Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397458.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2647.0, 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: 16558
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.32
Warning! 1484 characters in sequence are not A, C, G, or T
Found at i:1522 original size:171 final size:170
Alignment explanation
Indices: 224--1581 Score: 1015
Period size: 171 Copynumber: 7.9 Consensus size: 170
214 NNNNNNNNNN
* * * * * * * *
224 CAATTATGAGGTTATAAAACTATTTAAAGGGAGTAATAAGGCTTTTGATGGAATAGGTAACCATA
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTAAAGGCATGGGTGACTATA
* * * * * * * * * *
289 AATGAACTTTTCTTAAT-AATGAATGACTTTTTCGTCACGTTTCTTGAGGCAGACAGTT-AATGA
66 AATGGACTTTTGTT-GTCAATAAATG-GTTTTTCTTCATGTTTCTTGAGGTAAACA-TTCAATTA
* * * ** * *
352 TAACCTGTCTTAACCAAAAATACAAGAAAATTCAATCTAAAAT
128 TAATCTGTTTTAACTAAAAATGTAAAAAAATTCAACCTAAAAT
* * * **
395 CAATTATGAGTTTATAAAACTATTTAAAGCTAGTAATAAGGCTTTTGAAGAG-ATGAATGACTAT
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTAAAG-GCATGGGTGACTAT
* * * ** *
459 AAATAGACTTTTGTTGCCAATAAATGGCTTTTTCTTTACATTT-TTGAAGGCAAACATTCAATTA
65 AAATGGACTTTTGTTGTCAATAAATGG-TTTTTCTTCATGTTTCTTG-AGGTAAACATTCAATTA
* *
523 TAATTTG-TTTAGAC-AAACATAT-TAAAAAAATGT-AACTTAAAAT
128 TAATCTGTTTTA-ACTAAA-A-ATGTAAAAAAAT-TCAACCTAAAAT
* ********** * ** * ***
566 TAATTATGAGATTATAANNNNNNNNNNAGCGAGCAATAAGGCTTTCGAAGGCTTAAATGACTATA
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTAAAGGCATGGGTGACTATA
* ** * * * ** * * * * * *
631 AGTAAAAATTTT-ATGCCAATCGATGCTTTTTGCCTT-ATATTTTTTAAGGCAAAGATTCAATTA
66 AAT-GGACTTTTGTTGTCAATAAATGGTTTTT--CTTCATGTTTCTTGAGGTAAACATTCAATTA
* * * * *
694 TAATATATTTTAA-TCAAAAATATAAAAAAATTTAACTTAAAAT
128 TAATCTGTTTTAACT-AAAAATGTAAAAAAATTCAACCTAAAAT
* * ** *
737 CAATTATGAGATTATAAAACTAATTTAAAGCGAGTAATAAGGCTTTCAAAGGCTTATGCGACTAT
1 CAATTATGAGATTATAAAACT-ATTTAAAGCGAGTAATAAGGCTTTTAAAGGCATGGGTGACTAT
* * ** * * * * * *
802 AAATGGACTTTTTTTTGTCAATGAATTACTTTTTCATCATGTTCCCTAAGG-AAGACATTCAGTA
65 AAATGGAC-TTTTGTTGTCAAT-AAATGGTTTTTCTTCATGTTTCTTGAGGTAA-ACATTCAATT
*
866 ATAATCTGTTTTAACTAAAAATGT-AAAAAATTTAACCTAAAAT
127 ATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAACCTAAAAT
* * *
909 CAATTATGAGATTGTAAAATTATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGGGTGACTATA
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTAAAGGCATGGGTGACTATA
* * * * *
974 AATAGACTTTTCTTGTCAATGAATGGCTTTCTCTTCATGTTT-TCT-ATGGTAGACATTCAATTA
66 AATGGACTTTTGTTGTCAATAAATGG-TTTTTCTTCATGTTTCT-TGA-GGTAAACATTCAATTA
* *
1037 TAATCTGTTTTAACTAACAATGTAAAAAAATTGAAACCTAAAAT
128 TAATCTGTTTTAACTAAAAATGTAAAAAAATT-CAACCTAAAAT
* * *
1081 GAATTATGAGGTTATAAAACTATTTAAAGCGAGTAATAAGGATTTTAAAGGCATGGGTGACTATA
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTAAAGGCATGGGTGACTATA
* * * * ** * *
1146 AATGGACTTTTGTTGTCAATCAATGGCTTTTCTTTATATTTCTTGAGACAGACATTCAATTGTAA
66 AATGGACTTTTGTTGTCAATAAATGGTTTTTCTTCATGTTTCTTGAGGTAAACATTCAATTATAA
* * * *
1211 TCTATTTGAACTAATAATGTAAAAAAATTCAACTTAAAAT
131 TCTGTTTTAACTAAAAATGTAAAAAAATTCAACCTAAAAT
* * * ** *
1251 CAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATAAGTGACTGTA
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTAAAGGCATGGGTGACTATA
* * * * *
1316 AATGGACTTTTTTTGCCAATGAATGACTTTTTCTTCACGTTTCTTGAGGTAAACAGTT-AATTAT
66 AATGGACTTTTGTTGTCAATAAATG-GTTTTTCTTCATGTTTCTTGAGGTAAACA-TTCAATTAT
* * * ** *
1380 AACCTCTTTTAACAAAAAATGCCAGAAAATTCAACCTAAAAT
129 AATCTGTTTTAACTAAAAATGTAAAAAAATTCAACCTAAAAT
* * * * *
1422 CAATTATGAGTTTATAAAACTAGTTAAAGCGAGTAATAAAGCTTTTAAAGGGATGTGTG-CATAT
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTAAAGGCATGGGTGAC-TAT
* ** *
1486 AAATGGACTTTTGTTGCCAATAAATAGGTTTTTCTTCATGTTT-TCAAAGGTAGACATTCAATTA
65 AAATGGACTTTTGTTGTCAATAAAT-GGTTTTTCTTCATGTTTCT-TGAGGTAAACATTCAATTA
* * * * **
1550 CATTATATTTTAAGAAAAAATGTAAAAAAATT
128 TAATCTGTTTTAACTAAAAATGTAAAAAAATT
1582 TAACTCAATA
Statistics
Matches: 953, Mismatches: 194, Indels: 80
0.78 0.16 0.07
Matches are distributed among these distances:
169 3 0.00
170 169 0.18
171 533 0.56
172 199 0.21
173 41 0.04
174 8 0.01
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (170 bp):
CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTAAAGGCATGGGTGACTATA
AATGGACTTTTGTTGTCAATAAATGGTTTTTCTTCATGTTTCTTGAGGTAAACATTCAATTATAA
TCTGTTTTAACTAAAAATGTAAAAAAATTCAACCTAAAAT
Found at i:1543 original size:342 final size:338
Alignment explanation
Indices: 224--3303 Score: 1371
Period size: 342 Copynumber: 8.8 Consensus size: 338
214 NNNNNNNNNN
* * * * * *
224 CAATTATGAGGTTATAAAACTATTTAAAGGGAGTAATAAGGCTTTTGATGGAATAGGTAACCATA
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATA
* *** * * *
289 AATGAACTTTTCTTAATAATGAATGACTTTTTCGTCACGTTTCTTGAGGCAGACAGTT-AATGAT
66 AATAAACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTCTTGAGGCAAACA-TTCAATTAT
* * * * *
353 AACCTGTCTTAACCAAAAATACAAGAAAATTCAATCTAAAATCAATTATGAGTTTATAAAACTAT
130 AACCTGTTTTAACAAAAAATGCAAAAAAATTCAACCTAAAATCAATTATGAGTTTATAAAACTAT
* * * * *
418 TTAAAGCTAGTAATAAGGCTTTTGAAGAGATGAATGACTATAAATAGACTTTTGTTGCCAATAAA
195 TTAAAGCGAGTAATAAGGCTTTTAAAGGGATGTATGACTATAAATGGACTTTTGTTGCCAATAAA
* * *
483 TGGCTTTTTCTTTACATTTTT-GAAGGCAAACATTCAATTATAATTTGTTTAGAC-AAACATAT-
260 TGG-TTTTTC-TT-CATTTTTCTAAGGCAGACATTCAATTATAATCTGTTTA-ACTAAA-A-ATG
545 TAAAAAAATGTAACTTAAAAT
319 TAAAAAAAT-TAACTTAAAAT
* ********** * * ** *
566 TAATTATGAGATTATAANNNNNNNNNNAGCGAGCAATAAGGCTTTCGAAGGCTTAAATGACTATA
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATA
* * * ** * * *
631 AGTAAAAATTTT-ATGCCAATCG-ATG-CTTTTTGCCTT-ATATTTTTTAAGGCAAAGATTCAAT
66 AAT-AAACTTTTCTTGCCAAT-GAATGACTTTTT--CTTCACGTTTCTTGAGGCAAACATTCAAT
** * * * *
692 TATAATATATTTTAATCAAAAATAT--AAAAAAATTTAACTTAAAATCAATTATGAGATTATAAA
127 TATAACCTGTTTTAA-CAAAAA-ATGCAAAAAAATTCAACCTAAAATCAATTATGAGTTTATAAA
* * *
755 ACTAATTTAAAGCGAGTAATAAGGCTTTCAAA-GGCT-TATGCGACTATAAATGGACTTTTTTTT
190 ACT-ATTTAAAGCGAGTAATAAGGCTTTTAAAGGGATGTAT--GACTATAAATGGAC-TTTTGTT
* * ** * ** * * *
818 GTCAATGAATTACTTTTTCATCATGTTCCCTAAGGAAGACATTCAGTAATAATCTGTTTTAACTA
251 GCCAAT-AAATGGTTTTTCTTCAT-TTTTCTAAGGCAGACATTCAATTATAATCTG-TTTAACTA
* *
883 AAAATGTAAAAAATTTAACCTAAAAT
313 AAAATGTAAAAAAATTAACTTAAAAT
* * * **
909 CAATTATGAGATTGTAAAATTATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGGGTGACTATA
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATA
* * * * * * *
974 AATAGACTTTTCTTGTCAATGAATGGCTTTCTCTTCATGTTT-TCT-ATGGTAGACATTCAATTA
66 AATAAACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTCT-TGA-GGCAAACATTCAATTA
* * * * * * *
1037 TAATCTGTTTTAACTAACAATGTAAAAAAATTGAAACCTAAAATGAATTATGAGGTTATAAAACT
129 TAACCTGTTTTAACAAAAAATGCAAAAAAATT-CAACCTAAAATCAATTATGAGTTTATAAAACT
* * ** * *
1102 ATTTAAAGCGAGTAATAAGGATTTTAAAGGCATGGGTGACTATAAATGGACTTTTGTTGTCAATC
193 ATTTAAAGCGAGTAATAAGGCTTTTAAAGGGATGTATGACTATAAATGGACTTTTGTTGCCAATA
* * * * * * * *
1167 AATGGCTTTTCTTTATATTTCTTGAGACAGACATTCAATTGTAATCTATTTGAACTAATAATGTA
258 AATGGTTTTTCTTCATTTTTC-TAAGGCAGACATTCAATTATAATCTGTTT-AACTAAAAATGTA
1232 AAAAAATTCAACTTAAAAT
321 AAAAAATT-AACTTAAAAT
* *
1251 CAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATAAGTGACTGTA
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATA
** * *
1316 AATGGACTTTTTTTGCCAATGAATGACTTTTTCTTCACGTTTCTTGAGGTAAACAGTT-AATTAT
66 AATAAACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTCTTGAGGCAAACA-TTCAATTAT
* * * *
1380 AACCTCTTTTAACAAAAAATGCCAGAAAATTCAACCTAAAATCAATTATGAGTTTATAAAACTAG
130 AACCTGTTTTAACAAAAAATGCAAAAAAATTCAACCTAAAATCAATTATGAGTTTATAAAACTAT
* *
1445 TTAAAGCGAGTAATAAAGCTTTTAAAGGGATGTGTG-CATATAAATGGACTTTTGTTGCCAATAA
195 TTAAAGCGAGTAATAAGGCTTTTAAAGGGATGTATGAC-TATAAATGGACTTTTGTTGCCAATAA
* * * * **
1509 ATAGGTTTTTCTTCATGTTTTCAAAGGTAGACATTCAATTACATTATAT-TTTAAGAAAAAATGT
259 AT-GGTTTTTCTTCAT-TTTTCTAAGGCAGACATTCAATT--ATAATCTGTTTAACTAAAAATGT
* *
1573 AAAAAAATTTAACTCAATATT
320 AAAAAAA-TTAACTTAA-AAT
** * ** * * * * ** * **
1594 CAATTACAATCTG-TTTTAACAAAAAATGTAAAACAATTCAACCTGAAATCAATTATGAGATTAA
1 CAATT---ATGAGATTAT-A-AAACTATTTAAAGCGAGT-AA--T-AAGGC--TTTTGA-A--GG
* * *
1658 AATACCATTTAAACTGAGTAATAAGGCTTTCGAAGGTATGGGTGACTATAAATAGACTTTTCTTG
52 AATA--A-GT-GACT-A-T-A-AA-----T---A---A------ACT-T---T--TC-----TTG
* * * * * * * * * *
1723 TCAATAAATGGCTTTTTCTTCATGTTTC-TCAAGAAAGACAGTCAATTATAATCTGTTTAAACCA
81 CCAATGAATGACTTTTTCTTCACGTTTCTTGAGGCAA-ACATTCAATTATAACCTGTTTTAA-CA
* * ** * * *
1787 AAAAA-GTAAAAAAATTCAACTTAAAATCAATTATGAGACTATAAAACCATTTCAAGCGACTAAT
144 AAAAATGCAAAAAAATTCAACCTAAAATCAATTATGAGTTTATAAAACTATTTAAAGCGAGTAAT
* ** *** * ** *
1851 AAGACTTTCGAAGACTTG-AGTGACTATAAATAGACTTTT-TATGCCAATGGATGACTTTTGT-T
209 AAGGCTTTTAAAGGGATGTA-TGACTATAAATGGACTTTTGT-TGCCAATAAATG-GTTTT-TCT
* * * * * *
1913 TCATGTTTCCCAAGGTC-GACATTCAATTATAATATATTTTAATTAAAAAT-AAAAAAAATTCAA
270 TCAT-TTTTCTAAGG-CAGACATTCAATTATAATCT-GTTTAACTAAAAATGTAAAAAAATT-AA
1976 CTTAAAAT
331 CTTAAAAT
* * * ** * *
1984 TAATTATGAGATTATAAAACTAATTTAAAGCAAGTAATAAGG-TTTTCAAAGGCTTAGGCGACTA
1 CAATTATGAGATTATAAAACT-ATTTAAAGCGAGTAATAAGGCTTTT-GAAGGAATAAGTGACTA
** * * * * * *
2048 TAAATAAACTTTTCTTGATAGTAAATGACTTTTTCATCATGTTT-TCTAAGGCAGACATTCAATT
