAGAATTGTTTCTCTATTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACG
*
10488 AGTTCCATTATAACTTCGGTT
195 AGTTCCATTATAACTTCAGTT
* * * * * **
10509 CCTTAATGTATTCAAGATGATCCATTCCTTTGATCAATTTTTCGAATATTCCATGCACAATAAAT
1 CCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAAT
* * **
10574 CGCATCATTTGGTCTAAATA-TTTTGTCATTTTGTAAAAAAAAAAAATT-TCTTTGAATTAAAAA
66 CGCATCATTTGGTCTAAATAGTTTT-TCATTTTGT---TAACAAATTTTGTCTTTGAATTAAAAA
* * * * * *
10637 CTTATTTATGTAAAAATAGTTTCTCTATTGGTAC-TGAGATGAACTTCTGAACTTGTC-AA--TC
127 CTTATTTATGTGAGAATTGTTTCTCTATTGGTTCTTG-GACGAACTTCTGAACTTGTCAAACTTT
** *
10698 TA-GTTTTTCATTTATAACTTCAGTT
191 TACGAGTTCCA-TTATAACTTCAGTT
* * * *
10723 CCTTAAAATATTGAAGACT-ATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCT-TGGAAA
1 CCTTAAAGTATTCAAGA-TGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAA
* * * *
10786 TCGCATCATTTGGTAC-AAATAG-TTTTCATTTTGTTATCAAGTTTTGGACTTTGAATTAAAAGC
65 TCGCATCATTTGGT-CTAAATAGTTTTTCATTTTGTTAACAAATTTT-GTCTTTGAATTAAAAAC
*** * *
10849 TTATTTGCATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTAAACTTGTCAAACTTTTA
128 TTATTTATGTGAGAATTGTTTCTCTATTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTA
* * *
10914 CGAGTTTCGTTATAGCTTCAGTT
193 CGAGTTCCATTATAACTTCAGTT
* * ** * * * *
10937 CCTTAATGTTTTCAAGACCATCCATTCCTTTGAGCAGTTTTTCGAACA-TCCATGCACAAGAAAT
1 CCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAAT
* * *
11001 TGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAATTTTTGTCTTTGAATTAAAAACTT
66 CGCATCATTTGGTCTAAATAGTTTTTCATTTTGTTAACAAA-TTTTGTCTTTGAATTAAAAACTT
* * * *
11066 ATTTATGTGGGACTTGTTTCTCTATTGGTTC-TGAGAC-AATTTTTCGAACTTGTCAAACTTTTA
130 ATTTATGTGAGAATTGTTTCTCTATTGGTTCTTG-GACGAACTTCT-GAACTTGTCAAACTTTTA
*** *
11129 CGAGTTATTTTATAACTTCAATT
193 CGAGTTCCATTATAACTTCAGTT
* * * *
11152 CCTTAAAATTTTGAAGACGATCCAT
1 CCTTAAAGTATTCAAGATGATCCAT
11177 GATGCGAGCA
Statistics
Matches: 722, Mismatches: 136, Indels: 51
0.79 0.15 0.06
Matches are distributed among these distances:
209 5 0.01
211 57 0.08
212 13 0.02
213 45 0.06
214 229 0.32
215 132 0.18
216 178 0.25
217 58 0.08
219 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (215 bp):
CCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAAT
CGCATCATTTGGTCTAAATAGTTTTTCATTTTGTTAACAAATTTTGTCTTTGAATTAAAAACTTA
TTTATGTGAGAATTGTTTCTCTATTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACGA
GTTCCATTATAACTTCAGTT
Found at i:11792 original size:32 final size:32
Alignment explanation
Indices: 11756--11818 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
11746 AGTTGAAATT
* *
11756 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTGATTAATATATTTCAGGTACATGC
11788 AATTAGCTGATTAATATATTTCAGGTACATG
1 AATTAGCTGATTAATATATTTCAGGTACATG
11819 TATGGATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (32 bp):
AATTAGCTGATTAATATATTTCAGGTACATGC
Found at i:15034 original size:13 final size:14
Alignment explanation
Indices: 15015--15053 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
15005 GCAAAGAAAG
15015 TGAAAAGAAAGAGA
1 TGAAAAGAAAGAGA
*
15029 -GAAAAGAAAAAGA
1 TGAAAAGAAAGAGA
*
15042 TGAAAAGGAAGA
1 TGAAAAGAAAGA
15054 AAAAGAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (14 bp):
TGAAAAGAAAGAGA
Found at i:17826 original size:32 final size:32
Alignment explanation
Indices: 17790--17852 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
17780 AGTTGTAATT
* * * *
17790 AATTAGCTGATTAATGTGTTTTAGGTACATGC
1 AATTAGCTGATCAATATATTTCAGGTACATGC
17822 AATTAGCTGATCAATATATTTCAGGTACATG
1 AATTAGCTGATCAATATATTTCAGGTACATG
17853 TATGGATGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (32 bp):
AATTAGCTGATCAATATATTTCAGGTACATGC
Found at i:27114 original size:5 final size:5
Alignment explanation
Indices: 27104--27174 Score: 67
Period size: 5 Copynumber: 14.8 Consensus size: 5
27094 TCGATATTGA
* * * * *
27104 AAAAG AAAAG AACAT AATAG AAAAG AAAAG AACAG AACAG -AAA- AAAA-
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
*
27151 AAAAG AAATG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAA
27175 AACAACCTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
4 9 0.16
5 46 0.84
ACGTcount: A:0.76, C:0.04, G:0.15, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:27129 original size:20 final size:19
Alignment explanation
Indices: 27104--27172 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
27094 TCGATATTGA
27104 AAAAGAAAAGAACATAATAG
1 AAAAGAAAAGAACA-AATAG
*
27124 AAAAGAAAAGAACAGAACAG
1 AAAAGAAAAGAACA-AATAG
* *
27144 AAAA-AAAAAAAGAAAT-G
1 AAAAGAAAAGAACAAATAG
27161 AAAAGAAAAGAA
1 AAAAGAAAAGAA
27173 AAAACAACCT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.12
18 8 0.19
19 7 0.17
20 22 0.52
ACGTcount: A:0.75, C:0.04, G:0.16, T:0.04
Consensus pattern (19 bp):
AAAAGAAAAGAACAAATAG
Found at i:27167 original size:27 final size:27
Alignment explanation
Indices: 27104--27176 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
27094 TCGATATTGA
*
27104 AAAAGAAAAGAACATAATAGAAAAGAAAAG
1 AAAAGAAAAGAA-A-AA-AAAAAAGAAAAG
* * *
27134 AACAGAACAGAAAAAAAAAAAGAAATG
1 AAAAGAAAAGAAAAAAAAAAAGAAAAG
27161 AAAAGAAAAGAAAAAA
1 AAAAGAAAAGAAAAAA
27177 CAACCTCACA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 24 0.65
28 2 0.05
29 1 0.03
30 10 0.27
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.04
Consensus pattern (27 bp):
AAAAGAAAAGAAAAAAAAAAAGAAAAG
Found at i:31481 original size:30 final size:30
Alignment explanation
Indices: 31447--31507 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
31437 CTTATTTAGG
31447 TAAATTTATTGTTGTTTACTTTGATGACAT
1 TAAATTTATTGTTGTTTACTTTGATGACAT
31477 TAAATTTATTGTTGTTTACTTTGATGACAT
1 TAAATTTATTGTTGTTTACTTTGATGACAT
31507 T
1 T
31508 CTGATTTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (30 bp):
TAAATTTATTGTTGTTTACTTTGATGACAT
Found at i:34954 original size:17 final size:17
Alignment explanation
Indices: 34934--34966 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34924 TTTAAGGACT
34934 TTTTAATTTTA-TTTAAG
1 TTTT-ATTTTAGTTTAAG
34951 TTTTATTTTAGTTTAA
1 TTTTATTTTAGTTTAA
34967 TAAGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTATTTTAGTTTAAG
Found at i:35228 original size:50 final size:50
Alignment explanation
Indices: 35161--35316 Score: 145
Period size: 50 Copynumber: 3.1 Consensus size: 50
35151 TGACATCCAT
*
35161 TAACTCTCATGATTAGTTAAGTTTCCATCATAAATAATAAT-ATGCATTAAG
1 TAACTCACATG-TTAGTTAAGTTTCCATCATAAATAAT-ATCATGCATTAAG
* * * * ** *
35212 TAACTTACATGTTAGTTAAATATGCATCATAAATCCTATCATGCATTATG
1 TAACTCACATGTTAGTTAAGTTTCCATCATAAATAATATCATGCATTAAG
* * * *
35262 TAACTCCCATGTTAGTTAAAGTTTTCATCATTAAATCAA-GTCATGCATTTAG
1 TAACTCACATGTTAGTT-AAGTTTCCATCA-TAAAT-AATATCATGCATTAAG
35314 TAA
1 TAA
35317 TCCATTAGTT
Statistics
Matches: 83, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 2 0.02
50 45 0.54
51 18 0.22
52 18 0.22
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (50 bp):
TAACTCACATGTTAGTTAAGTTTCCATCATAAATAATATCATGCATTAAG
Found at i:37275 original size:39 final size:39
Alignment explanation
Indices: 37232--37330 Score: 171
Period size: 39 Copynumber: 2.5 Consensus size: 39
37222 TTAATTTATC
* *
37232 TCAAACTTAGACACCTTAAAAACAACTATTAAATATGTA
1 TCAAACTAAGACACATTAAAAACAACTATTAAATATGTA
*
37271 TCAAAATAAGACACATTAAAAACAACTATTAAATATGTA
1 TCAAACTAAGACACATTAAAAACAACTATTAAATATGTA
37310 TCAAACTAAGACACATTAAAA
1 TCAAACTAAGACACATTAAAA
37331 CCCTATTTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.54, C:0.16, G:0.05, T:0.25
Consensus pattern (39 bp):
TCAAACTAAGACACATTAAAAACAACTATTAAATATGTA
Found at i:40491 original size:13 final size:14
Alignment explanation
Indices: 40457--40495 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
40447 TGTCTCTTTT
*
40457 TCTTTCGTTTCATC
1 TCTTTCTTTTCATC
*
40471 TTTTTCTTTTC-TC
1 TCTTTCTTTTCATC
40484 TCTTTCTTTTCA
1 TCTTTCTTTTCA
40496 CTTTCTTTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.05, C:0.26, G:0.03, T:0.67
Consensus pattern (14 bp):
TCTTTCTTTTCATC
Found at i:43681 original size:32 final size:32
Alignment explanation
Indices: 43645--43707 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
43635 GCCATCCATA
* * *
43645 CATGTACCTAAAATATATTAATCAGCTAATTG
1 CATGTACCTAAAACACATTAATCAACTAATTG
*
43677 CATGTACCTTAAACACATTAATCAACTAATT
1 CATGTACCTAAAACACATTAATCAACTAATT
43708 AATTTCGGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (32 bp):
CATGTACCTAAAACACATTAATCAACTAATTG
Found at i:43805 original size:39 final size:39
Alignment explanation
Indices: 43753--43851 Score: 146
Period size: 39 Copynumber: 2.5 Consensus size: 39
43743 TTAATTTGTC
** *
43753 TCAAACTTTGACACCTTAAAAACAACTATTAAATATGTA
1 TCAAACTAAGACACATTAAAAACAACTATTAAATATGTA
43792 TCAGAA-TAAGACACATTAAAAACAACTATTAAATATGTA
1 TCA-AACTAAGACACATTAAAAACAACTATTAAATATGTA
*
43831 TCAAACTTAGACACATTAAAA
1 TCAAACTAAGACACATTAAAA
43852 CCCTATTTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
38 2 0.04
39 50 0.93
40 2 0.04
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.27
Consensus pattern (39 bp):
TCAAACTAAGACACATTAAAAACAACTATTAAATATGTA
Found at i:44567 original size:5 final size:5
Alignment explanation
Indices: 44557--44623 Score: 55
Period size: 5 Copynumber: 13.4 Consensus size: 5
44547 TCGGTATTGA
* * * ** * *
44557 AAAAG AAAAG AACAA- AATAG GAAAG AAAAG AACAG ACCAT AACAG AAAAG
1 AAAAG AAAAG AA-AAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
44607 AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AA
44624 TATCCTCACA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
4 1 0.02
5 47 0.94
6 2 0.04
ACGTcount: A:0.72, C:0.07, G:0.18, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:44586 original size:25 final size:25
Alignment explanation
Indices: 44557--44618 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
44547 TCGGTATTGA
* *
44557 AAAAGAAAAGAACAAAATAGGAAAG
1 AAAAGAAAAGAACAAAACAGAAAAG
* * *
44582 AAAAGAACAGACCATAACAGAAAAG
1 AAAAGAAAAGAACAAAACAGAAAAG
44607 AAAAGAAAAGAA
1 AAAAGAAAAGAA
44619 AAGAATATCC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.71, C:0.08, G:0.18, T:0.03
Consensus pattern (25 bp):
AAAAGAAAAGAACAAAACAGAAAAG
Found at i:48278 original size:189 final size:191
Alignment explanation
Indices: 47951--48317 Score: 460
Period size: 189 Copynumber: 1.9 Consensus size: 191
47941 TTGAGGTCTG
* * * * * ***
47951 AACATTCCATGCTCGGGAAATTGAATCATTTGGTACAAATAGTTTGTTATTTTGTAAGCAAGTTT
1 AACATTCCATGCACAGGAAATTCAATCATTTGGTACAAATAGTTTGTCATTTTGTAAACAAGACA
* *
48016 TGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTATTGGTTTTGAGATAAAATTT
66 TGGTCTTTAAATTAAAAACTTATTTACATGAGAATTGTTTCTCTATTGGTTCTGAGATAAAATTT
* * *
48081 CGAACTTGT-AGAACTTTTGCGAGTTCTTTTATAACATCGGTTCCTTAAAGTAAATTTCTCT
131 CGAACTTGTCA-AACTTTTACGAGTTCTTATATAACATCGCTTCCTTAAAGTAAATTTCTCT
48142 AACATTCCATGCACAGGAAA-TCACATCATTTGGT-CTAAATAGTTTGTCATTTTGTAAACAA-A
1 AACATTCCATGCACAGGAAATTCA-ATCATTTGGTAC-AAATAGTTTGTCATTTTGTAAACAAGA
* * * *
48204 CAT-GTCTTTAAATTAAAATCTTATTTACGTGGGAATTGTTTCTCTCTTGGTTCCTG-GACT-AA
64 CATGGTCTTTAAATTAAAAACTTATTTACATGAGAATTGTTTCTCTATTGGTT-CTGAGA-TAAA
* * *
48266 CTTTCGAACTTGTCAAACTTTTACTAGTTCTTATATAACTTCGCTTCCTTAA
127 ATTTCGAACTTGTCAAACTTTTACGAGTTCTTATATAACATCGCTTCCTTAA
48318 GGAATTCAAG
Statistics
Matches: 151, Mismatches: 20, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
189 92 0.61
190 8 0.05
191 51 0.34
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (191 bp):
AACATTCCATGCACAGGAAATTCAATCATTTGGTACAAATAGTTTGTCATTTTGTAAACAAGACA
TGGTCTTTAAATTAAAAACTTATTTACATGAGAATTGTTTCTCTATTGGTTCTGAGATAAAATTT
CGAACTTGTCAAACTTTTACGAGTTCTTATATAACATCGCTTCCTTAAAGTAAATTTCTCT
Found at i:48521 original size:216 final size:214
Alignment explanation
Indices: 48159--48619 Score: 595
Period size: 216 Copynumber: 2.1 Consensus size: 214
48149 CATGCACAGG
* *
48159 AAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAACATGTCTTTAAATTAAAATC
1 AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAACATGTCTTTAAATTAAAAAC
*
48224 TTATTTACGTGGGAATTGTTTCTCTCTTGGTTCCTGGACTAACTTTCGAACTTGTCAAACTTTTA
66 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCCTGGACTAACTTTCGAACTTGTCAAACTTTTA
* ** * * * * *
48289 CTAGTTCTTATATAACTTCGCTTCCTTAAGGAATTCAAGACGATCCATTTCTTCGAGCAATTTTT
131 CGAGTTCTTATATAACTTCAATTCCTCAAAGAATTCAAGACGAGCCATTCCCTCGAGCAATTTTT
** * *
48354 TGAGCATTCCATGCTCGAC
196 CAAACATTCCACGCTCGAC
* * * * * *
48373 AAATCGCATCATTTGGTCTAAATAGTTTTTGATTTTGTTATC-AACTTTTTGT-TATTGAATTAA
1 AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAAC---ATGTCT-TTAAATTAA
* *
48436 AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGA-TGAACTTTTGAACTTGTCAAAC
62 AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCCTGGACT-AACTTTCGAACTTGTCAAAC
* *
48500 TTTTACGAGTTCTTTTATAACTTCAATTCCTCAAAGTATTCAAGACGAGCCATTCCCTCGAGCAA
126 TTTTACGAGTTCTTATATAACTTCAATTCCTCAAAGAATTCAAGACGAGCCATTCCCTCGAGCAA
*
48565 TTTTTCAAACATTCCACGCTCGAG
191 TTTTTCAAACATTCCACGCTCGAC
* * *
48589 AAATTGCATCATTTTGTCCAAATAGTTTGTC
1 AAATCGCATCATTTGGTCTAAATAGTTTGTC
48620 TCTTGGGTCT
Statistics
Matches: 211, Mismatches: 31, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
213 3 0.01
214 37 0.18
215 2 0.01
216 169 0.80
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (214 bp):
AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAACATGTCTTTAAATTAAAAAC
TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCCTGGACTAACTTTCGAACTTGTCAAACTTTTA
CGAGTTCTTATATAACTTCAATTCCTCAAAGAATTCAAGACGAGCCATTCCCTCGAGCAATTTTT
CAAACATTCCACGCTCGAC
Found at i:48976 original size:357 final size:357
Alignment explanation
Indices: 48312--48976 Score: 931
Period size: 357 Copynumber: 1.9 Consensus size: 357
48302 AACTTCGCTT
* * * * * * * *
48312 CCTTAAGGAATTCAAGACGATCCATTTCTTCGAGCAATTTTTTGAGCATTCCATGCTCGACAAAT
1 CCTTAAAGAATTCAAGACAATCCAATTCTTCGAACAATTTATCGAACATTCCATGCTCAACAAAT
* * * * ** *
48377 CGCATCATTTGGTCTAAATAGTTTTTGATTTTGTTATCAACTTTTTGTTATTGAATTAAAAACTT
66 CACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAACTTTATGTTATTGAATTAAAAACTT
* ** *
48442 ATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTTGAACTTGTCAAACTTTTACG
131 ATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCAAACTTATCAAACTTTTACG
* *
48507 AGTTCTTTTATAACTTCAATTCCTCAAAGTATTCAAGACGAGCCATTCCCTCGAGCAATTTTTCA
196 AGTTCATTTATAACTTCAATTCCTCAAAGTATTCAAGACGAGCCATTCCCTCGAACAATTTTTCA
* ***
48572 AACATTCCACGCTCGAGAAATTGCATCATTTTGTCCAAATAGTTTGTCTCTTGGGTCTTGGACGA
261 AACATTCCACACTCGAGAAATCAAATCATTTTGTCCAAATAGTTTGTCTCTTGGGTCTTGGACGA
48637 ACTTTTGAACTTGTCAAACTTTTACTTTGGCA
326 ACTTTTGAACTTGTCAAACTTTTACTTTGGCA
* *
48669 CCTTAAAGTATTCAAGACAAT-CAATTCTTCCGAACAATTTATCGAACATTCCATGCTCAAGAAA
1 CCTTAAAGAATTCAAGACAATCCAATTCTT-CGAACAATTTATCGAACATTCCATGCTCAACAAA
*
48733 TCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAGTTTATGTCT-TTGAATTAAAAAC
65 TCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAACTTTATGT-TATTGAATTAAAAAC
48797 TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCAAACTTATCAAACTTTTA
129 TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCAAACTTATCAAACTTTTA
* * * * * *
48862 TGAGTTCATTTATAACTTTAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAACAATTTTT
194 CGAGTTCATTTATAACTTCAATTCCTCAAAGTATTCAAGACGAGCCATTCCCTCGAACAATTTTT
** * * *
48927 TGAACATTCCATACTCTG-GTAATCAAATCATTTTGTCTAAATAGTTTGTC
259 CAAACATTCCACACTC-GAGAAATCAAATCATTTTGTCCAAATAGTTTGTC
48977 ATTTTGTAAA
Statistics
Matches: 266, Mismatches: 39, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
356 7 0.03
357 257 0.97
358 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (357 bp):
CCTTAAAGAATTCAAGACAATCCAATTCTTCGAACAATTTATCGAACATTCCATGCTCAACAAAT
CACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAACTTTATGTTATTGAATTAAAAACTT
ATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCAAACTTATCAAACTTTTACG
AGTTCATTTATAACTTCAATTCCTCAAAGTATTCAAGACGAGCCATTCCCTCGAACAATTTTTCA
AACATTCCACACTCGAGAAATCAAATCATTTTGTCCAAATAGTTTGTCTCTTGGGTCTTGGACGA
ACTTTTGAACTTGTCAAACTTTTACTTTGGCA
Found at i:49147 original size:212 final size:214
Alignment explanation
Indices: 48669--49579 Score: 966
Period size: 216 Copynumber: 4.3 Consensus size: 214
48659 TACTTTGGCA
* * * * * *
48669 CCTTAAAGTATTCAAGACAATCAATT-CTTCCGAACAATTTATCGAACATTCCATGCTCAAGAAA
1 CCTTAAAGTATTCAAGACGATCCATTCCTT-CGAGCAATTTTTCAAACATTCCATGCTCAGGAAA
* *
48733 TCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAGTTTAT-GTCTTTGAATTAAAAAC
65 TCAAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAATAAGTTT-TGGTCTTTGAATTAAAAAC
* ** * * * *
48797 TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCAAACTTATCAAACTTTTA
129 TTATTTACGTGAGAATTG-TT-TCTCTTAATTCTGGGACGAACTTTCGAACTTGTCAAACTTTTA
* * *
48862 TGAGTTCATTTATAACTTTAGTT
192 CGAGTTCTTTTATAACTTCAGTT
* ** * * *
48885 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAACAATTTTTTGAACATTCCATACTCTGGTAAT
1 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACATTCCATGCTCAGGAAAT
* * *
48950 CAAATCATTTTGTCTAAATAGTTTGTCATTTTGTAAATAGGTTTTGGTCTTTAAATTAAAAACTT
66 CAAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAATAAGTTTTGGTCTTTGAATTAAAAACTT