64 TAAATAAACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTCT-TGAGGCAAACATTCAATT
* ** ** *
2112 ATAA----TATTAACTGAAAATTTAAAATAATTCAACCTAAAATCAATTAT-AGTATTAT-AAAC
128 ATAACCTGTTTTAACAAAAAATGCAAAAAAATTCAACCTAAAATCAATTATGAGT-TTATAAAAC
* * * * ** * * *
2171 CATTTAAAGTGAGTAATAAGACTTTTGAAGGCTTG-AGTGACTATAAAT-GAGCTTTTCTTACAA
192 TATTTAAAGCGAGTAATAAGGCTTTTAAAGGGATGTA-TGACTATAAATGGA-CTTTTGTTGCCA
* *** * * * * * * *
2234 ATTATTTAAAGG-TGACCATAAATAGATATTTCGTGCCAACGAATGGCTTTTTCTTCATATTTTC
255 A-TA---AATGGTTTTTC-T---T-CAT-TTT--T-CTAAGGCA-GAC-----ATTCA-A--TTA
* * *
2298 TAAGGTAAATATTTAATTATAATAGATTTTAACTAAAAATGTAAAAAAATTTAACTTAAAAT
298 TAA--T--CTGTTTAA--CT-A-A-A----AA-T------GTAAAAAAA-TTAACTTAAAAT
* * * * * * *
2360 CAATTATGAGATTATAAAACCATTTATAGCAAGTAAGAAGGCTTTTAAAGGCATGAGTGACTATA
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATA
** * * * * * * * ** *
2425 AATGGACTTTTGTTACCAATGAAAGGCTTTTTCTTTATGTTTCTCGAGGTGAACATTAAATTATA
66 AATAAACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTCTTGAGGCAAACATTCAATTATA
* * * * * * * * * *
2490 A-TTTTTTTAACTAACAATGTAAAAAAATTCAACTTAAAATTAGTTATGAGATTATTAAACTATT
131 ACCTGTTTTAACAAAAAATGCAAAAAAATTCAACCTAAAATCAATTATGAGTTTATAAAACTATT
* * * *
2554 TAAAGCGAGTAATAAGGCTTTTAAAAGAATAGGTA--ACTATAAATAGACTTTTCG-TGCCAATG
196 TAAAGCGAGTAATAAGGCTTTTAAAGGGAT--GTATGACTATAAATGGACTTTT-GTTGCCAATA
* * *
2616 AATGACTTTTTCTTCATGTTTTTTTAAGGCAGACACTT-AATTATAA-CTTGTTTTAACCAAAAA
258 AATG-GTTTTTCTTCA--TTTTTCTAAGGCAGACA-TTCAATTATAATC-TG-TTTAACTAAAAA
* * *
2679 TGCAAGAAAATATAACCTAAAAT
317 TGTAAAAAAAT-TAACTTAAAAT
* * * * * *
2702 CAATTATGAGTTTATAAAACTATTTAAAGCAAGTAATGAGGCTTTTGGAGGGAT-GGATGACTAT
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAG-TGACTAT
* ** * * * * * *
2766 CAATGGACTTTTGTTGCGAATAAATGGCTTTTTCTTTATGTTT-TTAGAGG-AAGACATTCAATT
65 AAATAAACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTCTT-GAGGCAA-ACATTCAATT
* * * * * * * * *
2829 ACAATCTATTTTAACTAAAAATGTAAAACAATTCAACCTGAAATCAATTATGAGATTATAATACT
128 ATAACCTGTTTTAACAAAAAATGCAAAAAAATTCAACCTAAAATCAATTATGAGTTTATAAAACT
* * * ** * ** * *
2894 ATTTAAAGTGAGTAATAAGGCTTTCAAAGGCATGGGTAACTATAAATGGACTTTTCCTGTCAATG
193 ATTTAAAGCGAGTAATAAGGCTTTTAAAGGGATGTATGACTATAAATGGACTTTTGTTGCCAATA
* * ** ** * *
2959 AATGCCTTTTCCTTCACGTTTCTCAAGAAAGACAGTCAATTATAATCTGTTTAAATCAAAAATGT
258 AATG-GTTTTTCTTCATTTTTCT-AAGGCAGACATTCAATTATAATCTGTTTAACT-AAAAATGT
*
3024 AAAAAAATTTAACCTAAAAT
320 AAAAAAA-TTAACTTAAAAT
* * * * * **
3044 CAATTATGAGACTGTAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGGATGGGTGACTATA
1 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATA
* * * * * *
3109 AATAGACTTATCTTGTCAATGAATGACTTTGTCTTCACGTTT-TTCATGGTAAACATTCAATTAT
66 AATAAACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTCTTGA-GGCAAACATTCAATTAT
** * * * * * * * * * *
3173 AGTCAGCTTTACCCAAAAATGTAAAAGAATTCAACTTAAAATCAAATATGAGATTATAAAACCAT
130 AACCTGTTTTAACAAAAAATGCAAAAAAATTCAACCTAAAATCAATTATGAGTTTATAAAACTAT
* ** * *
3238 TTAAAGTGAGTAATAAGG-TTTTTGAGGGAATAG-GTGACTATAAATGGACTTTTCTTGCCAA-A
195 TTAAAGCGAGTAATAAGGCTTTTAAAGGG-AT-GTATGACTATAAATGGACTTTTGTTGCCAATA
3300 AATG
258 AATG
3304 TAAGAAAATT
Statistics
Matches: 2079, Mismatches: 465, Indels: 389
0.71 0.16 0.13
Matches are distributed among these distances:
336 2 0.00
337 63 0.03
338 35 0.02
339 1 0.00
340 7 0.00
341 176 0.08
342 737 0.35
343 352 0.17
344 94 0.05
345 14 0.01
346 4 0.00
347 17 0.01
348 5 0.00
349 3 0.00
350 1 0.00
351 3 0.00
352 1 0.00
353 13 0.01
354 3 0.00
355 1 0.00
356 9 0.00
357 1 0.00
358 7 0.00
359 7 0.00
360 5 0.00
361 6 0.00
362 3 0.00
363 3 0.00
364 4 0.00
365 3 0.00
368 2 0.00
369 4 0.00
370 6 0.00
371 2 0.00
372 2 0.00
373 5 0.00
374 4 0.00
375 82 0.04
376 42 0.02
377 4 0.00
378 42 0.02
379 51 0.02
380 6 0.00
381 5 0.00
382 2 0.00
383 2 0.00
384 1 0.00
385 1 0.00
386 5 0.00
387 14 0.01
388 3 0.00
390 14 0.01
391 21 0.01
392 170 0.08
393 9 0.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (338 bp):
CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATA
AATAAACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTCTTGAGGCAAACATTCAATTATA
ACCTGTTTTAACAAAAAATGCAAAAAAATTCAACCTAAAATCAATTATGAGTTTATAAAACTATT
TAAAGCGAGTAATAAGGCTTTTAAAGGGATGTATGACTATAAATGGACTTTTGTTGCCAATAAAT
GGTTTTTCTTCATTTTTCTAAGGCAGACATTCAATTATAATCTGTTTAACTAAAAATGTAAAAAA
ATTAACTTAAAAT
Found at i:1798 original size:221 final size:221
Alignment explanation
Indices: 1386--1807 Score: 516
Period size: 221 Copynumber: 1.9 Consensus size: 221
1376 TTATAACCTC
* * *
1386 TTTTAACAAAAAATGCCAGAAAATTCAACCTAAAATCAATTATGAGTTTATAAAACTAGTTAAAG
1 TTTTAACAAAAAATGCCAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCAGTTAAAG
* * * *
1451 CGAGTAATAAAGCTTTTAAAGGGATGTGTGCATATAAATGGACTTTTGTTGCCAATAAATAGGTT
66 CGAGTAATAAAGCTTTCAAAGGGATGGGTGCATATAAATAGACTTTTCTTGCCAATAAATAGGTT
** * * * *
1516 TTTCTTCATGTTTTCAAAGGTAGACATTCAATTACATTATATTTTAAGAAAAAATGTAAAAAAAT
131 TTTCTTCATGTTTTCAAAGAAAGACAGTCAATTACAATATATTTAAACAAAAAATGTAAAAAAAT
*
1581 TTAACTCAATATTCAATTACAATCTG
196 TCAACTCAATATTCAATTACAATCTG
* * *
1607 TTTTAACAAAAAATG-TAAAACAATTCAACCTGAAATCAATTATGAGATTA-AAATACCATTTAA
1 TTTTAACAAAAAATGCCAAAA-AATTCAACCTAAAATCAATTATGAGATTATAAA-ACCAGTTAA
* * * *
1670 A-CTGAGTAATAAGGCTTTCGAAGGTATGGGTG-ACTATAAATAGACTTTTCTTGTCAATAAAT-
64 AGC-GAGTAATAAAGCTTTCAAAGGGATGGGTGCA-TATAAATAGACTTTTCTTGCCAATAAATA
* * *
1732 GGCTTTTTCTTCATGTTTCTC-AAGAAAGACAGTCAATTATAATCTGTTTAAACCAAAAAA-GTA
127 GG-TTTTTCTTCATGTTT-TCAAAGAAAGACAGTCAATTACAATATATTTAAA-CAAAAAATGTA
1795 AAAAAATTCAACT
189 AAAAAATTCAACT
1808 TAAAATCAAT
Statistics
Matches: 170, Mismatches: 24, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
220 10 0.06
221 152 0.89
222 8 0.05
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (221 bp):
TTTTAACAAAAAATGCCAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCAGTTAAAG
CGAGTAATAAAGCTTTCAAAGGGATGGGTGCATATAAATAGACTTTTCTTGCCAATAAATAGGTT
TTTCTTCATGTTTTCAAAGAAAGACAGTCAATTACAATATATTTAAACAAAAAATGTAAAAAAAT
TCAACTCAATATTCAATTACAATCTG
Found at i:1878 original size:171 final size:171
Alignment explanation
Indices: 1591--2229 Score: 633
Period size: 171 Copynumber: 3.8 Consensus size: 171
1581 TTAACTCAAT
* * * *
1591 ATTCAATTACAATCTGTTTTAACAAAAAATGTAAAACAATTCAACCTGAAATCAATTATGAGATT
1 ATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATT
* *
1656 A-AAATACCATTTAAA-CTGAGTAATAAGGCTTTCGAAG-GTATGGGTGACTATAAATAGACTTT
66 ATAAA-ACCATTTAAAGC-GAGTAATAAGGCTTTCGAAGACT-TGAGTGACTATAAATAGACTTT
* * *
1718 TCTTGTCAATAAATGGCTTTTTCTTCATGTTTCTCAAGAAAGAC
128 TCTTGCCAATAAATGACTTTTTCTTCATGTTTCTCAAGGAAGAC
* * * * *
1762 AGTCAATTATAATCTGTTTAAACCAAAAAAGTAAAAAAATTCAACTTAAAATCAATTATGAGACT
1 ATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATT
* * *
1827 ATAAAACCATTTCAAGCGACTAATAAGACTTTCGAAGACTTGAGTGACTATAAATAGACTTTT-T
66 ATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGACTTGAGTGACTATAAATAGACTTTTCT
** * **
1891 ATGCCAATGGATGACTTTTGT-TTCATGTTTCCCAAGGTCGAC
131 -TGCCAATAAATGACTTTT-TCTTCATGTTTCTCAAGGAAGAC
* * ** * * *
1933 ATTCAATTATAATATATTTTAATTAAAAAT-AAAAAAAATTCAACTTAAAATTAATTATGAGATT
1 ATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATT
* * * * * * *
1997 ATAAAACTAATTTAAAGCAAGTAATAAGGTTTTCAAAGGCTT-AGGCGACTATAAATAAACTTTT
66 ATAAAAC-CATTTAAAGCGAGTAATAAGGCTTTCGAAGACTTGA-GTGACTATAAATAGACTTTT
** * * *
2061 CTTGATAGTAAATGACTTTTTCATCATGTTT-TCTAAGGCAGAC
129 CTTGCCAATAAATGACTTTTTCTTCATGTTTCTC-AAGGAAGAC
* ** * *
2104 ATTCAATTATAA----TATTAACTGAAAATTTAAAATAATTCAACCTAAAATCAATTAT-AGTAT
1 ATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAG-AT
* * * *
2164 TAT-AAACCATTTAAAGTGAGTAATAAGACTTTTGAAGGCTTGAGTGACTATAAAT-GAGCTTTT
65 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGACTTGAGTGACTATAAATAGA-CTTTT
2227 CTT
129 CTT
2230 ACAAATTATT
Statistics
Matches: 387, Mismatches: 67, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
165 1 0.00
166 46 0.12
167 18 0.05
168 29 0.07
170 42 0.11
171 244 0.63
172 7 0.02
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (171 bp):
ATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATT
ATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGACTTGAGTGACTATAAATAGACTTTTCT
TGCCAATAAATGACTTTTTCTTCATGTTTCTCAAGGAAGAC
Found at i:2917 original size:171 final size:169
Alignment explanation
Indices: 2244--3303 Score: 958
Period size: 171 Copynumber: 6.2 Consensus size: 169
2234 ATTATTTAAA
* * * ** *
2244 GGTGACCATAAATAGA-TATTTCGTGCCAACGAATGGCTTTTTCTTCATATTTTCTAAGGTAA-A
1 GGTGACTATAAATGGACT-TTTCTTGCCAATAAATGGCTTTTTCTTCATGTTTT-TAAGG-AAGA
* * ** * *
2307 TATTTAATTATAATAGATTTTAACTAAAAATGTAAAAAAATTTAACTTAAAATCAATTATGAGAT
63 CATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGAT
* * * *
2372 TATAAAACCATTTATAGCAAGTAAGAAGGCTTTTAAAGGCAT
128 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGGAT
* * * ** *
2414 GAGTGACTATAAATGGACTTTTGTTACCAATGAAA-GGCTTTTTCTTTATGTTTCTCGAGG-TGA
1 G-GTGACTATAAATGGACTTTTCTTGCCAAT-AAATGGCTTTTTCTTCATGTTT-TTAAGGAAG-
* * * * * *
2477 ACATTAAATTATAAT-TTTTTTAACTAACAATGTAAAAAAATTCAACTTAAAATTAGTTATGAGA
62 ACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGA
* * * *
2541 TTATTAAACTATTTAAAGCGAGTAATAAGGCTTTTAAAAGAAT
127 TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGGAT
* * * * * *
2584 AGGTAACTATAAATAGACTTTTCGTGCCAATGAATGACTTTTTCTTCATGTTTTTTTAAGGCAGA
1 -GGTGACTATAAATGGACTTTTCTTGCCAATAAATGGCTTTTTCTTCATG--TTTTTAAGGAAGA
* * * *
2649 CACTT-AATTATAA-CTTGTTTTAACCAAAAATGCAAGAAAATAT-AACCTAAAATCAATTATGA
63 CA-TTCAATTATAATC-TATTTTAACTAAAAATGTAAAAAAAT-TCAACCTAAAATCAATTATGA
* * * * **
2711 GTTTATAAAACTATTTAAAGCAAGTAATGAGGCTTTTGGAGGGAT
125 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGGAT
* * * *
2756 GGATGACTATCAATGGACTTTTGTTGCGAATAAATGGCTTTTTCTTTATGTTTTTAGAGGAAGAC
1 GG-TGACTATAAATGGACTTTTCTTGCCAATAAATGGCTTTTTCTTCATGTTTTTA-AGGAAGAC
* * *
2821 ATTCAATTACAATCTATTTTAACTAAAAATGTAAAACAATTCAACCTGAAATCAATTATGAGATT
64 ATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATT
* * * * *
2886 ATAATACTATTTAAAGTGAGTAATAAGGCTTTCAAAGGCAT
129 ATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGGAT
* * * * * * * * *
2927 GGGTAACTATAAATGGACTTTTCCTGTCAATGAATGCCTTTTCCTTCACGTTTCTCAAGAAAGAC
1 -GGTGACTATAAATGGACTTTTCTTGCCAATAAATGGCTTTTTCTTCATGTTT-TTAAGGAAGAC
* * * * *
2992 AGTCAATTATAATCT-GTTTAAATCAAAAATGTAAAAAAATTTAACCTAAAATCAATTATGAGAC
64 ATTCAATTATAATCTATTTTAACT-AAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGAT
* **
3056 TGTAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGGAT
128 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGGAT
* * * * * * * *
3098 GGGTGACTATAAATAGACTTATCTTGTCAATGAATGACTTTGTCTTCACGTTTTTCATGGTAA-A
1 -GGTGACTATAAATGGACTTTTCTTGCCAATAAATGGCTTTTTCTTCATGTTTTT-AAGG-AAGA
* * * * * * *
3162 CATTCAATTATAGTC-AGCTTTACCCAAAAATGTAAAAGAATTCAACTTAAAATCAAATATGAGA
63 CATTCAATTATAATCTA-TTTTAACTAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGA
* **
3226 TTATAAAACCATTTAAAGTGAGTAATAAGG-TTTTTGAGGGAAT
127 TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGG-AT
3269 AGGTGACTATAAATGGACTTTTCTTGCCAA-AAATG
1 -GGTGACTATAAATGGACTTTTCTTGCCAATAAATG
3304 TAAGAAAATT
Statistics
Matches: 724, Mismatches: 138, Indels: 56
0.79 0.15 0.06
Matches are distributed among these distances:
169 2 0.00
170 144 0.20
171 444 0.61
172 133 0.18
173 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (169 bp):
GGTGACTATAAATGGACTTTTCTTGCCAATAAATGGCTTTTTCTTCATGTTTTTAAGGAAGACAT
TCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTAT
AAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGGAT
Found at i:3326 original size:110 final size:111
Alignment explanation
Indices: 3185--3410 Score: 323
Period size: 110 Copynumber: 2.0 Consensus size: 111
3175 TCAGCTTTAC
* * *
3185 CCAAAAATGTAAAAGAATTCAACTTAAAATCAAATATGAGATTATAAAACCATTT-AAAGTGAGT
1 CCAAAAATGTAAAAGAATTCAACCTAAAATCAAATATGAGATTAGAAAACCATTTGAAA-TAAGT
* *
3249 AATAAGGTTTTTGAGGGAATAGGTGA-CTATAAATGGACTTTTCTTG
65 AATAAGGCTTTTGAAGGAATAGGTGACCTATAAATGGACTTTTCTTG
*
3295 CCAAAAATGTAAGAA-AATTCAACCTAAAATCAAATATGAGATTAGAAAACCGTTTGAAATAAGT
1 CCAAAAATGTAA-AAGAATTCAACCTAAAATCAAATATGAGATTAGAAAACCATTTGAAATAAGT
* * *
3359 AGTAAGGCTTTTGAAGGAATGGGTGACTCTATAACTGGACTTTTCTTG
65 AATAAGGCTTTTGAAGGAATAGGTGAC-CTATAAATGGACTTTTCTTG
3407 CCAA
1 CCAA
3411 TGAATGGCTT
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
110 75 0.73
111 5 0.05
112 23 0.22
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.29
Consensus pattern (111 bp):
CCAAAAATGTAAAAGAATTCAACCTAAAATCAAATATGAGATTAGAAAACCATTTGAAATAAGTA
ATAAGGCTTTTGAAGGAATAGGTGACCTATAAATGGACTTTTCTTG
Found at i:3518 original size:281 final size:281
Alignment explanation
Indices: 3015--3543 Score: 665
Period size: 281 Copynumber: 1.9 Consensus size: 281
3005 CTGTTTAAAT
* * *
3015 CAAAAATGTAAAAAAATTTAACCTAAAATCAATTATGAGACTGTAAAACCATTTAAAGCGAGTAA
1 CAAAAATGTAAAAAAATTCAACCTAAAATCAAATATGAGACTGTAAAACCATTTAAAGCAAGTAA
* *
3080 TAAGGCTTTCGAAGGGATGGGTGACTATAAATAGACTTATCTTGTCAATGAATGACTTTGTCTTC
66 TAAGGCTTTCGAAGGAATGGGTGACTATAAATAGACTTATCTTGCCAATGAATGACTTTGTCTTC
* * * * * * * * *
3145 ACGTTTTTCATGGTAAACATTCAATTATAGTCAGCTTTACCCAAAAATGTAAAAGAATTCAACTT
131 ACATTTTCCATGGCAAACATTCAATCATAATCAGCTTTAACCAAAAATATAAAAAAATTCAACCT
** *
3210 AAAATCAAATATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGTTTTTGAGGGAATAGGTGA
196 AAAATCAAATATGAGATTATAAAACCATTTAAACCGAGTAATAAGGCTTTTGAGGGAATAGGTGA
3275 CTATAAATGGACTTTTCTTGC
261 CTATAAATGGACTTTTCTTGC
* * * *
3296 CAAAAATGTAAGAAAATTCAACCTAAAATCAAATATGAGATTAG-AAAACCGTTTGAAA-TAAGT
1 CAAAAATGTAAAAAAATTCAACCTAAAATCAAATATGAGACT-GTAAAACCATTT-AAAGCAAGT
* * * * * * *
3359 AGTAAGGCTTTTGAAGGAATGGGTGACTCTATAACTGGACTTTTCTTGCCAATGAATGGCTTTTT
64 AATAAGGCTTTCGAAGGAATGGGTGA--CTATAAATAGACTTATCTTGCCAATGAATGACTTTGT
* * *
3424 C-TCACATTTTCCAAT-GCAAACATTGAATCATAATCTA-TTTTAACTAAAAATATAAAAAAATT
127 CTTCACATTTTCC-ATGGCAAACATTCAATCATAATC-AGCTTTAACCAAAAATATAAAAAAATT
* *
3486 CAACCTAAAATCAATTATGAGGTTAT-AAACCATTTAAACCGAGTAATAAGGCTTTTGA
190 CAACCTAAAATCAAATATGAGATTATAAAACCATTTAAACCGAGTAATAAGGCTTTTGA
3544 AGGCTTGAGT
Statistics
Matches: 209, Mismatches: 33, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
281 102 0.49
282 72 0.34
283 35 0.17
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (281 bp):
CAAAAATGTAAAAAAATTCAACCTAAAATCAAATATGAGACTGTAAAACCATTTAAAGCAAGTAA
TAAGGCTTTCGAAGGAATGGGTGACTATAAATAGACTTATCTTGCCAATGAATGACTTTGTCTTC
ACATTTTCCATGGCAAACATTCAATCATAATCAGCTTTAACCAAAAATATAAAAAAATTCAACCT
AAAATCAAATATGAGATTATAAAACCATTTAAACCGAGTAATAAGGCTTTTGAGGGAATAGGTGA
CTATAAATGGACTTTTCTTGC
Found at i:3734 original size:452 final size:452
Alignment explanation
Indices: 2845--3702 Score: 1002
Period size: 452 Copynumber: 1.9 Consensus size: 452
2835 TATTTTAACT
* * * * * *
2845 AAAAATGTAAAACAATTCAACCTGAAATCAATTATGAGATTATAATACTATTTAAAGTGAGTAAT
1 AAAAATGTAAAACAATTCAACCTAAAATCAAATATGAGATTAGAAAACCATTTAAAGTAAGTAAT
* *
2910 AAGGCTTTCAAAGGCATGGGTAACTATAAATGGACTTTTCCTGTCAATGAATGCCTTTTCCTTCA
66 AAGGCTTTCAAAGGAATGGGTAACTATAAATGGACTTTTCCTGCCAATGAATGCCTTTTCCTTCA
* * *
2975 CGTTTCTCAAGAAAGACAGTCAATTATAATCTGTTTAAATCAAAAATGTAAAAAAATTTAACCTA
131 CGTTTCTCAAGAAAGACAGTCAATCATAATCTGTTTAAATCAAAAATATAAAAAAATTCAACCTA
* * *
3040 AAATCAATTATGAGACTGTAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGGATGGGTGAC
196 AAATCAATTATGAGACTGTAAAACCATTTAAACCGAGTAATAAGGCTTTCGAAGGCATGAGTGAC
* * * * *
3105 TATAAATAGACTTATCTTGTCAATGAATGACTTTGTCTTCACGTTTTTCATGGTAAACATTCAAT
261 TATAAATAGACTTATCTTGCCAATGAATGACTTTGTCTTCACGTTTTCCAAGGAAAACAATCAAT
*
3170 TATAGTCAGCTTTACCCAAAAATGTAAAAGAATTCAACTTAAAATCAAATATGAGATTATAAAAC
326 TATAATCAGCTTTACCCAAAAATGTAAAAGAATTCAACTTAAAATCAAATATGAGATTATAAAAC
3235 CATTTAAAGTGAGTAATAAGGTTTTTGAGGGAATAGGTGACTATAAATGGACTTTTCTTGCC
391 CATTTAAAGTGAGTAATAAGGTTTTTGAGGGAATAGGTGACTATAAATGGACTTTTCTTGCC
*
3297 AAAAATGTAAGAA-AATTCAACCTAAAATCAAATATGAGATTAGAAAACCGTTTGAAA-TAAGTA
1 AAAAATGTAA-AACAATTCAACCTAAAATCAAATATGAGATTAGAAAACCATTT-AAAGTAAGTA
* ** * * * * *
3360 GTAAGGCTTTTGAAGGAATGGGTGACTCTATAACTGGACTTTTCTTGCCAATGAATGGCTTTTTC
64 ATAAGGCTTTCAAAGGAATGGGT-A-ACTATAAATGGACTTTTCCTGCCAATGAATGCCTTTTCC
* * * * * *
3425 -TCACATTT-TCCAATGCAA-ACATTGAATCATAATCTATTTTAA-CTAAAAATATAAAAAAATT
127 TTCACGTTTCT-CAA-GAAAGACAGTCAATCATAATCTGTTTAAATC-AAAAATATAAAAAAATT
* * *
3486 CAACCTAAAATCAATTATGAG-GT-TATAAACCATTTAAACCGAGTAATAAGGCTTTTGAAGGCT
189 CAACCTAAAATCAATTATGAGACTGTA-AAACCATTTAAACCGAGTAATAAGGCTTTCGAAGGCA
********* ** * *
3549 TGAGTGACTATNNNNNNNNNNT-TCTTGCCAATGAATGGGTTTTTCTTCATGTTTTCCAAGGAAA
253 TGAGTGACTAT-AAATAGACTTATCTTGCCAATGAATGACTTTGTCTTCACGTTTTCCAAGGAAA
* * * * *
3613 ACAATCAATTATAAT-ATGTTTTTA-CCAAAAATGTAAAACG-ATTTAACTTTAAATCAATTTTG
317 ACAATCAATTATAATCA-G-CTTTACCCAAAAATGTAAAA-GAATTCAACTTAAAATCAAATATG
* *
3675 TGGTTATAAAACCATTTAAAGTGAGTAA
379 AGATTATAAAACCATTTAAAGTGAGTAA
3703 NNNNNNNNNN
Statistics
Matches: 336, Mismatches: 58, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
451 3 0.01
452 220 0.65
453 77 0.23
454 36 0.11
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (452 bp):
AAAAATGTAAAACAATTCAACCTAAAATCAAATATGAGATTAGAAAACCATTTAAAGTAAGTAAT
AAGGCTTTCAAAGGAATGGGTAACTATAAATGGACTTTTCCTGCCAATGAATGCCTTTTCCTTCA
CGTTTCTCAAGAAAGACAGTCAATCATAATCTGTTTAAATCAAAAATATAAAAAAATTCAACCTA
AAATCAATTATGAGACTGTAAAACCATTTAAACCGAGTAATAAGGCTTTCGAAGGCATGAGTGAC
TATAAATAGACTTATCTTGCCAATGAATGACTTTGTCTTCACGTTTTCCAAGGAAAACAATCAAT
TATAATCAGCTTTACCCAAAAATGTAAAAGAATTCAACTTAAAATCAAATATGAGATTATAAAAC
CATTTAAAGTGAGTAATAAGGTTTTTGAGGGAATAGGTGACTATAAATGGACTTTTCTTGCC
Found at i:4178 original size:171 final size:170
Alignment explanation
Indices: 3297--5752 Score: 1548
Period size: 171 Copynumber: 14.4 Consensus size: 170
3287 TTTTCTTGCC
* * * * * ** *
3297 AAAAATGTAAGAAAATTCAACCTAAAATCAAATATGAGATTAGAAAACCGTTTGAAA-TAAGTAG
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT-AAAGCGAGTAA
* ** * *
3361 TAAGGCTTTTGAAGGAATGGGTGACTCTATAACTGGACTTTTCTTGCCAATGAATGGCTTTTTC-
65 TAAGGCTTTCGAAGGCTTGAGTGA--CTATAAATGGACTTTTCTTGCCAATGAATGG-TTTTTCT
** * * * * *
3425 TCACATTTTCCAATGCAAACATTGAATCATAATCTATTTTAACT
127 TCATGTTTTCTAAGGCAAACATTCAATTATAATCTATTTTAACA
* * * *
3469 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGGTTAT-AAACCATTTAAACCGAGTAAT