* *
49015 ATTTATGTTAGAATTGTTTCTC-T-ATTCTGGGACGAACTTTCGAACTTGTCAAACTTTTACGAG
131 ATTTACGTGAGAATTGTTTCTCTTAATTCTGGGACGAACTTTCGAACTTGTCAAACTTTTACGAG
*
49078 TTCTTTTATAACTTCGGTT
196 TTCTTTTATAACTTCAGTT
*
49097 CCTTAAAGTATTCAAGACGATCCATTCCTTCGTGCAATTTTTCAAACATTCCATGCTCAGGAAAA
1 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACATTCCATGCTCAGG-AAA
* * * ** * *
49162 TGC--AT-AGTTTAGTCTAAATATTTTCTCATTTT-TTTATCAACTTTTGGTCTTTGAATTTAAA
65 T-CAAATCA-TTTGGTCTAAATAGTTTGTCATTTTGTAAAT-AAGTTTTGGTCTTTGAATTAAAA
** ** *
49223 TGTTATTTACGTGAGAATTGTTTCTCTATTGGTTCTGGGACGAACTTTCGAGCTTGTCAAACTTT
127 ACTTATTTACGTGAGAATTGTTTCTC--TTAATTCTGGGACGAACTTTCGAACTTGTCAAACTTT
*
49288 TACGAGTTCTTTTATAACTTCAATT
190 TACGAGTTCTTTTATAACTTCAGTT
* *
49313 CCTTAAAGTATTCAAAACGATGCATTCCTTCGAGCAA---TT------TT-C-T-CT--GGAAAT
1 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACATTCCATGCTCAGGAAAT
** * * *
49364 CGCATCATTTGGTCTAAATAGTTTGTCATTTTCTAAACAAGTTTTGGTCTTTGAGTTAAAAACTT
66 CAAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAATAAGTTTTGGTCTTTGAATTAAAAACTT
* * ** *
49429 ATTTACGTGAGAATTGTTTCTCTTAATTCTTGGACAAACTTAAGAACTTGTCAAACTTTTATGAG
131 ATTTACGTGAGAATTGTTTCTCTTAATTCTGGGACGAACTTTCGAACTTGTCAAACTTTTACGAG
* * * **
49494 ATCCTTTATTACTTTGGTT
196 TTCTTTTATAACTTCAGTT
* * ** * *
49513 CCTTAAAAATATTCAAGACGATTCATTCCTTCGAGCAATTTCCCAAACATTGCATGCTCGGGAAA
1 CCTT-AAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACATTCCATGCTCAGGAAA
49578 TC
65 TC
49580 GCATAGCATA
Statistics
Matches: 584, Mismatches: 82, Indels: 59
0.81 0.11 0.08
Matches are distributed among these distances:
200 53 0.09
201 34 0.06
202 70 0.12
203 3 0.01
204 2 0.00
205 1 0.00
206 1 0.00
207 2 0.00
210 2 0.00
211 5 0.01
212 171 0.29
213 8 0.01
214 5 0.01
215 11 0.02
216 213 0.36
217 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (214 bp):
CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACATTCCATGCTCAGGAAAT
CAAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAATAAGTTTTGGTCTTTGAATTAAAAACTT
ATTTACGTGAGAATTGTTTCTCTTAATTCTGGGACGAACTTTCGAACTTGTCAAACTTTTACGAG
TTCTTTTATAACTTCAGTT
Found at i:49433 original size:202 final size:201
Alignment explanation
Indices: 49173--49553 Score: 494
Period size: 202 Copynumber: 1.9 Consensus size: 201
49163 GCATAGTTTA
* * * * * **
49173 GTCTAAATATTTTCTCATTTTTTTATCAACTTTTGGTCTTTGAATTTAAATGTTATTTACGTGAG
1 GTCTAAATAGTTTCTCATTTTCTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAG
** * ** * * *
49238 AATTGTTTCTCTATTGGTTCTGGGACGAACTTTCGAGCTTGTCAAACTTTTACGAGTTCTTTTAT
66 AATTGTTTCTC--TTAATTCTGGGACAAACTTAAGAACTTGTCAAACTTTTACGAGATCCTTTAT
*
49303 AACTTCAATTCCTT-AAAGTATTCAAAACGATGCATTCCTTCGAGCAATTTTCTCTGGAAATCGC
129 AACTTCAATTCCTTAAAAATATTCAAAACGATGCATTCCTTCGAGCAATTTTCTCTGGAAATCGC
49367 ATCATTTG
194 ATCATTTG
* * *
49375 GTCTAAATAGTTTGTCATTTTCTAAACAAGTTTTGGTCTTTGAGTTAAAAACTTATTTACGTGAG
1 GTCTAAATAGTTTCTCATTTTCTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAG
* * *
49440 AATTGTTTCTCTTAATTCTTGGACAAACTTAAGAACTTGTCAAACTTTTATGAGATCCTTTATTA
66 AATTGTTTCTCTTAATTCTGGGACAAACTTAAGAACTTGTCAAACTTTTACGAGATCCTTTATAA
*** * *
49505 CTTTGGTTCCTTAAAAATATTCAAGACGATTCATTCCTTCGAGCAATTT
131 CTTCAATTCCTTAAAAATATTCAAAACGATGCATTCCTTCGAGCAATTT
49554 CCCAAACATT
Statistics
Matches: 151, Mismatches: 27, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
200 52 0.34
201 33 0.22
202 66 0.44
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (201 bp):
GTCTAAATAGTTTCTCATTTTCTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAG
AATTGTTTCTCTTAATTCTGGGACAAACTTAAGAACTTGTCAAACTTTTACGAGATCCTTTATAA
CTTCAATTCCTTAAAAATATTCAAAACGATGCATTCCTTCGAGCAATTTTCTCTGGAAATCGCAT
CATTTG
Found at i:54873 original size:52 final size:52
Alignment explanation
Indices: 54681--54873 Score: 280
Period size: 52 Copynumber: 3.7 Consensus size: 52
54671 TTGTTCTGTA
* * * *
54681 AAGGAATTCATATACTCACGATGACACTTAGTCATC-GACCATATAATTCGTG
1 AAGG-ATTCATGTACTCACAATGACACTTAGTCATCGGACCTTATAATCCGTG
* * ** *
54733 AATGATTCATCTACTCAGGATGACACTTAGTCATCAGACCTTATAATCCGTG
1 AAGGATTCATGTACTCACAATGACACTTAGTCATCGGACCTTATAATCCGTG
54785 AAGGATTCATGTACTCACAATGACACTTAGTCATCGGACCTTATAATCCGTG
1 AAGGATTCATGTACTCACAATGACACTTAGTCATCGGACCTTATAATCCGTG
*
54837 AAGGATTCGTGTACTCACAATGACACTTAGTCATCGG
1 AAGGATTCATGTACTCACAATGACACTTAGTCATCGG
54874 CCCCTTTTTC
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
51 29 0.22
52 100 0.78
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (52 bp):
AAGGATTCATGTACTCACAATGACACTTAGTCATCGGACCTTATAATCCGTG
Found at i:55780 original size:20 final size:21
Alignment explanation
Indices: 55737--55780 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
55727 ACTTTCATCA
* *
55737 TTAAGCTTTAATTAAACATTT
1 TTAACCTTTAATTAAACATAT
*
55758 TTAACCTTT-ATTAAACCTAT
1 TTAACCTTTAATTAAACATAT
55778 TTA
1 TTA
55781 TAATCAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (21 bp):
TTAACCTTTAATTAAACATAT
Found at i:58576 original size:21 final size:21
Alignment explanation
Indices: 58547--58586 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
58537 TACTCAAATT
58547 ATGTAAATAAATAAAATTTAG
1 ATGTAAATAAATAAAATTTAG
*
58568 ATGTGAATAAATAAAATTT
1 ATGTAAATAAATAAAATTT
58587 GGCTTGGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (21 bp):
ATGTAAATAAATAAAATTTAG
Found at i:67880 original size:20 final size:20
Alignment explanation
Indices: 67847--67886 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
67837 ACAACATTGA
*
67847 ATAGCTAATCTTTAGGGATT
1 ATAGCTAATCTTTAGAGATT
* *
67867 ATAGCTACTTTTTAGAGATT
1 ATAGCTAATCTTTAGAGATT
67887 TTGATTAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (20 bp):
ATAGCTAATCTTTAGAGATT
Found at i:69359 original size:43 final size:43
Alignment explanation
Indices: 69298--69392 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
69288 ATATCTCATA
*
69298 ATAATATCGTATAATATCCCATCAAGAATCAAATCACTAAGAG
1 ATAATATCTTATAATATCCCATCAAGAATCAAATCACTAAGAG
* ** *
69341 ATAATATCTTATAATATCCCATCAGGAATCAAATTTCTAGGAG
1 ATAATATCTTATAATATCCCATCAAGAATCAAATCACTAAGAG
69384 ATAATATCT
1 ATAATATCT
69393 CATGATATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (43 bp):
ATAATATCTTATAATATCCCATCAAGAATCAAATCACTAAGAG
Found at i:69454 original size:99 final size:99
Alignment explanation
Indices: 69268--69455 Score: 216
Period size: 99 Copynumber: 1.9 Consensus size: 99
69258 GTTACGTAGA
* * *
69268 AATCAAATTGCTAAAAGATAATATCTCATAATAATATCGTATAATATCCCATCAAGAATCAAATC
1 AATCAAATTGCTAAAAGATAATATCTCATAATAATACCATATAATAACCCATCAAGAATCAAATC
* **
69333 ACTAAGAGATAATATCTTATAATATCCCATCAGG
66 ACTAAAAGATAATATCCAATAATATCCCATCAGG
* ** * * *
69367 AATCAAATTTCTAGGAGATAATATCTCATGATATTACCATATAATAACCCAT-TAGAAATCAAAT
1 AATCAAATTGCTAAAAGATAATATCTCATAATAATACCATATAATAACCCATCAAG-AATCAAAT
** * *
69431 TGCTAAAATATTATATCCAATAATA
65 CACTAAAAGATAATATCCAATAATA
69456 ATATCTTAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
98 2 0.03
99 70 0.97
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (99 bp):
AATCAAATTGCTAAAAGATAATATCTCATAATAATACCATATAATAACCCATCAAGAATCAAATC
ACTAAAAGATAATATCCAATAATATCCCATCAGG
Found at i:72244 original size:45 final size:45
Alignment explanation
Indices: 72190--72279 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
72180 AACTTTCTTG
72190 GAAGGATGACTGATAGTACTAAAAAGAACATATGTTTTCTCCCTA
1 GAAGGATGACTGATAGTACTAAAAAGAACATATGTTTTCTCCCTA
72235 GAAGGATGACTGATAGTACTAAAAAGAACATATGTTTTCTCCCTA
1 GAAGGATGACTGATAGTACTAAAAAGAACATATGTTTTCTCCCTA
72280 CTCTTTGGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (45 bp):
GAAGGATGACTGATAGTACTAAAAAGAACATATGTTTTCTCCCTA
Found at i:83983 original size:13 final size:13
Alignment explanation
Indices: 83965--83989 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83955 TTGCTAAAAG
83965 ATAATATCTCATA
1 ATAATATCTCATA
83978 ATAATATCTCAT
1 ATAATATCTCAT
83990 TAGGAATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATATCTCATA
Found at i:84013 original size:46 final size:46
Alignment explanation
Indices: 83944--84031 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
83934 AGTAGTTACG
*
83944 TAGGAATTAAATTGCTAAAAGATAATATCTCATAATAATATCTCAT
1 TAGGAATTAAATTGCTAAAAGATAATATCCCATAATAATATCTCAT
* * *
83990 TAGGAATTAAATTGCTTAGAGATAATATCCCATAATATTATC
1 TAGGAATTAAATTGCTAAAAGATAATATCCCATAATAATATC
84032 CTAATATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.35
Consensus pattern (46 bp):
TAGGAATTAAATTGCTAAAAGATAATATCCCATAATAATATCTCAT
Found at i:84360 original size:18 final size:18
Alignment explanation
Indices: 84339--84404 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
84329 AAAAAATATG
84339 ATAATTATAATTATAA-TT
1 ATAATTATAATT-TAATTT
84357 ATAATTATAATTTAATTT
1 ATAATTATAATTTAATTT
**
84375 ATAATTAT-ATGTTAA-AA
1 ATAATTATAAT-TTAATTT
84392 ATAATTATAATTT
1 ATAATTATAATTT
84405 TTATAAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
17 15 0.35
18 28 0.65
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATAATTATAATTTAATTT
Found at i:84403 original size:6 final size:6
Alignment explanation
Indices: 84339--84383 Score: 74
Period size: 6 Copynumber: 7.5 Consensus size: 6
84329 AAAAAATATG
84339 ATAATT ATAATT ATAATT ATAATT ATAATT -TAATTT ATAATT ATA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA-TT ATAATT ATA
84384 TGTTAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 3 0.08
6 31 0.84
7 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATAATT
Found at i:85026 original size:29 final size:29
Alignment explanation
Indices: 84992--85057 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
84982 ATTATTTTTT
*
84992 AAAAAAATTATAAAATA-TAATACAATAA
1 AAAAAAATTATAAAATAGTAATAAAATAA
* *
85020 AATAAAAA-TATATACTAGTAATAAAATAA
1 AA-AAAAATTATAAAATAGTAATAAAATAA
85049 AAAAAAATT
1 AAAAAAATT
85058 GAAGCCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 14 0.44
29 18 0.56
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.26
Consensus pattern (29 bp):
AAAAAAATTATAAAATAGTAATAAAATAA
Found at i:91019 original size:17 final size:17
Alignment explanation
Indices: 90983--91046 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
90973 CATTATCCCC
* *
90983 AATGCAATAACACT-AA
1 AATGCAATGACAATGAA
90999 AATGCAATGACAATGAA
1 AATGCAATGACAATGAA
* **
91016 AATGTAATGACAATGGG
1 AATGCAATGACAATGAA
*
91033 AATGCGATGACAAT
1 AATGCAATGACAAT
91047 TGATCACGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
16 12 0.30
17 28 0.70
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.20
Consensus pattern (17 bp):
AATGCAATGACAATGAA
Found at i:101575 original size:13 final size:13
Alignment explanation
Indices: 101557--101581 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101547 CAAGTTAAAA
101557 ATGCTAAAAATGC
1 ATGCTAAAAATGC
101570 ATGCTAAAAATG
1 ATGCTAAAAATG
101582 ATAAAATGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGCTAAAAATGC
Found at i:107387 original size:18 final size:18
Alignment explanation
Indices: 107351--107408 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
107341 CTCAGATAAT
**
107351 ATGCGATCACATGACCAG
1 ATGCGATCACAAAACCAG
*
107369 ATGCGATCACAAAATCAG
1 ATGCGATCACAAAACCAG
* *
107387 ATGC-ATTCATATAACCAG
1 ATGCGA-TCACAAAACCAG
107405 ATGC
1 ATGC
107409 AGTCACAAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (18 bp):
ATGCGATCACAAAACCAG
Found at i:113348 original size:21 final size:21
Alignment explanation
Indices: 113310--113349 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
113300 GGTTAACTCT
*
113310 AAGGACAAGAAAAGAAAGAGG
1 AAGGACAAGAAAAAAAAGAGG
113331 AAGGACAA-AAAGAAAAAGA
1 AAGGACAAGAAA-AAAAAGA
113350 AGCACAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.68, C:0.05, G:0.28, T:0.00
Consensus pattern (21 bp):
AAGGACAAGAAAAAAAAGAGG
Found at i:113351 original size:18 final size:19
Alignment explanation
Indices: 113319--113357 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
113309 TAAGGACAAG
* *
113319 AAAAGAAAGAGGAAGGACA
1 AAAAGAAAGAAGAAGCACA
113338 AAAAGAAA-AAGAAGCACA
1 AAAAGAAAGAAGAAGCACA
113356 AA
1 AA
113358 GAGGAGTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.69, C:0.08, G:0.23, T:0.00
Consensus pattern (19 bp):
AAAAGAAAGAAGAAGCACA
Found at i:117562 original size:53 final size:53
Alignment explanation
Indices: 117482--117584 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
117472 CCTCCAGTGT
117482 AATAGTAATTTGATTGTAGCCAGAATAACCATCTAAGAAGCAATAATAGGTGC
1 AATAGTAATTTGATTGTAGCCAGAATAACCATCTAAGAAGCAATAATAGGTGC
* * *
117535 AATAGTAATTTTATTGTAGCCAGAATAACCGTCTAAGAAGTAATAATAGG
1 AATAGTAATTTGATTGTAGCCAGAATAACCATCTAAGAAGCAATAATAGG
117585 CTCTTCTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (53 bp):
AATAGTAATTTGATTGTAGCCAGAATAACCATCTAAGAAGCAATAATAGGTGC
Found at i:121209 original size:100 final size:100
Alignment explanation
Indices: 121036--121255 Score: 403
Period size: 100 Copynumber: 2.2 Consensus size: 100
121026 AGCAATATTA
121036 AGATATTAAGGTGAGTATTATGTCTATGAAAGGTAAATAAATTTTATTTAAGTAGTGCTAATGGT
1 AGATATTAAGGTGAGTATTATGTCTATGAAAGGTAAATAAATTTTATTTAAGTAGTGCTAATGGT
121101 AAGCATTTTAATATGAGGAAGTATTTAAAGTTCTT
66 AAGCATTTTAATATGAGGAAGTATTTAAAGTTCTT
121136 AGATATTAAGGTGAGTATTATGTCTATGAAAGGTAAATAAATTTTATTTAAGTAGTGCTAATGGT
1 AGATATTAAGGTGAGTATTATGTCTATGAAAGGTAAATAAATTTTATTTAAGTAGTGCTAATGGT
121201 AAGCATTTTAATATGAGGAAGTATTTAAAGTTCTT
66 AAGCATTTTAATATGAGGAAGTATTTAAAGTTCTT
121236 --A-ATTAA-GTGGAGTATTATGT
1 AGATATTAAGGT-GAGTATTATGT
121256 ATATAAATTA
Statistics
Matches: 119, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
96 2 0.02
97 16 0.13
98 1 0.01
100 100 0.84
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (100 bp):
AGATATTAAGGTGAGTATTATGTCTATGAAAGGTAAATAAATTTTATTTAAGTAGTGCTAATGGT
AAGCATTTTAATATGAGGAAGTATTTAAAGTTCTT
Found at i:129905 original size:23 final size:22
Alignment explanation
Indices: 129871--129915 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
129861 TTAAACAAAT
*
129871 GATAAAAGAAAAA-AATTAAAA
1 GATAAAAGAAAAATAATAAAAA
129892 GATATAAAGTAAAAATAATAAAAA
1 GATA-AAAG-AAAAATAATAAAAA
129916 TTTTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 4 0.20
23 5 0.25
24 7 0.35
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (22 bp):
GATAAAAGAAAAATAATAAAAA
Found at i:131069 original size:19 final size:20
Alignment explanation
Indices: 131024--131072 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
131014 ATAAAAATTT
131024 ATTAAATAATATATTTTATAG
1 ATTAAAT-ATATATTTTATAG
* *
131045 TTTTAAATATATATTTTTTA-
1 -ATTAAATATATATTTTATAG
131065 ATTAAATA
1 ATTAAATA
131073 AAAATTGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.29
21 11 0.46
22 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTAAATATATATTTTATAG
Found at i:136814 original size:7 final size:7
Alignment explanation
Indices: 136802--136827 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
136792 GAAAAGAAAA
136802 GAAAATG
1 GAAAATG
136809 GAAAATG
1 GAAAATG
136816 GAAAATG
1 GAAAATG
136823 GAAAA
1 GAAAA
136828 AATAAGAAAG
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:0.62, C:0.00, G:0.27, T:0.12
Consensus pattern (7 bp):
GAAAATG
Found at i:138365 original size:82 final size:82
Alignment explanation
Indices: 138256--138587 Score: 343
Period size: 82 Copynumber: 4.1 Consensus size: 82
138246 CTAAGTTAAG
* * *
138256 AAGGGT-AGATTGAAGCCACCATCCAATCTTTTACCCTAATTAGAGGGCAGATT-AATGACCATT
1 AAGGGTCAGATTGAAGCCACCATCCAATCTTTTACCCTAATCAAAGGGCAGATTGAA-GACCATC
* *
138319 CAATCTTTTACCCCGACC
65 CAATATTTTACCCCAACC
138337 AAGGGTCAGATTGAAGCCACCATCCAATCTTTTACCCTAATCAAAGGGCAGATTGAAGACCATCC
1 AAGGGTCAGATTGAAGCCACCATCCAATCTTTTACCCTAATCAAAGGGCAGATTGAAGACCATCC
138402 AATATTTTACCCCAACC
66 AATATTTTACCCCAACC
* *** * * * * * * *
138419 AAGGGGCAGATTGAAATTACCATCCAATATTTTACCCAAACCAAAAGGAAGATTGTAGATCATCC
1 AAGGGTCAGATTGAAGCCACCATCCAATCTTTTACCCTAATCAAAGGGCAGATTGAAGACCATCC
*
138484 AATCTTTTACCCCAACC
66 AATATTTTACCCCAACC
* * * * * * *
138501 ATGGGGT-AGACTGAAG---TCATTCAATCTTTTACCCCAACCAAAGGGTAGATTGAAGCCACCA
1 A-AGGGTCAGATTGAAGCCACCATCCAATCTTTTACCCTAATCAAAGGGCAGATTGAAG--ACCA
* *
138562 TCCAATCTTTTACCGCAACC
63 TCCAATATTTTACCCCAACC
138582 AGAGGG
1 A-AGGG
138588 AAAATTGAAG
Statistics
Matches: 214, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
79 32 0.15
81 32 0.15
82 145 0.68
83 5 0.02
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (82 bp):
AAGGGTCAGATTGAAGCCACCATCCAATCTTTTACCCTAATCAAAGGGCAGATTGAAGACCATCC
AATATTTTACCCCAACC
Found at i:138582 original size:121 final size:122
Alignment explanation
Indices: 138357--138575 Score: 296
Period size: 121 Copynumber: 1.8 Consensus size: 122
138347 TTGAAGCCAC
* * * *
138357 CATCCAATCTTTTACCCTAATCAAAGGGCAGATTGAAGACCATCCAATATTTTACCCCAACCAAG
1 CATCCAATCTTTTACCCCAACCAAAGGGCAGACTGAAGACCATCCAATATTTTACCCCAACCAAA
**
138422 GGGCAGATTGAAATTACCATCCAATATTTTACCCAAACCAAAAGGAAGATTGTAGAT
66 GGGCAGATTGAAACCACCATCCAATATTTTACCCAAACCAAAAGGAAGATTGTAGAT
** * * * *
138479 CATCCAATCTTTTACCCCAACCATGGGGTAGACTGAAG-TCATTCAATCTTTTACCCCAACCAAA
1 CATCCAATCTTTTACCCCAACCAAAGGGCAGACTGAAGACCATCCAATATTTTACCCCAACCAAA
* * *