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* **********
3533 AAGGCTTTTGAAGGCTTGAGTGACTATNNNNNNNNNNTTCTTGCCAATGAATGGGTTTTTCTTCA
66 AAGGCTTTCGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAAT-GGTTTTTCTTCA
* * * * * * *
3598 TGTTTTCCAAGGAAAACAATCAATTATAATATGTTTTTACC
130 TGTTTTCTAAGGCAAACATTCAATTATAATCTATTTTAACA
** * * * * * * *
3639 AAAAATGTAAAACGATTTAACTTTAAATCAATTTTGTGGTTATAAAACCATTTAAAGTGAGTAAN
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
********* * * * * * *
3704 NNNNNNNNNGAAGGCATGGGTGACTATAAATAGAC-TCTCTTACGAATGAATGGCTTTTTCTTC-
66 AAGGCTTTCGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGG-TTTTTCTTCA
* * * * * * * *
3767 TCGTTTCCCAA-GCAGATATTAAATTATAATCTGTTGTAACT
130 T-GTTTTCTAAGGCAAACATTCAATTATAATCTATTTTAACA
** * ********** * *
3808 AAAAATACAAAAAAATTCAACTTAAAACCAATTNNNNNNNNNNAAAACTATTTAAAGCAAGTAAT
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * * *
3873 AAAGTTTTCGAAGG-TATGAGTGATTGTAAATGGACTTTTGTTGCCAATGAATGGGATTTTCTTC
66 AAGGCTTTCGAAGGCT-TGAGTGACTATAAATGGACTTTTCTTGCCAATGAAT-GGTTTTTCTTC
** * * * *
3937 A-CATTTCTAGAGGCAGACATTCAATTAGAATCTGTTTTAACC
129 ATGTTTTCTA-AGGCAAACATTCAATTATAATCTATTTTAACA
* * ********** * *
3979 CAAAATATAAAANNNNNNNNNNTAAAATCATTTATGAGATTATAAAACCATTTAAAGCAAGTAAT
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * * ** *
4044 AAGGATTTCAAAAGTTTGAGTGACTATAAATGGACTTTTCATATCAATGGATGGTTTTTGCTTCA
66 AAGGCTTTCGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGTTTTT-CTTCA
* * * ** *
4109 CGTTTTGTAAGGCAGACATTCAATTATAAAATATTTTAATA
130 TGTTTTCTAAGGCAAACATTCAATTATAATCTATTTTAACA
** * *
4150 AAAAAACTAAAAAGATTCAACTTAAAATC-ATTGATGAGATTATAAAACCATTTAAGGCCGA-TA
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATT-ATGAGATTATAAAACCATTTAAAG-CGAGTA
* * * * * * *
4213 ACAAGGCATTCGAAGGCTTGGGTGCCTATATATGGACTTTTTTTGCCTATGAATGGATTTTTCTT
64 ATAAGGCTTTCGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGG-TTTTTCTT
********** * * * * * **
4278 CANNNNNNNNNNGGTAAACATTCAATTACAATATGTTTGAAGT
128 CATGTTTTCTAAGGCAAACATTCAATTATAATCTATTTTAACA
* * * * *
4321 AAAAGTGTAAAACAATTCAACCTAAAATCAATT-TGGAGGTTATAAAACTATTTAAAGCGAGTAA
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTAT-GAGATTATAAAACCATTTAAAGCGAGTAA
* * * *
4385 TAAGGCTTTTGAAGGCATGAGTAACTATAAATGGA-TATTTCTTACCAATGAATGGCTTTTTCTT
65 TAAGGCTTTCGAAGGCTTGAGTGACTATAAATGGACT-TTTCTTGCCAATGAATGG-TTTTTC-T
* ** * * * * *
4449 TACAT-TTCTC-AAGGCGCATAATCAACTATAATCTGTTTTAACC
127 T-CATGTTTTCTAAGGCAAACATTCAATTATAATCTATTTTAACA
* * * **
4492 AAAAATGTAAAAAAATTCAACCTAAAATCAACTATGAGATTGTAAAACCATTTAAAATGAGTAAT
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* *
4557 AAGGCTTTCGAAGGCTTGGGTGACTATAAATGGGCCTTTT-TTGCCAATGAATGGGTTTTTCTTC
66 AAGGCTTTCGAAGGCTTGAGTGACTATAAAT-GGACTTTTCTTGCCAATGAAT-GGTTTTTCTTC
* ** * * *
4621 ATGTTTTCCAAGATAAACAGTCAACTATAATTTATTTTAACA
129 ATGTTTTCTAAGGCAAACATTCAATTATAATCTATTTTAACA
* * * * *
4663 AAAAATGTAAAAAAATTTAACCTAATATAAATTATGAGATTATAAAATCATTTAAAGCGAGTAAT
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * *
4728 AAGGCTTTTGAAGGCTAGGGTGACTATAAGT-GAGCTTTTCTTGCCAATGAATGGGTTTTTCTTC
66 AAGGCTTTCGAAGGCTTGAGTGACTATAAATGGA-CTTTTCTTGCCAATGAAT-GGTTTTTCTTC
* * *
4792 ATATTTTCCT-AGGCAAACATTCAATTATAACCTATTTTAACC
129 ATGTTTT-CTAAGGCAAACATTCAATTATAATCTATTTTAACA
** *
4834 AAAAACATAAACAAAA-TCAACGTCAAAA-CAATTATGAGATTATAAAACCATTTAAAGCGAGTA
1 AAAAATGTAAA-AAAATTCAAC-TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * *
4897 ATAAGGCTTTTC-AAGGCATGGGTGACTATATATGGAC-TTTCGTTGTCAATG-A----TTTTCT
64 ATAAGGC-TTTCGAAGGCTTGAGTGACTATAAATGGACTTTTC-TTGCCAATGAATGGTTTTTCT
* ** * *
4955 TCACG-TTTCTTGTGGCAAACACTT-AACTATAA-CT-TGTTCTAACC
127 TCATGTTTTC-TAAGGCAAACA-TTCAATTATAATCTAT-TT-TAACA
* * * * * * * **
4999 AAGAATGCAAGAAAATTAAACCTAAAATCAATTATGAGTTTATAAAACTATTTAAAGTAAGTAAT
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * ** * * * *
5064 AAAGTTTTTGAAGGGATGGGTGACTATAAATGGACTTTTATTGCAAATAAATGGCTTTTT-TATC
66 AAGGCTTTCGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGG-TTTTTCT-TC
* * * * * * *
5128 ATGTTTT-TGGAGGTAGACATTCAATTATAATCTGTTTGACCC
129 ATGTTTTCT-AAGGCAAACATTCAATTATAATCTATTTTAACA
* * * * *
5170 AAAAATATAAAAAAATTTAACTTAAAATCAATT-TCGAGGTTATAAAACCATTTAAAACGAGTAG
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTAT-GAGATTATAAAACCATTTAAAGCGAGTAA
** * * * *** * *
5234 TAAGG-TTTTAAAGG-TATAAGTGACTATAAATCGACTTTTCATATAAATGAAAGGGTTTTTTTT
65 TAAGGCTTTCGAAGGCT-TGAGTGACTATAAATGGACTTTTCTTGCCAATG-AATGGTTTTTCTT
* ** * * * *
5297 AACATTTTCTGAGGCAGACATTCAATTATAAACGT-TTTTAACC
128 CATGTTTTCTAAGGCAAACATTCAATTATAATC-TATTTTAACA
* * * *
5340 AAAAATTTAAAAAAATTGAACTTAAAATCAATCATAAGATTATAAAACCATTTAAAGAC-AGTAA
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG-CGAGTAA
* * *
5404 TATA-ACTTTCGAAGGCTTGAGTGA-TAATAAATGGACTTTT-TGTGCCAATGGATAGCTTTTTC
65 TA-AGGCTTTCGAAGGCTTGAGTGACT-ATAAATGGACTTTTCT-TGCCAATGAAT-GGTTTTTC
*** ** * *
5466 TTCATG-TTTCTCAAGGTTGACATTCAATTAGGATATATTTTAACT
126 TTCATGTTTTCT-AAGGCAAACATTCAATTATAATCTATTTTAACA
* * *
5511 AAAAATGTAAAACAATTCAACTTAAAATCAATTATAAGATTATAAAATCA-TTAAAGCGAGTAAT
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * * * *
5575 GAGGCTTCCGAACGG-TT-AGGTGACTCTAAATAGG-CTTTTCTTGTCAATAAATGGCTTTTACA
66 AAGGCTTTCGAA-GGCTTGA-GTGACTATAAAT-GGACTTTTCTTGCCAATGAATGG-TTTTTCT
* * *
5637 TCATGTTTCCCAA-GCAAACATTCAATTATAATCTATTTTAACT
127 TCATGTTTTCTAAGGCAAACATTCAATTATAATCTATTTTAACA
* * * *
5680 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACCATGTAAAGTGAGTGAT
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
5745 AAGGCTTT
66 AAGGCTTT
5753 TGAGGGAATG
Statistics
Matches: 1753, Mismatches: 446, Indels: 172
0.74 0.19 0.07
Matches are distributed among these distances:
163 2 0.00
164 19 0.01
165 104 0.06
166 6 0.00
169 195 0.11
170 363 0.21
171 975 0.56
172 85 0.05
173 4 0.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.33
Consensus pattern (170 bp):
AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
AAGGCTTTCGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGTTTTTCTTCAT
GTTTTCTAAGGCAAACATTCAATTATAATCTATTTTAACA
Found at i:4261 original size:21 final size:20
Alignment explanation
Indices: 4235--4274 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
4225 AAGGCTTGGG
4235 TGCCTAT-ATATGGACTTTTTT
1 TGCCTATGA-ATGGA-TTTTTT
4256 TGCCTATGAATGGATTTTT
1 TGCCTATGAATGGATTTTT
4275 CTTCANNNNN
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 12 0.67
22 1 0.06
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.50
Consensus pattern (20 bp):
TGCCTATGAATGGATTTTTT
Found at i:5464 original size:341 final size:340
Alignment explanation
Indices: 4321--5752 Score: 869
Period size: 341 Copynumber: 4.2 Consensus size: 340
4311 TGTTTGAAGT
* * * * * * **
4321 AAAAGTGTAAAACAATTCAACCTAAAATCAATT-TGGAGGTTATAAAACTATTTAAAGCGAGTAA
1 AAAAATGTAAAAAAATTAAACTTAAAATCAATTAT-GAGATTATAAAACCATTTAAAGTAAGTAA
* * * * * * * *
4385 TAAGGCTTTTGAAGGCATGAGTAACTATAAATGGA-TATTTCTTACCAATGAATGGCTTTTTCTT
65 TAAAGCTTTCGAAGGCATGAGTGACTATAAATGGACT-TTTATTGCAAATAAATAGCTTTTTCTT
* ** * * * * * * *
4449 TACATTTCTCAAGG-CG-CATAATCAACTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAA
129 CATGTTTCTCAAGGTAGACAT--TCAATTAGAATATATTTGAACCAAAAATATAAAAAAATTCAA
* * * * * * **
4512 CCTAAAATCAACTATGAGATTGTAAAACCATTTAAAATGAGTAATAAGGCTTTCG-AAGGCTTGG
192 CTTAAAATCAATTATAAGATTATAAAACCA-TTAAAACGAGTAATAAGGCTTCCGAAAGG-TTAA
* * * *** * * ** * *
4576 GTGACTATAAATGGGCCTTTT-TTGCCAATGAATGGG-TTTTTCTTCATGTTTTCCAAGATAAAC
255 GTGACTATAAAT-AGACTTTTCATATAAAT-AAAGGGCTTTTACAACATGTTTCCCAAG-CAAAC
* * ** *
4639 AGTCAACTATAATTTATTTTAACA
317 ATTCAATTATAAACTATTTTAACC
* * * * * **
4663 AAAAATGTAAAAAAATTTAACCTAATATAAATTATGAGATTATAAAATCATTTAAAGCGAGTAAT
1 AAAAATGTAAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAAGTAAT
* * * * * * * * *
4728 AAGGCTTTTGAAGGC-TAGGGTGACTATAAGT-GAGCTTTTCTTGCCAATGAATGGGTTTTTCTT
66 AAAGCTTTCGAAGGCAT-GAGTGACTATAAATGGA-CTTTTATTGCAAATAAATAGCTTTTTCTT
* * * * * ** * *
4791 CATATTT-TCCTAGGCAAACATTCAATTATAACCTATTTTAACCAAAAACATAAACAAAA-TCAA
129 CATGTTTCT-CAAGGTAGACATTCAATTAGAATATATTTGAACCAAAAATATAAA-AAAATTCAA
* * * * *
4854 CGTCAAAA-CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTC--AAGGCAT
192 C-TTAAAATCAATTATAAGATTATAAAACCA-TTAAAACGAGTAATAAGGC-TTCCGAAAGG-TT
** * * * * * * * ** * ****
4916 GGGTGACTATATATGGAC-TTTCGT-T--GTCAA-TGATTTT-CTTCACGTTTCTTGTGGCAAAC
253 AAGTGACTATAAATAGACTTTTCATATAAATAAAGGGCTTTTACAACATGTTTC-CCAAGCAAAC
*
4975 ACTT-AACTAT-AACT-TGTTCTAACC
317 A-TTCAATTATAAACTAT-TT-TAACC
* * * * * *
4999 AAGAATGCAAGAAAATTAAACCTAAAATCAATTATGAGTTTATAAAACTATTTAAAGTAAGTAAT
1 AAAAATGTAAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAAGTAAT
* * * * *
5064 AAAGTTTTTGAAGGGATGGGTGACTATAAATGGACTTTTATTGCAAATAAATGGCTTTTT-TATC
66 AAAGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTATTGCAAATAAATAGCTTTTTCT-TC
* ** * * * * *
5128 ATGTTTTTGGAGGTAGACATTCAATTATAATCTGTTTGACCCAAAAATATAAAAAAATTTAACTT
130 ATGTTTCTCAAGGTAGACATTCAATTAGAATATATTTGAACCAAAAATATAAAAAAATTCAACTT
* * * **
5193 AAAATCAATT-TCGAGGTTATAAAACCATTTAAAACGAGTAGTAAGG-TT-TTAAAGGTATAAGT