138543 GGGTAGATTGAAGCCACCATCCAATCTTTTACC
66 GGGCAGATTGAAACCACCATCCAATATTTTACC
138576 GCAACCAGAG
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
121 50 0.61
122 32 0.39
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (122 bp):
CATCCAATCTTTTACCCCAACCAAAGGGCAGACTGAAGACCATCCAATATTTTACCCCAACCAAA
GGGCAGATTGAAACCACCATCCAATATTTTACCCAAACCAAAAGGAAGATTGTAGAT
Found at i:138598 original size:42 final size:40
Alignment explanation
Indices: 138191--138597 Score: 333
Period size: 42 Copynumber: 9.9 Consensus size: 40
138181 TACATCTTCT
*
138191 CATCCAATCTTTTACCCCAACCATG-GGGTAGATTGAAG-C
1 CATCCAATCTTTTACCCCAACCA-GAGGGCAGATTGAAGAC
* * ** *
138230 AATCCAATCTTTTACCCTAAGTTAAGAAGGGTAGATTGAAGCCAC
1 CATCCAATCTTTTACCCCAA--CCAG-AGGGCAGATTGAAG--AC
* **
138275 CATCCAATCTTTTACCCTAATTAGAGGGCAGATT-AATGAC
1 CATCCAATCTTTTACCCCAACCAGAGGGCAGATTGAA-GAC
* *
138315 CATTCAATCTTTTACCCCGACCA-AGGGTCAGATTGAAGCCAC
1 CATCCAATCTTTTACCCCAACCAGAGGG-CAGATTGAAG--AC
* * *
138357 CATCCAATCTTTTACCCTAATCAAAGGGCAGATTGAAGAC
1 CATCCAATCTTTTACCCCAACCAGAGGGCAGATTGAAGAC
* *
138397 CATCCAATATTTTACCCCAACCA-AGGGGCAGATTGAAATTAC
1 CATCCAATCTTTTACCCCAACCAGA-GGGCAGATTG-AA-GAC
* * * * * * *
138439 CATCCAATATTTTACCCAAACCAAAAGGAAGATTGTAGAT
1 CATCCAATCTTTTACCCCAACCAGAGGGCAGATTGAAGAC
* * *
138479 CATCCAATCTTTTACCCCAACCATG-GGGTAGACTGAAG-T
1 CATCCAATCTTTTACCCCAACCA-GAGGGCAGATTGAAGAC
* * *
138518 CATTCAATCTTTTACCCCAACCAAAGGGTAGATTGAAGCCAC
1 CATCCAATCTTTTACCCCAACCAGAGGGCAGATTGAAG--AC
* * *
138560 CATCCAATCTTTTACCGCAACCAGAGGGAAAATTGAAG
1 CATCCAATCTTTTACCCCAACCAGAGGGCAGATTGAAG
138598 CTACAAAAGC
Statistics
Matches: 304, Mismatches: 42, Indels: 41
0.79 0.11 0.11
Matches are distributed among these distances:
39 58 0.19
40 91 0.30
41 8 0.03
42 119 0.39
43 8 0.03
45 20 0.07
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (40 bp):
CATCCAATCTTTTACCCCAACCAGAGGGCAGATTGAAGAC
Found at i:140241 original size:31 final size:30
Alignment explanation
Indices: 140190--140273 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 30
140180 ATTTTACCCA
140190 TTTA-TTCTA-TTTTTTAAAATTAAATCC-T
1 TTTATTTCTATTTTTTTAAAATTAAA-CCTT
* *
140218 TTTATTTTTATTTTTGTTAAAATTTAACCTT
1 TTTATTTCTATTTTT-TTAAAATTAAACCTT
140249 TTTATTTCTATTTCTTTTAAAATTA
1 TTTATTTCTATTT-TTTTAAAATTA
140274 CCCTTTTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
28 4 0.09
29 4 0.09
30 6 0.13
31 31 0.66
32 2 0.04
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.62
Consensus pattern (30 bp):
TTTATTTCTATTTTTTTAAAATTAAACCTT
Found at i:140241 original size:59 final size:62
Alignment explanation
Indices: 140147--140273 Score: 149
Period size: 59 Copynumber: 2.1 Consensus size: 62
140137 GTTTTAATTT
* *
140147 AAATTTAATCCTTTTATTGTTTTTCTCTTTTAAATTTTACCCATTTA-TTCTA-TT-TTTTA
1 AAATTAAATCCTTTTATTGTTTTTCTCTTTTAAATTTAACCCATTTATTTCTATTTCTTTTA
**
140206 AAATTAAATCCTTTTATT-TTTATT-T-TTGTTAAAATTTAACCTTTTTATTTCTATTTCTTTTA
1 AAATTAAATCCTTTTATTGTTT-TTCTCTT-TT-AAATTTAACCCATTTATTTCTATTTCTTTTA
140268 AAATTA
1 AAATTA
140274 CCCTTTTATT
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
57 2 0.03
58 6 0.10
59 32 0.55
60 5 0.09
61 2 0.03
62 11 0.19
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.60
Consensus pattern (62 bp):
AAATTAAATCCTTTTATTGTTTTTCTCTTTTAAATTTAACCCATTTATTTCTATTTCTTTTA
Found at i:140292 original size:28 final size:28
Alignment explanation
Indices: 140144--140293 Score: 97
Period size: 31 Copynumber: 5.1 Consensus size: 28
140134 TTTGTTTTAA
* * *
140144 TTTAAATTTAATCCTTTTATTGTTTTTCTCT
1 TTTAAAATTAACCCTTTTA-T-TCTTT-TCT
* * * *
140175 TTTAAATTTTACCCATTTATTCTATT-T
1 TTTAAAATTAACCCTTTTATTCTTTTCT
* * *
140202 TTTAAAATTAAATCCTTTTATTTTTATTTT
1 TTTAAAATT-AACCCTTTTATTCTT-TTCT
*
140232 TGTTAAAATTTAACCTTTTTATTTCTATTTCT
1 T-TTAAAA-TTAACCCTTTTA-TTCT-TTTCT
140264 TTTAAAATT-ACCCTTTTATTCTGTTTCT
1 TTTAAAATTAACCCTTTTATTCT-TTTCT
140292 TT
1 TT
140294 CATTTTTTTA
Statistics
Matches: 95, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
27 9 0.09
28 22 0.23
29 13 0.14
30 5 0.05
31 36 0.38
32 9 0.09
33 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTAAAATTAACCCTTTTATTCTTTTCT
Found at i:140339 original size:19 final size:19
Alignment explanation
Indices: 140317--140355 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
140307 CTTTTGTATC
140317 TTTTTTTAATTAAAT-CTT
1 TTTTTTTAATTAAATCCTT
*
140335 TTTTTTTAATTTAATCCTT
1 TTTTTTTAATTAAATCCTT
140354 TT
1 TT
140356 ATCACTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTAATTAAATCCTT
Found at i:140706 original size:110 final size:110
Alignment explanation
Indices: 140557--140764 Score: 335
Period size: 110 Copynumber: 1.9 Consensus size: 110
140547 CAATGCTATT
* * * *
140557 TTATTTTAGGGAATTCGAGAAATTGTGCTCTAACATGTTGGGTATTATTTTTTCTTTGAACCTAA
1 TTATTTTAGGGAACTCGAAAAATTGTGCCCTAACATGTTGGGTATGATTTTTTCTTTGAACCTAA
* *
140622 ATAATTGAGTATCCTATTTAAAATCGATAAATGCTCAATTTTCTA
66 ATAATTAAATATCCTATTTAAAATCGATAAATGCTCAATTTTCTA
* *
140667 TTATTTTAGGGGACTCGAAAAATTGTGCCCTAACGTGTTGGGTATGATTTTTTCTTTGAACCTAA
1 TTATTTTAGGGAACTCGAAAAATTGTGCCCTAACATGTTGGGTATGATTTTTTCTTTGAACCTAA
*
140732 GTAATTAAATATCCTATTTAAAATCGATAAATG
66 ATAATTAAATATCCTATTTAAAATCGATAAATG
140765 TTCTTTATTT
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 89 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (110 bp):
TTATTTTAGGGAACTCGAAAAATTGTGCCCTAACATGTTGGGTATGATTTTTTCTTTGAACCTAA
ATAATTAAATATCCTATTTAAAATCGATAAATGCTCAATTTTCTA
Found at i:149726 original size:77 final size:77
Alignment explanation
Indices: 149582--149726 Score: 195
Period size: 77 Copynumber: 1.9 Consensus size: 77
149572 GTGAAGGAAG
* * *
149582 ATGTAATGGTTATCATAAGATAAAATAGGATCATATTGGGAGAATAGATATTATGCCAAAAATAT
1 ATGTAATGGTTATCATAAGATAAAATAGGATCACATTGGGAGAACAGATATTATGCCAAAAAGAT
149647 TAAAAATATCTT
66 TAAAAATATCTT
* ** *
149659 ATGTAATGGTTA-CTATGAGATAAAATAGGATCACATTGGGAGAACATTTATTAT-CCTAAAGAG
1 ATGTAATGGTTATC-ATAAGATAAAATAGGATCACATTGGGAGAACAGATATTATGCC-AAAAAG
149722 ATTAA
64 ATTAA
149727 GGATAAGGTC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
76 3 0.05
77 56 0.95
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (77 bp):
ATGTAATGGTTATCATAAGATAAAATAGGATCACATTGGGAGAACAGATATTATGCCAAAAAGAT
TAAAAATATCTT
Found at i:150252 original size:16 final size:18
Alignment explanation
Indices: 150225--150257 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
150215 TAAAATTAGG
150225 TTGAGCAAATT-ATTTAA
1 TTGAGCAAATTAATTTAA
150242 TTGAG-AAATTAATTTA
1 TTGAGCAAATTAATTTA
150258 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGCAAATTAATTTAA
Found at i:153765 original size:55 final size:56
Alignment explanation
Indices: 153694--153805 Score: 147
Period size: 55 Copynumber: 2.0 Consensus size: 56
153684 ACTGAGCTAA
*
153694 AATAGCCTTACACTCTAA-TTGAGATGTAAGCA-AACCAAAGCTCTACCCGAGCTGT
1 AATAGCCTTACACTCTAACCT-AGATGTAAGCATAACCAAAGCTCTACCCGAGCTGT
* * * **
153749 AATAGCTTTACGCTCTAACCTATATGTAAGCATGTCCAAAGCTCTACCCGAGCTGT
1 AATAGCCTTACACTCTAACCTAGATGTAAGCATAACCAAAGCTCTACCCGAGCTGT
153805 A
1 A
153806 GATGAACCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
55 26 0.53
56 23 0.47
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (56 bp):
AATAGCCTTACACTCTAACCTAGATGTAAGCATAACCAAAGCTCTACCCGAGCTGT
Found at i:153822 original size:28 final size:28
Alignment explanation
Indices: 153784--153875 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
153774 GTAAGCATGT
153784 CCAAAGCTCTACCCGAGCTGTAGATGAA
1 CCAAAGCTCTACCCGAGCTGTAGATGAA
* *
153812 CCAAAGATCTACCCGAGCTATAGATGAA
1 CCAAAGCTCTACCCGAGCTGTAGATGAA
* *
153840 TCAAAGCTCTACCCGAGTTGTAGATGAA
1 CCAAAGCTCTACCCGAGCTGTAGATGAA
*
153868 TCAAAGCT
1 CCAAAGCT
153876 TTACTTGAGC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (28 bp):
CCAAAGCTCTACCCGAGCTGTAGATGAA
Found at i:157229 original size:22 final size:22
Alignment explanation
Indices: 157194--157254 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
157184 CTCCGATTAT
*
157194 TAGCACATTAGTGCTCTTTGTT
1 TAGCACATTAGTGCTCTTTGTA
* * *
157216 TATCACATTTGTGCTTTTTGTA
1 TAGCACATTAGTGCTCTTTGTA
* *
157238 TAGCACATCAATGCTCT
1 TAGCACATTAGTGCTCT
157255 CTATTCATTA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTTTGTA
Found at i:161408 original size:20 final size:20
Alignment explanation
Indices: 161385--161457 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
161375 CCTTCGATGT
161385 CTCTGTTTGCACTTTGGTGC
1 CTCTGTTTGCACTTTGGTGC
** * *
161405 CTCTCCTTCCACTTTGGTGT
1 CTCTGTTTGCACTTTGGTGC
* *
161425 CTTTGTTTGCACTTAGGTGC
1 CTCTGTTTGCACTTTGGTGC