195 AAAATCAATTAT-AAGATTATAAAACCA-TTAAAACGAGTAATAAGGCTTCCGAAAGGT-TAAGT
* * ** ** * *
5255 GACTATAAATCGACTTTTCATATAAATGAAAGGGTTTTTTTTAACAT-TTTCTGAGGCAGACATT
257 GACTATAAATAGACTTTTCATATAAAT-AAAGGG-CTTTTACAACATGTTTCCCAAGCAAACATT
5319 CAATTATAAACGT-TTTTAACC
320 CAATTATAAAC-TATTTTAACC
* * * *
5340 AAAAATTTAAAAAAATTGAACTTAAAATCAATCATAAGATTATAAAACCATTTAAAG-ACAGTAA
1 AAAAATGTAAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTA-AGTAA
* * **
5404 TATAA-CTTTCGAAGGCTTGAGTGA-TAATAAATGGACTTTT-TGTGCCAATGGATAGCTTTTTC
65 TA-AAGCTTTCGAAGGCATGAGTGACT-ATAAATGGACTTTTAT-TGCAAATAAATAGCTTTTTC
* * * * * *
5466 TTCATGTTTCTCAAGGTTGACATTCAATTAGGATATATTTTAACTAAAAATGTAAAACAATTCAA
127 TTCATGTTTCTCAAGGTAGACATTCAATTAGAATATATTTGAACCAAAAATATAAAAAAATTCAA
* * * * *
5531 CTTAAAATCAATTATAAGATTATAAAATCATTAAAGCGAGTAATGAGGCTTCCGAACGGTTAGGT
192 CTTAAAATCAATTATAAGATTATAAAACCATTAAAACGAGTAATAAGGCTTCCGAAAGGTTAAGT
* * * * * * *
5596 GACTCTAAATAGGCTTTTCTTGTCAATAAATGGCTTTTACATCATGTTTCCCAAGCAAACATTCA
257 GACTATAAATAGACTTTTCATATAAATAAAGGGCTTTTACAACATGTTTCCCAAGCAAACATTCA
* *
5661 ATTATAATCTATTTTAACT
322 ATTATAAACTATTTTAACC
* * * * *
5680 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACCATGTAAAGTGAGTGAT
1 AAAAATGTAAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAAGTAAT
*
5745 AAGGCTTT
66 AAAGCTTT
5753 TGAGGGAATG
Statistics
Matches: 871, Mismatches: 170, Indels: 100
0.76 0.15 0.09
Matches are distributed among these distances:
334 3 0.00
335 34 0.04
336 214 0.25
337 12 0.01
338 1 0.00
339 11 0.01
340 121 0.14
341 227 0.26
342 227 0.26
343 18 0.02
344 3 0.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (340 bp):
AAAAATGTAAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAAGTAAT
AAAGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTATTGCAAATAAATAGCTTTTTCTTCA
TGTTTCTCAAGGTAGACATTCAATTAGAATATATTTGAACCAAAAATATAAAAAAATTCAACTTA
AAATCAATTATAAGATTATAAAACCATTAAAACGAGTAATAAGGCTTCCGAAAGGTTAAGTGACT
ATAAATAGACTTTTCATATAAATAAAGGGCTTTTACAACATGTTTCCCAAGCAAACATTCAATTA
TAAACTATTTTAACC
Found at i:6575 original size:171 final size:160
Alignment explanation
Indices: 6390--6701 Score: 308
Period size: 171 Copynumber: 1.9 Consensus size: 160
6380 ATTTCAGGCA
*
6390 AGTAATAAGGCTTTTGAAGGC-ACAAGCGACTATAAATGGACTTTT-GTTGAAATTAAATGGGGT
1 AGTAATAAGGCTTTTGAAGGCTA-AAGCGACTATAAATGGACTTTTCGTTCAAA-TAAATGGGGT
* * *
6453 TTTCTTCATGTTACTAGAGGCAGACATTCAATTATAAT-TTGTTGTAACTC-AAAATGTAAAAAA
64 TTTCTTCATGTTACCAGAGGAAAACATTCAATTATAATCTT-TT-TAAC-CAAAAATGTAAAAAA
6516 ATGCAACCTAAAATCAATTATGAGATTATAANNNNNNNNNNAACG
126 ATGCAACCTAAAATCAATTATGAGATTATAA----------AACG
* ** * * * * *
6561 AGTAATATGGCTTTTGAAGGCTAGGGTGACTATAAATGGGCTTTTCTTTCAAATGAATGGGTTTT
1 AGTAATAAGGCTTTTGAAGGCTAAAGCGACTATAAATGGACTTTTCGTTCAAATAAATGGGGTTT
* ** * *
6626 TCTTCATGTTTCCCTAGGAAAACATTCATTTATAATCTTTTTAACCAAAAATGTAAAAAAATTCA
66 TCTTCATGTTACCAGAGGAAAACATTCAATTATAATCTTTTTAACCAAAAATGTAAAAAAATGCA
6691 ACCTAAAATCA
131 ACCTAAAATCA
6702 NNNNNNNNNN
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
169 1 0.01
170 32 0.27
171 79 0.66
172 8 0.07
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.33
Consensus pattern (160 bp):
AGTAATAAGGCTTTTGAAGGCTAAAGCGACTATAAATGGACTTTTCGTTCAAATAAATGGGGTTT
TCTTCATGTTACCAGAGGAAAACATTCAATTATAATCTTTTTAACCAAAAATGTAAAAAAATGCA
ACCTAAAATCAATTATGAGATTATAAAACG
Found at i:7569 original size:171 final size:166
Alignment explanation
Indices: 7055--7965 Score: 709
Period size: 171 Copynumber: 5.3 Consensus size: 166
7045 NNNNNNNNNN
* * ** *
7055 CTATAAATGGGCTTTTCTTACCAATGAATGGGTTTTTCTTCATGTTTTTCAAGGTAAACATTCAA
1 CTATAAATGGAC-TTTCTT-GCAATGAATGGG-TTTTCTTCATGTTTCCCAAGGTAGACATTCAA
** * * * *
7120 TTATAACCTGTTTTTACCAAAAATATAAAA-AGATTTAACTTAAAATCAATTTTGAGACTGTATA
63 TTATAATATATTTTAACC-AAAATATAAAATA-ATTCAACTTAAAATCAATTATGAGA-T-TATA
** * * * * *
7184 AAACCATTTAAAGCGAAAAATAAGGCTGTTGAAGACATGGGTGT
124 AAACCATTTAAAGCGAGTAATAAGG-TCTTGAAGGCTTGAGTGA
* ** * ** * *
7228 CCATAAATGGACTTTTCTTGCCAATGAATAGCTTTTTCTTC-TCATTTCCTGAGGCACACATTCA
1 CTATAAATGGAC-TTTCTTG-CAATGAAT-GGGTTTTCTTCAT-GTTTCCCAAGGTAGACATTCA
* * ** * *
7292 ATTATAATCTATTATAACCATAAATGCAAAATAATTCAACTAAAAATTAATTATGAGATTATAAA
62 ATTATAATATATTTTAACCA-AAATATAAAATAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * * *
7357 ATCGTTTAAAGCTAGTAATAAGGCTTTTGAAGGCATGAGTGA
126 ACCATTTAAAGCGAGTAATAAGG-TCTTGAAGGCTTGAGTGA
* * * * * * *
7399 CTGTACATGGACGTTTGTTGCGAATAAATGGAGTTTTCTTGATGTTTCCAAAAGTAGACATTCAA
1 CTATAAATGGAC-TTTCTTGC-AATGAATGG-GTTTTCTTCATGTTTCCCAAGGTAGACATTCAA
* * * * * *
7464 TTAGAATCTGTTTTAACCCAAAATATAAAATAATTCAGCTTAACATCAACTATGAGATTATAAAA
63 TTATAATATATTTTAA-CCAAAATATAAAATAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * *
7529 CCATTTAAAGCGAGTAATAATGGTCTTAAAAGTTTGAGTGA
127 CCATTTAAAGCGAGTAATAA-GGTCTTGAAGGCTTGAGTGA
* * * *
7570 CTATAAATGGACTTTTTATATCAATGAATGGCTTTTGCTTCATGTTTCCCAAGGTAGACAATCAA
1 CTATAAATGGACTTTCT-T-GCAATGAATGGGTTTT-CTTCATGTTTCCCAAGGTAGACATTCAA
* ** * * * *
7635 TTATAATATATTTGAATGAAAAAACTAAAAAAATTCAATTTAAAATCAATGATGAGATTATAAAA
63 TTATAATATATTTTAACCAAAATA-TAAAATAATTCAACTTAAAATCAATTATGAGATTATAAAA
* *
7700 CCGTTTAAAGCCGA-TAAAAAGG-CTTTCGAAGGCTT-AG-GTA
127 CCATTTAAAG-CGAGTAATAAGGTC-TT-GAAGGCTTGAGTG-A
* *
7740 CCTATAAATGGGCTTTTCTTGCCTATGAATGGGTTTTTCTTCATGTTTCCCAAGGTAGACATTCA
1 -CTATAAATGGAC-TTTCTTG-CAATGAATGGG-TTTTCTTCATGTTTCCCAAGGTAGACATTCA
* * * * * * *
7805 ATTACAATATCTTTTAACTAAAAGTGTAAAACAATTCAACCTAAAATCAATTATGAGGTTATAAA
62 ATTATAATATATTTTAACCAAAA-TATAAAATAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * * *
7870 ACCATTTAAAGCGAGTCATAGGGCTTTTGAAGACATGAGTGA
126 ACCATTTAAAGCGAGTAATAAGG-TCTTGAAGGCTTGAGTGA
* * *
7912 CTATAAATGGACATTTCTTGCCAATGAATGGATTTTTCTTTATGTTTCTCAAGG
1 CTATAAATGGAC-TTTCTTG-CAATGAATGG-GTTTTCTTCATGTTTCCCAAGG
7966 CANNNNNNNN
Statistics
Matches: 586, Mismatches: 123, Indels: 60
0.76 0.16 0.08
Matches are distributed among these distances:
169 2 0.00
170 25 0.04
171 439 0.75
172 26 0.04
173 92 0.16
174 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (166 bp):
CTATAAATGGACTTTCTTGCAATGAATGGGTTTTCTTCATGTTTCCCAAGGTAGACATTCAATTA
TAATATATTTTAACCAAAATATAAAATAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
TTAAAGCGAGTAATAAGGTCTTGAAGGCTTGAGTGA
Found at i:7765 original size:21 final size:21
Alignment explanation
Indices: 7740--7780 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7730 GGCTTAGGTA
7740 CCTATAAATGGGCTTTTCTTG
1 CCTATAAATGGGCTTTTCTTG
* *
7761 CCTATGAATGGGTTTTTCTT
1 CCTATAAATGGGCTTTTCTT
7781 CATGTTTCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (21 bp):
CCTATAAATGGGCTTTTCTTG
Found at i:7911 original size:342 final size:339
Alignment explanation
Indices: 7055--7967 Score: 944
Period size: 342 Copynumber: 2.7 Consensus size: 339
7045 NNNNNNNNNN
* ** *
7055 CTATAAATGGGCTTTTCTTACCAATGAATGGGTTTTTCTTCATGTTTTTCAAGGTAAACATTCAA
1 CTATAAATGGGCTTTTCTTGCCAATGAATGGGTTTTTCTTCATGTTTCCCAAGGTAGACATTCAA
* * * * *
7120 TTATAACCTGTTTTTACCAAAAATATAAAAAGATTTAACTTAAAATCAATTTTGAGACTGTATAA
66 TTACAATCTGTTTTAACC-AAAATATAAAAA-ATTCAACTTAAAATCAATTATGAGA-T-TATAA
** * * * *
7185 AACCATTTAAAGCGAAAAATAAGGCTGTTGAAGACATGGGTGTCCATAAATGGACTTTTCTTGCC
127 AACCATTTAAAGCGAGTAATAAGGCTCTTGAAGACATGAGTGACTATAAATGGACTTTT-TTGCC
* * ** * *
7250 AATGAATAGCTTTTTCTTC-TCATTTCCTGAGGCACACATTCAATTATAATCTATTATAACCATA
191 AATGAATGGCTTTTTCTTCAT-GTTTCCCAAGGCACACAATCAATTATAATATATTATAACCATA
** * * * * * *
7314 AATGCAAAATAATTCAACTAAAAATTAATTATGAGATTATAAAATCGTTTAAAGCTAGTAATAAG
255 AAAACAAAAAAATTCAACTAAAAATCAATGATGAGATTATAAAACCGTTTAAAGCGAGTAAAAAG
*
7379 GCTTTTGAAGGCATGAGTGA
320 GCTTTCGAAGGCATGAGTGA
* * * * * * * * * *
7399 CTGTACATGGACGTTTGTTGCGAATAAATGGAG-TTTTCTTGATGTTTCCAAAAGTAGACATTCA
1 CTATAAATGGGCTTTTCTTGCCAATGAATGG-GTTTTTCTTCATGTTTCCCAAGGTAGACATTCA
* * * *
7463 ATTAGAATCTGTTTTAACCCAAAATATAAAATAATTCAGCTTAACATCAACTATGAGATTATAAA
65 ATTACAATCTGTTTTAA-CCAAAATATAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAA
* ** **
7528 ACCATTTAAAGCGAGTAATAATGG-TCTT-AAAAGTTTGAGTGACTATAAATGGACTTTTTATAT
128 ACCATTTAAAGCGAGTAATAA-GGCTCTTGAAGA-CATGAGTGACTATAAATGGACTTTTT-TGC
* * * **
7591 CAATGAATGGCTTTTGCTTCATGTTTCCCAAGGTAGACAATCAATTATAATATATT-TGAATGA-
190 CAATGAATGGCTTTTTCTTCATGTTTCCCAAGGCACACAATCAATTATAATATATTAT-AACCAT
* *
7654 AAAAACTAAAAAAATTCAATTTAAAATCAATGATGAGATTATAAAACCGTTTAAAGCCGA-TAAA
254 AAAAAC-AAAAAAATTCAACTAAAAATCAATGATGAGATTATAAAACCGTTTAAAG-CGAGTAAA
*
7718 AAGGCTTTCGAAGGC-TTAG-GTA
317 AAGGCTTTCGAAGGCATGAGTG-A
*
7740 CCTATAAATGGGCTTTTCTTGCCTATGAATGGGTTTTTCTTCATGTTTCCCAAGGTAGACATTCA
1 -CTATAAATGGGCTTTTCTTGCCAATGAATGGGTTTTTCTTCATGTTTCCCAAGGTAGACATTCA
* * * * * *
7805 ATTACAATATCTTTTAACTAAAAGTGTAAAACAATTCAACCTAAAATCAATTATGAGGTTATAAA
65 ATTACAATCTGTTTTAACCAAAA-TATAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAA
* * * *
7870 ACCATTTAAAGCGAGTCATAGGGCTTTTGAAGACATGAGTGACTATAAATGGACATTTCTTGCCA
128 ACCATTTAAAGCGAGTAATAAGGCTCTTGAAGACATGAGTGACTATAAATGGAC-TTTTTTGCCA
* * *
7935 ATGAATGGATTTTTCTTTATGTTTCTCAAGGCA
192 ATGAATGGCTTTTTCTTCATGTTTCCCAAGGCA
7968 NNNNNNNNNN
Statistics
Matches: 460, Mismatches: 92, Indels: 36
0.78 0.16 0.06
Matches are distributed among these distances:
340 1 0.00
341 21 0.05
342 328 0.71
343 13 0.03
344 93 0.20
345 4 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (339 bp):
CTATAAATGGGCTTTTCTTGCCAATGAATGGGTTTTTCTTCATGTTTCCCAAGGTAGACATTCAA
TTACAATCTGTTTTAACCAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
ATTTAAAGCGAGTAATAAGGCTCTTGAAGACATGAGTGACTATAAATGGACTTTTTTGCCAATGA
ATGGCTTTTTCTTCATGTTTCCCAAGGCACACAATCAATTATAATATATTATAACCATAAAAACA
AAAAAATTCAACTAAAAATCAATGATGAGATTATAAAACCGTTTAAAGCGAGTAAAAAGGCTTTC
GAAGGCATGAGTGA
Found at i:8518 original size:171 final size:171
Alignment explanation
Indices: 8218--10561 Score: 1977
Period size: 171 Copynumber: 13.7 Consensus size: 171
8208 NNNNNNNNNN
* * * * ** * * *
8218 GACTTTTTTTATCAATGAAT-ACCTTTTTCTTTACGTTTTTTAAGGCAAACACTCGATTATAATT
1 GACTTTTCTTGTCAATGAATGA-CTTTTTCTTCATGTTTCCTAAGGCAAACATTCAATTATAATC
* * * * * **
8282 TATTTTTACTAAAAATATAAAAAAATTCAGCTTAAAATTAATTATGAGATTATGGAACCATTTAA
65 TATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAAATTATAAAACCATTTAA
* * *
8347 AACGAGTAACAAGGCTTTTGAAGGTATAAGTGACTATAAATG
130 AGCGAGTAATAAGGCTTTTGAAGGTATGAGTGACTATAAATG
* * * * * * * *
8389 AACTTTTCTTGTCAATGAATGACTTTTTCTTCATGTTTCGTGA-GTAGATATTTAATTATAATTT
1 GACTTTTCTTGTCAATGAATGACTTTTTCTTCATGTTTCCTAAGGCAAACATTCAATTATAATCT
* * * * * *
8453 GTTTTAACCAAAAATATAAAAACAATTTAACCTAAAATCAATTATGAAATTATAAAACTATTTAA
66 ATTTTAACTAAAAATGTAAAAA-AATTCAACTTAAAATCAATTATGAAATTATAAAACCATTTAA
* * * * *
8518 AGCTAGTAACAAGGCTTTTGAAGGCT-TGGGTAACTATAAATT
130 AGCGAGTAATAAGGCTTTTGAAGG-TATGAGTGACTATAAATG
* * * *
8560 GACTTTTC-TGCCAAATAAATGGATTTTTTC-TCATGTTTTCC-AAGGAAAACATTCAATTATAA
1 GACTTTTCTTGTC-AATGAAT-GACTTTTTCTTCATG-TTTCCTAAGGCAAACATTCAATTATAA
* * * * * *
8622 TCTATTTTAACTATAAATGCAAAAAAGTTCAACCTAAAATCAATTAT-AAGAGTATATAACCATT
63 TCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAA-ATTATAAAACCATT
* * *
8686 TAAAGCAAGTAATAAGGGTTTTGAAGGCATGAGTGACTATAAATG
127 TAAAGCGAGTAATAAGGCTTTTGAAGGTATGAGTGACTATAAATG
* * *** * * * * * *
8731 GACTTTTGTTGCCAATGAATGGGGTTTTCTTTATGATTCC-AGAGGTAGATATTTAATTATAATC
1 GACTTTTCTTGTCAATGAATGACTTTTTCTTCATGTTTCCTA-AGGCAAACATTCAATTATAATC
* * * * *
8795 TGTTTTAACTCAAAATGTAAAAAAACTT-AACTTAAAATCAATTTTGAGATTATAAAACTATTTA
65 TATTTTAACTAAAAATGTAAAAAAA-TTCAACTTAAAATCAATTATGAAATTATAAAACCATTTA
* * *
8859 AAGCGAGTAATGAGGCTTTTGAAGGTTTGAGCGACTATAAATG
129 AAGCGAGTAATAAGGCTTTTGAAGGTATGAGTGACTATAAATG
* * * * *
8902 GACTTTT-TATATCAATGGATTG-CTTTTACTTCACT-TTTCCCAAGGCAAACATTCAATTACAA
1 GACTTTTCT-TGTCAAT-GAATGACTTTTTCTTCA-TGTTTCCTAAGGCAAACATTCAATTATAA
* * * * *
8964 TATATATTAA-TCAAAAAAGTAAAAAAATTTAACTTAAAAT-AGATTATGAGATTATAAAACCAT
63 TCTATTTTAACT-AAAAATGTAAAAAAATTCAACTTAAAATCA-ATTATGAAATTATAAAACCAT
* * * *
9027 TTAAAGTGAGTAATAAGTCTTTCGAAAGCT-TGAGTGACTATAAATG
126 TTAAAGCGAGTAATAAGGCTTTTG-AAGGTATGAGTGACTATAAATG
* * ** ** * * * *
9073 GGCTTTTCTTGCCAATGAATGGGTTTTTCTTCACATTTCTTAAAGTAAACATTCAATTACAATCT
1 GACTTTTCTTGTCAATGAATGACTTTTTCTTCATGTTTCCTAAGGCAAACATTCAATTATAATCT
* * *
9138 ATTTT-AGTGAAAAATGTAAAAAAATTCAACTCAAAATGAATTAT-AAGATTATAAAACCATTTA
66 ATTTTAACT-AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAA-ATTATAAAACCATTTA
* *
9201 AAGCGAGTAATAAGGCTTCTGAAGGTATGGGTGACTATAAATG
129 AAGCGAGTAATAAGGCTTTTGAAGGTATGAGTGACTATAAATG
* * *
9244 GACTTTTCTTGTCAATGAATAGA-TTTTTCTTCATGTTT-TTAAAGGC-AGCTAGTCAATT-TCA
1 GACTTTTCTTGTCAATGAAT-GACTTTTTCTTCATGTTTCCT-AAGGCAAAC-ATTCAATTAT-A
* * * * * * *
9305 ATATGTTTTAGCTACAAATGTAAAACAGTTCAA-TCTAAAATCAATTAT-AAGATTAGAAAACCA
62 ATCTATTTTAACTAAAAATGTAAAAAAATTCAACT-TAAAATCAATTATGAA-ATTATAAAACCA
* ** * * *
9368 TTTAAAGCGAGTAACAAGGCTTTCAAAGGAAAGGGTGACTATAAATG
125 TTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGAGTGACTATAAATG
* * * *
9415 GACTTTTCTTATCAATGAAT-AGCTTTTTCTTTATGTTTCCCAAGGTAAACATTCAATTATAATC
1 GACTTTTCTTGTCAATGAATGA-CTTTTTCTTCATGTTTCCTAAGGCAAACATTCAATTATAATC
* * * * * * * *
9479 TGTTTCAACCAAAAATTTAAAAAATTTCAACCTAAAATTAATTATAAAATTATAAAACCATTTAA
65 TATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAAATTATAAAACCATTTAA
* * * *
9544 AGTGAGTAATAAGGCTTTTGAAGGCT-TGGGTGGCTATGAATG
130 AGCGAGTAATAAGGCTTTTGAAGG-TATGAGTGACTATAAATG
* * ** * * *
9586 GGCTTTTCTAGAAAATAAATAGA-TTTTTCTTCATGTTTCACT-AGGCAAACATTTAGTTATAAT
1 GACTTTTCTTGTCAATGAAT-GACTTTTTCTTCATGTTTC-CTAAGGCAAACATTCAATTATAAT
* ** * * * *
9649 CTGTTTTAACTAAAAATACAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCAGTGA
64 CTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAAATTATAAAACCATTTA
* * *
9714 AAG-GAAGTAATAAGGCTTTTAAAGGCATGTA-TGACTACAAATG
129 AAGCG-AGTAATAAGGCTTTTGAAGGTATG-AGTGACTATAAATG
* * * *
9757 GACTTTTATTGTCAATGAATTACTTTTTCTTCACGTTT-CTAGAGACAAACATTCAATTATAATC
1 GACTTTTCTTGTCAATGAATGACTTTTTCTTCATGTTTCCTA-AGGCAAACATTCAATTATAATC
* ** *
9821 TATTTTAACAAAAAATGTAAAAAAATTCAACTTAAAATCGAATT-TGAGGTTATAAAACTATTTA
65 TATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATC-AATTATGAAATTATAAAACCATTTA
** * * *** *
9885 AAGTAAGTAATTACGCTTTTGAAGACGTGGGTGACTATAAAT-
129 AAGCGAGTAATAAGGCTTTTGAAGGTATGAGTGACTATAAATG
* * * * * * * * *
9927 GACTTTTTTTCTCAATAAAT-AGGTTTTTCTTTATGTTTCCCAAGGTATACATACAATTATAATC
1 GACTTTTCTTGTCAATGAATGA-CTTTTTCTTCATGTTTCCTAAGGCAAACATTCAATTATAATC
* **
9991 TATTTTAACTAAAAATGTAAAACAAATTCAACTTAAAATCATTTAT-AAGATTATAAAATAATTT
65 TATTTTAACTAAAAATGTAAAA-AAATTCAACTTAAAATCAATTATGAA-ATTATAAAACCATTT
* *
10055 AAAGCGAGTAATAAGGCTTTTGAAGGCT-TGAGAGACAATAAATG
128 AAAGCGAGTAATAAGGCTTTTGAAGG-TATGAGTGACTATAAATG
* * ** * *
10099 GACTTTT-TATG-CTAATGGATGGCTTTCGCTTTACGTTT-CTCAAGGCAAACATTCAATTATAA
1 GACTTTTCT-TGTC-AATGAATGACTTTTTCTTCATGTTTCCT-AAGGCAAACATTCAATTATAA
* * * * *
10161 TATATTTTAACAAAAAATATAACAAAATTCAA-TGTAAAATCAATTATGAGATTATAAAACCATT
63 TCTATTTTAACTAAAAATGTAAAAAAATTCAACT-TAAAATCAATTATGAAATTATAAAACCATT
* * *
10225 TAAAGCGAGTAATAAAGC-TTTGAAGGCT-TAAGTGAATATAAATG
127 TAAAGCGAGTAATAAGGCTTTTGAAGG-TATGAGTGACTATAAATG
* * * * * ** * *
10269 GGCTTTTCTTATCAATAAATG-GTTTTTCTTCATGTTTCCCAAGTTAAAAATTTAATTATAATCT
1 GACTTTTCTTGTCAATGAATGACTTTTTCTTCATGTTTCCTAAGGCAAACATTCAATTATAATCT
* * * * * *
10333 GTTTTAACTAACAATGTAAAAAAAATTCAACTTAGAATCAATT-TTAAGGTTATAAAATCATTTA
66 ATTTTAACTAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAA-ATTATAAAACCATTTA
* * * *
10397 ATGCGAATAATAAGGCTTTTGAAGGCAT-AGGTCACTATAAATG
129 AAGCGAGTAATAAGGCTTTTGAAGGTATGA-GTGACTATAAATG
* * * * * *
10440 GGCTTTTCTTGCCAATGATTGACTTTTTCTTCATGTTTTCTGAGGCAGACATTCAATTATAATCT
1 GACTTTTCTTGTCAATGAATGACTTTTTCTTCATGTTTCCTAAGGCAAACATTCAATTATAATCT
* * * * * * *
10505 GTTTAAACAAAAAATATAAAAAAATTTAACTTAAAATTAATTATGAGATTATAAAAC
66 ATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAAATTATAAAAC
10562 TANNNNNNNN
Statistics
Matches: 1744, Mismatches: 350, Indels: 158
0.77 0.16 0.07
Matches are distributed among these distances:
169 49 0.03
170 231 0.13
171 1272 0.73
172 191 0.11
173 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (171 bp):
GACTTTTCTTGTCAATGAATGACTTTTTCTTCATGTTTCCTAAGGCAAACATTCAATTATAATCT
ATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAAATTATAAAACCATTTAAA
GCGAGTAATAAGGCTTTTGAAGGTATGAGTGACTATAAATG
Found at i:8849 original size:342 final size:340
Alignment explanation
Indices: 8259--10563 Score: 2234
Period size: 342 Copynumber: 6.7 Consensus size: 340
8249 TACGTTTTTT
* * * * * * *
8259 AAGGCAAACACTCGATTATAATTTATTTTTACTAAAAATATAAAAAAATTCAGCTTAAAATTAAT
1 AAGGCAAACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAAT
* ** * * * *
8324 TATGAGATTATGGAACCATTTAAAACGAGTAACAAGGCTTTTGAAGGTATAAGTGACTATAAATG
66 TATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGAGTGACTATAAATG
* * * ** * * * *
8389 AACTTTTCTTGTCAATGAATGACTTTTTCTTCATGTTTCGTGA-GTAGATATTTAATTATAATTT
131 GACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCAGAGGTAAACATTCAATTATAATCT
* * * *
8453 GTTTTAACCAAAAATATAAAAACAATTTAACCTAAAATCAATTATGAAATTATAAAACTATTTAA
196 GTTTTAACAAAAAATATAAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAA
* * * *
8518 AGCTAGTAACAAGGCTTTTGAAGGCTTGGGTAACTATAAATTGACTTTTCTGCCAAATAAATGGA
260 AGCGAGTAATAAGGCTTTTGAAGGCTTGGGTGACTATAAATGGACTTTTCTG-C-AATAAATGGA
*
8583 TTTTT-TCTCATGTTTTCC
323 TTTTTCT-TCATGTTTCCC
* * * * *
8601 AAGGAAAACATTCAATTATAATCTATTTTAACTATAAATGCAAAAAAGTTCAACCTAAAATCAAT
1 AAGGCAAACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAAT
* * * *
8666 TATAAGAGTATATAACCATTTAAAGCAAGTAATAAGGGTTTTGAAGGCATGAGTGACTATAAATG
66 TATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGAGTGACTATAAATG
* ** * * * * *
8731 GACTTTTGTTGCCAATGAATGGGGTTTTCTTTATGATTCCAGAGGTAGATATTTAATTATAATCT
131 GACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCAGAGGTAAACATTCAATTATAATCT
** * *
8796 GTTTTAACTCAAAATGTAAAAAAACTT-AACTTAAAATCAATTTTGAGATTATAAAACTATTTAA
196 GTTTTAACAAAAAATATAAAAAAA-TTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAA
* * * * *
8860 AGCGAGTAATGAGGCTTTTGAAGGTTTGAGCGACTATAAATGGACTTTT-T--ATATCAATGGAT
260 AGCGAGTAATAAGGCTTTTGAAGGCTTGGGTGACTATAAATGGACTTTTCTGCA-ATAAATGGA-
8922 TGCTTTTACTTCACT-TTTCCC
323 T--TTTT-CTTCA-TGTTTCCC
* * * * *
8943 AAGGCAAACATTCAATTACAATATATATTAA-TCAAAAAAGTAAAAAAATTTAACTTAAAAT-AG
1 AAGGCAAACATTCAATTATAATCTATTTTAACT-AAAAATGTAAAAAAATTCAACTTAAAATCA-