*
161445 CTTTGTTTGCACT
1 CTCTGTTTGCACT
161458 ACAGTGCCTT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.07, C:0.26, G:0.21, T:0.47
Consensus pattern (20 bp):
CTCTGTTTGCACTTTGGTGC
Found at i:161464 original size:20 final size:20
Alignment explanation
Indices: 161425--161471 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
161415 ACTTTGGTGT
*
161425 CTTTGTTTGCACTTAGGTGC
1 CTTTGTTTGCACTTAAGTGC
161445 CTTTGTTTGCAC-TACAGTGC
1 CTTTGTTTGCACTTA-AGTGC
161465 CTTTGTT
1 CTTTGTT
161472 ACGCATCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (20 bp):
CTTTGTTTGCACTTAAGTGC
Found at i:166618 original size:21 final size:22
Alignment explanation
Indices: 166577--166624 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
166567 TTTAATATTA
*
166577 AATTAATAAAATACTATTAAAT
1 AATTAATAAAATACAATTAAAT
*
166599 AATTATTAAAATA-AATTAAAT
1 AATTAATAAAATACAATTAAAT
166620 -ATTAA
1 AATTAA
166625 ACCATTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.17
21 7 0.30
22 12 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTAATAAAATACAATTAAAT
Found at i:172917 original size:23 final size:23
Alignment explanation
Indices: 172890--172943 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
172880 ATGATCGGTT
* *
172890 AAAGTCAATGGTTTTGTTCAATC
1 AAAGTCAATGATTTAGTTCAATC
*
172913 AAAGTCAATGATTTAGTTCAGTC
1 AAAGTCAATGATTTAGTTCAATC
172936 AAAGTCAA
1 AAAGTCAA
172944 CGATCCAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (23 bp):
AAAGTCAATGATTTAGTTCAATC
Found at i:186887 original size:52 final size:52
Alignment explanation
Indices: 186803--187041 Score: 354
Period size: 52 Copynumber: 4.6 Consensus size: 52
186793 TAAATGCAAA
* **
186803 AGGTCCGATGACTATGTGTCATTATGAGTATATGAATCCTTTACGGATTATG
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
186855 AGGTTTGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGAATTATA
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
186907 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTTCGGATTATG
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
186959 AGGT-TCGATGACCATGTGTCATCGTGAGCATACGAATCCTTTTCGGATTATG
1 AGGTCT-GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
187011 AGGTCTGATGACTATGTGTCATCGTGAGTAT
1 AGGTCTGATGACTATGTGTCATCGTGAGTAT
187042 CAAATGAGAA
Statistics
Matches: 170, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
51 1 0.01
52 168 0.99
53 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (52 bp):
AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:189741 original size:16 final size:17
Alignment explanation
Indices: 189722--189754 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
189712 AAAATTAATG
189722 TAAAAA-AAAAATTGAA
1 TAAAAAGAAAAATTGAA
189738 TAAAAATGAAAAATTGA
1 TAAAAA-GAAAAATTGA
189755 TGCATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (17 bp):
TAAAAAGAAAAATTGAA
Found at i:193991 original size:52 final size:52
Alignment explanation
Indices: 193911--194147 Score: 357
Period size: 52 Copynumber: 4.6 Consensus size: 52
193901 AATGCAAAAC
* *
193911 GTCCGATGACTATGTGTCATCCTAAGTATATGAATCCTTTACGAATTATGAG
1 GTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATGAG
* * *
193963 GTCCGATGACTATGTGTGATCGTGAGTATATGAATCGTTTATGAATTATGAG
1 GTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATGAG
* * *
194015 GTCCGATAACTATGTGTCATCGCGAGTATATGAATCCTTTACGGATTATGAG
1 GTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATGAG
* * * *
194067 GTTCGATGACCATGTGTCATCGTGAGTATATGAATCCTTTTCGGATTATGAG
1 GTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATGAG
*
194119 GTCTGATGACTATGTGTCATCGTGAGTAT
1 GTCCGATGACTATGTGTCATCGTGAGTAT
194148 CAAATGAGAA
Statistics
Matches: 166, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 166 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (52 bp):
GTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATGAG
Found at i:200357 original size:22 final size:21
Alignment explanation
Indices: 200332--200373 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
200322 AAAATATCTT
*
200332 TAATGAAATATTATTAAAATAA
1 TAATGAAATAATA-TAAAATAA
*
200354 TAATTAAATAATATAAAATA
1 TAATGAAATAATATAAAATA
200374 TCACCAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAATGAAATAATATAAAATAA
Found at i:201416 original size:31 final size:31
Alignment explanation
Indices: 201378--201444 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
201368 ATTTTTTTGG
*
201378 TTTAATTTGGTA-TTGAAACTTGACA-TTTTT
1 TTTAATTTGGTACCT-AAACTTGACACTTTTT
201408 TCTTAATTTGGTACCTAAACTTGACACTTTTT
1 T-TTAATTTGGTACCTAAACTTGACACTTTTT
201440 TTTAA
1 TTTAA
201445 GTAGGTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
30 1 0.03
31 25 0.76
32 7 0.21
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (31 bp):
TTTAATTTGGTACCTAAACTTGACACTTTTT
Found at i:201458 original size:31 final size:31
Alignment explanation
Indices: 201393--201460 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
201383 TTTGGTATTG
* * *
201393 AAACTTGACATTTTTTCTTAATTTGGTACCT
1 AAACTTGACATTTTTTCTTAAGTAGGTAACT
*
201424 AAACTTGACACTTTTTT-TTAAGTAGGTAATT
1 AAACTTGACA-TTTTTTCTTAAGTAGGTAACT
201455 AAACTT
1 AAACTT
201461 TTTAGGATCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 26 0.81
32 6 0.19
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (31 bp):
AAACTTGACATTTTTTCTTAAGTAGGTAACT
Found at i:202501 original size:22 final size:22
Alignment explanation
Indices: 202476--202524 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
202466 TATTTAATCA
* * *
202476 TGTTTAATCGATGTTGTTGTTT
1 TGTTTAATCAATATTGCTGTTT
202498 TGTTTAATCAATATTGCTGTTT
1 TGTTTAATCAATATTGCTGTTT
202520 TGTTT
1 TGTTT
202525 TTTATTCCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.16, C:0.06, G:0.18, T:0.59
Consensus pattern (22 bp):
TGTTTAATCAATATTGCTGTTT
Found at i:203351 original size:17 final size:17
Alignment explanation
Indices: 203331--203365 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
203321 AAAATTTTCT
203331 ACGAACAAGAACTCTCA
1 ACGAACAAGAACTCTCA
*
203348 ACGAACAAGTACTCTCA
1 ACGAACAAGAACTCTCA
203365 A
1 A
203366 TAAACAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.29, G:0.11, T:0.14
Consensus pattern (17 bp):
ACGAACAAGAACTCTCA
Found at i:203371 original size:17 final size:17
Alignment explanation
Indices: 203334--203374 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
203324 ATTTTCTACG
* *
203334 AACAAGAACTCTCAACG
1 AACAAGTACTCTCAACA
*
203351 AACAAGTACTCTCAATA
1 AACAAGTACTCTCAACA
203368 AACAAGT
1 AACAAGT
203375 TCTCCACCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.49, C:0.24, G:0.10, T:0.17
Consensus pattern (17 bp):
AACAAGTACTCTCAACA
Found at i:210161 original size:24 final size:24
Alignment explanation
Indices: 210134--210202 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
210124 ATCACCACCT
210134 TCACCACCTTTATTACCATCACTC
1 TCACCACCTTTATTACCATCACTC
* *
210158 TCACCACGTTTATAACCATCACTC
1 TCACCACCTTTATTACCATCACTC
210182 TCACCACCTTTATTACCATCA
1 TCACCACCTTTATTACCATCA
210203 ACATAATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.28, C:0.39, G:0.01, T:0.32
Consensus pattern (24 bp):
TCACCACCTTTATTACCATCACTC
Found at i:211876 original size:31 final size:30
Alignment explanation
Indices: 211841--211946 Score: 112
Period size: 31 Copynumber: 3.6 Consensus size: 30
211831 TGTCCAAAAA
211841 AAGTTTAGGTACCAAATTAGGAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAGGAAAAA-TGTC
* * *
211872 AAGTTTAGGTACCAATTTGGGTCAAAA----
1 AAGTTTAGGTACCAAATTAGG-AAAAATGTC
211899 AAGTTTAGGTACCAAATTAGGAAAAAATGTC
1 AAGTTTAGGTACCAAATTAGG-AAAAATGTC
* *
211930 AAGTTCAAGTACCAAAT
1 AAGTTTAGGTACCAAAT
211947 GTTATATTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
27 23 0.38
31 34 0.56
32 4 0.07
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.26
Consensus pattern (30 bp):
AAGTTTAGGTACCAAATTAGGAAAAATGTC
Found at i:211925 original size:27 final size:27
Alignment explanation
Indices: 211836--211925 Score: 99
Period size: 27 Copynumber: 3.2 Consensus size: 27
211826 ATTTGTGTCC
211836 AAAAAAAGTTTAGGTACCAAATTAGGA
1 AAAAAAAGTTTAGGTACCAAATTAGGA
* * * *
211863 AAAAGTGTCAAGTTTAGGTACCAATTTGGGT
1 AAAA----AAAGTTTAGGTACCAAATTAGGA
*
211894 CAAAAAAGTTTAGGTACCAAATTAGGA
1 AAAAAAAGTTTAGGTACCAAATTAGGA
211921 AAAAA
1 AAAAA
211926 TGTCAAGTTC
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
27 27 0.55
31 22 0.45
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (27 bp):
AAAAAAAGTTTAGGTACCAAATTAGGA
Found at i:217531 original size:21 final size:22