* * * * * *
9006 ATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGTCTTTCGAAAGCTTGAGTGACTATAAA
64 ATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGAGTGACTATAAA
* * ** * * *
9071 TGGGCTTTTCTTGCCAATGAATGGGTTTTTCTTCACATTTCTTA-AAGTAAACATTCAATTACAA
129 TGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTC-CAGAGGTAAACATTCAATTATAA
* *** * * * * *
9135 TCTATTTTAGTGAAAAATGTAAAAAAATTCAACTCAAAATGAATTATAAGATTATAAAACCATTT
193 TCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTT
* *
9200 AAAGCGAGTAATAAGGCTTCTGAAGG-TATGGGTGACTATAAATGGACTTTTCTTGTCAATGAAT
258 AAAGCGAGTAATAAGGCTTTTGAAGGCT-TGGGTGACTATAAATGGACTTTTC-TG-CAATAAAT
* ***
9264 AGATTTTTCTTCATGTTTTTA
320 GGATTTTTCTTCATGTTTCCC
* * * * * * * *
9285 AAGGC-AGCTAGTCAATT-TCAATATGTTTTAGCTACAAATGTAAAACAGTTCAA-TCTAAAATC
1 AAGGCAAAC-ATTCAATTAT-AATCTATTTTAACTAAAAATGTAAAAAAATTCAACT-TAAAATC
* * ** * * *
9347 AATTATAAGATTAGAAAACCATTTAAAGCGAGTAACAAGGCTTTCAAAGGAAAGGGTGACTATAA
63 AATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGAGTGACTATAA
** * *
9412 ATGGACTTTTCTTATCAATGAATAGCTTTTTCTTTATGTTTCCCA-AGGTAAACATTCAATTATA
128 ATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTT-CCAGAGGTAAACATTCAATTATA
* * * * * * * * *
9476 ATCTGTTTCAACCAAAAATTTAAAAAATTTCAACCTAAAATTAATTATAAAATTATAAAACCATT
192 ATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATT
* * * * *
9541 TAAAGTGAGTAATAAGGCTTTTGAAGGCTTGGGTGGCTATGAATGGGCTTTTCTAGAAAATAAAT
257 TAAAGCGAGTAATAAGGCTTTTGAAGGCTTGGGTGACTATAAATGGACTTTTCT-G-CAATAAAT
* *
9606 AGATTTTTCTTCATGTTTCAC
320 GGATTTTTCTTCATGTTTCCC
* * * * ** *
9627 TAGGCAAACATTTAGTTATAATCTGTTTTAACTAAAAATACAAAAAAATTCAACCTAAAATCAAT
1 AAGGCAAACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAAT
* * * * *
9692 TATGAGATTATAAAACCAGTGAAAG-GAAGTAATAAGGCTTTTAAAGGCATGTA-TGACTACAAA
66 TATAAGATTATAAAACCATTTAAAGCG-AGTAATAAGGCTTTTGAAGGCATG-AGTGACTATAAA
* * ** * * **
9755 TGGACTTTTATTGTCAATGAATTACTTTTTCTTCACGTTTCTAGAGACAAACATTCAATTATAAT
129 TGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCAGAGGTAAACATTCAATTATAAT
* * *
9820 CTATTTTAACAAAAAATGTAAAAAAATTCAACTTAAAATCGAATT-TGAGGTTATAAAACTATTT
194 CTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATC-AATTATGAGATTATAAAACTATTT
** * * * *
9884 AAAGTAAGTAATTACGCTTTTGAAGACGTGGGTGACTATAAAT-GACTTTTTTTCT-CAATAAAT
258 AAAGCGAGTAATAAGGCTTTTGAAGGCTTGGGTGACTATAAATGGAC---TTTTCTGCAATAAAT
*
9947 AGG-TTTTTCTTTATGTTTCCC
320 -GGATTTTTCTTCATGTTTCCC
* * * *
9968 AAGGTATACATACAATTATAATCTATTTTAACTAAAAATGTAAAACAAATTCAACTTAAAATCAT
1 AAGGCAAACATTCAATTATAATCTATTTTAACTAAAAATGTAAAA-AAATTCAACTTAAAATCAA
** * * *
10033 TTATAAGATTATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGCTTGAGAGACAATAAAT
65 TTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGAGTGACTATAAAT
* * ** * * *
10098 GGACTTTT-TATGCTAATGGATGGCTTTCGCTTTACGTTTCTCA-AGGCAAACATTCAATTATAA
130 GGACTTTTCT-TGCCAATGAATGGCTTTTTCTTCATGTTTC-CAGAGGTAAACATTCAATTATAA
* * * *
10161 TATATTTTAACAAAAAATATAACAAAATTCAA-TGTAAAATCAATTATGAGATTATAAAACCATT
193 TCTGTTTTAACAAAAAATATAAAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACTATT
* ** * * *
10225 TAAAGCGAGTAATAAAGC-TTTGAAGGCTTAAGTGAATATAAATGGGCTTTTCTTATCAATAAAT
257 TAAAGCGAGTAATAAGGCTTTTGAAGGCTTGGGTGACTATAAATGGACTTTTC-T-GCAATAAAT
10289 GG-TTTTTCTTCATGTTTCCC
320 GGATTTTTCTTCATGTTTCCC
** * * * * *
10309 AAGTTAAAAATTTAATTATAATCTGTTTTAACTAACAATGTAAAAAAAATTCAACTTAGAATCAA
1 AAGGCAAACATTCAATTATAATCTATTTTAACTAAAAATGT-AAAAAAATTCAACTTAAAATCAA
* * * * * *
10374 TTTTAAGGTTATAAAATCATTTAATGCGAATAATAAGGCTTTTGAAGGCAT-AGGTCACTATAAA
65 TTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGA-GTGACTATAAA
* * * * * * *
10438 TGGGCTTTTCTTGCCAATGATTGACTTTTTCTTCATGTTTTCTGAGGCAGACATTCAATTATAAT
129 TGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCAGAGGTAAACATTCAATTATAAT
* * *
10503 CTGTTTAAACAAAAAATATAAAAAAATTTAACTTAAAATTAATTATGAGATTATAAAACTA
194 CTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTA
10564 NNNNNNNNNN
Statistics
Matches: 1613, Mismatches: 295, Indels: 111
0.80 0.15 0.05
Matches are distributed among these distances:
337 1 0.00
338 8 0.00
339 6 0.00
340 3 0.00
341 330 0.20
342 1188 0.74
343 61 0.04
344 7 0.00
345 1 0.00
346 7 0.00
347 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (340 bp):
AAGGCAAACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAAT
TATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGAGTGACTATAAATG
GACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCAGAGGTAAACATTCAATTATAATCT
GTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAA
GCGAGTAATAAGGCTTTTGAAGGCTTGGGTGACTATAAATGGACTTTTCTGCAATAAATGGATTT
TTCTTCATGTTTCCC
Found at i:12044 original size:281 final size:281
Alignment explanation
Indices: 11528--12053 Score: 718
Period size: 281 Copynumber: 1.9 Consensus size: 281
11518 TGTTTTAACT
* * * * *
11528 AAAAATGTAAAACAATTCAACCTTAAATCAATGATGAGATTATAATACCATTTAAAGTGAGTAAT
1 AAAAATCTAAAACAATTCAACCTAAAATCAATAATGAGATTAGAAAACCATTTAAAGTGAGTAAT
** * *
11593 AAGGCTTCCGAAGGCATGGGTGACTATAAATGAACTTTTCTTGTCAATGAATAGCCTTGTCTTCA
66 AAGGCTTCCGAAGAAATGGGTGACTATAAATGAACTTTTCCTGCCAATGAATAGCCTTGTCTTCA
* * * * * *
11658 TGTTTTCCATGGGAGACATTCAATTATAATCTGTTTAACCCAAAAATGTAAAAAAATTTAACTTA
131 TGTTTCCCATGGAAAACATTCAATTATAATCTGTTTAACCCAAAAATATAAAAAAATTCAACCTA
* *
11723 AAATCAAATATGAGATTACAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAGGGAATGGACAAC
196 AAATCAAATATGAGATTACAAAACTATTTAAAGCGAGTAATAAAGCTTTTGAGGGAATGGACAAC
11788 TATAAATAGACTTTTCTTATA
261 TATAAATAGACTTTTCTTATA
* *
11809 AAAAATCTAAGAA-AATTCAACCTAAAATCAATAATGAGATTAGAAAACCATTTGAAGTGAGTAT
1 AAAAATCTAA-AACAATTCAACCTAAAATCAATAATGAGATTAGAAAACCATTTAAAGTGAGTAA
** * * ** *
11873 TAAGGCTTTTGAAGAAATGGGTGACTATGACT-AGACTTTTCCTGCCAATGAATAGGTTTTTCTT
65 TAAGGCTTCCGAAGAAATGGGTGACTATAAATGA-ACTTTTCCTGCCAATGAATAGCCTTGTCTT
* *
11937 CATGTTTCCC-TAGGAAAACATTCATTTATAATTTGTTTTAA-CCAAAAATATAAAAAAATTCAA
129 CATGTTTCCCAT-GGAAAACATTCAATTATAATCTG-TTTAACCCAAAAATATAAAAAAATTCAA
* *
12000 CCTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAAGCTTTT
192 CCTAAAATCAAATATGAGATTACAAAACTATTTAAAGCGAGTAATAAAGCTTTT
12054 AAAGGCTTGA
Statistics
Matches: 211, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
280 2 0.01
281 202 0.96
282 7 0.03
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (281 bp):
AAAAATCTAAAACAATTCAACCTAAAATCAATAATGAGATTAGAAAACCATTTAAAGTGAGTAAT
AAGGCTTCCGAAGAAATGGGTGACTATAAATGAACTTTTCCTGCCAATGAATAGCCTTGTCTTCA
TGTTTCCCATGGAAAACATTCAATTATAATCTGTTTAACCCAAAAATATAAAAAAATTCAACCTA
AAATCAAATATGAGATTACAAAACTATTTAAAGCGAGTAATAAAGCTTTTGAGGGAATGGACAAC
TATAAATAGACTTTTCTTATA
Found at i:12106 original size:171 final size:171
Alignment explanation
Indices: 11809--14835 Score: 1949
Period size: 171 Copynumber: 17.8 Consensus size: 171
11799 TTTTCTTATA
* * * * * * *
11809 AAAAATCTAAGAAAATTCAACCTAAAATCAATAATGAGATTAGAAAACCATTTGAAGTGAGTATT
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
*** * * * * *
11874 AAGGCTTTTGAAGAAATGGGTGACTATGACTAGACTTTTCCTGCCAATGAATAGG-TTTTTCTTC
66 AAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAAT-GGCTTTTTCTTC
* * * *
11938 ATGTTTCCCTAGGAAAACATTCATTTATAATTTGTTTTAACC
130 ATGTTTCCCAAGGCAAACATTCAATTATAATCTGTTTTAACC
*
11980 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAAT
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * * **
12045 AAAGCTTTTAAAGGCTTGAGTGACTATAAATGGGCTTTTCTTGCTAATAAATGAATTTTTCTTCA
66 AAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCA
* * * * *
12110 TGTTTCCCAAGGTAATCATTCAATTATAACCTATTTTTACC
131 TGTTTCCCAAGGCAAACATTCAATTATAATCTGTTTTAACC
* * * * * * *
12151 AAAAATATAAAAAGATTTAACTTAAAATCAATTTTGAGACTATATAAAATCATTTAAAGCAAGAA
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGA-T-TATAAAACCATTTAAAGCGAGTA
* * * * * * *
12216 ATAAGGCTTTTAAAGGCATGGGTGACTATAAATAGACTTCTATTTCCAATGAATGGCTTTTTCTT
64 ATAAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTT
* * *
12281 C-TCGTTTCCCAAGGCACACATTCAATTATAATCTGTTGTAACT
129 CAT-GTTTCCCAAGGCAAACATTCAATTATAATCTGTTTTAACC
* ** * * * * *** *
12324 ATAAATGCAAAATAATTCAACTTAAAATTAATTATGAGATTATGAAACCATTTAAAATAAGTCAT
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * * * **
12389 AAGGCTTTTGAAGGCATGGGTGATTGTAAATGGACTTTTGTTGCAAATGAATGGGGTTTTCTTCA
66 AAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCA
** * *
12454 TGTTT-TTAGAGGCAGACATTCAATTAGAATCTGTTTTAACC
131 TGTTTCCCA-AGGCAAACATTCAATTATAATCTGTTTTAACC
* * * * *
12495 CAAAATATAAAATAATTCAGCTTAAAATCAACTATGAGATTATAAAACCATTTAAAGCGAGTAAT
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * * ** *
12560 AAGGGTCTTGAAAGTTTGAGTGACTATAAATGGACTTTTCATATCAATGAATGGCTTTTGCTTCA
66 AAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCA
*************************************
12625 TGTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
131 TGTT-------TCCCAAGGCAAACATTCAATTATAATCTGTTTTAACC
**************** * *
12673 NNNNNNNNNNNNNNNNT-AACTTAAAATCAATGATGAGATTATAAAACCATTTAAAGCTGA-TAA
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGC-GAGTAA
* * * * *
12736 TAAGGCTTTCGAAGGCTT-AGGTGCCTATAAATGGGCTTTTCTTGCCTATGAATGGGTTTTTTCT
65 TAAGGCTTTTGAAGGCTTGA-GTGACTATAAATGGACTTTTCTTGCCAATGAAT-GGCTTTTTCT
* * * * *
12800 TCATGTTTCTCAAGGTAAACATTCAATTACAATATGTTTTAACT
128 TCATGTTTCCCAAGGCAAACATTCAATTATAATCTGTTTTAACC
* * * *********** * *
12844 AAAAGTGTAAAACAATTCAACCTAAAATCAATTATGAGGNNNNNNNNNNATTTAAAGCAAGTAAC
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * *
12909 AAGGCTTTTGAAGGCATGAGTGACTATAAATAGACATTTCTTGCCAATGAATGGCTTTTTCTTTA
66 AAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCA
* * * * *
12974 TGTTTCTCAAGGCAAACAATCAACTATAGTCTGTTTTAACA
131 TGTTTCCCAAGGCAAACATTCAATTATAATCTGTTTTAACC
* * * * **
13015 AAAAATGTAAGAAAATTCAACCTAAAATCAATTATAAGATTGTAAAACCATTTAAAATGAGTAAT
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * *
13080 AAGGCTTTCGAAGGCTTGGGTGACTATAAATGGGCTTTTCTTGCCAATGAATCGG-TTTTTCTTC
66 AAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAAT-GGCTTTTTCTTC
*** * * * * *
13144 ATGTTTTTTAAGACAGACAGTCAATTATAATCTATTTTAACA
130 ATGTTTCCCAAGGCAAACATTCAATTATAATCTGTTTTAACC
* * * * * *
13186 AAAAATGTAAAATAATTCAACCTAATATCAATTATGAGATTATAAAATCATTTGAAGCAAGTAAT
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * *
13251 AAGGCTTTTGAAGGCTTGGGTGACTATAAGTAGACTTTTCTTGCAAATGAATGGGTTTTTCTTCA
66 AAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCA
* * *
13316 TGTTTCCCTAA-GCAAATATTCAATTATAATCTATTTTAACA
131 TGTTTCCC-AAGGCAAACATTCAATTATAATCTGTTTTAACC
* * * *
13357 AAAAACATAAAAAAA-TCAA-CT----T-AATTATGAGATTATAAAGCCATCTAAAGCAAGTAAT
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * *
13415 AATGCTTTTGAAGGCATGGGTGACTATAAATGGAC-TTTCGTTGTCAATGAATGGGC-TTTTCTT
66 AAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTC-TTGCCAATGAAT-GGCTTTTTCTT
** * * * *
13478 CATGTTTCTTAAGGCAAACA-CCTAACTGTAA-CTTGTTCTAACC
129 CATGTTTCCCAAGGCAAACATTC-AATTATAATC-TGTTTTAACC
* ** * * * *
13521 AAGAATGCAAGAAAATTAAACCTAAAATCAATTATGAGTTTATAAAACAATTTAAAGCGAGTAAT
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * ** * * * * *
13586 AAAGTTTTTGAAGGGATGGGTGATTATAAATGGACTTTTGTTGCAAATGAATGGCTTTTTCATCA
66 AAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCA
** *
13651 TGTTT-TTAGAGGCAGACATTCAATTATAATCTG-TTTAACCC
131 TGTTTCCCA-AGGCAAACATTCAATTATAATCTGTTTTAA-CC
* * * * * * * * * *
13692 AAAAATATAAAACAATTTAACTTAATATCAATTTTGAGGTTATAAAACTATTTAGAGTGAGTAGT
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * * * * **
13757 TAGG-TTTTGAA-GATATAAGTAACTATAAATCGACTTTTCATACCAATGAAAAAG-TTTTTCTT
66 AAGGCTTTTGAAGGCT-TGAGTGACTATAAATGGACTTTTCTTGCCAATG-AATGGCTTTTTCTT
* * ** * * * *
13819 AATATTTCCTGAGGTAGACATTCAATTATAATCTATTTTAACA
129 CATGTTTCCCAAGGCAAACATTCAATTATAATCTGTTTTAACC
* * * *
13862 AAAAATATAAAACAAAATTGAACTTAAAATCAATCAT-ATGATTATAAAACCCTTTAAAGAC-AG
1 AAAAATAT-AAA-AAAATTCAACCTAAAATCAATTATGA-GATTATAAAACCATTTAAAG-CGAG
* * * * * * *
13925 TAATATGGCTTTCGAAGGCTTAAGTGA-TAATAAATGGACTTTT-GTGTCAATGGATAGCTTTTT
62 TAATAAGGCTTTTGAAGGCTTGAGTGACT-ATAAATGGACTTTTCTTGCCAATGAATGGCTTTTT
* * ** * * * *
13988 CTTCACGTTTCTCAAGGCCGACATGCAATTAGAATATATTTTAACC
126 CTTCATGTTTCCCAAGGCAAACATTCAATTATAATCTGTTTTAACC
* * * *
14034 AAAAATGTAAAATAATTCAA-CTCAAAATCAATTATAAGATTATAAAATCATTTAAAGCGAGTAA
1 AAAAATATAAAAAAATTCAACCT-AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * * * ** *
14098 TGAGGCTTTCGAACGCTT-AGGTGACTATATATGGGCTTTTCTTGCAAATAAAAAGCTTTTTCAT
65 TAAGGCTTTTGAAGGCTTGA-GTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTT
* **
14162 CATGTTTCCCAAGGCAAACATTCAATTATAATATGTTTTAATA
129 CATGTTTCCCAAGGCAAACATTCAATTATAATCTGTTTTAACC
* * * * * * * *
14205 AAAAATGTAAAAAAATTTAA-CTTAAATCAATTACGAGATTACAAAACCATGTAAAGTGAGTGAT
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
** * * * *
14269 AAGGCTTTTG-AGAGAATGGGTGGCTATAAA-GGAGCTTTT-TTGGCCAATGAATGACTTTTACT
66 AAGGCTTTTGAAG-GCTTGAGTGACTATAAATGGA-CTTTTCTT-GCCAATGAATGGCTTTTTCT
** * * **
14331 TCATGTTTCCCAAGATAGACATAT-AATTATAATCTGTTTCAATT
128 TCATGTTTCCCAAGGCAAACAT-TCAATTATAATCTGTTTTAACC
* * * * *
14375 AAAAATGTAAAAACATTCAACTTCAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAAT
1 AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
*
14440 AAGGCTTTTGAAGG-TATGGGTGACTAT-AA--G--------TG--AAT-AAT---TTTTTCTTC
66 AAGGCTTTTGAAGGCT-TGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTC
** * * * *
14487 ACATTTCTCGAGGCAAACATACAATTATAATCTATTTTAACC
130 ATGTTTCCCAAGGCAAACATTCAATTATAATCTGTTTTAACC
* * * *
14529 AAAAAATATAAAAATATTCAA-CTAAAAATTAATTATGAGATTATAAAACCAGTTAAAGCAAGTA
1 -AAAAATATAAAAAAATTCAACCT-AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * *** *
14593 ATAAGGCTTTCGAAAGCTTGAGTGGCTATAAATGGATTTTTCATATTAAT-AGATGGCTTTTGCT
64 ATAAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGA-ATGGCTTTTTCT
* * * * * * *
14657 TTATGTTTCCCAAGGTAGACATTCAATTATAATATATTTTCATC
128 TCATGTTTCCCAAGGCAAACATTCAATTATAATCTGTTTTAACC
** * * * * *
14701 AAAAA-A-AGAAAAAATAT-AATTTAAAATTACTTATAAGATTATAAAACTATTTAAAGCGAGCA
1 AAAAATATA-AAAAAAT-TCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* ** ** * * *
14763 ATATGGCTTTCAAAGGCTCAACTGACTATAAATGGGCTTTTCTTACCAATGAATGGCTTTTTCTT
64 ATAAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTT
14828 CATGTTTC
129 CATGTTTC
14836 TTGAGGAAAA
Statistics
Matches: 2192, Mismatches: 572, Indels: 185
0.74 0.19 0.06
Matches are distributed among these distances:
154 38 0.02
155 76 0.03
156 3 0.00
157 3 0.00
158 4 0.00
160 1 0.00
161 1 0.00
163 8 0.00
164 117 0.05
165 6 0.00
166 3 0.00
168 4 0.00
169 15 0.01
170 392 0.18
171 1036 0.47
172 222 0.10
173 162 0.07
174 2 0.00
176 1 0.00
177 80 0.04
178 18 0.01
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.34
Consensus pattern (171 bp):
AAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
AAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCA
TGTTTCCCAAGGCAAACATTCAATTATAATCTGTTTTAACC
Found at i:12800 original size:22 final size:21
Alignment explanation
Indices: 12757--12796 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12747 AAGGCTTAGG
12757 TGCCTATAAATGGGCTTTTCT
1 TGCCTATAAATGGGCTTTTCT
* *
12778 TGCCTATGAATGGGTTTTT
1 TGCCTATAAATGGGCTTTT
12797 TCTTCATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.15, G:0.23, T:0.45
Consensus pattern (21 bp):
TGCCTATAAATGGGCTTTTCT
Found at i:14851 original size:170 final size:172
Alignment explanation
Indices: 14478--14852 Score: 391
Period size: 170 Copynumber: 2.2 Consensus size: 172
14468 AGTGAATAAT
** * * * *
14478 TTTTTCTTCACATTTCTCGAGGCAAACATACAATTATAATCTATTTTAACCAAAAAATATAAAAA
1 TTTTTCTTCATGTTTCTCGAGGAAAACATTCAATTATAATATATTTTAACCAAAAAATAAAAAAA
* *
14543 TATTCAACTAAAAATTAATTATGAGATTATAAAACCAGTTAAAGCAAGTAATAAGGCTTTCGAAA
66 TATTCAACTAAAAATTAATTATAAGATTATAAAACCAGTTAAAGCAAGCAATAAGGCTTTCGAAA
** * * * **
14608 GCTTGAGTGGCTATAAATGGATTTTTCATATTAATAGATGGC
131 GCTCAACTGACTATAAATGGACTTTTCATACCAATAGATGGC
* * * * * * * *
14650 TTTTGCTTTATGTTTCCCAAGGTAGACATTCAATTATAATATATTTTCATCAAAAAA-AGAAAAA
1 TTTTTCTTCATGTTTCTCGAGGAAAACATTCAATTATAATATATTTTAACCAAAAAATA-AAAAA
* * * * * * *
14714 ATA-T-AATTTAAAATTACTTATAAGATTATAAAACTATTTAAAGCGAGCAATATGGCTTTC-AA
65 ATATTCAACTAAAAATTAATTATAAGATTATAAAACCAGTTAAAGCAAGCAATAAGGCTTTCGAA
* *
14776 AGGCTCAACTGACTATAAATGGGCTTTTCTTACCAAT-GAATGGC
130 A-GCTCAACTGACTATAAATGGACTTTTCATACCAATAG-ATGGC
*
14820 TTTTTCTTCATGTTTCTTGAGGAAAACATTCAA
1 TTTTTCTTCATGTTTCTCGAGGAAAACATTCAA
14853 NNNNNNNNNN
Statistics
Matches: 162, Mismatches: 38, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
169 4 0.02
170 104 0.64
171 2 0.01
172 52 0.32
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.35
Consensus pattern (172 bp):
TTTTTCTTCATGTTTCTCGAGGAAAACATTCAATTATAATATATTTTAACCAAAAAATAAAAAAA
TATTCAACTAAAAATTAATTATAAGATTATAAAACCAGTTAAAGCAAGCAATAAGGCTTTCGAAA
GCTCAACTGACTATAAATGGACTTTTCATACCAATAGATGGC
Found at i:16373 original size:171 final size:161
Alignment explanation
Indices: 16172--16504 Score: 310
Period size: 171 Copynumber: 2.0 Consensus size: 161
16162 NNNNNNAGCG
* * ***
16172 AGTAGTAAGGCTTTTGAAGGCATGGGTGAATATAAATAGA-TTTTCGTTGTTAATGAATAGCTTT
1 AGTAATAAGGCTTTTGAAGGCATAGGTGAATATAAATAGAGTTTTC-TTACCAATGAATAGCTTT
* *** * * * * *
16236 TTCTTTACGTTTCTTGAGGTAGACACTTAACTATAACCTGTTTTAACCAAGAATGC-AAAAACAT
65 TTCATTACGTTTCCCAAGGAAAACACTTAACTACAACCTATTTTAACCAAAAATGCAAAAAAC-T
*
16300 TCAACCTAAAATCAATTATGAGTTTATAAAACT
129 TCAACCTAAAATCAATTATGAGGTTATAAAACT
* *
16333 ANNNNNNNNNNGTAATAAGGCTTTTGAAGGGATAGGTGAATATAATTAGAGTTTTCTTACCAATG
1 A----------GTAATAAGGCTTTTGAAGGCATAGGTGAATATAAATAGAGTTTTCTTACCAATG
* * * * *
16398 AATAGCTTTTTCATTATGTTTCCCAAGGAAAACATTTAATTACAATCTATTTTAACCAAAAATGT
56 AATAGCTTTTTCATTACGTTTCCCAAGGAAAACACTTAACTACAACCTATTTTAACCAAAAATGC
* * * *
16463 AAAAAACTTTAACTTAGAATCAATTTTGAGGTTATAAAACT
121 AAAAAACTTCAACCTAAAATCAATTATGAGGTTATAAAACT
16504 A
1 A
16505 TTTAAAACGA
Statistics
Matches: 134, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
161 1 0.01
171 122 0.91
172 11 0.08
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.35
Consensus pattern (161 bp):
AGTAATAAGGCTTTTGAAGGCATAGGTGAATATAAATAGAGTTTTCTTACCAATGAATAGCTTTT
TCATTACGTTTCCCAAGGAAAACACTTAACTACAACCTATTTTAACCAAAAATGCAAAAAACTTC
AACCTAAAATCAATTATGAGGTTATAAAACT
Done.