Alignment explanation
Indices: 217507--217548 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
217497 AATTTTAGTT
217507 TTTATCTTTTAT-TTCTAAAAA
1 TTTATCTTTTATATTCTAAAAA
*
217528 TTTATTTTTTATATTCTAAAA
1 TTTATCTTTTATATTCTAAAA
217549 TTAAAGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTATCTTTTATATTCTAAAAA
Found at i:217676 original size:13 final size:13
Alignment explanation
Indices: 217653--217699 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
217643 ATAAATTTAA
217653 TTTAAAA-ATAAT
1 TTTAAAATATAAT
217665 TTTAAAATATAAT
1 TTTAAAATATAAT
*
217678 ATTT-TAATATAAAT
1 -TTTAAAATAT-AAT
217692 TTTAAAAT
1 TTTAAAAT
217700 TTTAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 7 0.24
13 13 0.45
14 9 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTAAAATATAAT
Found at i:217731 original size:18 final size:18
Alignment explanation
Indices: 217696--217732 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
217686 ATAAATTTTA
217696 AAATTTTAAAAATATATT
1 AAATTTTAAAAATATATT
217714 AAATTATTAAAAAT-TATT
1 AAATT-TTAAAAATATATT
217732 A
1 A
217733 TGTAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATTTTAAAAATATATT
Found at i:218297 original size:22 final size:23
Alignment explanation
Indices: 218266--218308 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
218256 ACCCTATTGC
218266 TTTAGGTACTAACATTCTTTATT
1 TTTAGGTACTAACATTCTTTATT
218289 TTTA-GTACTAACATTCTTTA
1 TTTAGGTACTAACATTCTTTA
218309 CAAATTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (23 bp):
TTTAGGTACTAACATTCTTTATT
Found at i:219821 original size:32 final size:32
Alignment explanation
Indices: 219779--219841 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
219769 TCATGATCAA
219779 ATCGGATCAGGTTCGAGCATAATATTAATAAG
1 ATCGGATCAGGTTCGAGCATAATATTAATAAG
*
219811 ATCGGCTCAGGTTCGAGCATAATATTAATAA
1 ATCGGATCAGGTTCGAGCATAATATTAATAA
219842 ATATTATGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (32 bp):
ATCGGATCAGGTTCGAGCATAATATTAATAAG
Found at i:219971 original size:16 final size:15
Alignment explanation
Indices: 219950--219996 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
219940 AAACTCATCC
219950 ATATTATTTTTAATAT
1 ATATTATTTTTAAT-T
219966 ATATTATTTTTAATT
1 ATATTATTTTTAATT
*
219981 -TAATATTTTTAATT
1 ATATTATTTTTAATT
219995 AT
1 AT
219997 TGAAATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 13 0.45
15 2 0.07
16 14 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATATTATTTTTAATT
Found at i:219989 original size:14 final size:15
Alignment explanation
Indices: 219954--219996 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
219944 TCATCCATAT
*
219954 TATTTTTAATATATAT
1 TATTTTTAAT-TATAA
219970 TATTTTTAATT-TAA
1 TATTTTTAATTATAA
219984 TATTTTTAATTAT
1 TATTTTTAATTAT
219997 TGAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 13 0.52
15 2 0.08
16 10 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTTTAATTATAA
Found at i:223697 original size:36 final size:36
Alignment explanation
Indices: 223653--223752 Score: 164
Period size: 36 Copynumber: 2.8 Consensus size: 36
223643 TGATATTTGA
* * * *
223653 TTTACTCCCTGTTAACCCAAAGGTCATGATGCTTAT
1 TTTACTCCCTATTGACCTAAAGGTCATGATGCTCAT
223689 TTTACTCCCTATTGACCTAAAGGTCATGATGCTCAT
1 TTTACTCCCTATTGACCTAAAGGTCATGATGCTCAT
223725 TTTACTCCCTATTGACCTAAAGGTCATG
1 TTTACTCCCTATTGACCTAAAGGTCATG
223753 CTTGTTACCA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (36 bp):
TTTACTCCCTATTGACCTAAAGGTCATGATGCTCAT
Found at i:226056 original size:49 final size:49
Alignment explanation
Indices: 225951--226112 Score: 182
Period size: 49 Copynumber: 3.2 Consensus size: 49
225941 ATGAGATACT
* * ** *
225951 TAATGCATGACTTAATTTAATGATGCAAATTTTAATTAACATGGGAGTTACA
1 TAATGCATGACATAATTT-ATGATGCAAA-CTTACCT-ACATGAGAGTTACA
*
226003 TAATGCATGACATAATTTATTATGCAAACTTACCTACATGAGAGTTACA
1 TAATGCATGACATAATTTATGATGCAAACTTACCTACATGAGAGTTACA
* * * *
226052 TAATGCATGTA-ATTATATATGATGCAAACTTAACCAACATGAAAGTTACA
1 TAATGCATG-ACATAATTTATGATGCAAACTT-ACCTACATGAGAGTTACA
226102 TAATGCATGAC
1 TAATGCATGAC
226113 TTTAGTAAAT
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
49 40 0.42
50 30 0.31
51 9 0.09
52 17 0.18
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (49 bp):
TAATGCATGACATAATTTATGATGCAAACTTACCTACATGAGAGTTACA
Found at i:233751 original size:40 final size:41
Alignment explanation
Indices: 233702--233803 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 41
233692 GGCCTAGAGC
*
233702 AATTCTGACTTGTTTGAAAATCATTTTGA--TGTGTTAAAAT
1 AATTTTGACTTGTTTGAAAATCATTTTGACTTGT-TTAAAAT
* *
233742 GATTTTGACTTGGTTG-AAATCATTTTGACTTGTTTAAAAT
1 AATTTTGACTTGTTTGAAAATCATTTTGACTTGTTTAAAAT
* *
233782 AATTTTAACTTGATTTTAAAAT
1 AATTTTGACTTG-TTTGAAAAT
233804 TGTTTCATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 12 0.24
40 30 0.59
41 5 0.10
42 4 0.08
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (41 bp):
AATTTTGACTTGTTTGAAAATCATTTTGACTTGTTTAAAAT
Found at i:233766 original size:20 final size:20
Alignment explanation
Indices: 233707--233793 Score: 88
Period size: 20 Copynumber: 4.3 Consensus size: 20
233697 AGAGCAATTC
*
233707 TGACTTGTTTGAAAATCATTT
1 TGACTTGGTT-AAAATCATTT
*
233728 TGA--TGTGTTAAAATGATTT
1 TGACTTG-GTTAAAATCATTT
*
233747 TGACTTGGTTGAAATCATTT
1 TGACTTGGTTAAAATCATTT
* *
233767 TGACTTGTTTAAAATAATTT
1 TGACTTGGTTAAAATCATTT
*
233787 TAACTTG
1 TGACTTG
233794 ATTTTAAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
19 14 0.25
20 36 0.65
21 5 0.09
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.47
Consensus pattern (20 bp):
TGACTTGGTTAAAATCATTT
Found at i:234353 original size:46 final size:46
Alignment explanation
Indices: 234297--234398 Score: 125
Period size: 46 Copynumber: 2.2 Consensus size: 46
234287 TATTACAAAT
* * *
234297 TAGTAGTACACCAAATGATAACTACAATAT-TTTCAAACTGCATAAC
1 TAGTATTACACCAAATGATAACTACAATATCATCCAAA-TGCATAAC
* * *
234343 TAGTATTACACCACATGATAACTATAATATCATCCAAATGCGTAAC
1 TAGTATTACACCAAATGATAACTACAATATCATCCAAATGCATAAC
*
234389 TAATATTACA
1 TAGTATTACA
234399 AAATAGTAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 43 0.90
47 5 0.10
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (46 bp):
TAGTATTACACCAAATGATAACTACAATATCATCCAAATGCATAAC
Found at i:235528 original size:32 final size:32
Alignment explanation
Indices: 235487--235559 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
235477 TGTCAATCAT
235487 TTCAATATCCAACAAGC-TTAAAACATAATAAA
1 TTCAATATCCAACAA-CTTTAAAACATAATAAA
*
235519 TTCAATATCCAACAACTTTAAAACATAATAAT
1 TTCAATATCCAACAACTTTAAAACATAATAAA
235551 TTCAATATC
1 TTCAATATC
235560 AATATCCAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 1 0.03
32 38 0.97
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.30
Consensus pattern (32 bp):
TTCAATATCCAACAACTTTAAAACATAATAAA
Found at i:241045 original size:34 final size:34
Alignment explanation
Indices: 241004--241087 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 34
240994 TAATTGGTGA
* *
241004 TACATTATGAAATGGTT-ATTCTTGCAAGTGATAT
1 TACATTATGAAATGGTTGAGT-TTGCAAATGATAT
* * *
241038 TGCATTATGATATGGTTGAGTTTGTAAATGATAT
1 TACATTATGAAATGGTTGAGTTTGCAAATGATAT
*
241072 TACACTATGAAATGGT
1 TACATTATGAAATGGT
241088 AAGCTACAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 39 0.95
35 2 0.05
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.40
Consensus pattern (34 bp):
TACATTATGAAATGGTTGAGTTTGCAAATGATAT
Found at i:252667 original size:21 final size:23
Alignment explanation
Indices: 252636--252677 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
252626 CTTTTGTCTT
252636 TTTTTTCTCAA-TTTTCTTTTTA
1 TTTTTTCTCAATTTTTCTTTTTA
252658 TTTTTT-TCAATTTTTCTTTT
1 TTTTTTCTCAATTTTTCTTTT
252678 CGACTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTTCTCAATTTTTCTTTTTA
Found at i:253628 original size:5 final size:5
Alignment explanation
Indices: 253618--253658 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
253608 AGTGCATAAT
*
253618 TAAAA TAAAA TAAGA TAAAA TAAAA TAAAA TTGAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA -T-AAAA TAAA
253659 TATACTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 26 0.81
6 2 0.06
7 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:253721 original size:19 final size:17
Alignment explanation
Indices: 253681--253721 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
253671 TTGTGAACTT
253681 TTTAATTTTTTTTTCAA
1 TTTAATTTTTTTTTCAA
*
253698 ATTAATTTTTTTTTTCCAA
1 TTTAA-TTTTTTTTT-CAA
253717 TTTAA
1 TTTAA
253722 AAAAAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.20
18 9 0.45
19 7 0.35
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTAATTTTTTTTTCAA
Found at i:255497 original size:21 final size:21
Alignment explanation
Indices: 255448--255501 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 21
255438 TTTTGTCTTT
255448 TTTTCTTTTTATTTTTTTTCTCAA
1 TTTTCTTTTTA---TTTTTCTCAA
255472 TTTTCTTTTTATTTTT-TCAA
1 TTTTCTTTTTATTTTTCTCAA
255492 TATTTCTTTT
1 T-TTTCTTTT
255502 CGACCTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.17
21 13 0.45
24 11 0.38
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTCTTTTTATTTTTCTCAA
Found at i:256465 original size:6 final size:6
Alignment explanation
Indices: 256454--256517 Score: 73
Period size: 6 Copynumber: 11.3 Consensus size: 6
256444 GTGCATAATT
*
256454 AAAATA AAAATA AAAAT- AAAAT- AAAAT- AAAAT- AAAATA AAACTA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
256498 AAAATA AAATTG AAAATA AA
1 AAAATA AAAATA AAAATA AA
256518 TATACTAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
5 20 0.39
6 31 0.61
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:256468 original size:5 final size:5
Alignment explanation
Indices: 256453--256517 Score: 76
Period size: 5 Copynumber: 11.8 Consensus size: 5
256443 GGTGCATAAT
256453 TAAAA TAAAAA TAAAAA TAAAA TAAAA TAAAA TAAAA TAAAA CTAAAAA
1 TAAAA T-AAAA T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA -T-AAAA
256502 TAAAA TTGAAAA TAAA
1 TAAAA -T-AAAA TAAA
256518 TATACTAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
5 32 0.58
6 15 0.27
7 8 0.15
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:256493 original size:32 final size:34
Alignment explanation
Indices: 256455--256517 Score: 103
Period size: 32 Copynumber: 1.9 Consensus size: 34
256445 TGCATAATTA
256455 AAATAAAAATAAAAATAAAA-T-AAAATAAAATA
1 AAATAAAAATAAAAATAAAATTGAAAATAAAATA
*
256487 AAATAAAACTAAAAATAAAATTGAAAATAAA
1 AAATAAAAATAAAAATAAAATTGAAAATAAA
256518 TATACTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 19 0.68
33 1 0.04
34 8 0.29
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (34 bp):
AAATAAAAATAAAAATAAAATTGAAAATAAAATA
Found at i:256525 original size:27 final size:27
Alignment explanation
Indices: 256453--256517 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 27
256443 GGTGCATAAT
*
256453 TAAAATAAAAATAAAAAT-AAAATAAAA
1 TAAAAT-AAAATAAAACTAAAAATAAAA
256480 TAAAATAAAATAAAACTAAAAATAAAA
1 TAAAATAAAATAAAACTAAAAATAAAA
256507 TTGAAAATAAA
1 -T-AAAATAAA
256518 TATACTAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 10 0.29
27 15 0.44
28 1 0.03
29 8 0.24
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (27 bp):
TAAAATAAAATAAAACTAAAAATAAAA
Found at i:262056 original size:14 final size:13
Alignment explanation
Indices: 262036--262067 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
262026 ATAAAAGGGA
262036 AAAAAATTAAATT
1 AAAAAATTAAATT
262049 AGAAAAATTAAATT
1 A-AAAAATTAAATT
262063 AAAAA
1 AAAAA
262068 TATAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (13 bp):
AAAAAATTAAATT
Found at i:262081 original size:14 final size:13
Alignment explanation
Indices: 262036--262096 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 13
262026 ATAAAAGGGA
262036 AAAAAAT-TAAATT
1 AAAAAATATAAA-T
262049 AGAAAAAT-TAAAT
1 A-AAAAATATAAAT
*
262062 TAAAAATATAAAT
1 AAAAAATATAAAT
*
262075 AATAAAATAAAAAT
1 AA-AAAATATAAAT
*
262089 AAATAATA
1 AAAAAATA
262097 AAAAAATGGC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 6 0.15
13 13 0.32
14 22 0.54
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
AAAAAATATAAAT
Found at i:262090 original size:18 final size:19
Alignment explanation
Indices: 262064--262099 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
262054 AATTAAATTA
262064 AAAATATAAATAATAAAAT
1 AAAATATAAATAATAAAAT
262083 AAAA-ATAAATAATAAAA
1 AAAATATAAATAATAAAA
262100 AAATGGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATAAATAATAAAAT
Found at i:262764 original size:15 final size:15
Alignment explanation
Indices: 262744--262782 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
262734 GCACATCAAA
*
262744 CAAGAATTAATATAT
1 CAAGAATTAATAAAT
*
262759 CAAGAA-TACTAAAT
1 CAAGAATTAATAAAT
262773 CAAGAATTAA
1 CAAGAATTAA
262783 GCACACATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (15 bp):
CAAGAATTAATAAAT
Found at i:263290 original size:13 final size:13
Alignment explanation
Indices: 263269--263303 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
263259 TAAACAATAT
263269 AATAATAATCCTA
1 AATAATAATCCTA
*
263282 AATATTAATCCTA
1 AATAATAATCCTA
*
263295 AAAAATAAT
1 AATAATAAT
263304 GTTTAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:278375 original size:17 final size:17
Alignment explanation
Indices: 278353--278390 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
278343 TTTCATCTAG
*
278353 TTGTCATTGCATTTTAA
1 TTGTCACTGCATTTTAA
*
278370 TTGTCACTGCATTTTAC
1 TTGTCACTGCATTTTAA
278387 TTGT
1 TTGT
278391 TATCACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.53
Consensus pattern (17 bp):
TTGTCACTGCATTTTAA
Found at i:306801 original size:96 final size:97
Alignment explanation
Indices: 306681--306874 Score: 354
Period size: 96 Copynumber: 2.0 Consensus size: 97
306671 CCACAAGTAA
*
306681 AAACTCAAGTTTAGGGGTGTGATAGCATCACAAATGACACTTATTTTCTCCCTAAATTTGTGTAT
1 AAACTCAAGTTTAGGGGTGTGATAGCATCACAAATGACACCTATTTTCTCCCTAAATTTGTGTAT
*
306746 TAATTGTCTCTTTTGTGCCATATTTAGTTTGC
66 TAATTGTCTCTTTTGTGCCATATTTAGTATGC
306778 AAACTCAAGTTT-GGGGTGTGATAGCATCACAAATGACACCTATTTTCTCCCTAAATTTGTGTAT
1 AAACTCAAGTTTAGGGGTGTGATAGCATCACAAATGACACCTATTTTCTCCCTAAATTTGTGTAT
*
306842 TAATTGTCTCTTTTGTGTCATATTTAGTATGC
66 TAATTGTCTCTTTTGTGCCATATTTAGTATGC
306874 A
1 A
306875 TATTAGGTAT
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
96 82 0.87
97 12 0.13
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (97 bp):
AAACTCAAGTTTAGGGGTGTGATAGCATCACAAATGACACCTATTTTCTCCCTAAATTTGTGTAT
TAATTGTCTCTTTTGTGCCATATTTAGTATGC
Found at i:310114 original size:20 final size:21
Alignment explanation
Indices: 310089--310128 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
310079 TTACTTGTCC
310089 TTAAGTCA-AACAAAAATTAG
1 TTAAGTCATAACAAAAATTAG
* *
310109 TTAAGTTATAGCAAAAATTA
1 TTAAGTCATAACAAAAATTA
310129 TCAAGGCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (21 bp):
TTAAGTCATAACAAAAATTAG
Found at i:310937 original size:17 final size:17
Alignment explanation
Indices: 310912--310964 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
310902 TATAGTGATA
*
310912 AATGGAAATGCAATGAC
1 AATGAAAATGCAATGAC
* * * *
310929 AATGCAAATGTAGTGAT
1 AATGAAAATGCAATGAC
*
310946 AATTAAAATGCAATGAC
1 AATGAAAATGCAATGAC
310963 AA
1 AA
310965 AGGGGATATG
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (17 bp):
AATGAAAATGCAATGAC
Found at i:311432 original size:12 final size:12
Alignment explanation
Indices: 311396--311442 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
311386 TTTGCCTCGA
311396 CTTCTTTTCCTT
1 CTTCTTTTCCTT
*
311408 CCTCTCTTT-CTT
1 CTTCT-TTTCCTT
311420 CTTCTTTTCCTT
1 CTTCTTTTCCTT
311432 CTTCTTCTTCC
1 CTTCTT-TTCC
311443 ACTTGTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.10
12 20 0.67
13 7 0.23
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (12 bp):
CTTCTTTTCCTT
Found at i:326093 original size:24 final size:24
Alignment explanation
Indices: 326066--326134 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
326056 GAAAGAAGAA
326066 AAGGAAGAGGAGAAGAAAAAAGGG
1 AAGGAAGAGGAGAAGAAAAAAGGG
*
326090 AAGGAATA--AGAAG---AAA---
1 AAGGAAGAGGAGAAGAAAAAAGGG
326106 -AGGAAGAGGAGAAGAAAAAAGGG
1 AAGGAAGAGGAGAAGAAAAAAGGG
326129 AAGGAA
1 AAGGAA
326135 TGTAGATGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 18
0.63 0.04 0.33
Matches are distributed among these distances:
15 6 0.18
17 5 0.15
19 3 0.09
20 3 0.09
22 5 0.15
24 12 0.35
ACGTcount: A:0.61, C:0.00, G:0.38, T:0.01
Consensus pattern (24 bp):
AAGGAAGAGGAGAAGAAAAAAGGG
Found at i:326101 original size:39 final size:39
Alignment explanation
Indices: 326058--326135 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
326048 GAAGAAGAGA
326058 AAGAAGAAAAGGAAGAGGAGAAGAAAAAAGGGAAGGAAT
1 AAGAAGAAAAGGAAGAGGAGAAGAAAAAAGGGAAGGAAT
326097 AAGAAGAAAAGGAAGAGGAGAAGAAAAAAGGGAAGGAAT
1 AAGAAGAAAAGGAAGAGGAGAAGAAAAAAGGGAAGGAAT
326136 GTAGATGGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.03
Consensus pattern (39 bp):
AAGAAGAAAAGGAAGAGGAGAAGAAAAAAGGGAAGGAAT
Done.